| PF00010 | HLH | Helix-loop-helix DNA-binding domain | P30561 |
| PF00011 | HSP20 | Hsp20/alpha crystallin family | Q7JP52 |
| PF00012 | HSP70 | Hsp70 protein | P38788 |
| PF00045 | Hemopexin | Hemopexin | P04004 |
| PF00046 | Homeodomain | Homeodomain | P02833 |
| PF00103 | Hormone_1 | Somatotropin hormone family | P01241 |
| PF00104 | Hormone_recep | Ligand-binding domain of nuclear hormone receptor | P51449 |
| PF00123 | Hormone_2 | Peptide hormone | P01282 |
| PF00125 | Histone | Core histone H2A/H2B/H3/H4 | P06899 |
| PF00126 | HTH_1 | Bacterial regulatory helix-turn-helix protein, lysR family | P36771 |
| PF00132 | Hexapep | Bacterial transferase hexapeptide (six repeats) | Q1QD55 |
| PF00159 | Hormone_3 | Pancreatic hormone peptide | P01298 |
| PF00165 | HTH_AraC | Bacterial regulatory helix-turn-helix proteins, AraC family | P0A9E2 |
| PF00183 | HSP90 | Hsp90 protein | P11499 |
| PF00184 | Hormone_5 | Neurohypophysial hormones, C-terminal Domain | P01175 |
| PF00220 | Hormone_4 | Neurohypophysial hormones, N-terminal Domain | P01178 |
| PF00236 | Hormone_6 | Glycoprotein hormone | P01215 |
| PF00271 | Helicase_C | Helicase conserved C-terminal domain | Q86XP3 |
| PF00300 | His_Phos_1 | Histidine phosphatase superfamily (branch 1) | P07738 |
| PF00328 | His_Phos_2 | Histidine phosphatase superfamily (branch 2) | P07102 |
| PF00349 | Hexokinase_1 | Hexokinase | P35557 |
| PF00353 | HemolysinCabind | RTX calcium-binding nonapeptide repeat (4 copies) | A0A0H3C8J1 |
| PF00368 | HMG-CoA_red | Hydroxymethylglutaryl-coenzyme A reductase | P14891 |
| PF00372 | Hemocyanin_M | Hemocyanin, copper containing domain | D6WUQ9 |
| PF00403 | HMA | Heavy-metal-associated domain | O00244 |
| PF00447 | HSF_DNA-bind | HSF-type DNA-binding | Q03933 |
| PF00505 | HMG_box | HMG (high mobility group) box | Q05066 |
| PF00509 | Hemagglutinin | Haemagglutinin | U5N1D3 |
| PF00512 | HisKA | His Kinase A (phospho-acceptor) domain | A0A140NBW3 |
| PF00570 | HRDC | HRDC domain | Q01780 |
| PF00632 | HECT | HECT-domain (ubiquitin-transferase) | A0A177ELV2 |
| PF00633 | HHH | Helix-hairpin-helix motif | P83847 |
| PF00672 | HAMP | HAMP domain | G3XD98 |
| PF00682 | HMGL-like | HMGL-like | A0A2A9IR05 |
| PF00702 | Hydrolase | haloacid dehalogenase-like hydrolase | P03960 |
| PF00730 | HhH-GPD | HhH-GPD superfamily base excision DNA repair protein | P83847 |
| PF00742 | Homoserine_dh | Homoserine dehydrogenase | A0A2H1A6V9 |
| PF00815 | Histidinol_dh | Histidinol dehydrogenase | A0A077ECF2 |
| PF00816 | Histone_HNS | H-NS histone C-terminal domain | P0A1S2 |
| PF00850 | Hist_deacetyl | Histone deacetylase domain | F8W4B7 |
| PF00906 | Hepatitis_core | Hepatitis core antigen | P0C573 |
| PF00955 | HCO3_cotransp | HCO3- transporter integral membrane domain | Q9XSW5 |
| PF00977 | His_biosynth | Histidine biosynthesis protein | Q9X0C6 |
| PF01022 | HTH_5 | Bacterial regulatory protein, arsR family | D5AT91 |
| PF01079 | Hint | Hint module | Q15465 |
| PF01085 | HH_signal | Hedgehog amino-terminal signalling domain | Q62226 |
| PF01101 | HMG14_17 | HMG14 and HMG17 | |
| PF01126 | Heme_oxygenase | Heme oxygenase | O48782 |
| PF01154 | HMG_CoA_synt_N | Hydroxymethylglutaryl-coenzyme A synthase N terminal | Q9M6U3 |
| PF01155 | HypA | Hydrogenase/urease nickel incorporation, metallochaperone, hypA | P0A0U5 |
| PF01185 | Hydrophobin | Fungal hydrophobin | D8QCG9 |
| PF01230 | HIT | HIT domain | P49773 |
| PF01288 | HPPK | 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK) | Q1ENB6 |
| PF01355 | HIPIP | High potential iron-sulfur protein | P80176 |
| PF01381 | HTH_3 | Helix-turn-helix | O54475 |
| PF01418 | HTH_6 | Helix-turn-helix domain, rpiR family | Q7MD38 |
| PF01430 | HSP33 | Hsp33 protein | P0A6Y5 |
| PF01455 | HupF_HypC | HupF/HypC family | Q5JII0 |
| PF01498 | HTH_Tnp_Tc3_2 | Transposase | A0A060ZAA1 |
| PF01527 | HTH_Tnp_1 | Transposase | A0A0H2VTH7 |
| PF01537 | Herpes_glycop_D | Herpesvirus glycoprotein D/GG/GX domain | A0A0Y0A4Z5 |
| PF01542 | HCV_core | Hepatitis C virus core protein | |
| PF01627 | Hpt | Hpt domain | Q9HYQ0 |
| PF01628 | HrcA | HrcA protein C terminal domain | Q9WZV5 |
| PF01634 | HisG | ATP phosphoribosyltransferase | Q4FQF7 |
| PF01638 | HxlR | HxlR-like helix-turn-helix | P42406 |
| PF01710 | HTH_Tnp_IS630 | Transposase | |
| PF01725 | Ham1p_like | Ham1 family | B1MLZ4 |
| PF01750 | HycI | Hydrogenase maturation protease | Q5JIH7 |
| PF01814 | Hemerythrin | Hemerythrin HHE cation binding domain | P69506 |
| PF01837 | HcyBio | Homocysteine biosynthesis enzyme, sulfur-incorporation | |
| PF01844 | HNH | HNH endonuclease | Q8DMK2 |
| PF01848 | HOK_GEF | Hok/gef family | |
| PF01856 | HP_OMP | Helicobacter outer membrane protein | |
| PF01870 | Hjc | Archaeal holliday junction resolvase (hjc) | Q7LXU0 |
| PF01924 | HypD | Hydrogenase formation hypA family | Q5JII1 |
| PF01934 | HepT-like | Ribonuclease HepT-like | Q8ECH6 |
| PF01966 | HD | HD domain | A0A157T112 |
| PF01968 | Hydantoinase_A | Hydantoinase/oxoprolinase | A0A2W0EVE0 |
| PF02098 | His_binding | Tick histamine binding protein | O77421 |
| PF02110 | HK | Hydroxyethylthiazole kinase family | W9BB97 |
| PF02183 | HALZ | Homeobox associated leucine zipper | |
| PF02184 | HAT | HAT (Half-A-TPR) repeat | Q9BZJ0 |
| PF02185 | HR1 | Hr1 repeat | Q16512 |
| PF02218 | HS1_rep | Repeat in HS1/Cortactin | |
| PF02301 | HORMA | HORMA domain | P38927 |
| PF02316 | HTH_Tnp_Mu_1 | Mu DNA-binding domain | P07636 |
| PF02329 | HDC | Histidine carboxylase PI chain | P00862 |
| PF02399 | Herpes_ori_bp | Origin of replication binding protein | |
| PF02455 | Hex_IIIa | Hexon-associated protein (IIIa) | A4ZKL1 |
| PF02479 | Herpes_IE68 | Herpesvirus immediate early protein | |
| PF02494 | HYR | HYR domain | |
| PF02518 | HATPase_c | Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase | P11499 |
| PF02521 | HP_OMP_2 | Putative outer membrane protein | |
| PF02538 | Hydantoinase_B | Hydantoinase B/oxoprolinase | A0A2W0FH34 |
| PF02602 | HEM4 | Uroporphyrinogen-III synthase HemD | P48246 |
| PF02603 | Hpr_kinase_N | HPr Serine kinase N terminus | Q9S1H5 |
| PF02650 | HTH_WhiA | WhiA C-terminal HTH domain | A0A5P1ZKC3 |
| PF02689 | Herpes_Helicase | Helicase | |
| PF02760 | HIN | HIN-200/IF120x domain | P0DOV2 |
| PF02793 | HRM | Hormone receptor domain | Q03431 |
| PF02794 | HlyC | RTX toxin acyltransferase family | P55132 |
| PF02796 | HTH_7 | Helix-turn-helix domain of resolvase | P0ADI2 |
| PF02895 | H-kinase_dim | Signal transducing histidine kinase, homodimeric domain | O85747 |
| PF02924 | HDPD | Bacteriophage lambda head decoration protein D | P03712 |
| PF02954 | HTH_8 | Bacterial regulatory protein, Fis family | A0A1V2W4X9 |
| PF02985 | HEAT | HEAT repeat | Q8N122 |
| PF03006 | HlyIII | Haemolysin-III related | Q86V24 |
| PF03030 | H_PPase | Inorganic H+ pyrophosphatase | Q9S5X0 |
| PF03048 | Herpes_UL92 | UL92 family | |
| PF03121 | Herpes_UL52 | Herpesviridae UL52/UL70 DNA primase | |
| PF03129 | HGTP_anticodon | Anticodon binding domain | E2QMS9 |
| PF03130 | HEAT_PBS | PBS lyase HEAT-like repeat | P97030 |
| PF03172 | HSR | HSR domain | |
| PF03201 | HMD | H2-forming N5,N10-methylene-tetrahydromethanopterin dehydrogenase | F0S2B6 |
| PF03221 | HTH_Tnp_Tc5 | Tc5 transposase DNA-binding domain | P49777 |
| PF03241 | HpaB | 4-hydroxyphenylacetate 3-hydroxylase C terminal | Q53008 |
| PF03326 | Herpes_TAF50 | Herpesvirus transcription activation factor (transactivator) | |
| PF03328 | HpcH_HpaI | HpcH/HpaI aldolase/citrate lyase | A0A081HJP9 |
| PF03444 | HrcA_DNA-bdg | Winged helix-turn-helix transcription repressor, HrcA DNA-binding | |
| PF03451 | HELP | HELP motif | O00423 |
| PF03457 | HA | Helicase associated domain | A6KY75 |
| PF03486 | HI0933_like | HI0933-like protein Rossmann domain | B1PUC6 |
| PF03554 | Herpes_UL73 | UL73 viral envelope glycoprotein | |
| PF03559 | Hexose_dehydrat | NDP-hexose 2,3-dehydratase | O52793 |
| PF03578 | HGWP | HGWP repeat | |
| PF03586 | Herpes_UL36 | Herpesvirus UL36 tegument protein | I1UYK0 |
| PF03722 | Hemocyanin_N | Hemocyanin, all-alpha domain | D6WUQ9 |
| PF03723 | Hemocyanin_C | Hemocyanin, ig-like domain | D6WUQ9 |
| PF03727 | Hexokinase_2 | Hexokinase | P35557 |
| PF03883 | H2O2_YaaD | Peroxide stress protein YaaA | P0A8I3 |
| PF03928 | HbpS-like | Haem degrading protein HbpS-like | H1KGY6 |
| PF04005 | Hus1 | Hus1-like protein | O60921 |
| PF04119 | HSP9_HSP12 | Heat shock protein 9/12 | P22943 |
| PF04204 | HTS | Homoserine O-succinyltransferase | P07623 |
| PF04209 | HgmA_C | Homogentisate 1,2-dioxygenase C-terminal | Q88E47 |
| PF04213 | HtaA | Htaa | Q8NTB9 |
| PF04313 | HSDR_N | Type I restriction enzyme R protein N terminus (HSDR_N) | P10486 |
| PF04375 | HemX | HemX, putative uroporphyrinogen-III C-methyltransferase | |
| PF04388 | Hamartin | Hamartin protein | Q92574 |
| PF04408 | HA2_N | Helicase associated domain (HA2), winged-helix | O43143 |
| PF04541 | Herpes_U34 | Herpesvirus virion protein U34 | P03185 |
| PF04588 | HIG_1_N | Hypoxia induced protein conserved region | Q9P3B2 |
| PF04617 | Hox9_act | Hox9 activation region | |
| PF04618 | HD-ZIP_N | HD-ZIP protein N terminus | |
| PF04637 | Herpes_pp85 | Herpesvirus phosphoprotein 85 (HHV6-7 U14/HCMV UL25) | Q9WT50 |
| PF04688 | Holin_SPP1 | SPP1 phage holin | |
| PF04774 | HABP4_PAI-RBP1 | Hyaluronan / mRNA binding family | G1SW77 |
| PF04809 | HupH_C | HupH hydrogenase expression protein, C-terminal conserved region | Q3SJ38 |
| PF04812 | HNF-1B_C | Hepatocyte nuclear factor 1 (HNF-1), beta isoform C terminus | |
| PF04813 | HNF-1A_C | Hepatocyte nuclear factor 1 (HNF-1), alpha isoform C terminus | |
| PF04814 | HNF-1_N | Hepatocyte nuclear factor 1 (HNF-1), N terminus | P35680 |
| PF04843 | Herpes_teg_N | Herpesvirus tegument protein, N-terminal conserved region | A0A2R8QJQ6 |
| PF04846 | Herpes_pp38 | Herpesvirus pp38 phosphoprotein | |
| PF04849 | HAP1_N | HAP1 N-terminal conserved region | |
| PF04877 | Harpin | HrpZ | |
| PF04883 | HK97-gp10_like | Bacteriophage HK97-gp10, putative tail-component | |
| PF04955 | HupE_UreJ | HupE / UreJ protein | |
| PF04967 | HTH_10 | HTH DNA binding domain | |
| PF05015 | HigB-like_toxin | RelE-like toxin of type II toxin-antitoxin system HigB | Q88MI5 |
| PF05044 | HPD | Homeo-prospero domain | Q92786 |
| PF05066 | HARE-HTH | HB1, ASXL, restriction endonuclease HTH domain | Q8IXJ9 |
| PF05090 | HTTM | HTTM domain | |
| PF05102 | Holin_BlyA | holin, BlyA family | |
| PF05127 | Helicase_RecD | Helicase | P53914 |
| PF05168 | HEPN | HEPN domain | Q7CW19 |
| PF05171 | HemS | Haemin-degrading HemS.ChuX domain | A0A485DUW7 |
| PF05203 | Hom_end_hint | Hom_end-associated Hint | Q6TER0 |
| PF05204 | Hom_end | Homing endonuclease | P17255 |
| PF05225 | HTH_psq | helix-turn-helix, Psq domain | Q96JN0 |
| PF05297 | Herpes_LMP1 | Herpesvirus latent membrane protein 1 (LMP1) | |
| PF05321 | HHA | Haemolysin expression modulating protein | Q7CR17 |
| PF05345 | He_PIG | Putative Ig domain | Q08I46 |
| PF05363 | Herpes_US12 | Herpesvirus US12 family | A0A140GKJ0 |
| PF05378 | Hydant_A_N | Hydantoinase/oxoprolinase N-terminal region | A0A2W0EVE0 |
| PF05465 | Halo_GVPC | Halobacterial gas vesicle protein C (GVPC) repeat | |
| PF05514 | HR_lesion | HR-like lesion-inducing | |
| PF05534 | HicB | HicB family | |
| PF05603 | Hikeshi-like_N | Hikeshi-like, N-terminal domain | Q53FT3 |
| PF05622 | HOOK | HOOK protein coiled-coil region | |
| PF05636 | HIGH_NTase1 | HIGH Nucleotidyl Transferase | Q9X1K1 |
| PF05702 | Herpes_UL49_5 | Herpesvirus UL49.5 envelope/tegument protein | Q89806 |
| PF05812 | Herpes_BLRF2 | Herpesvirus BLRF2 protein | Q2HR80 |
| PF05872 | HerA_C | Helicase HerA-like C-terminal | |
| PF05920 | Homeobox_KN | Homeobox KN domain | Q15583 |
| PF05962 | HutD | HutD | C3K802 |
| PF06050 | HGD-D | 2-hydroxyglutaryl-CoA dehydratase, D-component | Q3AET9 |
| PF06072 | Herpes_US9 | Alphaherpesvirus tegument protein US9 | |
| PF06109 | HlyE | Haemolysin E (HlyE) | P77335 |
| PF06112 | Herpes_capsid | Gammaherpesvirus capsid protein | P14348 |
| PF06188 | HrpE | HrpE/YscL/FliH and V-type ATPase subunit E | |
| PF06266 | HrpF | HrpF protein | |
| PF06350 | HSL_N | Hormone-sensitive lipase (HSL) N-terminus | |
| PF06411 | HdeA | HdeA/HdeB family | P0AET0 |
| PF06438 | HasA | Heme-binding protein A (HasA) | G3XD33 |
| PF06446 | Hepcidin | Hepcidin | P81172 |
| PF06462 | Hyd_WA | Propeller | |
| PF06501 | Herpes_U55 | Human herpesvirus U55 protein | |
| PF06580 | His_kinase | Histidine kinase | W8QF84 |
| PF06594 | HCBP_related | Haemolysin-type calcium binding protein related domain | |
| PF06690 | HcgC | FeGP cofactor biosynthesis protein, methyltransferase HcgC | Q6LX54 |
| PF06766 | Hydrophobin_2 | Fungal hydrophobin | Q7S3P5 |
| PF06777 | HBB | Helical and beta-bridge domain | P18074 |
| PF06787 | HcgF | FeGP cofactor biosynthesis protein HcgF | Q58649 |
| PF06825 | HSBP1 | Heat shock factor binding protein 1 | O75506 |
| PF06831 | H2TH | Formamidopyrimidine-DNA glycosylase H2TH domain | Q8K203 |
| PF06969 | HemN_C | HemN C-terminal domain | P32131 |
| PF06985 | HET | Heterokaryon incompatibility protein (HET) | |
| PF07014 | Hs1pro-1_C | Hs1pro-1 protein C-terminus | |
| PF07052 | Hep_59 | Hepatocellular carcinoma-associated antigen 59 | Q9NZ63 |
| PF07063 | HGLS | 2-oxoadipate dioxygenase/decarboxylase | Q337M4 |
| PF07111 | HCR | Alpha helical coiled-coil rod protein (HCR) | |
| PF07201 | HrpJ | HrpJ-like domain | Q79GQ0 |
| PF07212 | Hyaluronidase_1 | Hyaluronidase protein (HylP) | P15316 |
| PF07217 | Het-C | Heterokaryon incompatibility protein Het-C | |
| PF07219 | HemY_N | HemY protein N-terminus | |
| PF07231 | Hs1pro-1_N | Hs1pro-1 N-terminus | |
| PF07307 | HEPPP_synt_1 | Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1 | W8TTD5 |
| PF07382 | HC2 | Histone H1-like nucleoprotein HC2 | |
| PF07415 | Herpes_LMP2 | Gammaherpesvirus latent membrane protein (LMP2) protein | |
| PF07432 | Hc1 | Histone H1-like protein Hc1 | |
| PF07443 | HARP | HepA-related protein (HARP) | Q8BJL0 |
| PF07449 | HyaE | Hydrogenase-1 expression protein HyaE | Q6NB62 |
| PF07450 | HycH | Formate hydrogenlyase maturation protein HycH | |
| PF07456 | Hpre_diP_synt_I | Heptaprenyl diphosphate synthase component I | |
| PF07475 | Hpr_kinase_C | HPr Serine kinase C-terminal domain | Q820W5 |
| PF07486 | Hydrolase_2 | Cell Wall Hydrolase | A0A6L8PLE1 |
| PF07527 | Hairy_orange | Hairy Orange | Q14469 |
| PF07529 | HSA | HSA domain | Q06337 |
| PF07536 | HWE_HK | HWE histidine kinase | Q8YC53 |
| PF07568 | HisKA_2 | Histidine kinase | Q2NB77 |
| PF07569 | Hira | TUP1-like enhancer of split | P54198 |
| PF07586 | HXXSHH | Protein of unknown function (DUF1552) | |
| PF07700 | HNOB | Haem-NO-binding | Q8YUQ7 |
| PF07701 | HNOBA | Heme NO binding associated | Q02153 |
| PF07730 | HisKA_3 | Histidine kinase | O34757 |
| PF07743 | HSCB_C | HSCB C-terminal oligomerisation domain | Q9KTX9 |
| PF07754 | HVO_2753_ZBP | Small zinc finger protein HVO_2753-like, Zn-binding pocket | G8ZFK7 |
| PF07786 | HGSNAT_cat | Heparan-alpha-glucosaminide N-acetyltransferase, catalytic | |
| PF07804 | HipA_C | HipA-like C-terminal domain | Q5ZSZ6 |
| PF07818 | HCNGP | HCNGP-like protein | |
| PF07927 | HicA_toxin | HicA toxin of bacterial toxin-antitoxin, | P76106 |
| PF07940 | Hepar_II_III_C | Heparinase II/III-like, C-terminal | G0LCA3 |
| PF08006 | HAAS_TM | HAAS transmembrane region | |
| PF08029 | HisG_C | HisG, C-terminal domain | Q9KSX4 |
| PF08047 | His_leader | Histidine operon leader peptide | |
| PF08214 | HAT_KAT11 | Histone acetylation protein | Q09472 |
| PF08220 | HTH_DeoR | DeoR-like helix-turn-helix domain | |
| PF08221 | HTH_9 | RNA polymerase III subunit RPC82 helix-turn-helix domain | P32349 |
| PF08222 | HTH_CodY | CodY helix-turn-helix domain | P39779 |
| PF08279 | HTH_11 | HTH domain | A0A0W7ZMT5 |
| PF08280 | HTH_Mga | M protein trans-acting positive regulator (MGA) HTH domain | Q97P44 |
| PF08282 | Hydrolase_3 | haloacid dehalogenase-like hydrolase | P16615 |
| PF08461 | HTH_12 | Ribonuclease R winged-helix domain | |
| PF08465 | Herpes_TK_C | Thymidine kinase from Herpesvirus C-terminal | |
| PF08482 | HrpB_C | ATP-dependent helicase C-terminal | P37024 |
| PF08539 | HbrB | HbrB-like | |
| PF08540 | HMG_CoA_synt_C | Hydroxymethylglutaryl-coenzyme A synthase C terminal | Q9M6U3 |
| PF08663 | HalX | HalX domain | |
| PF08668 | HDOD | HDOD domain | Q7WZ31 |
| PF08729 | HUN | HPC2 and ubinuclein domain | Q9NPG3 |
| PF08732 | HIM1 | HIM1 | Q9HX10 |
| PF08778 | HIF-1a_CTAD | HIF-1 alpha C terminal transactivation domain | Q16665 |
| PF08797 | HIRAN | HIRAN domain | Q6CJM4 |
| PF08878 | HamA | HamA | |
| PF08888 | HopJ | HopJ type III effector protein | Q87IM6 |
| PF08938 | HBS1_N | HBS1 N-terminus | P32769 |
| PF09008 | Head_binding | Head binding | Q716G1 |
| PF09011 | HMG_box_2 | HMG-box domain | Q00059 |
| PF09021 | HutP | HutP | A4IK89 |
| PF09039 | HTH_Tnp_Mu_2 | Mu DNA binding, I gamma subdomain | P07636 |
| PF09040 | H-K_ATPase_N | Gastric H+/K+-ATPase, N terminal domain | P19156 |
| PF09110 | HAND | HAND | P38144 |
| PF09272 | Hepsin-SRCR | Hepsin, SRCR domain | P05981 |
| PF09339 | HTH_IclR | IclR helix-turn-helix domain | Q9I2A1 |
| PF09354 | HNF_C | HNF3 C-terminal domain | |
| PF09378 | HAS-barrel | HAS barrel domain | Q97WG8 |
| PF09385 | HisK_N | Histidine kinase N terminal | Q44635 |
| PF09453 | HIRA_B | HIRA B motif | P87314 |
| PF09458 | H_lectin | H-type lectin domain | A4CYJ6 |
| PF09483 | HpaP | Type III secretion protein (HpaP) | |
| PF09486 | HrpB7 | Bacterial type III secretion protein (HrpB7) | |
| PF09487 | HrpB2 | Bacterial type III secretion protein (HrpB2) | |
| PF09502 | HrpB4 | Bacterial type III secretion protein (HrpB4) | |
| PF09509 | Hypoth_Ymh | Protein of unknown function (Hypoth_ymh) | |
| PF09589 | HrpA_pilin | HrpA pilus formation protein | |
| PF09612 | HtrL_YibB | Bacterial protein of unknown function (HtrL_YibB) | |
| PF09613 | HrpB1_HrpK | Bacterial type III secretion protein (HrpB1_HrpK) | |
| PF09749 | HVSL | Uncharacterised conserved protein | W0TCJ5 |
| PF09790 | Hyccin | Hyccin | Q9BYI3 |
| PF09814 | HECT_2 | HECT-like Ubiquitin-conjugating enzyme (E2)-binding | |
| PF09904 | HTH_43 | Winged helix-turn helix | A1S9Q7 |
| PF09907 | HigB_toxin | HigB_toxin, RelE-like toxic component of a toxin-antitoxin system | P64578 |
| PF10090 | HPTransfase | Histidine phosphotransferase C-terminal domain | Q2YQA5 |
| PF10112 | Halogen_Hydrol | 5-bromo-4-chloroindolyl phosphate hydrolysis protein | |
| PF10115 | HlyU | Transcriptional activator HlyU | |
| PF10116 | Host_attach | Protein required for attachment to host cells | |
| PF10228 | HPF1 | Histone PARylation factor 1 | Q9NWY4 |
| PF10297 | Hap4_Hap_bind | Minimal binding motif of Hap4 for binding to Hap2/3/5 | G5EAX9 |
| PF10307 | HAD_SAK_1 | HAD domain family 1 in Swiss Army Knife RNA repair proteins | |
| PF10344 | Hobbit | Hobbit/FMP27/BTLP2 family | |
| PF10394 | Hat1_N | Histone acetyl transferase HAT1 N-terminus | Q12341 |
| PF10529 | Hist_rich_Ca-bd | Histidine-rich Calcium-binding repeat region | |
| PF10636 | hemP | Hemin uptake protein hemP | P0ACX9 |
| PF10699 | HAP2-GCS1 | Male gamete fusion factor | M1V8A6 |
| PF10748 | HofP | DNA utilization proteins HofP | |
| PF10786 | HI_0552 | HI_0552 protein family | |
| PF10960 | Holin_BhlA | BhlA holin family | |
| PF11046 | HycA_repressor | Transcriptional repressor of hyc and hyp operons | |
| PF11160 | Hva1_TUDOR | Hypervirulence associated proteins TUDOR domain | J9VKY2 |
| PF11408 | Helicase_Sgs1 | Sgs1 RecQ helicase | P35187 |
| PF11413 | HIF-1 | Hypoxia-inducible factor-1 | Q99814 |
| PF11427 | HTH_Tnp_Tc3_1 | Tc3 transposase | P34257 |
| PF11496 | HDA2-3 | Class II histone deacetylase complex subunits 2 and 3 | Q06629 |
| PF11532 | HnRNP_M_NLS | HnRNP M nuclear localisation signal | P52272 |
| PF11534 | HTHP | Hexameric tyrosine-coordinated heme protein (HTHP) | Q5LL55 |
| PF11545 | HemeBinding_Shp | Cell surface heme-binding protein Shp | Q06A48 |
| PF11558 | HET-s_218-289 | Het-s 218-289 | Q03689 |
| PF11569 | Homez | Homeodomain leucine-zipper encoding, Homez | Q8IX15 |
| PF11576 | HcgB | FeGP cofactor biosynthesis protein HcgB, guanylyltransferase | Q57912 |
| PF11627 | HnRNPA1_LC | Heterogeneous nuclear ribonucleoprotein A1, LC domain | P09651 |
| PF11639 | HapK | REDY-like protein HapK | Q2S9J0 |
| PF11765 | Hyphal_reg_CWP | Hyphally regulated cell wall protein N-terminal | |
| PF11794 | HpaB_N | 4-hydroxyphenylacetate 3-hydroxylase N terminal | Q53008 |
| PF11927 | HODM_asu-like | Haem-dependent oxidative N-demethylase, alpha subunit-like | A4XXY9 |
| PF11972 | HTH_13 | HTH DNA binding domain | |
| PF12062 | HSNSD-CE | Heparan sulfate-N-deacetylase, deacetylase domain | |
| PF12146 | Hydrolase_4 | Serine aminopeptidase, S33 | Q99685 |
| PF12161 | HsdM_N | HsdM N-terminal domain | A0A142ISP2 |
| PF12163 | HobA | DNA replication regulator | O25828 |
| PF12196 | hNIFK_binding | FHA Ki67 binding domain of hNIFK | Q9BYG3 |
| PF12203 | HDAC4_Gln | Glutamine rich N terminal domain of histone deacetylase 4 | P56524 |
| PF12210 | Hrs_helical | Hepatocyte growth factor-regulated tyrosine kinase substrate | O14964 |
| PF12221 | HflK_N | Bacterial membrane protein N terminal | P0ABC7 |
| PF12236 | Head-tail_con | Bacteriophage head to tail connecting protein | A0A7G3WWQ5 |
| PF12284 | HoxA13_N | Hox protein A13 N terminal | |
| PF12296 | HsbA | Hydrophobic surface binding protein A | A0A093VKV7 |
| PF12323 | HTH_OrfB_IS605 | Helix-turn-helix domain | |
| PF12324 | HTH_15 | Helix-turn-helix domain of alkylmercury lyase | P77072 |
| PF12330 | Haspin_kinase | Haspin like kinase domain | Q8TF76 |
| PF12346 | HJURP_mid | Holliday junction recognition protein-associated repeat | |
| PF12347 | HJURP_C | Holliday junction regulator protein family C-terminal repeat | |
| PF12372 | Htt_N-HEAT | Huntingtin, N-terminal HEAT | P42858 |
| PF12456 | hSac2 | Inositol phosphatase | Q9Y2H2 |
| PF12462 | Helicase_IV_N | DNA helicase IV / RNA helicase N terminal | |
| PF12507 | HCMV_UL139 | Human Cytomegalovirus UL139 protein | |
| PF12563 | Hemolysin_N | Hemolytic toxin N terminal | P09545 |
| PF12623 | Hen1_L | RNA repair, ligase-Pnkp-associating, region of Hen1 | A3DJ37 |
| PF12645 | HTH_16 | Helix-turn-helix domain | |
| PF12661 | hEGF | Human growth factor-like EGF | Q01705 |
| PF12700 | HlyD_2 | HlyD family secretion protein | |
| PF12710 | HAD | haloacid dehalogenase-like hydrolase | V7LE91 |
| PF12722 | Hid1 | High-temperature-induced dauer-formation protein | |
| PF12728 | HTH_17 | Helix-turn-helix domain | Q7AL96 |
| PF12745 | HGTP_anticodon2 | Anticodon binding domain of tRNAs | Q9P2K8 |
| PF12759 | HTH_Tnp_IS1 | InsA C-terminal domain | |
| PF12826 | HHH_2 | Helix-hairpin-helix motif | A0R564 |
| PF12833 | HTH_18 | Helix-turn-helix domain | P0ACI0 |
| PF12836 | HHH_3 | Helix-hairpin-helix motif | A0A0K9HI54 |
| PF12840 | HTH_20 | Helix-turn-helix domain | Q8YVV6 |
| PF12844 | HTH_19 | Helix-turn-helix domain | Q32WH4 |
| PF12949 | HeH | HeH/LEM domain | P44228 |
| PF13022 | HTH_Tnp_1_2 | Helix-turn-helix of insertion element transposase | Q81ES4 |
| PF13023 | HD_3 | HD domain | Q7Z4H3 |
| PF13242 | Hydrolase_like | HAD-hyrolase-like | Q8CHP8 |
| PF13272 | Holin_2-3 | Putative 2/3 transmembrane domain holin | |
| PF13276 | HTH_21 | HTH-like domain | |
| PF13286 | HD_assoc | Phosphohydrolase-associated domain | P15723 |
| PF13307 | Helicase_C_2 | Helicase C-terminal domain | P18074 |
| PF13309 | HTH_22 | HTH domain | |
| PF13323 | HPIH | N-terminal domain with HPIH motif | |
| PF13328 | HD_4 | HD domain | V5V8V7 |
| PF13344 | Hydrolase_6 | Haloacid dehalogenase-like hydrolase | Q8CHP8 |
| PF13384 | HTH_23 | Homeodomain-like domain | P39140 |
| PF13391 | HNH_2 | HNH endonuclease | A0A344KQF3 |
| PF13392 | HNH_3 | HNH endonuclease | P34081 |
| PF13395 | HNH_4 | HNH endonuclease | C9X1G5 |
| PF13403 | Hint_2 | Hint domain | |
| PF13404 | HTH_AsnC-type | AsnC-type helix-turn-helix domain | B8J364 |
| PF13412 | HTH_24 | Winged helix-turn-helix DNA-binding | Q977W1 |
| PF13413 | HTH_25 | Helix-turn-helix domain | A0A0H3JZ73 |
| PF13419 | HAD_2 | Haloacid dehalogenase-like hydrolase | G0L7V6 |
| PF13437 | HlyD_3 | HlyD family secretion protein | P09986 |
| PF13443 | HTH_26 | Cro/C1-type HTH DNA-binding domain | Q6WRY9 |
| PF13463 | HTH_27 | Winged helix DNA-binding domain | O93706 |
| PF13487 | HD_5 | HD domain | Q9KL18 |
| PF13513 | HEAT_EZ | HEAT-like repeat | Q8TEX9 |
| PF13518 | HTH_28 | Helix-turn-helix domain | |
| PF13542 | HTH_Tnp_ISL3 | Helix-turn-helix domain of transposase family ISL3 | |
| PF13545 | HTH_Crp_2 | Crp-like helix-turn-helix domain | Q8Y8Y9 |
| PF13551 | HTH_29 | Winged helix-turn helix | |
| PF13556 | HTH_30 | PucR C-terminal helix-turn-helix domain | A0ZZZ7 |
| PF13560 | HTH_31 | Helix-turn-helix domain | A0A1X1LKI5 |
| PF13565 | HTH_32 | Homeodomain-like domain | |
| PF13581 | HATPase_c_2 | Histidine kinase-like ATPase domain | P17904 |
| PF13588 | HSDR_N_2 | Type I restriction enzyme R protein N terminus (HSDR_N) | Q7MPU7 |
| PF13589 | HATPase_c_3 | Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase | P54278 |
| PF13592 | HTH_33 | Winged helix-turn helix | |
| PF13601 | HTH_34 | Winged helix DNA-binding domain | O58788 |
| PF13613 | HTH_Tnp_4 | Helix-turn-helix of DDE superfamily endonuclease | |
| PF13625 | Helicase_C_3 | Helicase conserved C-terminal domain | P19447 |
| PF13646 | HEAT_2 | HEAT repeats | Q99460 |
| PF13693 | HTH_35 | Winged helix-turn-helix DNA-binding | P06020 |
| PF13694 | Hph | Sec63/Sec62 complex-interacting family | |
| PF13730 | HTH_36 | Helix-turn-helix domain | |
| PF13744 | HTH_37 | Helix-turn-helix domain | Q6N370 |
| PF13749 | HATPase_c_4 | Putative ATP-dependent DNA helicase recG C-terminal | Q6NEG3 |
| PF13787 | HXXEE | Protein of unknown function with HXXEE motif | |
| PF13795 | HupE_UreJ_2 | HupE / UreJ protein | |
| PF13804 | HERV-K_env_2 | Retro-transcribing viruses envelope glycoprotein | |
| PF13871 | Helicase_C_4 | C-terminal domain on Strawberry notch homologue | |
| PF13879 | Hmw_CFAP97 | Hemingway/CFA97 | |
| PF13933 | HRXXH | Putative peptidase family | |
| PF13936 | HTH_38 | Helix-turn-helix domain | P37078 |
| PF14064 | HmuY | HmuY protein | A0A1P8JNE7 |
| PF14090 | HTH_39 | Winged helix-turn-helix domain | |
| PF14214 | Helitron_like_N | Helitron helicase-like domain at N-terminus | |
| PF14279 | HNH_5 | HNH endonuclease | Q39X46 |
| PF14372 | hAT-like_RNase-H | hAT-like transposase, RNase-H fold | |
| PF14376 | Haem_bd | Haem-binding domain | |
| PF14409 | Herpeto_peptide | Ribosomally synthesized peptide in Herpetosiphon | |
| PF14479 | HeLo | Prion-inhibition and propagation | Q03689 |
| PF14490 | HHH_RecD2 | ATP-dependent RecD2 DNA helicase HHH domain | Q9RT63 |
| PF14493 | HTH_40 | Helix-turn-helix domain | |
| PF14501 | HATPase_c_5 | GHKL domain | A0A224B0L3 |
| PF14502 | HTH_41 | Helix-turn-helix domain | |
| PF14515 | HOASN | Haem-oxygenase-associated N-terminal helices | Q9HY91 |
| PF14518 | Haem_oxygenas_2 | Iron-containing redox enzyme | F8JJ25 |
| PF14520 | HHH_5 | Helix-hairpin-helix domain | Q977W1 |
| PF14547 | Hydrophob_seed | Hydrophobic seed protein | |
| PF14579 | HHH_6 | Helix-hairpin-helix motif | P9WNT7 |
| PF14602 | Hexapep_2 | Hexapeptide repeat of succinyl-transferase | A0A1S3U544 |
| PF14603 | hSH3 | Helically-extended SH3 domain | O15117 |
| PF14613 | HAM1_C | HAM1-like, C-terminal domain | |
| PF14635 | HHH_7 | Helix-hairpin-helix motif | C4R7H2 |
| PF14641 | HTH_44 | Helix-turn-helix DNA-binding domain of SPT6 | C4R7H2 |
| PF14661 | HAUS6_N | HAUS augmin-like complex subunit 6 N-terminus | A0JPI0 |
| PF14699 | hGDE_N | N-terminal domain from the human glycogen debranching enzyme | Q6FSK0 |
| PF14701 | hDGE_amylase | Glycogen debranching enzyme, glucanotransferase domain | Q6FSK0 |
| PF14702 | hGDE_central | Central domain of human glycogen debranching enzyme | Q6FSK0 |
| PF14716 | HHH_8 | Helix-hairpin-helix domain | P06746 |
| PF14735 | HAUS4 | HAUS augmin-like complex subunit 4 | Q4V7I1 |
| PF14761 | HPS3_N | Hermansky-Pudlak syndrome 3 protein, N-terminal | |
| PF14763 | HPS3_C | Hermansky-Pudlak syndrome 3 protein, C-terminal region | |
| PF14817 | HAUS5 | HAUS augmin-like complex subunit 5 | A0A1L8FPI2 |
| PF14830 | Haemocyan_bet_s | Haemocyanin beta-sandwich | A0A0P0UX03 |
| PF14848 | HU-DNA_bdg | DNA-binding domain | A6L2B2 |
| PF14856 | Hce2 | Pathogen effector; putative necrosis-inducing factor | |
| PF14887 | HMG_box_5 | HMG (high mobility group) box 5 | P17480 |
| PF14908 | HU-CCDC81_euk_1 | CCDC81 eukaryotic HU domain 1 | |
| PF14925 | HPHLAWLY | Domain of unknown function | |
| PF14932 | HAUS-augmin3 | HAUS augmin-like complex subunit 3 | Q6DCY9 |
| PF14947 | HTH_45 | Winged helix-turn-helix | Q97V10 |
| PF15003 | HAUS2 | HAUS augmin-like complex subunit 2 | Q6INL9 |
| PF15040 | Humanin | Humanin family | Q8IVG9 |
| PF15072 | HROB | Homologous recombination OB-fold protein | |
| PF15115 | HDNR | Domain of unknown function with conserved HDNR motif | |
| PF15196 | Harakiri | Activator of apoptosis harakiri | O00198 |
| PF15220 | HILPDA | Hypoxia-inducible lipid droplet-associated | |
| PF15226 | HPIP | HCF-1 beta-propeller-interacting protein family | |
| PF15244 | HSD3 | Spermatogenesis-associated protein 7, or HSD3 | |
| PF15311 | HYLS1_C | Hydrolethalus syndrome protein 1 C-terminus | |
| PF15313 | HEXIM | Hexamethylene bis-acetamide-inducible protein | O94992 |
| PF15353 | HECA_N | Headcase N-terminal | |
| PF15403 | HiaBD2 | HiaBD2_N domain of Trimeric autotransporter adhesin (GIN) | Q48152 |
| PF15666 | HGAL | Germinal center-associated lymphoma | |
| PF15695 | HERV-K_REC | Rec (regulator of expression encoded by corf) of HERV-K-113 | |
| PF15702 | HPS6 | Hermansky-Pudlak syndrome 6 protein N-terminal domain | |
| PF15758 | HRCT1 | Histidine-rich carboxyl terminus protein 1 | |
| PF15789 | Hyr1 | Hyphally regulated cell wall GPI-anchored protein 1 | |
| PF15905 | HMMR_N | Hyaluronan mediated motility receptor N-terminal | |
| PF15908 | HMMR_C | Hyaluronan mediated motility receptor C-terminal | |
| PF15919 | HicB_lk_antitox | HicB_like antitoxin of bacterial toxin-antitoxin system | C3TAR7 |
| PF15970 | HicB-like_2 | HicB_like antitoxin of bacterial toxin-antitoxin system | |
| PF15977 | HTH_46 | Winged helix-turn-helix DNA binding | |
| PF16002 | Headcase | Headcase protein | |
| PF16123 | HAGH_C | Hydroxyacylglutathione hydrolase C-terminus | Q9I2T1 |
| PF16211 | Histone_H2A_C | C-terminus of histone H2A | P04908 |
| PF16221 | HTH_47 | winged helix-turn-helix | Q97H19 |
| PF16507 | HEAT_PSME4_mid | Proteasome activator complex subunit 4, mid HEAT repeats region | Q14997 |
| PF16515 | HIP1_clath_bdg | Clathrin-binding domain of Huntingtin-interacting protein 1 | O00291 |
| PF16562 | HECW_N | N-terminal domain of E3 ubiquitin-protein ligase HECW1 and 2 | Q9P2P5 |
| PF16572 | HlyD_D4 | Long alpha hairpin domain of cation efflux system protein, CusB | P77239 |
| PF16576 | HlyD_D23 | Barrel-sandwich domain of CusB or HlyD membrane-fusion | Q9I6X5 |
| PF16581 | HIGH_NTase1_ass | Cytidyltransferase-related C-terminal region | Q58361 |
| PF16591 | HBM | Helical bimodular sensor domain | Q88E10 |
| PF16750 | HK_sensor | Sensor domain of 2-component histidine kinase | Q04804 |
| PF16784 | HNHc_6 | Putative HNHc nuclease | |
| PF16815 | HRI1 | Protein HRI1 | Q05905 |
| PF16889 | Hepar_II_III_N | Heparinase II/III N-terminus | Q89YS4 |
| PF16926 | HisKA_4TM | Archaeal 4TM region of histidine kinase | |
| PF16927 | HisKA_7TM | N-terminal 7TM region of histidine kinase | |
| PF16935 | Hol_Tox | Putative Holin-like Toxin (Hol-Tox) | Q2FWU9 |
| PF16936 | Holin_9 | Putative holin | |
| PF16954 | HRG | Haem-transporter, endosomal/lysosomal, haem-responsive gene | |
| PF16960 | HpuA | Haemoglobin-haptoglobin utilisation, porphyrin transporter | F0EX68 |
| PF17007 | HTH_micro | HTH-like | |
| PF17108 | HET-S | N-terminal small S protein of HET, non-prionic | |
| PF17209 | Hfq | Hfq protein | A6VD57 |
| PF17213 | Hydin_ADK | Hydin Adenylate kinase-like domain | |
| PF17312 | Helveticin_J | Bacteriocin helveticin-J | |
| PF17528 | HdcB | Histidine decarboxylase maturation protein HdcB | |
| PF17664 | HOATZ-like | Cilia- and flagella-associated protein HOATZ-like | |
| PF17674 | HHH_9 | HHH domain | Q7KZ85 |
| PF17762 | HTH_ParB | HTH domain found in ParB protein | P37524 |
| PF17788 | HypF_C | HypF Kae1-like domain | Q5JII4 |
| PF17906 | HTH_48 | HTH domain in Mos1 transposase | Q53H47 |
| PF17909 | Htr2 | Htr2 transmembrane domain | P42259 |
| PF17914 | HopA1 | HopA1 effector protein family | Q87UE5 |
| PF17943 | HOCHOB | Homeobox-cysteine loop-homeobox | |
| PF17993 | HA70_C | Haemagglutinin 70 C-terminal domain | A5HZZ4 |
| PF18010 | HTH_49 | Cry35Ab1 HTH C-terminal domain | |
| PF18024 | HTH_50 | Helix-turn-helix domain | P44694 |
| PF18071 | HMW1C_N | HMW1C N-terminal | |
| PF18107 | HTH_ABP1_N | Fission yeast centromere protein N-terminal domain | P49777 |
| PF18128 | HydF_dimer | Hydrogen maturase F dimerization domain | Q9WYS6 |
| PF18133 | HydF_tetramer | Hydrogen maturase F tetramerization domain | Q9WYS6 |
| PF18143 | HAD_SAK_2 | HAD domain in Swiss Army Knife RNA repair proteins | |
| PF18149 | Helicase_PWI | N-terminal helicase PWI domain | O75643 |
| PF18174 | HU-CCDC81_bac_1 | CCDC81-like prokaryotic HU domain 1 | |
| PF18175 | HU-CCDC81_bac_2 | CCDC81-like prokaryotic HU domain 2 | |
| PF18239 | HA1 | Hemagglutinin I | O60949 |
| PF18253 | HipN | Hsp70-interacting protein N N-terminal domain | P50503 |
| PF18254 | HMw1_D2 | HMW1 domain 2 | |
| PF18256 | HscB_4_cys | Co-chaperone HscB tetracysteine metal binding motif | Q8IWL3 |
| PF18268 | Hit1_C | Hit1 C-terminal | P46973 |
| PF18275 | His_Me_b4a2 | His-Me finger endonuclease beta4-alpha2 domain | |
| PF18287 | Hfx_Cass5 | Integron Cassette Protein Hfx_Cass5 | |
| PF18289 | HU-CCDC81_euk_2 | CCDC81 eukaryotic HU domain 2 | |
| PF18291 | HU-HIG | HU domain fused to wHTH, Ig, or Glycine-rich motif | |
| PF18360 | hnRNP_Q_AcD | Heterogeneous nuclear ribonucleoprotein Q acidic domain | A0A0B4KHI4 |
| PF18415 | HKR_ArcB_TM | Histidine kinase receptor ArcB trans-membrane domain | P0AEC3 |
| PF18436 | HECW1_helix | Helical box domain of E3 ubiquitin-protein ligase HECW1 | Q76N89 |
| PF18441 | Hen1_Lam_C | Hen1 La-motif C-terminal domain | Q9C5Q8 |
| PF18460 | HetR_C | Heterocyst differentiation regulator C-terminal Hood domain | P27709 |
| PF18472 | HP1451_C | HP1451 C-terminal domain | O25990 |
| PF18524 | HPIP_like | High potential iron-sulfur protein like | Q38HX3 |
| PF18534 | HBD | Helical bundle domain | Q5ZYH9 |
| PF18545 | HalOD1 | Halobacterial output domain 1 | |
| PF18547 | HalOD2 | Halobacterial output domain 2 | |
| PF18558 | HTH_51 | Methyltransferase, Helix-turn-helix domain | Q65Z23 |
| PF18575 | HAMP_N3 | HAMP N-terminal domain 3 | Q9I6V6 |
| PF18576 | HTH_52 | Helix-turn-helix domain | B1YK61 |
| PF18580 | HTH_SUN2 | SUN2 helix-turn-helix domain | Q9UH99 |
| PF18582 | HZS_alpha | Hydrazine synthase alpha subunit middle domain | Q1Q0T2 |
| PF18606 | HTH_53 | Zap helix turn helix N-terminal domain | Q7Z2W4 |
| PF18607 | HTH_54 | ParA helix turn helix domain | Q9KKJ2 |
| PF18618 | HP0268 | HP0268 | O25047 |
| PF18622 | HTH_55 | RctB helix turn helix domain | Q9KNG2 |
| PF18662 | HTH_56 | Cch helix turn helix domain | Q1PLI2 |
| PF18675 | HepII_C | Heparinase II C-terminal domain | C6XZB6 |
| PF18679 | HTH_57 | ThcOx helix turn helix domain | B8HTZ1 |
| PF18698 | HisK_sensor | Histidine kinase sensor domain | P35164 |
| PF18723 | HMUDK_hel | 5-hmdU DNA kinase, helical domain | |
| PF18725 | HEPN_SAV2148 | SAV2148-like HEPN | |
| PF18726 | HEPN_SAV_6107 | SAV_6107-like HEPN | |
| PF18728 | HEPN_AbiV | AbiV | |
| PF18729 | HEPN_STY4199 | STY4199-like HEPN | |
| PF18730 | HEPN_Cthe2314 | Cthe_2314-like HEPN | |
| PF18731 | HEPN_Swt1 | Swt1-like HEPN | |
| PF18732 | HEPN_AbiA_CTD | HEPN like, Abia C-terminal domain | |
| PF18733 | HEPN_LA2681 | LA2681-like HEPN | |
| PF18734 | HEPN_AbiU2 | AbiU2 | |
| PF18735 | HEPN_RiboL-PSP | RiboL-PSP-HEPN | |
| PF18737 | HEPN_MAE_28990 | MAE_28990/MAE_18760-like HEPN | |
| PF18738 | HEPN_DZIP3 | DZIP3/ hRUL138-like HEPN | |
| PF18739 | HEPN_Apea | Apea-like HEPN | |
| PF18761 | Heliorhodopsin | Heliorhodopsin | A0A151EDA9 |
| PF18776 | Hexapep_loop | Hexapeptide repeat including loop | Q30V63 |
| PF18780 | HNH_repeat | Homing endonuclease associated repeat | |
| PF18794 | HSM3_C | DNA mismatch repair protein HSM3, C terminal domain | P38348 |
| PF18795 | HSM3_N | DNA mismatch repair protein HSM3, N terminal domain | P38348 |
| PF18817 | HEAT_UF | Repeat of uncharacterized protein PH0542 | O58277 |
| PF18867 | HEPN-like_int | HEPN-like integron domain | |
| PF18869 | HEPN_RnaseLS | RnaseLS-like HEPN | |
| PF18870 | HEPN_RES_NTD1 | HEPN/RES N-terminal domain 1 | |
| PF18871 | HEPN_Toprim_N | HEPN/Toprim N-terminal domain 1 | |
| PF18947 | HAMP_2 | HAMP domain | Q9I6V6 |
| PF19047 | HOOK_N | HOOK domain | Q86VS8 |
| PF19187 | HTH_PafC | PafC helix-turn-helix domain | A0QZ41 |
| PF19191 | HEF_HK | HEF_HK domain | |
| PF19252 | HIND | HIND motif | O43290 |
| PF19275 | HflX_C | HflX C-terminal domain | P25519 |
| PF19276 | HD_assoc_2 | HD associated region | Q836G9 |
| PF19278 | Hydant_A_C | Hydantoinase/oxoprolinase C-terminal domain | A0A2W0EVE0 |
| PF19335 | HMBD | Heavy metal binding domain | P77239 |
| PF19343 | HAM1_N | HAM1-like, N-terminal domain | |
| PF19575 | HTH_58 | Helix-turn-helix domain | |
| PF19810 | HFX_2341_N | HFX_2341-like, N-terminal | |
| PF19991 | HMA_2 | Heavy metal associated domain 2 | |
| PF20038 | HTH_59 | Helix-turn-helix domain | |
| PF20133 | HHL1-like | Protein HHL1-like | |
| PF20302 | HisK-N-like | HisK-N-like globin domain of the ASK signalosome | |
| PF20310 | HTH_Tnp_2 | Transposon related HTH domain protein | |
| PF20317 | HTH_60 | Helix-turn-helix domain | |
| PF20468 | HPS6_C | Hermansky-Pudlak syndrome 6 protein C-terminal domain | |
| PF20470 | HTH_61 | Helix-turn-helix domain | O75417 |
| PF20510 | HgmA_N | Homogentisate 1,2-dioxygenase N-terminal | Q88E47 |
| PF20552 | HTH_62 | Recombinase-like helix-turn-helix domain | |
| PF20575 | HTH_63 | Helix-turn-helix domain | |
| PF20576 | HEWD | HEWD domain | |
| PF20613 | HipA_2 | HipA-like kinase | |
| PF20646 | Hpf1_C | Hpf1 C-terminal YTTT repeat | |
| PF20678 | HV_Gp350_C-term | Herpesvirus Envelope glycoprotein GP350 C-terminal | |
| PF20701 | HetE-N | Het-E N-terminal domain | |
| PF20714 | HTH_64 | DpiA-like helix-turn-helix domain | |
| PF20797 | HepT-like_2 | HepT-like protein | |
| PF20836 | HAO_bd | Hypothetical protein NE1300 | |
| PF20925 | Htt_bridge | Huntingtin, bridge | |
| PF20926 | Htt_N-HEAT_1 | Huntingtin, N-terminal HEAT 1 | |
| PF20927 | Htt_C-HEAT | Huntingtin, C-terminal HEAT | |
| PF20933 | HpHbR | Haptoglobin-hemoglobin receptor | |
| PF21010 | HA2_C | Helicase associated domain (HA2), ratchet-like | |
| PF21047 | HEAT_Maestro | Maestro, HEAT repeats | |
| PF21057 | Hikeshi-like_C | Hikeshi-like, C-terminal domain | |
| PF21183 | HAT1_C | Histone acetyltransferase type B catalytic subunit, C-terminal | |
| PF21184 | HAT1_C_fung | Fungal HAT1, C-terminal | |
| PF21224 | Hen1_LCD | Small RNA 2'-O-methyltransferase-like, La-motif-containing domain | |
| PF21268 | Helic-prim_T7_N | Bacteriophage T7 DNA helicase/primase, N-terminal a+b fold | |
| PF21280 | Helicase_dom4_arc | Archaeal helicase, domain 4 | |
| PF21320 | HTH_65 | Rv2258c-like winged HTH domain | |
| PF21321 | HTH_66 | Putative DNA-binding HTH domain | |
| PF21461 | HL_N-beta | Hyaluronate lyase, N-terminal beta-sheet domain | |
| PF21500 | HolB_lid | DNA polymerase III subunit delta', AAA+ ATPase lid domain | |
| PF21517 | HTH_Tnp_Tc3_2_like | Transposable element Tc3 transposase, HTH | |
| PF21535 | HVO_2248 | Uncharacterized motility-related protein HVO_2248 | |
| PF21591 | Hera_DD | RNA helicase Hera, dimerization domain | |
| PF21623 | HK_sensor_dom_bact | Bacterial histidine kinase, sensor domain | |
| PF21670 | HOOK_N_NuMA | NuMA N-terminal hook domain | |
| PF21863 | HTH_67 | Helix-turn-helix family | |
| PF21944 | Hemotin | Hemotin | |
| PF21970 | HOXB-AS3 | HOXB-AS3 peptide | |
| PF21979 | Hfq_1 | Hfq related | |
| PF21996 | HisZ-like | Histidyl-tRNA synthetase HisZ, C-terminal domain | |
| PF22017 | HP1454-like_C | LPP20 lipofamily protein, C-terminal domain | |
| PF22018 | HP1454-like_middle_dom | LPP20 lipofamily protein, middle domain | |
| PF22032 | Hen1_N | Hen1 N-terminal domain | |
| PF22039 | HUTI_composite_bact | Imidazolonepropionase-like composite domain, bacteria | |
| PF22079 | HopBA1 | Type III effector protein HopBA1 | |
| PF22088 | HIT-like | HIT-related | |
| PF22101 | HSD_C | Homoserine dehydrogenase C-terminal domain | |
| PF22186 | HI1480 | Hypothetical protein HI1480 | |
| PF22196 | HdrB-like_C | HdrB-like C-terminal domain | |
| PF22231 | Hera_RBD | DEAD box helicase Hera, RNA-binding domain | |
| PF22309 | HK-GC-Chemotax_sensor | HK/GC/Chemotaxis protein-like, sensor domain | |
| PF22324 | HTH_91 | Winged helix domain | |
| PF22414 | Hia_Tpr_ring_dom | Trimeric autotransporter adhesin, Trp ring domain | |
| PF22417 | Hmr1_E-cad-like | Cadherin-related hmr-1 E-cadherin-like | |
| PF22429 | HutF_N | Formimidoylglutamate deiminase HutF, N-terminal domain | |
| PF22470 | Histone_HNS_N | H-NS histone-like proteins, N-terminal domain | |
| PF22495 | HTH_92 | RsaL-like HTH domain | |
| PF22521 | HypF_C_2 | Carbamoyltransferase, Kae1-like Domain, second subdomain | |
| PF22525 | H2TH_5 | S13-like H2TH domain | |
| PF22538 | HexPS-like | Hexaprenyl diphosphate synthase, small subunit | |
| PF22544 | HYDIN_VesB_CFA65-like_Ig | HYDIN/CFA65/VesB-like, Ig-like domain | |
| PF22561 | HisKin-conflict | Histidine Kinase domain observed in conflict contexts | |
| PF22564 | HAAS | HAAS | |
| PF22616 | HMD_N | HMD N-terminal domain | |
| PF22617 | HCS_D2 | Homocitrate synthase post-HMGL domain-like | |
| PF22688 | Hda_lid | Hda, lid domain | |
| PF22780 | HI0933_like_1st | HI0933-like protein barrel and H2TH domain | |
| PF22825 | HpiC1-like | HpiC1 cyclase | |
| PF22828 | HphA_N | HphA N-terminal heme-binding domain | |
| PF22829 | HphA_C | HphA C-terminal domain | |
| PF22862 | Hac8_like_N | Halocin 8-like N-terminal domain | |
| PF22905 | Hydro_N_hd | Hydrolase N-terminal helical domain | |
| PF22943 | HTH_68 | Putative helix-turn-helix domain | |
| PF22949 | HRI2_3H | Heme-regulated eIF-2-alpha kinase, helical domain | |
| PF22978 | HAD_Pex22 | Peroxisome biogenesis protein 22, Haloacid dehydrogenase-like domain | |
| PF22979 | HTH_69 | Winged helix-turn-helix domain | |
| PF23078 | HTH_CHD6-9 | Chromodomain-helicase-DNA-binding protein 6-9, tri-helical | |
| PF23079 | HTH_NOL4_2nd | Nucleolar protein 4, helical | |
| PF23081 | HTH_KIF26A_B_1st | Kinesin-like protein KIF26A/B, tri-helical | |
| PF23096 | HEAT_PSME4 | Proteasome activator complex subunit 4-like, HEAT repeat-like | |
| PF23110 | H1_KCTD8_12_16 | KCTD8/12/16 H1 domain | |
| PF23116 | HHD_RTEL1 | RTEL1, HHD domain | |
| PF23137 | HVO_0758 | HVO_0758 mu-protein | |
| PF23161 | HTH_RNase_II | Double HTH domain | |
| PF23169 | HalD | Halogenase D | |
| PF23210 | HEAT_Maestro_2 | MROH2B-like, HEAT repeats | |
| PF23220 | HAT_Syf1_M | Pre-mRNA-splicing factor SYF1 middle HAT repeat | |
| PF23221 | HEAT_MROH2B_1st | MROH2B-like, HEAT repeats | |
| PF23227 | HEAT_MROH2B_C | MROH2B-like, HEAT repeats | |
| PF23231 | HAT_Syf1_CNRKL1_C | Pre-mRNA-splicing factor Syf1/CRNKL1 C-terminal HAT repeat | |
| PF23233 | HAT_Syf1_CNRKL1_N | Pre-mRNA-splicing factor Syf1/CNRKL1 N-terminal HAT repeat | |
| PF23237 | HYR_4C | HYR-like domain with 4 cysteines | |
| PF23240 | HAT_PRP39_N | PRP39 N-terminal HAT repeat | |
| PF23241 | HAT_PRP39_C | PRP39 C-terminal HAT repeat | |
| PF23243 | HEAT_HEATR1 | HEATR1-like, HEAT repeats | |
| PF23270 | HAD_RAM2_N | Glycerol-3-phosphate acyltransferase RAM2-like, HAD-like domain | |
| PF23271 | HEAT_GCN1 | Stalled ribosome sensor GCN1-like, HEAT repeats | |
| PF23300 | HEAT_Nup120 | Nucleoporin nup120-like, HEAT repeats | |
| PF23302 | HTH_DNAJC9 | DNAJC9 HTH domain | |
| PF23336 | HTH_TbsP_C | Transcriptional regulator TbsP-like, C-terminal HTH domain | |
| PF23401 | HTH_Card1 | Card1 hinge domain | |
| PF23452 | HPAT | Hydroxyproline O-arabinosyltransferase family | |
| PF23588 | HTH_Hrp3 | ATP-dependent helicase hrp3-like HTH domain | |
| PF23593 | HEAT_ATR | Serine/threonine-protein kinase ATR-like, HEAT repeats | |
| PF23606 | HEAT_ULK4 | Serine/threonine-protein kinase ULK4-like, HEAT repeats | |
| PF23671 | HTH_70 | HTH 3-helical bundle | |
| PF23737 | HTH_71 | HTH 3-helical bundle | |
| PF23739 | HTH_72 | HTH 3-helical bundle | |
| PF23936 | HB_ELP1 | ELP1 three-helix bundle | |
| PF24064 | HTH_NPRL3 | GATOR1 complex protein NPRL3, C-terminal HTH | |
| PF24066 | Hisat_C | Histidine N-acetyltransferase, C-terminal | |
| PF24163 | HCP | Head completion protein | |
| PF24250 | HVO_2718 | Transcription regulator HVO_2718-like | |
| PF24266 | HTH_HVO_0163_N | HVO_0163, N-terminal HTH domain | |
| PF24267 | HVO_1552_C | HVO_1552, C-terminal | |
| PF24270 | HTH_Cmi2_C | Cmi2, C-terminal | |
| PF24271 | HVO_2833_C | HVO_2833, C-terminal | |
| PF24278 | HVO_0513_N | HVO_0513, N-terminal | |
| PF24279 | HVO_2525_N | HVO_2525, N-terminal | |
| PF24280 | HVO_A0563_N | HVO_A0563, N-terminal | |
| PF24281 | HVO_2928_N | HVO_2928, N-terminal | |
| PF24391 | HD-CE | HD-CE | |
| PF24407 | HTH_upst_double_PIN | HTH_upstream_double_PIN | |
| PF24426 | HTH_NDX | NDX Homeobox-like domain | |
| PF24492 | HEAT_ECM29 | Proteasome adapter and scaffold protein ECM29, HEAT-repeat domain | |
| PF24534 | HMA_PCA1 | PCA1 HMA heavy metal-associated domain | |
| PF24566 | HEAT_Ints3_C | Ints3-like, C-terminal HEAT repeats | |
| PF24571 | HEAT_SCC3-SA | Cohesin subunit SCC3/SA, HEAT-repeats domain | |
| PF24573 | HEAT_DAAF5 | Dynein axonemal assembly factor 5, HEAT-repeat domain | |
| PF24718 | HTH_73 | HTH-like domain | |
| PF24721 | HAB | Half a barrel family | |
| PF24815 | HMG_WDHD1 | WDHD1 HMG box | |