Structure of PDB 7rix Chain B

Receptor sequence
>7rixB (length=1125) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence]
DESAPITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTLQDIICEDSTL
ILEQLARKYEISFGKIYVTKPMVNESDGVTHALYPQEARLRNLTYSSGLF
VDVKKRTYESGKVFIGRLPIMLRSKNCYLSEATESDLYKLKECPFDMGGY
FIINGSEKVLIAQERSAGNIVQVFKKAAPSPISHVAEIRSALEKGSRFIS
TLQVKLYGREGSSARTIKATLPYIKQDIPIVIIFRALGIIPDGEILEHIC
YDVNDWQMLEMLKPCVEDGFVIQDRETALDFIGRRKEKRIQYAKDILQKE
FLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLA
GPLLAQLFKTLFKKLTKDIFRYMQRTVEELAINAKTITSGLKYALATGNW
GEQKKAMSSRAGVSQVLNRYTYSSTLSHLRRTNTPIGLAKPRQLHNTHWG
LVCPAETPEGQACGLVKNLSLMSCISVGTDPMPIITFLSEWGMEPLEDYV
PHQSPDATRVFVNGVWHGVHRNPARLMETLRTLRRKGDINPEVSMIRDIR
EKELKIFTDAGRVYRPLFIVEDDGHKELKVRKGHIAKLMATEYQDVEEYT
WSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAELDVDPAKRIRVSHHAT
TFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYN
VRMDTMANILYYPQKPLGTTRAMEYLKFRELPAGQNAIVAIACYSGYNQE
DSMIMNQSSIDRGLFRSLFFRSYMDQEKKYGMSITETFEKPQRTNTLRMK
HGTYDKLDDDGLIAPGVRVSGEDVIIGKTTPISAYHSKRDASTPLRSTEN
GIVDQVLVTTNQDGLKFVKVRVRTTKIPQIGDKFASRHGQKGTIGITYRR
EDMPFTAEGIVPDLIINPHAIPSRMTVAHLIECLLSKVAALSGNEGDASP
FTDITVEGISKLLREHGYQSRGFEVMYNGHTGKKLMAQIFFGPTYYQRLR
HMVDDKIHARARGPMQVLTRQPVEGRSRDGGLRFGEMERDCMIAHGAASF
LKERLMEASDAFRVHICGICGLMTVIAKLNHNQFECKGCDNKIDIYQIHI
PYAAKLLFQELMAMNITPRLYTDRS
3D structure
PDB7rix RNA polymerase II trapped on a molecular treadmill: Structural basis of persistent transcriptional arrest by a minor groove DNA binder.
ChainB
Resolution3.4 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 2.7.7.6: DNA-directed RNA polymerase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 rna B Q776 K979 K987 H1097 Q690 K883 K891 H1001
BS02 dna B M792 R857 R942 G1121 R1129 M1133 M706 R771 R846 G1025 R1033 M1037
BS03 ZN B C1163 C1166 C1185 C1067 C1070 C1089
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:7rix, PDBe:7rix, PDBj:7rix
PDBsum7rix
PubMed35022237
UniProtP08518|RPB2_YEAST DNA-directed RNA polymerase II subunit RPB2 (Gene Name=RPB2)

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