SMTL ID : 7ste.1

Rad24-RFC ADP state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

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

ADP.1: 18 residues within 4Å: Chain A: V.12, E.13, R.16, P.17, I.23, V.24, P.51, G.52, I.53, G.54, K.55, T.56, T.57, D.114, L.166, R.174, M.202, R.203 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:V.12, A:V.12, A:V.24, A:V.24, A:G.52, A:I.53, A:G.54, A:K.55, A:T.56, A:T.56, A:T.57, A:T.57 Salt bridges: A:R.203 ADP.2: 21 residues within 4Å: Chain B: W.15, V.16, Y.19, R.20, P.21, E.26, V.27, Y.28, Q.30, P.55, G.56, T.57, G.58, K.59, T.60, S.61, L.169, R.177, M.205, R.206, L.209 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:Y.19, B:Y.19, B:Y.28, B:G.56, B:T.57, B:T.57, B:G.58, B:K.59, B:T.60, B:T.60, B:T.60, B:S.61, B:S.61, B:R.177, B:R.177 Salt bridges: B:R.20, B:K.59, B:R.206, B:R.206 ADP.3: 21 residues within 4Å: Chain C: V.28, Y.31, R.32, P.33, E.38, V.39, T.40, Q.42, P.67, G.68, T.69, G.70, K.71, T.72, S.73, I.169, L.192, R.200, L.228, R.229, I.232 16 PLIP interactions: 16 interactions with chain C Hydrogen bonds: C:Y.31, C:T.40, C:G.68, C:T.69, C:T.69, C:G.70, C:K.71, C:T.72, C:T.72, C:T.72, C:R.200, C:R.200 Salt bridges: C:R.32, C:K.71, C:R.229, C:R.229 ADP.4: 20 residues within 4Å: Chain D: V.5, D.6, R.9, P.10, L.16, S.17, H.18, P.44, N.45, G.46, T.47, G.48, K.49, K.50, T.51, R.52, I.201, L.230, R.231, L.234 18 PLIP interactions: 18 interactions with chain D Hydrogen bonds: D:V.5, D:R.9, D:S.17, D:S.17, D:H.18, D:N.45, D:G.46, D:T.47, D:T.47, D:G.48, D:K.49, D:K.50, D:T.51, D:R.52, D:R.52 Salt bridges: D:K.49, D:R.231, D:R.231

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.5: 24 residues within 4Å: Chain A: R.128, R.129, E.132 Chain E: Y.67, F.70, K.71, P.72, Q.77, V.78, A.79, S.111, G.112, C.113, S.114, K.115, S.116, T.117, E.187, T.224, H.276, I.311, R.312, I.315 Ligands: MG.6 22 PLIP interactions: 4 interactions with chain A, 18 interactions with chain E Hydrogen bonds: A:E.132, A:E.132, E:Q.77, E:A.79, E:G.112, E:C.113, E:S.114, E:S.114, E:K.115, E:S.116, E:S.116, E:T.117, E:T.117, E:T.224, E:T.224, E:R.312 Salt bridges: A:R.128, A:R.129, E:K.115, E:R.312, E:R.312, E:R.312

1 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 5 residues within 4Å: Chain A: R.129 Chain E: S.116, E.187, R.312 Ligands: ATP.5 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:E.187

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Castaneda, J.C. et al., Mechanisms of loading and release of the 9-1-1 checkpoint clamp. Nat.Struct.Mol.Biol. (2022)

Release Date

2022-04-06

Peptides

Replication factor C subunit 4: A
Replication factor C subunit 3: B
Replication factor C subunit 2: C
Replication factor C subunit 5: D
Checkpoint protein RAD24: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
D

D
E

E
A

Replication factor C subunit 4

Replication factor C subunit 3

Replication factor C subunit 2

Replication factor C subunit 5

Checkpoint protein RAD24

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