SMTL ID : 2a6h.2 (1 other biounit)

Crystal structure of the T. thermophilus RNA polymerase holoenzyme in complex with antibiotic sterptolydigin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

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

Ligands

1 x STD: STREPTOLYDIGIN(Non-covalent)

STD.1: 10 residues within 4Å: Chain C: A.423, F.425, R.428, A.447, I.449 Chain D: A.1082, A.1085, L.1086, D.1090, P.1257 11 PLIP interactions: 4 interactions with chain C, 7 interactions with chain D Hydrophobic interactions: C:A.423, C:F.425, C:I.449, D:A.1085, D:L.1086, D:L.1086, D:L.1086, D:L.1086 Hydrogen bonds: C:R.428, D:D.1090 Water bridges: D:D.1090

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain D: C.58, C.60, 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 ZN.3: 5 residues within 4Å: Chain D: C.1112, R.1189, C.1194, 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

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 3 residues within 4Å: Chain D: D.739, D.741, D.743 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:D.739, D:D.741, D:D.743

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Temiakov, D. et al., Structural basis of transcription inhibition by antibiotic streptolydigin. Mol.Cell (2005)

Release Date

2005-09-20

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
K

B
L

C
M

D
N

E
O

F
P

DNA-directed RNA polymerase alpha chain

DNA-directed RNA polymerase beta chain

DNA-directed RNA polymerase beta' chain

RNA polymerase omega chain

RNA polymerase sigma factor rpoD

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