Structure of PDB 6cce Chain D Binding Site BS02

Receptor Information
>6cce Chain D (length=1195) Species: 246196 (Mycolicibacterium smegmatis MC2 155) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DVNFFDELRIGLATADDIRNWSYGEVKKPETINYRTLKPEKDGLFCEKIF
GPTKVRRERMGHIELAAPVTHIWYFKGVPSRLGYLLDLAPKDLEKIIYFA
AYVITSVDDEMRHNELSTLEAEMAVEKKAVEDQRDADLEARAQKLEADLA
ELEAEGAKSDVRRKVRDSGEREMRQLRDRAQRELDRLDEIWNTFTKLAPK
QLIVDEVLYRELQDRYGEYFTGAMGAESIKKLIENFDIDAEAESLREVIR
SGKGQKKLRALKRLKVVAAFQQSGNSPMGMVLDAVPVIPPELRPMVQLDG
GRFATSDLNDLYRRVINRNNRLKRLIDLGAPEIIVNNEKRMLQESVDALF
DNGRRGRPVTGPGNRPLKSLSDLLKGKQGRFRQNLLGKRVDYSGRSVIVV
GPQLKLHQCGLPKLMALELFKPFVMKRLVDLNHAQNIKSAKRMVERQRPQ
VWDVLEEVIAEHPVLLNRAPTLHRLGIQAFEPQLVEGKAIQLHPLVCEAF
NADFDGDQMAVHLPLSAEAQAEARILMLSSNNILSPASGKPLAMPRLDMV
TGLYYLTTLVEGATGEYQAATKDAPEQGVYSSPAEAIMAMDRGALSVRAK
IKVRLTELRPPTDLEAQLFENGWKPGDAWTAETTLGRVMFNELLPKSYPF
VNEQMHKKVQARIINDLAERFPMIVVAQTVDKLKDAGFYWATRSGVTVSM
ADVLVPPQKQEILERHEAEADAIERKYQRGALNHTERNESLVKIWQDATE
EVGKALEEFYPADNPIITIVKSGATGNLTQTRTLAGMKGLVTNPKGEFIP
RPIKSSFREGLTVLEYFINTHGARKGLADTALRTADSGYLTRRLVDVSQD
VIVREHDCETERGINVTLAEIRDAHVETSAFARTLATDAVDANGNVIIER
GHDLGDPAIDALLAAGITTVKVRSVLTCTSATGVCAMCYGRSMATGKLVD
IGEAVGIVAAQSIGEPGTQLTGGLPRVQELFEARVPRNKAPIADVAGRVR
LEESDKFFKITIVPDDGGEEVVYDKLSKRQRLRVIGVLSDGDHVEVGDQL
MEGAADPHEVLRVQGPREVQIHLVKEVQEVYRAQGVSIHDKHIEVIVRQM
LRRVTITERAEFEAAGRPVLMGITKASLATDSWLSAASFQETTRVLTDAA
INCRSDKLNGLKENVIIGKLIPAGTGISRYRNIQVQPTEEARAAA
Ligand information
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain6cce Chain D Residue 2002 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB6cce Rifamycin congeners kanglemycins are active against rifampicin-resistant bacteria via a distinct mechanism.
Resolution3.05 Å
Binding residue
(original residue number in PDB)		D535 D537 D539
Binding residue
(residue number reindexed from 1)		D503 D505 D507
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.6: DNA-directed RNA polymerase.
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

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6cce, PDBe:6cce, PDBj:6cce
PDBsum6cce
PubMed30297823
UniProtA0QS66|RPOC_MYCS2 DNA-directed RNA polymerase subunit beta' (Gene Name=rpoC)

[Back to BioLiP]