| C [auth A] | IPR007081 | RNA polymerase Rpb1, domain 5 | Domain |
| C [auth A] | IPR045867 | DNA-directed RNA polymerase, subunit beta-prime | Family |
| C [auth A] | IPR007075 | RNA polymerase Rpb1, domain 6 | Domain |
| C [auth A] | IPR000684 | RNA polymerase II, heptapeptide repeat, eukaryotic | Repeat |
| C [auth A] | IPR007083 | RNA polymerase Rpb1, domain 4 | Domain |
| C [auth A] | IPR044893 | RNA polymerase Rpb1, clamp domain superfamily | Homologous Superfamily |
| C [auth A] | IPR006592 | RNA polymerase, N-terminal | Domain |
| C [auth A] | IPR007066 | RNA polymerase Rpb1, domain 3 | Domain |
| C [auth A] | IPR007073 | RNA polymerase Rpb1, domain 7 | Domain |
| C [auth A] | IPR042102 | RNA polymerase Rpb1, domain 3 superfamily | Homologous Superfamily |
| C [auth A] | IPR038593 | RNA polymerase Rpb1, domain 7 superfamily | Homologous Superfamily |
| C [auth A] | IPR000722 | RNA polymerase, alpha subunit | Domain |
| C [auth A] | IPR038120 | RNA polymerase Rpb1, funnel domain superfamily | Homologous Superfamily |
| C [auth A] | IPR007080 | RNA polymerase Rpb1, domain 1 | Domain |
| D [auth B] | IPR007642 | RNA polymerase Rpb2, domain 2 | Domain |
| D [auth B] | IPR015712 | DNA-directed RNA polymerase, subunit 2 | Family |
| D [auth B] | IPR037033 | DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily | Homologous Superfamily |
| D [auth B] | IPR037034 | RNA polymerase Rpb2, domain 2 superfamily | Homologous Superfamily |
| D [auth B] | IPR007120 | DNA-directed RNA polymerase, subunit 2, hybrid-binding domain | Domain |
| D [auth B] | IPR007121 | RNA polymerase, beta subunit, conserved site | Conserved Site |
| D [auth B] | IPR007645 | RNA polymerase Rpb2, domain 3 | Domain |
| D [auth B] | IPR007646 | RNA polymerase Rpb2, domain 4 | Domain |
| D [auth B] | IPR007647 | RNA polymerase Rpb2, domain 5 | Domain |
| D [auth B] | IPR014724 | RNA polymerase Rpb2, OB-fold | Homologous Superfamily |
| D [auth B] | IPR007644 | RNA polymerase, beta subunit, protrusion | Domain |
| D [auth B] | IPR007641 | RNA polymerase Rpb2, domain 7 | Domain |
| E [auth C] | IPR011262 | DNA-directed RNA polymerase, insert domain | Domain |
| E [auth C] | IPR011263 | DNA-directed RNA polymerase, RpoA/D/Rpb3-type | Domain |
| E [auth C] | IPR050518 | Archaeal Rpo3/Eukaryotic RPB3 RNA Polymerase Subunit | Family |
| E [auth C] | IPR022842 | DNA-directed RNA polymerase subunit Rpo3/Rpb3/RPAC1 | Family |
| E [auth C] | IPR036643 | DNA-directed RNA polymerase, insert domain superfamily | Homologous Superfamily |
| E [auth C] | IPR001514 | DNA-directed RNA polymerase, 30-40kDa subunit, conserved site | Conserved Site |
| E [auth C] | IPR036603 | RNA polymerase, RBP11-like subunit | Homologous Superfamily |
| F [auth D] | IPR005574 | RNA polymerase subunit Rpb4/RPC9 | Family |
| F [auth D] | IPR010997 | HRDC-like superfamily | Homologous Superfamily |
| F [auth D] | IPR006590 | RNA polymerase Rpb4/RPC9, core | Domain |
| F [auth D] | IPR038324 | Rpb4/RPC9 superfamily | Homologous Superfamily |
| F [auth D] | IPR045222 | DNA-directed RNA polymerase II subunit Rpb4-like | Family |
| G [auth E] | IPR014381 | DNA-directed RNA polymerase subunit Rpo5/Rpb5 | Family |
| G [auth E] | IPR036710 | RNA polymerase Rpb5, N-terminal domain superfamily | Homologous Superfamily |
| G [auth E] | IPR035913 | RPB5-like RNA polymerase subunit superfamily | Homologous Superfamily |
| G [auth E] | IPR000783 | RNA polymerase, subunit H/Rpb5 C-terminal | Domain |
| G [auth E] | IPR020608 | RNA polymerase, subunit H/Rpb5, conserved site | Conserved Site |
| G [auth E] | IPR005571 | RNA polymerase, Rpb5, N-terminal | Domain |
| H [auth F] | IPR020708 | DNA-directed RNA polymerase, 14-18kDa subunit, conserved site | Conserved Site |
| H [auth F] | IPR028363 | DNA-directed RNA polymerase, subunit RPB6 | Family |
| H [auth F] | IPR006110 | RNA polymerase, subunit omega/Rpo6/RPB6 | Family |
| H [auth F] | IPR036161 | RPB6/omega subunit-like superfamily | Homologous Superfamily |
| H [auth F] | IPR006111 | Archaeal Rpo6/eukaryotic RPB6 RNA polymerase subunit | Family |
| I [auth G] | IPR003029 | S1 domain | Domain |
| I [auth G] | IPR045113 | RNA polymerase subunit Rpb7-like | Family |
| I [auth G] | IPR005576 | RNA polymerase Rpb7-like , N-terminal | Domain |
| I [auth G] | IPR036898 | RNA polymerase Rpb7-like, N-terminal domain superfamily | Homologous Superfamily |
| I [auth G] | IPR012340 | Nucleic acid-binding, OB-fold | Homologous Superfamily |
| J [auth H] | IPR005570 | DNA-directed RNA polymerases I, II, and III subunit RPABC3 | Family |
| J [auth H] | IPR012340 | Nucleic acid-binding, OB-fold | Homologous Superfamily |
| K [auth I] | IPR001529 | DNA-directed RNA polymerase II subunit RPB9-like, zinc ribbon | Domain |
| K [auth I] | IPR012164 | DNA-directed RNA polymerase subunit/transcription factor S | Family |
| K [auth I] | IPR001222 | Zinc finger, TFIIS-type | Domain |
| K [auth I] | IPR034012 | Pol II subunit B9, C-terminal zinc ribbon | Domain |
| K [auth I] | IPR019761 | DNA-directed RNA polymerase M, 15kDa subunit, conserved site | Conserved Site |
| L [auth J] | IPR023580 | RNA polymerase subunit RPB10 | Homologous Superfamily |
| L [auth J] | IPR020789 | RNA polymerases, subunit N, zinc binding site | Binding Site |
| L [auth J] | IPR000268 | DNA-directed RNA polymerase subunit RPABC5/Rpb10 | Family |
| M [auth K] | IPR009025 | DNA-directed RNA polymerase, RBP11-like dimerisation domain | Domain |
| M [auth K] | IPR037685 | RNA polymerase RBP11 | Family |
| M [auth K] | IPR022905 | DNA-directed RNA polymerase subunit Rpo11-like | Family |
| M [auth K] | IPR036603 | RNA polymerase, RBP11-like subunit | Homologous Superfamily |
| M [auth K] | IPR008193 | DNA-directed RNA polymerase Rpb11, 13-16kDa subunit, conserved site | Conserved Site |
| N [auth L] | IPR006591 | RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4 | Family |
| N [auth L] | IPR029040 | RNA polymerase subunit RPABC4/transcription elongation factor Spt4 | Homologous Superfamily |
| N [auth L] | IPR039747 | DNA-directed RNA polymerases I, II, and III subunit RPABC4 | Family |
P [auth e], R [auth g] | IPR009072 | Histone-fold | Homologous Superfamily |
P [auth e], R [auth g] | IPR007125 | Core Histone H2A/H2B/H3 domain | Domain |
P [auth e], R [auth g] | IPR000164 | Histone H3/CENP-A | Family |
Q [auth f], S [auth h] | IPR009072 | Histone-fold | Homologous Superfamily |
Q [auth f], S [auth h] | IPR035425 | CENP-T/Histone H4, histone fold | Domain |
Q [auth f], S [auth h] | IPR001951 | Histone H4 | Family |
Q [auth f], S [auth h] | IPR019809 | Histone H4, conserved site | Conserved Site |
Q [auth f], S [auth h] | IPR004823 | TATA box binding protein associated factor (TAF), histone-like fold domain | Domain |