SMTL ID : 6c06.1

Mycobacterium tuberculosis RNAP Holo/RbpA/Fidaxomicin

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain D: C.891, C.968, T.970, V.974, C.975, C.978 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:C.968, D:C.975, D:C.978 ZN.2: 7 residues within 4Å: Chain D: C.60, Y.61, C.62, G.63, K.64, C.75, C.78 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.60, D:C.62, D:C.62, D:C.78

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain D: D.535, F.536, D.537, D.539 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:D.535, D:D.535, D:D.537, D:D.537, D:D.539

1 x FI8: Fidaxomicin(Non-covalent)

FI8.4: 15 residues within 4Å: Chain C: M.1045, I.1046, T.1047, Q.1048, D.1088, T.1090, R.1093, K.1095, E.1113, S.1114 Chain D: R.84, K.86, R.412 Chain F: Q.437 Chain G: R.10 14 PLIP interactions: 5 interactions with chain C, 9 interactions with chain D Hydrophobic interactions: C:Q.1048 Hydrogen bonds: C:T.1090, C:T.1090, C:T.1090, C:R.1093, D:K.86, D:R.89, D:R.412, D:R.412 Salt bridges: D:R.84, D:K.86, D:R.89, D:R.412, D:R.412

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boyaci, H. et al., Fidaxomicin jamsMycobacterium tuberculosisRNA polymerase motions needed for initiation via RbpA contacts. Elife (2018)

Release Date

2018-03-28

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
RNA polymerase-binding protein RbpA: G

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
J

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

RNA polymerase-binding protein RbpA

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