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

Crystal structure of T.aquaticus transcription initiation complex with CarD containing bubble promoter and RNA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 4.30 Å

Oligo State

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

Ligands

1 x U- C- G- A: RNA (5'-R(P*UP*CP*GP*A)-3')(Non-covalent)

U-C-G-A.1: 25 residues within 4Å: Chain C: Q.390, R.409, L.413, R.420, P.444, E.445, N.448, I.452, Q.567, K.838, K.846, H.999 Chain D: R.704, D.739, D.741, G.742, D.743, Q.744 Chain F: E.248 Chain I: T.12, C.13, G.14, A.15, G.17 Ligands: MG.4 Protein-ligand interaction information (PLIP) not available

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 6 residues within 4Å: Chain D: C.1112, R.1189, C.1194, T.1196, 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 ZN.3: 6 residues within 4Å: Chain D: C.58, A.59, C.60, G.61, 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

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 5 residues within 4Å: Chain D: R.704, D.739, D.741, D.743 Ligands: U-C-G-A.1 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:D.739, D:D.739, D:D.741, D:D.743, D:D.743

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bae, B. et al., CarD uses a minor groove wedge mechanism to stabilize the RNA polymerase open promoter complex. Elife (2015)

Release Date

2015-09-23

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
CarD-like transcriptional regulator: G

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

C
I

D
J

E
K

F
L

G
N

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

CarD-like transcriptional regulator

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