Structure of PDB 8ceo Chain M

Receptor sequence

>8ceoM (length=310) Species: 4932 (Saccharomyces cerevisiae)

RGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALCGLVLSDKLVDRVGEA
SNPLLDGNNLSTRIGKGETTDMRFTKELNKAQGKNVMDKKDNEVQAAFAK
ITMLCDAAELPKIVKDCAKEAYKLCHDEKTLKGKSMESIMAASILIGCRR
AEVARTFKEIQSLIHVKTKEFGKTLNIMKNILRGKSEDGFLKIDTDNMSG
AQNLTYIPRFCSHLGLPMQVTTSAEYTAKKCKEIKEIAGKSPITIAVVSI
YLNILLFQIPITAAKVGQTLQVTEGTIKSGYKILYEHRDKLVDPQLIANG
VVSLDNLPGV

3D structure

• PDB: 8ceo Yeast PIC-Mediator structure with RNA polymerase II C-terminal domain.
• Chain: M
• Resolution: 3.6 Å

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	dna	M	K199 K201	K167 K169
BS02	dna	M	K112 G271 K272 T276 T305 T308	K80 G239 K240 T244 T273 T276
BS03	ZN	M	C24 C27 C45 C48	C11 C14 C32 C35

Gene Ontology

Molecular Function

• GO:0000993 RNA polymerase II complex binding
• GO:0001139 RNA polymerase II complex recruiting activity
• GO:0005515 protein binding
• GO:0008270 zinc ion binding
• GO:0016251 RNA polymerase II general transcription initiation factor activity
• GO:0017025 TBP-class protein binding
• GO:0046872 metal ion binding

Biological Process

• GO:0001113 transcription open complex formation at RNA polymerase II promoter
• GO:0001174 transcriptional start site selection at RNA polymerase II promoter
• GO:0006352 DNA-templated transcription initiation
• GO:0006367 transcription initiation at RNA polymerase II promoter
• GO:0010467 gene expression
• GO:0051123 RNA polymerase II preinitiation complex assembly
• GO:0070897 transcription preinitiation complex assembly

Cellular Component

• GO:0005634 nucleus
• GO:0097550 transcription preinitiation complex

External links

• PDB: RCSB:8ceo, PDBe:8ceo, PDBj:8ceo
• PDBsum: 8ceo
• PubMed: 37014863
• UniProt: P29055|TF2B_YEAST Transcription initiation factor IIB (Gene Name=SUA7)