Structure of PDB 3aoi Chain I

Receptor sequence

>3aoiI (length=1262) Species: 300852 (Thermus thermophilus HB8)

KKEVRKVRIALASPEKIRSWSYGEVEKPETINYRTLKPERDGLFDERIFG
PIKIVRRYRMGHIELATPAAHIWFVKDVPSKIGTLLDLSATELEQVLYFS
KYIVLDPKGAILNGVPVEKRQLLTDEEYRELRYGKQETYPLPPGVDALVK
DGEEVVKGQELAPGVVSRLDGVALYRFPASILVVKARVYPFEDDVEVSTG
DRVAPGDVLADGGKVKSDVYGRVEVDLVRNVVRVVESYDIDARMGAEAIQ
QLLKELDLEALEKELLEEMKHPSRARRAKARKRLEVVRAFLDSGNRPEWM
ILEAVPVLPPDLRSDLNDLYRRLINRNNRLKKLLAQGAPEIIIRNEKRML
QEAVDALLDNGRRGAPVTNPGSDRPLRSLTDILSGKQGRFRQNLLGKRVD
YSGRSVIVVGPQLKLHQCGLPKRMALELFKPFLLKKMEEKGIAPNVKAAR
RMLERQRDIKDEVWDALEEVIHGKVVLLNRAPTLHRLGIQAFQPVLVEGQ
SIQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAEARIQMLSAHNLLSPAS
GEPLAKPSRDIILGLYYITQVRKEKKGAGLEFATPEEALAAHERGEVALN
APIKVAGRETSVGRLKYVFANPDEALLAVAHGIVDLQDVVTVRYMGKRLE
TSPGRILFARIVAEAVEDEKVAWELIQLDVPQEKNSLKDLVYQAFLRLGM
EKTARLLDALKYYGFTFSTTSGITIGIDDAVIPEEKKQYLEEADRKLLQI
EQAYEMGFLTDRERYDQILQLWTETTEKVTQAVFKNFEENYPFNPLYVMA
QSGARGNPQQIRQLCGLRGLMQKPSGETFEVPVRSSFREGLTVLEYFISS
HGARKGGADTALRTADSGYLTRKLVDVTHEIVVREADCGTTNYISVPLFQ
PDEVTRSLRLRKRADIEAGLYGRVLAREVEVLGVRLEEGRYLSMDDVHLL
IKAAEAGEIQEVPVRSPLTCQTRYGVCQKCYGYDLSMARPVSIGEAVGIV
AAQSIGEPGTQLTMRTQGLPRVIELFEARRPKAKAVISEIDGVVRIEETE
EKLSVFVESEGFSKEYKLPKEARLLVKDGDYVEAGQPLTRGAIDPHQLLE
AKGPEAVERYLVEEIQKVYRAQGVKLHDKHIEIVVRQMMKYVEVTDPGDS
RLLEGQVLEKWDVEALNERLIAEGKTPVAWKPLLMGVTKSALSTKSWLSA
ASFQNTTHVLTEAAIAGKKDELIGLKENVILGRLIPAGTGSDFVRFTQVV
DQKTLKAIEEAR

3D structure

• PDB: 3aoi Crystal structure of bacterial RNA polymerase bound with a transcription inhibitor protein
• Chain: I
• Resolution: 4.3 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	rna	I	Q611 R704 D741 D743 Q744	Q387 R480 D517 D519 Q520
BS02	ZN	I	C1112 C1194	C888 C970

Gene Ontology

Molecular Function

• GO:0000287 magnesium ion binding
• GO:0003677 DNA binding
• GO:0003899 DNA-directed 5'-3' RNA polymerase activity
• GO:0005515 protein binding
• GO:0008270 zinc ion binding
• GO:0016779 nucleotidyltransferase activity
• GO:0034062 5'-3' RNA polymerase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006351 DNA-templated transcription

Cellular Component

• GO:0000428 DNA-directed RNA polymerase complex

External links

• PDB: RCSB:3aoi, PDBe:3aoi, PDBj:3aoi
• PDBsum: 3aoi
• PubMed: 21124318
• UniProt: Q8RQE8|RPOC_THET8 DNA-directed RNA polymerase subunit beta' (Gene Name=rpoC)