Structure of PDB 8ukr Chain B Binding Site BS01

Receptor Information
>8ukr Chain B (length=1123) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DESAPITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTLQDIICEDSTL
ILEQLARKYEISFGKIYVTKPMVNESDGVTHALYPQEARLRNLTYSSGLF
VDVKKRTYESGKVFIGRLPIMLRSKNCYLSEATESDLYKLKECPFDMGGY
FIINGSEKVLIAQERSAGNIVQVFKKAAPSPISHVAEIRSALEKGSRFIS
TLQVKLYGREGSSARTIKATLPYIKQDIPIVIIFRALGIIPDGEILEHIC
YDVNDWQMLEMLKPCVEDGFVIQDRETALDFIGRRKEKRIQYAKDILQKE
FLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLA
GPLLAQLFKTLFKKLTKDIFRYMQRTVEELAINAKTITSGLKYALATGNW
GEQKKAMSSRAGVSQVLNRYTYSSTLSHLRRTNTPIAKPRQLHNTHWGLV
CPAETPEGQACGLVKNLSLMSCISVGTDPMPIITFLSEWGMEPLEDYVPH
QSPDATRVFVNGVWHGVHRNPARLMETLRTLRRKGDINPEVSMIRDIREK
ELKIFTDAGRVYRPLFIVEDDGHKELKVRKGHIAKLMATEYQDVEEYTWS
SLLNEGLVEYIDAEEEESILIAMQPEDLEPAELDVDPAKRIRVSHHATTF
THCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVR
MDTMANILYYPQKPLGTTRAMEYLKFRELPAGQNAIVAIACYSGYNQEDS
MIMNQSSIDRGLFRSLFFRSYMDQEKKYGMSITETFEKPQRTNTLRMKHG
TYDKLDDDGLIAPGVRVSGEDVIIGKTTPISAYHSKRDASTPLRSTENGI
VDQVLVTTNQDGLKFVKVRVRTTKIPQIGDKFASRHGQKGTIGITYRRED
MPFTAEGIVPDLIINPHAIPSRMTVAHLIECLLSKVAALSGNEGDASPFT
DITVEGISKLLREHGYQSRGFEVMYNGHTGKKLMAQIFFGPTYYQRLRHM
VDDKIHARARGPMQVLTRQPVEGRSRDGGLRFGEMERDCMIAHGAASFLK
ERLMEASDAFRVHICGICGLMTVIAKLNHNQFECKGCDNKIDIYQIHIPY
AAKLLFQELMAMNITPRLYTDRS
Ligand information
Receptor-Ligand Complex Structure
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PDB8ukr Molecular Mechanism of RNA Polymerase II Transcriptional Mutagenesis by the Epimerizable DNA Lesion, Fapy·dG.
Resolution3.78 Å
Binding residue
(original residue number in PDB)		A477 Q481 Q776 K987 H1097
Binding residue
(residue number reindexed from 1)		A411 Q415 Q688 K889 H999
Enzymatic activity
Enzyme Commision number 2.7.7.6: DNA-directed RNA polymerase.
Gene Ontology
Molecular Function
GO:0001055 RNA polymerase II activity
GO:0003677 DNA binding
GO:0003729 mRNA binding
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0003968 RNA-dependent RNA polymerase activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0016779 nucleotidyltransferase activity
GO:0032549 ribonucleoside binding
GO:0034062 5'-3' RNA polymerase activity
GO:0046872 metal ion binding
Biological Process
GO:0001172 RNA-templated transcription
GO:0006351 DNA-templated transcription
GO:0006366 transcription by RNA polymerase II
GO:0006367 transcription initiation at RNA polymerase II promoter
GO:0006368 transcription elongation by RNA polymerase II
Cellular Component
GO:0000428 DNA-directed RNA polymerase complex
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005665 RNA polymerase II, core complex
GO:0005739 mitochondrion
GO:0010494 cytoplasmic stress granule

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8ukr, PDBe:8ukr, PDBj:8ukr
PDBsum8ukr
PubMed38393762
UniProtP08518|RPB2_YEAST DNA-directed RNA polymerase II subunit RPB2 (Gene Name=RPB2)

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