SMTL ID : 5uhg.1

Crystal structure of Mycobacterium tuberculosis transcription initiation complex in complex with D-AAP1 and Rifampin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.97 Å

Oligo State

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

Ligands

1 x RFP: RIFAMPICIN(Non-covalent)

RFP.1: 18 residues within 4Å: Chain C: R.173, S.434, Q.435, L.436, Q.438, F.439, D.441, H.451, R.454, S.456, L.458, R.465, P.489, N.493, I.497, R.613, H.680 Chain F: G.428 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:L.436, C:D.441, C:P.489, C:I.497 Hydrogen bonds: C:R.173, C:Q.438, C:F.439, C:F.439, C:R.454, C:S.456, C:R.465, C:N.493

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain D: C.891, C.968, C.975, C.978 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.891, D:C.968, D:C.975, D:C.978 ZN.3: 4 residues within 4Å: Chain D: C.60, C.62, C.75, C.78 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.60, D:C.62, D:C.75, D:C.78

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 3 residues within 4Å: Chain D: D.535, D.537, D.539 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:D.535, D:D.537, D:D.537, D:D.539

1 x 88G: Nalpha-(benzenecarbonyl)-N-(2-methylphenyl)-D-phenylalaninamide(Non-covalent)

88G.5: 13 residues within 4Å: Chain C: V.475, P.477, R.562, R.563, G.566, V.568 Chain D: R.834, P.835, L.847, E.848, F.850, I.851, H.854 12 PLIP interactions: 4 interactions with chain C, 8 interactions with chain D Hydrophobic interactions: C:P.477, C:R.562, D:R.834, D:L.847, D:L.847, D:E.848, D:I.851 Hydrogen bonds: C:G.566, D:R.834, D:L.847 pi-Cation interactions: C:R.562 pi-Stacking: D:H.854

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lin, W. et al., Structural Basis of Mycobacterium tuberculosis Transcription and Transcription Inhibition. Mol. Cell (2017)

Release Date

2017-04-12

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

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