Structure of PDB 7rip Chain B Binding Site BS02

Receptor Information
>7rip Chain B (length=1129) 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
GEQKKAMSSRAGVSQVLNRYTYSSTLSHLRRTNTPIGRDGKLAKPRQLHN
THWGLVCPAETPEGQACGLVKNLSLMSCISVGTDPMPIITFLSEWGMEPL
EDYVPHQSPDATRVFVNGVWHGVHRNPARLMETLRTLRRKGDINPEVSMI
RDIREKELKIFTDAGRVYRPLFIVEDDGHKELKVRKGHIAKLMATEYQDV
EEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAELDVDPAKRIRVS
HHATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVFL
TNYNVRMDTMANILYYPQKPLGTTRAMEYLKFRELPAGQNAIVAIACYSG
YNQEDSMIMNQSSIDRGLFRSLFFRSYMDQEKKYGMSITETFEKPQRTNT
LRMKHGTYDKLDDDGLIAPGVRVSGEDVIIGKTTPISAYHSKRDASTPLR
STENGIVDQVLVTTNQDGLKFVKVRVRTTKIPQIGDKFASRHGQKGTIGI
TYRREDMPFTAEGIVPDLIINPHAIPSRMTVAHLIECLLSKVAALSGNEG
DASPFTDITVEGISKLLREHGYQSRGFEVMYNGHTGKKLMAQIFFGPTYY
QRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDGGLRFGEMERDCMIAHG
AASFLKERLMEASDAFRVHICGICGLMTVIAKLNHNQFECKGCDNKIDIY
QIHIPYAAKLLFQELMAMNITPRLYTDRS
Ligand information
Receptor-Ligand Complex Structure
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PDB7rip RNA polymerase II trapped on a molecular treadmill: Structural basis of persistent transcriptional arrest by a minor groove DNA binder.
Resolution3.3 Å
Binding residue
(original residue number in PDB)		D505 T791 R857 R942 R1122 R1129
Binding residue
(residue number reindexed from 1)		D439 T709 R775 R850 R1030 R1037
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:7rip, PDBe:7rip, PDBj:7rip
PDBsum7rip
PubMed35022237
UniProtP08518|RPB2_YEAST DNA-directed RNA polymerase II subunit RPB2 (Gene Name=RPB2)

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