SMTL ID : 6cuu.1

Thermus thermophiles RNA polymerase in complex with promoter DNA and antibiotic Kanglemycin A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.99 Å

Oligo State

hetero-2-1-1-1-1-mer

Ligands

1 x KNG: Kanglemycin A(Non-covalent)

KNG.1: 22 residues within 4Å: Chain C: R.134, S.387, R.388, S.389, Q.390, L.391, S.392, Q.393, F.394, K.395, D.396, R.405, H.406, R.409, S.411, L.413, G.414, R.420, P.444, N.448, I.452 Chain F: D.323 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:Q.390, C:L.391, C:Q.393, C:L.413, C:P.444, C:I.452 Hydrogen bonds: C:R.134, C:R.134, C:Q.393, C:F.394, C:R.409, C:S.411, C:S.411, C:R.420, C:N.448

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain D: C.1112, C.1194, T.1196, C.1201, C.1204 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.1112, D:C.1194, D:C.1201, D:C.1204 ZN.3: 6 residues within 4Å: Chain D: C.58, C.60, G.61, K.62, C.73, C.76 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.58, D:C.60, D:C.73, D:C.76

2 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 3 residues within 4Å: Chain D: D.739, D.741, D.743 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:D.739, D:D.741, D:D.741, D:D.743 MG.5: 4 residues within 4Å: Chain B: E.154, D.168 Chain D: L.839, K.840 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:K.840

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mosaei, H. et al., Mode of Action of Kanglemycin A, an Ansamycin Natural Product that Is Active against Rifampicin-Resistant Mycobacterium tuberculosis. Mol. Cell (2018)

Release Date

2018-07-25

Peptides

DNA-directed RNA polymerase subunit alpha: AB
DNA-directed RNA polymerase subunit beta: C
DNA-directed RNA polymerase subunit beta': D
DNA-directed RNA polymerase subunit omega: E
RNA polymerase sigma factor SigA: F

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

DNA-directed RNA polymerase subunit alpha

DNA-directed RNA polymerase subunit beta

DNA-directed RNA polymerase subunit beta'

DNA-directed RNA polymerase subunit omega

RNA polymerase sigma factor SigA

Related Entries With Identical Sequence