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6DRD

RNA Pol II(G)

Functional Information from GO Data
ChainGOidnamespacecontents
A0000287molecular_functionmagnesium ion binding
A0000428cellular_componentDNA-directed RNA polymerase complex
A0000974cellular_componentPrp19 complex
A0001055molecular_functionRNA polymerase II activity
A0001172biological_processRNA-templated transcription
A0003677molecular_functionDNA binding
A0003723molecular_functionRNA binding
A0003899molecular_functionDNA-directed 5'-3' RNA polymerase activity
A0003968molecular_functionRNA-dependent RNA polymerase activity
A0005515molecular_functionprotein binding
A0005634cellular_componentnucleus
A0005654cellular_componentnucleoplasm
A0005665cellular_componentRNA polymerase II, core complex
A0005694cellular_componentchromosome
A0005730cellular_componentnucleolus
A0005737cellular_componentcytoplasm
A0006351biological_processDNA-templated transcription
A0006353biological_processDNA-templated transcription termination
A0006355biological_processregulation of DNA-templated transcription
A0006366biological_processtranscription by RNA polymerase II
A0008270molecular_functionzinc ion binding
A0016740molecular_functiontransferase activity
A0016779molecular_functionnucleotidyltransferase activity
A0016787molecular_functionhydrolase activity
A0019900molecular_functionkinase binding
A0031625molecular_functionubiquitin protein ligase binding
A0031981cellular_componentnuclear lumen
A0033120biological_processpositive regulation of RNA splicing
A0034062molecular_function5'-3' RNA polymerase activity
A0046872molecular_functionmetal ion binding
A0050436molecular_functionmicrofibril binding
A1990841molecular_functionpromoter-specific chromatin binding
B0000428cellular_componentDNA-directed RNA polymerase complex
B0000781cellular_componentchromosome, telomeric region
B0001055molecular_functionRNA polymerase II activity
B0001172biological_processRNA-templated transcription
B0003677molecular_functionDNA binding
B0003682molecular_functionchromatin binding
B0003723molecular_functionRNA binding
B0003899molecular_functionDNA-directed 5'-3' RNA polymerase activity
B0003968molecular_functionRNA-dependent RNA polymerase activity
B0005515molecular_functionprotein binding
B0005634cellular_componentnucleus
B0005654cellular_componentnucleoplasm
B0005665cellular_componentRNA polymerase II, core complex
B0006351biological_processDNA-templated transcription
B0006366biological_processtranscription by RNA polymerase II
B0016020cellular_componentmembrane
B0016740molecular_functiontransferase activity
B0016779molecular_functionnucleotidyltransferase activity
B0016787molecular_functionhydrolase activity
B0032549molecular_functionribonucleoside binding
B0034062molecular_function5'-3' RNA polymerase activity
B0046872molecular_functionmetal ion binding
C0000428cellular_componentDNA-directed RNA polymerase complex
C0001055molecular_functionRNA polymerase II activity
C0003677molecular_functionDNA binding
C0003899molecular_functionDNA-directed 5'-3' RNA polymerase activity
C0005515molecular_functionprotein binding
C0005634cellular_componentnucleus
C0005654cellular_componentnucleoplasm
C0005665cellular_componentRNA polymerase II, core complex
C0005829cellular_componentcytosol
C0006351biological_processDNA-templated transcription
C0006366biological_processtranscription by RNA polymerase II
C0046983molecular_functionprotein dimerization activity
D0000166molecular_functionnucleotide binding
D0000428cellular_componentDNA-directed RNA polymerase complex
D0005515molecular_functionprotein binding
D0005634cellular_componentnucleus
D0005654cellular_componentnucleoplasm
D0005665cellular_componentRNA polymerase II, core complex
D0005829cellular_componentcytosol
D0006352biological_processDNA-templated transcription initiation
D0006366biological_processtranscription by RNA polymerase II
D0006367biological_processtranscription initiation at RNA polymerase II promoter
D0016607cellular_componentnuclear speck
D0030880cellular_componentRNA polymerase complex
D0031369molecular_functiontranslation initiation factor binding
D0034402biological_processrecruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex
D0044237biological_processcellular metabolic process
E0000428cellular_componentDNA-directed RNA polymerase complex
E0001054molecular_functionRNA polymerase I activity
E0001055molecular_functionRNA polymerase II activity
E0001056molecular_functionRNA polymerase III activity
E0003677molecular_functionDNA binding
E0003899molecular_functionDNA-directed 5'-3' RNA polymerase activity
E0005515molecular_functionprotein binding
E0005634cellular_componentnucleus
E0005654cellular_componentnucleoplasm
E0005665cellular_componentRNA polymerase II, core complex
E0005666cellular_componentRNA polymerase III complex
E0005730cellular_componentnucleolus
E0005736cellular_componentRNA polymerase I complex
E0005829cellular_componentcytosol
E0006351biological_processDNA-templated transcription
E0006362biological_processtranscription elongation by RNA polymerase I
E0006366biological_processtranscription by RNA polymerase II
E0042797biological_processtRNA transcription by RNA polymerase III
E0050821biological_processprotein stabilization
E0055029cellular_componentnuclear DNA-directed RNA polymerase complex
E1990062cellular_componentRPAP3/R2TP/prefoldin-like complex
F0000428cellular_componentDNA-directed RNA polymerase complex
F0001054molecular_functionRNA polymerase I activity
F0001055molecular_functionRNA polymerase II activity
F0001056molecular_functionRNA polymerase III activity
F0001650cellular_componentfibrillar center
F0003677molecular_functionDNA binding
F0003899molecular_functionDNA-directed 5'-3' RNA polymerase activity
F0005634cellular_componentnucleus
F0005654cellular_componentnucleoplasm
F0005665cellular_componentRNA polymerase II, core complex
F0005666cellular_componentRNA polymerase III complex
F0005730cellular_componentnucleolus
F0005736cellular_componentRNA polymerase I complex
F0005829cellular_componentcytosol
F0006351biological_processDNA-templated transcription
F0006360biological_processtranscription by RNA polymerase I
F0006366biological_processtranscription by RNA polymerase II
F0042797biological_processtRNA transcription by RNA polymerase III
G0000291biological_processnuclear-transcribed mRNA catabolic process, exonucleolytic
G0000428cellular_componentDNA-directed RNA polymerase complex
G0000932cellular_componentP-body
G0003676molecular_functionnucleic acid binding
G0003697molecular_functionsingle-stranded DNA binding
G0003723molecular_functionRNA binding
G0003727molecular_functionsingle-stranded RNA binding
G0005515molecular_functionprotein binding
G0005634cellular_componentnucleus
G0005654cellular_componentnucleoplasm
G0005665cellular_componentRNA polymerase II, core complex
G0006351biological_processDNA-templated transcription
G0006352biological_processDNA-templated transcription initiation
G0006366biological_processtranscription by RNA polymerase II
G0006367biological_processtranscription initiation at RNA polymerase II promoter
G0031369molecular_functiontranslation initiation factor binding
G0045948biological_processpositive regulation of translational initiation
G0060213biological_processpositive regulation of nuclear-transcribed mRNA poly(A) tail shortening
H0000428cellular_componentDNA-directed RNA polymerase complex
H0001054molecular_functionRNA polymerase I activity
H0001055molecular_functionRNA polymerase II activity
H0001056molecular_functionRNA polymerase III activity
H0003677molecular_functionDNA binding
H0003697molecular_functionsingle-stranded DNA binding
H0003899molecular_functionDNA-directed 5'-3' RNA polymerase activity
H0005634cellular_componentnucleus
H0005654cellular_componentnucleoplasm
H0005665cellular_componentRNA polymerase II, core complex
H0005666cellular_componentRNA polymerase III complex
H0005730cellular_componentnucleolus
H0005736cellular_componentRNA polymerase I complex
H0005829cellular_componentcytosol
H0006351biological_processDNA-templated transcription
H0006360biological_processtranscription by RNA polymerase I
H0006366biological_processtranscription by RNA polymerase II
H0006383biological_processtranscription by RNA polymerase III
H0032993cellular_componentprotein-DNA complex
I0000428cellular_componentDNA-directed RNA polymerase complex
I0001193biological_processmaintenance of transcriptional fidelity during transcription elongation by RNA polymerase II
I0003676molecular_functionnucleic acid binding
I0003899molecular_functionDNA-directed 5'-3' RNA polymerase activity
I0005515molecular_functionprotein binding
I0005634cellular_componentnucleus
I0005654cellular_componentnucleoplasm
I0005665cellular_componentRNA polymerase II, core complex
I0005730cellular_componentnucleolus
I0006283biological_processtranscription-coupled nucleotide-excision repair
I0006351biological_processDNA-templated transcription
I0006366biological_processtranscription by RNA polymerase II
I0006367biological_processtranscription initiation at RNA polymerase II promoter
I0008270molecular_functionzinc ion binding
I0046872molecular_functionmetal ion binding
J0000428cellular_componentDNA-directed RNA polymerase complex
J0001054molecular_functionRNA polymerase I activity
J0001055molecular_functionRNA polymerase II activity
J0001056molecular_functionRNA polymerase III activity
J0003677molecular_functionDNA binding
J0003899molecular_functionDNA-directed 5'-3' RNA polymerase activity
J0005515molecular_functionprotein binding
J0005634cellular_componentnucleus
J0005654cellular_componentnucleoplasm
J0005665cellular_componentRNA polymerase II, core complex
J0005666cellular_componentRNA polymerase III complex
J0005730cellular_componentnucleolus
J0005736cellular_componentRNA polymerase I complex
J0005829cellular_componentcytosol
J0006351biological_processDNA-templated transcription
J0006356biological_processregulation of transcription by RNA polymerase I
J0006360biological_processtranscription by RNA polymerase I
J0006366biological_processtranscription by RNA polymerase II
J0008270molecular_functionzinc ion binding
J0042797biological_processtRNA transcription by RNA polymerase III
J0046872molecular_functionmetal ion binding
K0000428cellular_componentDNA-directed RNA polymerase complex
K0001055molecular_functionRNA polymerase II activity
K0003677molecular_functionDNA binding
K0003899molecular_functionDNA-directed 5'-3' RNA polymerase activity
K0005515molecular_functionprotein binding
K0005634cellular_componentnucleus
K0005654cellular_componentnucleoplasm
K0005665cellular_componentRNA polymerase II, core complex
K0006351biological_processDNA-templated transcription
K0006366biological_processtranscription by RNA polymerase II
K0030275molecular_functionLRR domain binding
K0046983molecular_functionprotein dimerization activity
L0000428cellular_componentDNA-directed RNA polymerase complex
L0001054molecular_functionRNA polymerase I activity
L0001055molecular_functionRNA polymerase II activity
L0001056molecular_functionRNA polymerase III activity
L0003677molecular_functionDNA binding
L0003899molecular_functionDNA-directed 5'-3' RNA polymerase activity
L0005515molecular_functionprotein binding
L0005634cellular_componentnucleus
L0005654cellular_componentnucleoplasm
L0005665cellular_componentRNA polymerase II, core complex
L0005666cellular_componentRNA polymerase III complex
L0005730cellular_componentnucleolus
L0005736cellular_componentRNA polymerase I complex
L0005829cellular_componentcytosol
L0006351biological_processDNA-templated transcription
L0006356biological_processregulation of transcription by RNA polymerase I
L0006360biological_processtranscription by RNA polymerase I
L0006366biological_processtranscription by RNA polymerase II
L0006383biological_processtranscription by RNA polymerase III
L0008270molecular_functionzinc ion binding
L0046872molecular_functionmetal ion binding
Functional Information from PDB Data
site_idAC1
Number of Residues5
Detailsbinding site for residue ZN C 301
ChainResidue
CCYS88
CCYS90
CPHE93
CCYS94
CCYS97

site_idAC2
Number of Residues4
Detailsbinding site for residue ZN I 201
ChainResidue
ICYS17
ICYS20
ICYS39
ICYS42

site_idAC3
Number of Residues4
Detailsbinding site for residue ZN I 202
ChainResidue
ICYS86
ICYS89
ICYS114
ICYS119

site_idAC4
Number of Residues4
Detailsbinding site for residue ZN J 101
ChainResidue
JCYS7
JCYS10
JCYS44
JCYS45

site_idAC5
Number of Residues4
Detailsbinding site for residue ZN L 101
ChainResidue
LCYS19
LGLU21
LCYS22
LCYS39

Functional Information from PROSITE/UniProt
site_idPS00018
Number of Residues13
DetailsEF_HAND_1 EF-hand calcium-binding domain. DNDPNDYVEqdDI
ChainResidueDetails
CASP136-ILE148

site_idPS00446
Number of Residues41
DetailsRNA_POL_D_30KD RNA polymerases D / 30 to 40 Kd subunits signature. NSIRRvfiaevpiiAidwVqidaNsSvlhDEfIAhRLGLIP
ChainResidueDetails
CASN32-PRO72

site_idPS01110
Number of Residues14
DetailsRNA_POL_H_23KD RNA polymerases H / 23 Kd subunits signature. HELVPEHvvMtkEE
ChainResidueDetails
EHIS142-GLU155

site_idPS01154
Number of Residues32
DetailsRNA_POL_L_13KD RNA polymerases L / 13 to 16 Kd subunits signature. InkEdHTLgNiIksqLlkdpqVlfagYkvpHP
ChainResidueDetails
KILE35-PRO66

site_idPS00290
Number of Residues7
DetailsIG_MHC Immunoglobulins and major histocompatibility complex proteins signature. YVCTAPH
ChainResidueDetails
ITYR112-HIS118

site_idPS00466
Number of Residues38
DetailsZF_TFIIS_1 Zinc finger TFIIS-type signature. CqkCghkeavffqSHSARaEDAmrlyyvCtaph.CghrW
ChainResidueDetails
ICYS86-TRP123

site_idPS01030
Number of Residues27
DetailsRNA_POL_M_15KD RNA polymerases M / 15 Kd subunits signature. FCqECNNMLypkedkenrillyaCrnC
ChainResidueDetails
IPHE16-CYS42

site_idPS01166
Number of Residues13
DetailsRNA_POL_BETA RNA polymerases beta chain signature. GdKFASrHGQKGT
ChainResidueDetails
BGLY932-THR944

site_idPS01111
Number of Residues15
DetailsRNA_POL_K_14KD RNA polymerases K / 14 to 18 Kd subunits signature. TkYErARvLGtRAlQ
ChainResidueDetails
FTHR58-GLN72

site_idPS00115
Number of Residues7
DetailsRNA_POL_II_REPEAT Eukaryotic RNA polymerase II heptapeptide repeat. YSPTSPA
ChainResidueDetails
ATYR1593-ALA1599
ATYR1671-SER1677
ATYR1678-SER1684
ATYR1685-SER1691
ATYR1692-SER1698
ATYR1699-SER1705
ATYR1706-SER1712
ATYR1713-SER1719
ATYR1720-SER1726
ATYR1727-SER1733
ATYR1734-SER1740
ATYR1615-SER1621
ATYR1741-ASN1747
ATYR1748-ASN1754
ATYR1755-SER1761
ATYR1762-SER1768
ATYR1769-ASN1775
ATYR1776-ASN1782
ATYR1783-SER1789
ATYR1790-SER1796
ATYR1797-SER1803
ATYR1818-SER1824
ATYR1622-SER1628
ATYR1825-SER1831
ATYR1832-LYS1838
ATYR1839-SER1845
ATYR1853-LYS1859
ATYR1860-LYS1866
ATYR1867-LYS1873
ATYR1874-THR1880
ATYR1888-THR1894
ATYR1902-LYS1908
ATYR1909-THR1915
ATYR1629-ASN1635
ATYR1916-LYS1922
ATYR1923-THR1929
ATYR1930-LYS1936
ATYR1947-THR1953
ATYR1636-SER1642
ATYR1643-SER1649
ATYR1650-SER1656
ATYR1657-SER1663
ATYR1664-SER1670

site_idPS01112
Number of Residues10
DetailsRNA_POL_N_8KD RNA polymerases N / 8 Kd subunits signature. IIPVrCFTCG
ChainResidueDetails
JILE2-GLY11

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues20
DetailsZN_FING: C4-type => ECO:0000255
ChainResidueDetails
LCYS19-CYS39
AASP497
AASP499
JCYS10
JCYS44
AHIS84
ACYS111
ACYS114
ACYS154
ACYS184
AASP495

site_idSWS_FT_FI2
Number of Residues1
DetailsBINDING: BINDING => ECO:0000269|PubMed:33558764, ECO:0000269|PubMed:33558766, ECO:0000269|PubMed:33674783, ECO:0000312|PDB:7DN3, ECO:0007744|PDB:7AE1, ECO:0007744|PDB:7D58
ChainResidueDetails
LCYS19
BCYS1119
BCYS1122
BCYS1137
BCYS1140

site_idSWS_FT_FI3
Number of Residues1
DetailsBINDING: BINDING => ECO:0000269|PubMed:33558764, ECO:0007744|PDB:7AE1
ChainResidueDetails
LCYS22
ICYS20
ICYS39
ICYS42

site_idSWS_FT_FI4
Number of Residues1
DetailsBINDING: BINDING => ECO:0000269|PubMed:33558764, ECO:0000269|PubMed:33558766, ECO:0007744|PDB:7AE1, ECO:0007744|PDB:7D58
ChainResidueDetails
LCYS36
ICYS89
ICYS114
ICYS119

site_idSWS_FT_FI5
Number of Residues1
DetailsBINDING: BINDING => ECO:0000269|PubMed:33558766, ECO:0000269|PubMed:33674783, ECO:0000312|PDB:7DN3, ECO:0007744|PDB:7D58
ChainResidueDetails
LCYS39

site_idSWS_FT_FI6
Number of Residues1
DetailsMOD_RES: N6-methyllysine; alternate => ECO:0000250|UniProtKB:P08775
ChainResidueDetails
ALYS1838

site_idSWS_FT_FI7
Number of Residues10
DetailsMOD_RES: Phosphothreonine => ECO:0000269|PubMed:26566685
ChainResidueDetails
ATHR1840
ATHR1933
ATHR1863
ATHR1870
ATHR1877
ATHR1912
ATHR1915
ATHR1919
ATHR1926
ATHR1929

site_idSWS_FT_FI8
Number of Residues1
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:26566685, ECO:0007744|PubMed:19690332
ChainResidueDetails
ASER1843

site_idSWS_FT_FI9
Number of Residues4
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:26566685
ChainResidueDetails
ASER1845
ASER1857
ASER1861
ASER1875

site_idSWS_FT_FI10
Number of Residues1
DetailsMOD_RES: Phosphoserine => ECO:0000250|UniProtKB:P08775
ChainResidueDetails
ASER1847

site_idSWS_FT_FI11
Number of Residues1
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:26566685, ECO:0007744|PubMed:18669648
ChainResidueDetails
ASER1849

site_idSWS_FT_FI12
Number of Residues2
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:26566685, ECO:0007744|PubMed:23186163
ChainResidueDetails
ASER1850
ASER1864

site_idSWS_FT_FI13
Number of Residues1
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:19690332
ChainResidueDetails
ATHR1854

site_idSWS_FT_FI14
Number of Residues4
DetailsMOD_RES: N6-methyllysine; alternate => ECO:0000269|PubMed:26566685
ChainResidueDetails
ALYS1859
ALYS1866
ALYS1873
ALYS1887

site_idSWS_FT_FI15
Number of Residues5
DetailsMOD_RES: Phosphotyrosine => ECO:0000269|PubMed:26566685
ChainResidueDetails
ATYR1860
ATYR1867
ATYR1881
ATYR1916
ATYR1930

site_idSWS_FT_FI16
Number of Residues1
DetailsMOD_RES: Phosphotyrosine => ECO:0000269|PubMed:26566685, ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:24275569
ChainResidueDetails
ATYR1874

site_idSWS_FT_FI17
Number of Residues2
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:26566685, ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:23186163
ChainResidueDetails
ASER1878
ASER1882

site_idSWS_FT_FI18
Number of Residues1
DetailsMOD_RES: Phosphothreonine => ECO:0007744|PubMed:23186163
ChainResidueDetails
ATHR1885

site_idSWS_FT_FI19
Number of Residues1
DetailsMOD_RES: Phosphothreonine => ECO:0000250|UniProtKB:P08775
ChainResidueDetails
ATHR1894

site_idSWS_FT_FI20
Number of Residues1
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:18669648
ChainResidueDetails
ASER1896

site_idSWS_FT_FI21
Number of Residues1
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:23186163
ChainResidueDetails
ASER1899

site_idSWS_FT_FI22
Number of Residues1
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:24275569
ChainResidueDetails
ASER1906

site_idSWS_FT_FI23
Number of Residues1
DetailsMOD_RES: N6,N6-dimethyllysine => ECO:0000250|UniProtKB:P08775
ChainResidueDetails
ALYS1908

site_idSWS_FT_FI24
Number of Residues2
DetailsMOD_RES: Phosphotyrosine => ECO:0000269|PubMed:26566685, ECO:0007744|PubMed:16964243, ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:24275569
ChainResidueDetails
ATYR1909
ATYR1923

site_idSWS_FT_FI25
Number of Residues3
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:26566685, ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:23186163
ChainResidueDetails
ASER1913
ASER1920
ASER1927

site_idSWS_FT_FI26
Number of Residues2
DetailsMOD_RES: Phosphoserine => ECO:0000269|PubMed:26566685, ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:21406692
ChainResidueDetails
ASER1917
ASER1931

site_idSWS_FT_FI27
Number of Residues2
DetailsMOD_RES: N6-methyllysine; alternate => ECO:0000305|PubMed:26566685
ChainResidueDetails
ALYS1922
ALYS1936

site_idSWS_FT_FI28
Number of Residues1
DetailsMOD_RES: Phosphoserine => ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:23186163
ChainResidueDetails
ASER1934

site_idSWS_FT_FI29
Number of Residues2
DetailsCROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); by NEDD4 => ECO:0000269|PubMed:32142649, ECO:0000305|PubMed:32142654
ChainResidueDetails
ALYS1268

217705

PDB entries from 2024-03-27

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