Structure of PDB 8e8m Chain D

Receptor sequence

>8e8mD (length=1268) Species: 1773 (Mycobacterium tuberculosis)

GAMLDVNFFDELRIGLATAEDIRQWSYGEVKKPETINYRTLKPEKDGLFC
EKIFGPTRDWECYCGKYKRVRFKGIICERCGVEVTRAKVRRERMGHIELA
APVTHIWYFKGVPSRLGYLLDLAPKDLEKIIYFAAYVITSVDEEMRHNEL
STLEAEMAVERKAVEDQRDGELEARAQKLEADLAELEAEGAKADARRKVR
DGGEREMRQIRDRAQRELDRLEDIWSTFTKLAPKQLIVDENLYRELVDRY
GEYFTGAMGAESIQKLIENFDIDAEAESLRDVIRNGKGQKKLRALKRLKV
VAAFQQSGNSPMGMVLDAVPVIPPELRPMVQLDGGRFATSDLNDLYRRVI
NRNNRLKRLIDLGAPEIIVNNEKRMLQESVDALFDNGRRGRPVTGPGNRP
LKSLSDLLKGKQGRFRQNLLGKRVDYSGRSVIVVGPQLKLHQCGLPKLMA
LELFKPFVMKRLVDLNHAQNIKSAKRMVERQRPQVWDVLEEVIAEHPVLL
NRAPTLHRLGIQAFEPMLVEGKAIQLHPLVCEAFNADFDGDQMAVHLPLS
AEAQAEARILMLSSNNILSPASGRPLAMPRLDMVTGLYYLTTEVPGDTGE
YQPASGDHPETGVYSSPAEAIMAADRGVLSVRAKIKVRLTQLRPPVEIEA
ELFGHSGWQPGDAWMAETTLGRVMFNELLPLGYPFVNKQMHKKVQAAIIN
DLAERYPMIVVAQTVDKLKDAGFYWATRSGVTVSMADVLVPPRKKEILDH
YEERADKVEKQFQRGALNHDERNEALVEIWKEATDEVGQALREHYPDDNP
IITIVDSGATGNFTQTRTLAGMKGLVTNPKGEFIPRPVKSSFREGLTVLE
YFINTHGARKGLADTALRTADSGYLTRRLVDVSQDVIVREHDCQTERGIV
VELAERAPDGTLIRDPYIETSAYARTLGTDAVDEAGNVIVERGQDLGDPE
IDALLAAGITQVKVRSVLTCATSTGVCATCYGRSMATGKLVDIGEAVGIV
AAQSIGEPGTQLTMDITGGLPRVQELFEARVPRGKAPIADVTGRVRLEDG
ERFYKITIVPDDGGEEVVYDKISKRQRLRVFKRVLSDGDHVEVGQQLMEG
SADPHEVLRVQGPREVQIHLVREVQEVYRAQGVSIHDKHIEVIVRQMLRR
VTIIDSGSTEFLPGSLIDRAEFEAENRRVVAEGGEPAAGRPVLMGITKAS
LATDSWLSAASFQETTRVLTDAAINCRSDKLNGLKENVIIGKLIPAGTGI
NRYRNIAVQPTEEARAAA

3D structure

• PDB: 8e8m Structural and functional basis of the universal transcription factor NusG pro-pausing activity in Mycobacterium tuberculosis.
• Chain: D
• Resolution: 3.13 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	Y116 K123 K294 N349 R1038	Y118 K125 K296 N351 R1030
BS02	dna	D	V110 P394 K409 R421 Y872 Q1227 E1228	V112 P396 K411 R423 Y874 Q1213 E1214
BS03	rna	D	V328 L330 Q467 N468 K470 D537 D539	V330 L332 Q469 N470 K472 D539 D541
BS04	ZN	D	C60 C75	C62 C77
BS05	ZN	D	C891 C968 C975 C978	C893 C970 C977 C980
BS06	MG	D	D535 D537 D539	D537 D539 D541

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:8e8m, PDBe:8e8m, PDBj:8e8m
• PDBsum: 8e8m
• PubMed: 37116494
• UniProt: P9WGY7|RPOC_MYCTU DNA-directed RNA polymerase subunit beta' (Gene Name=rpoC)