SMTL ID : 7u22.1

Mycobacterium tuberculosis RNA polymerase sigma A holoenzyme open promoter complex containing UMN-7

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.87 Å

Oligo State

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

Ligands

1 x KYO: (9S,14S,15R,16S,17R,18R,19R,20S,21S,25R)-5,6,18,20-tetrahydroxy-14-methoxy-7,9,15,17,19,21,25-heptamethyl-1'-(2-methylpropyl)-10,26-dioxo-1,3,9,10-tetrahydrospiro[9,4-(epoxypentadecanoimino)furo[2',3':7,8]naphtho[1,2-d]imidazole-2,4'-piperidin]-16-yl benzoate(Non-covalent)

KYO.1: 14 residues within 4Å: Chain C: Q.435, Q.438, F.439, D.441, H.451, R.454, S.456, L.458, R.465, P.489, N.493, I.497, R.613 Chain F: E.430 18 PLIP interactions: 17 interactions with chain C, 1 interactions with chain F Hydrophobic interactions: C:Q.438, C:F.439, C:F.439, C:D.441, C:L.458, C:L.458, C:P.489, C:I.497 Hydrogen bonds: C:Q.435, C:Q.438, C:F.439, C:F.439, C:D.441, C:R.454, C:R.454, C:S.456, C:N.493, F:E.430

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: 5 residues within 4Å: Chain D: C.60, C.62, K.64, 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 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:D.535, D:D.537, D:D.539

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lan, T. et al., Redesign of Rifamycin Antibiotics to Overcome ADP-Ribosylation-Mediated Resistance. Angew.Chem.Int.Ed.Engl. (2022)

Release Date

2022-10-19

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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