SMTL ID : 5fm6.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-oligomer

Ligands

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

ADP.1: 23 residues within 4Å: Chain A: A.20, H.21, H.23, I.24, G.41, F.42, V.43, G.44, Q.45, G.74, P.75, G.76, T.77, G.78, K.79, T.80, A.81, Y.369, I.377, R.381, L.406, R.407, L.410 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:H.23, A:V.43, A:G.74, A:P.75, A:T.77, A:K.79, A:T.80, A:A.81, A:Y.369 Salt bridges: A:H.21, A:K.79, A:R.407, A:R.407 ADP.4: 23 residues within 4Å: Chain C: A.20, H.21, H.23, I.24, G.41, F.42, V.43, G.44, Q.45, G.74, P.75, G.76, T.77, G.78, K.79, T.80, A.81, Y.369, I.377, R.381, L.406, R.407, L.410 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:H.23, C:V.43, C:G.74, C:P.75, C:K.79, C:T.80, C:T.80, C:A.81, C:Y.369, C:Y.369 Salt bridges: C:H.21, C:K.79, C:R.407, C:R.407 ADP.7: 23 residues within 4Å: Chain E: A.20, H.21, H.23, I.24, G.41, F.42, V.43, G.44, Q.45, G.74, P.75, G.76, T.77, G.78, K.79, T.80, A.81, Y.369, I.377, R.381, L.406, R.407, L.410 13 PLIP interactions: 13 interactions with chain E Hydrogen bonds: E:H.23, E:V.43, E:G.74, E:P.75, E:T.77, E:K.79, E:T.80, E:A.81, E:Y.369 Salt bridges: E:H.21, E:K.79, E:R.407, E:R.407 ADP.10: 23 residues within 4Å: Chain G: A.20, H.21, H.23, I.24, G.41, F.42, V.43, G.44, Q.45, G.74, P.75, G.76, T.77, G.78, K.79, T.80, A.81, Y.369, I.377, R.381, L.406, R.407, L.410 13 PLIP interactions: 13 interactions with chain G Hydrogen bonds: G:H.23, G:V.43, G:G.74, G:P.75, G:T.77, G:K.79, G:T.80, G:A.81, G:Y.369 Salt bridges: G:H.21, G:K.79, G:R.407, G:R.407 ADP.13: 23 residues within 4Å: Chain I: A.20, H.21, H.23, I.24, G.41, F.42, V.43, G.44, Q.45, G.74, P.75, G.76, T.77, G.78, K.79, T.80, A.81, Y.369, I.377, R.381, L.406, R.407, L.410 14 PLIP interactions: 14 interactions with chain I Hydrogen bonds: I:H.23, I:V.43, I:G.74, I:P.75, I:K.79, I:T.80, I:T.80, I:A.81, I:Y.369, I:Y.369 Salt bridges: I:H.21, I:K.79, I:R.407, I:R.407 ADP.16: 23 residues within 4Å: Chain K: A.20, H.21, H.23, I.24, G.41, F.42, V.43, G.44, Q.45, G.74, P.75, G.76, T.77, G.78, K.79, T.80, A.81, Y.369, I.377, R.381, L.406, R.407, L.410 14 PLIP interactions: 14 interactions with chain K Hydrogen bonds: K:H.23, K:V.43, K:G.74, K:P.75, K:K.79, K:T.80, K:T.80, K:A.81, K:Y.369, K:Y.369 Salt bridges: K:H.21, K:K.79, K:R.407, K:R.407

12 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 5 residues within 4Å: Chain B: P.80, S.82, T.83, K.85, T.86 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:S.82, B:T.83, B:K.85, B:T.86, B:T.86, B:T.86 Salt bridges: B:K.85 PO4.3: 4 residues within 4Å: Chain B: S.82, R.375, L.400, R.401 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.375, B:R.401 PO4.5: 5 residues within 4Å: Chain D: P.80, S.82, T.83, K.85, T.86 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:S.82, D:T.83, D:K.85, D:T.86, D:T.86, D:T.86 Salt bridges: D:K.85 PO4.6: 4 residues within 4Å: Chain D: S.82, R.375, L.400, R.401 2 PLIP interactions: 2 interactions with chain D Salt bridges: D:R.375, D:R.401 PO4.8: 5 residues within 4Å: Chain F: P.80, S.82, T.83, K.85, T.86 7 PLIP interactions: 7 interactions with chain F Hydrogen bonds: F:S.82, F:T.83, F:K.85, F:T.86, F:T.86, F:T.86 Salt bridges: F:K.85 PO4.9: 4 residues within 4Å: Chain F: S.82, R.375, L.400, R.401 2 PLIP interactions: 2 interactions with chain F Salt bridges: F:R.375, F:R.401 PO4.11: 5 residues within 4Å: Chain H: P.80, S.82, T.83, K.85, T.86 7 PLIP interactions: 7 interactions with chain H Hydrogen bonds: H:S.82, H:T.83, H:K.85, H:T.86, H:T.86, H:T.86 Salt bridges: H:K.85 PO4.12: 4 residues within 4Å: Chain H: S.82, R.375, L.400, R.401 2 PLIP interactions: 2 interactions with chain H Salt bridges: H:R.375, H:R.401 PO4.14: 5 residues within 4Å: Chain J: P.80, S.82, T.83, K.85, T.86 7 PLIP interactions: 7 interactions with chain J Hydrogen bonds: J:S.82, J:T.83, J:K.85, J:T.86, J:T.86, J:T.86 Salt bridges: J:K.85 PO4.15: 4 residues within 4Å: Chain J: S.82, R.375, L.400, R.401 2 PLIP interactions: 2 interactions with chain J Salt bridges: J:R.375, J:R.401 PO4.17: 5 residues within 4Å: Chain L: P.80, S.82, T.83, K.85, T.86 7 PLIP interactions: 7 interactions with chain L Hydrogen bonds: L:S.82, L:T.83, L:K.85, L:T.86, L:T.86, L:T.86 Salt bridges: L:K.85 PO4.18: 4 residues within 4Å: Chain L: S.82, R.375, L.400, R.401 2 PLIP interactions: 2 interactions with chain L Salt bridges: L:R.375, L:R.401

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Silva-Martin, N. et al., The Combination of X-Ray Crystallography and Cryo-Electron Microscopy Provides Insight Into the Overall Architecture of the Dodecameric Rvb1/Rvb2 Complex. Plos One (2016)

Release Date

2016-01-20

Peptides

RVB1: ACEGIK
RVB2: 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

RVB1

RVB2

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