Structure of PDB 2ja7 Chain O

Receptor sequence

>2ja7O (length=267) Species: 4932 (Saccharomyces cerevisiae)

SEEGPQVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIPTLAIDSVEV
ETNTTVLADEFIAHRLGLIPLQSMDIEQLEYSRDCFCEDHCDKCSVVLTL
QAFGESESTTNVYSKDLVIVSNLMGRNIGHPIIQDKEGNGVLICKLRKGQ
ELKLTCVAKKGIAKEHAKWGPAAAIEFEYDPWNKLKHTDYWYEQDSAKEW
PQSKNCEYEDPPNEGDPFDYKAQADTFYMNVESVGSIPVDQVVVRGIDTL
QKKVASILLALTQMDQD

3D structure

• PDB: 2ja7 Cpd Damage Recognition by Transcribing RNA Polymerase II.
• Chain: O
• Resolution: 3.8 Å

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	ZN	O	C86 C92 C95	C85 C91 C94

Gene Ontology

Molecular Function

• GO:0001055 RNA polymerase II activity
• GO:0003677 DNA 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:0046872 metal ion binding
• GO:0046983 protein dimerization activity

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
• GO:0006369 termination of RNA polymerase II transcription

Cellular Component

• GO:0000428 DNA-directed RNA polymerase complex
• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005665 RNA polymerase II, core complex
• GO:0055029 nuclear DNA-directed RNA polymerase complex

External links

• PDB: RCSB:2ja7, PDBe:2ja7, PDBj:2ja7
• PDBsum: 2ja7
• PubMed: 17290000
• UniProt: P16370|RPB3_YEAST DNA-directed RNA polymerase II subunit RPB3 (Gene Name=RPB3)