Structure of PDB 6cnf Chain R

Receptor sequence

>6cnfR (length=522) Species: 559292 (Saccharomyces cerevisiae S288C)

MPVCKNCHGTEFERDLSNANNDLVCKACGVVSEDNPIVSEVALESREATL
NNARRKLRAVSYALHIPEYITDAAFQWYKLALANNFVQGRRSQNVIASCL
YVACRKEKTHHMLIDFSSRLQVSVYSIGATFLKMVKKLHITELPLADPSL
FIQHFAEKLDLADKKIKVVKDAVKLAQRMSKDWMFEGRRPAGIAGACILL
ACRMNNLRRTHTEIVAVSHVAEETLQQRLNEFKNTKAAKLSVQKFRENDV
EDGEARPPSFVKNRKKESGIVPTLQNIVATVTLGCRLDLKTVALHARNAE
YNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKSEDDSKLASRKYARII
QKIGFAAKFTDFKIQNIVGSCDVKFPIRLEGLAFSHGTFSSYEPELFPGL
IYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEFRKMSGS
PRNLHLLPTTDTYLSKVSDDPDNLEDVDDEELNAHLLNEEASKLKERIWI
GLNADFLLEQESKRLKQEADIA

3D structure

• PDB: 6cnf Structural visualization of RNA polymerase III transcription machineries.
• Chain: R
• Resolution: 4.5 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	R	S75 R76 T79 Q118 R120 R121 S122 Y155 V397 F425 F442 S444 K446 Q484 N485 L515 F516 I520 V529	S45 R46 T49 Q88 R90 R91 S92 Y125 V278 F306 F323 S325 K327 Q365 N366 L396 F397 I401 V410
BS02	dna	R	L73 G119 R120 R218 R219 V250 A251 T254 Q394 N395 R424 F425 R431 E514 F533 K537	L43 G89 R90 R188 R189 V220 A221 T224 Q275 N276 R305 F306 R312 E395 F414 K418
BS03	ZN	R	C4 C28	C4 C28

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0017025 TBP-class protein binding

Biological Process

• GO:0006352 DNA-templated transcription initiation

External links

• PDB: RCSB:6cnf, PDBe:6cnf, PDBj:6cnf
• PDBsum: 6cnf
• PubMed: 30083386
• UniProt: P13393|TBP_YEAST TATA-box-binding protein (Gene Name=SPT15);
  P29056|TF3B_YEAST Transcription factor IIIB 70 kDa subunit (Gene Name=BRF1)