SMTL ID : 4v8s.2 (1 other biounit)

Archaeal RNAP-DNA binary complex at 4.32Ang

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 4.32 Å

Oligo State

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

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: G.50, C.58, C.61, C.68, P.69, H.71 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.58, A:C.61, A:C.68, A:H.71 ZN.2: 6 residues within 4Å: Chain A: C.98, C.101, C.146, C.149, K.152, F.154 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.98, A:C.101, A:C.146, A:C.149 ZN.3: 4 residues within 4Å: Chain A: H.426, T.488, R.490 Chain C: E.80 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A Metal complexes: C:E.80, C:E.80, A:H.426 ZN.5: 6 residues within 4Å: Chain B: C.1064, C.1067, C.1082, I.1084, H.1085, S.1089 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.1064, B:C.1067, B:C.1082, B:H.1085 ZN.7: 5 residues within 4Å: Chain K: C.7, C.10, R.42, C.44, C.45 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.7, K:C.10, K:C.44, K:C.45 ZN.8: 6 residues within 4Å: Chain L: C.9, W.10, T.12, C.26, Y.28, C.29 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:C.9, L:T.12, L:C.26, L:C.29

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 3 residues within 4Å: Chain A: D.456, D.458, D.460 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.456, A:D.456, A:D.458, A:D.458, A:D.460

1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.6: 14 residues within 4Å: Chain D: C.183, P.184, E.185, V.187, F.188, A.202, C.203, T.204, L.205, C.206, E.207, E.208, C.209, I.219 3 PLIP interactions: 3 interactions with chain D, Metal complexes: D:C.203, D:C.206, D:C.209

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wojtas, M.N. et al., Structural and Functional Analyses of the Interaction of Archaeal RNA Polymerase with DNA. Nucleic Acids Res. (2012)

Release Date

2014-07-09

Peptides

DNA-DIRECTED RNA POLYMERASE: A
DNA-DIRECTED RNA POLYMERASE: B
DNA-DIRECTED RNA POLYMERASE SUBUNIT A'': C
DNA-DIRECTED RNA POLYMERASE SUBUNIT D: D
RNA POLYMERASE SUBUNIT 7: E
RNA POLYMERASE SUBUNIT 4: F
RNA POLYMERASE SUBUNIT 8: G
DNA-DIRECTED RNA POLYMERASE SUBUNIT H: H
DNA-DIRECTED RNA POLYMERASE SUBUNIT K: I
DNA-DIRECTED RNA POLYMERASE SUBUNIT L: J
DNA-DIRECTED RNA POLYMERASE SUBUNIT N: K
DNA-DIRECTED RNA POLYMERASE SUBUNIT P: L
RNA POLYMERASE SUBUNIT 13: M

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
BA

B
BB

C
BC

D
BD

E
BE

F
BF

G
BG

H
BH

I
BK

J
BL

K
BN

L
BP

M
BQ

DNA-DIRECTED RNA POLYMERASE

DNA-DIRECTED RNA POLYMERASE

DNA-DIRECTED RNA POLYMERASE SUBUNIT A''

DNA-DIRECTED RNA POLYMERASE SUBUNIT D

RNA POLYMERASE SUBUNIT 7

RNA POLYMERASE SUBUNIT 4

RNA POLYMERASE SUBUNIT 8

DNA-DIRECTED RNA POLYMERASE SUBUNIT H

DNA-DIRECTED RNA POLYMERASE SUBUNIT K

DNA-DIRECTED RNA POLYMERASE SUBUNIT L

DNA-DIRECTED RNA POLYMERASE SUBUNIT N

DNA-DIRECTED RNA POLYMERASE SUBUNIT P

RNA POLYMERASE SUBUNIT 13

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