Structure of PDB 6jcx Chain D

Receptor sequence

>6jcxD (length=1258) Species: 83332 (Mycobacterium tuberculosis H37Rv)

LDVNFFDELRIGLATAEDIRQWSYGEVKKPETINYRTLKPEKDGLFCEKI
FGPTRDWECYCGKYKRVRFKGIICERCGVEVTRAKVRRERMGHIELAAPV
THIWYFKGVPSRLGYLLDLAPKDLEKIIYFAAYVITSVDEEMRHNELSTL
EAEMAVERKAVEDQRDGELEARAQKLEADLAELEAEGAKADARRKVRDGG
EREMRQIRDRAQRELDRLEDIWSTFTKLAPKQLIVDENLYRELVDRYGEY
FTGAMGAESIQKLIENFDIDAEAESLRDVIRNGKGQKKLRALKRLKVVAA
FQQSGNSPMGMVLDAVPVIPPELRPMVQLDGGRFATSDLNDLYRRVINRN
NRLKRLIDLGAPEIIVNNEKRMLQESVDALFDNGRRGRPVTGPGNRPLKS
LSDLLKGKQGRFRQNLLGKRVDYSGRSVIVVGPQLKLHQCGLPKLMALEL
FKPFVMKRLVDLNHAQNIKSAKRMVERQRPQVWDVLEEVIAEHPVLLNRA
PTLHRLGIQAFEPMLVEGKAIQLHPLVCEAFNADFDGDQMAVHLPLSAEA
QAEARILMLSSNNILSPASGRPLAMPRLDMVTGLYYLTTEVPGDTGEYQP
ASGDHPETGVYSSPAEAIMAADRGVLSVRAKIKVRLTQLRPPVEIEAELF
GHSGWQPGDAWMAETTLGRVMFNELLPLGYPFVNKQMHKKVQAAIINDLA
ERYPMIVVAQTVDKLKDAGFYWATRSGVTVSMADVLVPPRKKEILDHYEE
RADKVEKQFQRGALNHDERNEALVEIWKEATDEVGQALREHYPDDNPIIT
IVDSGATGNFTQTRTLAGMKGLVTNPKGEFIPRPVKSSFREGLTVLEYFI
NTHGARKGLADTALRTADSGYLTRRLVDVSQDVIVREHDCQTERGIVVEL
ADGTLIRDPYIETSAYARTLGTDAVDEAGNVIVERGQDLGDPEIDALLAA
GITQVKVRSVLTCATSTGVCATCYGRSMATGKLVDIGEAVGIVAAQSIGE
PGTQLTMGGLPRVQELFEARVPRGKAPIADVTGRVRLEDGERFYKITIVP
DDGGEEVVYDKISKRQRLRVFKHEDGSERVLSDGDHVEVGQQLMEGSADP
HEVLRVQGPREVQIHLVREVQEVYRAQGVSIHDKHIEVIVRQMLRRVTII
DSGSTEFLPGSLIDRAEFEAENRRVVAAAGRPVLMGITKASLATDSWLSA
ASFQETTRVLTDAAINCRSDKLNGLKENVIIGKLIPAGTGINRYRNIAVQ
PTEEARAA

3D structure

• PDB: 6jcx Structures and mechanism of transcription initiation by bacterial ECF factors.
• Chain: D
• Resolution: 2.903 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	dna	D	V110 R386 K409 R414 R421 R427 A501 P502 T867 A868 Y872 Q1227 E1228	V109 R385 K408 R413 R420 R426 A500 P501 T866 A867 Y871 Q1204 E1205
BS02	dna	D	V110 P111 P122 K123 K294 R389 R1038	V109 P110 P121 K122 K293 R388 R1020
BS03	ZN	D	C968 C975 C978	C963 C970 C973
BS04	ZN	D	C60 C62 C75 C78	C59 C61 C74 C77
BS05	MG	D	D535 D537 D539	D534 D536 D538

Gene Ontology

Molecular Function

• GO:0000287 magnesium ion binding
• GO:0003677 DNA binding
• GO:0003899 DNA-directed 5'-3' RNA polymerase activity
• 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
• GO:0005829 cytosol
• GO:0005886 plasma membrane
• GO:0009274 peptidoglycan-based cell wall

External links

• PDB: RCSB:6jcx, PDBe:6jcx, PDBj:6jcx
• PDBsum: 6jcx
• PubMed: 31131408
• UniProt: P9WGY7|RPOC_MYCTU DNA-directed RNA polymerase subunit beta' (Gene Name=rpoC)