SMTL ID : 4ww4.2 (2 other biounits)

Double-heterohexameric rings of full-length Rvb1(ADP)/Rvb2(ADP)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.94 Å

Oligo State

hetero-6-6-mer

Ligands

12 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 20 residues within 4Å: Chain A: A.18, H.19, H.21, I.22, G.39, F.40, V.41, G.72, G.74, T.75, G.76, K.77, T.78, A.79, Y.367, I.375, R.379, L.404, R.405, L.408 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:H.19, A:V.41, A:G.74, A:T.75, A:G.76, A:K.77, A:T.78, A:T.78, A:T.78, A:A.79, A:Y.367, A:Y.367 Salt bridges: A:H.19, A:K.77, A:R.405, A:R.405 ADP.2: 20 residues within 4Å: Chain B: A.48, H.49, H.51, I.52, G.70, L.71, V.72, P.103, P.104, S.105, T.106, G.107, K.108, T.109, A.110, Y.386, I.394, R.398, L.423, R.424 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:H.49, B:V.72, B:S.105, B:T.106, B:G.107, B:K.108, B:T.109, B:T.109, B:T.109, B:A.110, B:N.353, B:Y.386, B:Y.386 Salt bridges: B:H.49, B:K.108, B:R.424, B:R.424 ADP.3: 20 residues within 4Å: Chain C: A.18, H.19, H.21, I.22, G.39, F.40, V.41, G.72, G.74, T.75, G.76, K.77, T.78, A.79, Y.367, I.375, R.379, L.404, R.405, L.408 16 PLIP interactions: 16 interactions with chain C Hydrogen bonds: C:H.19, C:V.41, C:G.74, C:T.75, C:G.76, C:K.77, C:T.78, C:T.78, C:T.78, C:A.79, C:Y.367, C:Y.367 Salt bridges: C:H.19, C:K.77, C:R.405, C:R.405 ADP.4: 20 residues within 4Å: Chain D: A.48, H.49, H.51, I.52, G.70, L.71, V.72, P.103, P.104, S.105, T.106, G.107, K.108, T.109, A.110, Y.386, I.394, R.398, L.423, R.424 17 PLIP interactions: 17 interactions with chain D Hydrogen bonds: D:H.49, D:V.72, D:S.105, D:T.106, D:G.107, D:K.108, D:T.109, D:T.109, D:T.109, D:A.110, D:N.353, D:Y.386, D:Y.386 Salt bridges: D:H.49, D:K.108, D:R.424, D:R.424 ADP.5: 20 residues within 4Å: Chain E: A.18, H.19, H.21, I.22, G.39, F.40, V.41, G.72, G.74, T.75, G.76, K.77, T.78, A.79, Y.367, I.375, R.379, L.404, R.405, L.408 16 PLIP interactions: 16 interactions with chain E Hydrogen bonds: E:H.19, E:V.41, E:G.74, E:T.75, E:G.76, E:K.77, E:T.78, E:T.78, E:T.78, E:A.79, E:Y.367, E:Y.367 Salt bridges: E:H.19, E:K.77, E:R.405, E:R.405 ADP.6: 20 residues within 4Å: Chain F: A.48, H.49, H.51, I.52, G.70, L.71, V.72, P.103, P.104, S.105, T.106, G.107, K.108, T.109, A.110, Y.386, I.394, R.398, L.423, R.424 17 PLIP interactions: 17 interactions with chain F Hydrogen bonds: F:H.49, F:V.72, F:S.105, F:T.106, F:G.107, F:K.108, F:T.109, F:T.109, F:T.109, F:A.110, F:N.353, F:Y.386, F:Y.386 Salt bridges: F:H.49, F:K.108, F:R.424, F:R.424 ADP.7: 20 residues within 4Å: Chain G: A.18, H.19, H.21, I.22, G.39, F.40, V.41, G.72, G.74, T.75, G.76, K.77, T.78, A.79, Y.367, I.375, R.379, L.404, R.405, L.408 17 PLIP interactions: 17 interactions with chain G Hydrogen bonds: G:H.19, G:V.41, G:G.74, G:T.75, G:T.75, G:G.76, G:K.77, G:T.78, G:T.78, G:T.78, G:A.79, G:Y.367, G:Y.367 Salt bridges: G:H.19, G:K.77, G:R.405, G:R.405 ADP.8: 20 residues within 4Å: Chain H: A.48, H.49, H.51, I.52, G.70, L.71, V.72, P.103, P.104, S.105, T.106, G.107, K.108, T.109, A.110, Y.386, I.394, R.398, L.423, R.424 17 PLIP interactions: 17 interactions with chain H Hydrogen bonds: H:V.72, H:S.105, H:T.106, H:T.106, H:G.107, H:K.108, H:T.109, H:T.109, H:T.109, H:A.110, H:N.353, H:Y.386, H:Y.386 Salt bridges: H:H.49, H:K.108, H:R.424, H:R.424 ADP.9: 20 residues within 4Å: Chain I: A.18, H.19, H.21, I.22, G.39, F.40, V.41, G.72, G.74, T.75, G.76, K.77, T.78, A.79, Y.367, I.375, R.379, L.404, R.405, L.408 17 PLIP interactions: 17 interactions with chain I Hydrogen bonds: I:H.19, I:V.41, I:G.74, I:T.75, I:T.75, I:G.76, I:K.77, I:T.78, I:T.78, I:T.78, I:A.79, I:Y.367, I:Y.367 Salt bridges: I:H.19, I:K.77, I:R.405, I:R.405 ADP.10: 20 residues within 4Å: Chain J: A.48, H.49, H.51, I.52, G.70, L.71, V.72, P.103, P.104, S.105, T.106, G.107, K.108, T.109, A.110, Y.386, I.394, R.398, L.423, R.424 17 PLIP interactions: 17 interactions with chain J Hydrogen bonds: J:V.72, J:S.105, J:T.106, J:T.106, J:G.107, J:K.108, J:T.109, J:T.109, J:T.109, J:A.110, J:N.353, J:Y.386, J:Y.386 Salt bridges: J:H.49, J:K.108, J:R.424, J:R.424 ADP.11: 20 residues within 4Å: Chain K: A.18, H.19, H.21, I.22, G.39, F.40, V.41, G.72, G.74, T.75, G.76, K.77, T.78, A.79, Y.367, I.375, R.379, L.404, R.405, L.408 17 PLIP interactions: 17 interactions with chain K Hydrogen bonds: K:H.19, K:V.41, K:G.74, K:T.75, K:T.75, K:G.76, K:K.77, K:T.78, K:T.78, K:T.78, K:A.79, K:Y.367, K:Y.367 Salt bridges: K:H.19, K:K.77, K:R.405, K:R.405 ADP.12: 20 residues within 4Å: Chain L: A.48, H.49, H.51, I.52, G.70, L.71, V.72, P.103, P.104, S.105, T.106, G.107, K.108, T.109, A.110, Y.386, I.394, R.398, L.423, R.424 17 PLIP interactions: 17 interactions with chain L Hydrogen bonds: L:V.72, L:S.105, L:T.106, L:T.106, L:G.107, L:K.108, L:T.109, L:T.109, L:T.109, L:A.110, L:N.353, L:Y.386, L:Y.386 Salt bridges: L:H.49, L:K.108, L:R.424, L:R.424

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lakomek, K. et al., Structural Basis for Dodecameric Assembly States and Conformational Plasticity of the Full-Length AAA+ ATPases Rvb1Rvb2. Structure (2015)

Release Date

2015-02-18

Peptides

RuvB-like 1: ACEGIK
RuvB-like 2: BDFHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

G
A

I
A

K
A

B
B

D
B

F
B

H
B

J
B

L
B

RuvB-like 1

RuvB-like 2

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