SMTL ID : 8thc.1

Structure of the Saccharomyces cerevisiae clamp unloader Elg1-RFC bound to a cracked PCNA

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-3-mer

Ligands

4 x AGS: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER(Non-covalent)

AGS.1: 20 residues within 4Å: Chain A: P.242, Q.243, F.245, P.247, Q.252, V.253, L.254, S.340, I.341, G.342, K.343, K.344, T.345, Y.476, I.500, R.501 Chain B: R.128, R.129, E.132, R.157 20 PLIP interactions: 12 interactions with chain A, 8 interactions with chain B Hydrogen bonds: A:Q.252, A:L.254, A:K.343, A:K.343, A:K.344, A:T.345, A:Y.476, A:R.501, A:R.501, B:E.132, B:E.132, B:R.157, B:R.157 Salt bridges: A:K.343, A:R.501, A:R.501, B:R.129, B:R.129, B:R.157, B:R.157 AGS.2: 19 residues within 4Å: Chain B: V.12, R.16, P.17, I.23, V.24, P.51, G.52, I.53, G.54, K.55, T.56, T.57, N.145, L.166, M.202, R.203 Chain C: R.131, A.156 Ligands: MG.3 17 PLIP interactions: 15 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:V.24, B:V.24, B:G.52, B:I.53, B:G.54, B:K.55, B:T.56, B:T.57, B:T.57, B:T.57, B:R.203, B:R.203, C:R.131, C:R.131 Salt bridges: B:K.55, B:R.203, B:R.203 AGS.4: 19 residues within 4Å: Chain C: V.16, Y.19, R.20, P.21, E.26, V.27, Y.28, P.55, G.56, T.57, G.58, K.59, T.60, S.61, L.169, M.205, R.206, L.209 Ligands: MG.5 15 PLIP interactions: 15 interactions with chain C Hydrogen bonds: C:Y.28, C:G.56, C:T.57, C:G.58, C:K.59, C:K.59, C:T.60, C:S.61, C:S.61, C:S.61, C:R.206 Salt bridges: C:R.20, C:K.59, C:R.206, C:R.206 AGS.6: 18 residues within 4Å: Chain D: V.28, R.32, P.33, V.39, T.40, P.67, G.68, T.69, G.70, K.71, T.72, S.73, D.140, R.200, L.228, R.229, I.232 Ligands: MG.7 16 PLIP interactions: 16 interactions with chain D Hydrogen bonds: D:V.28, D:R.32, D:T.40, D:T.40, D:G.68, D:G.70, D:K.71, D:K.71, D:T.72, D:T.72, D:S.73, D:S.73, D:R.229 Salt bridges: D:K.71, D:R.229, D:R.229

3 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain B: T.56 Ligands: AGS.2 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.56 MG.5: 2 residues within 4Å: Chain C: T.60 Ligands: AGS.4 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.60 MG.7: 3 residues within 4Å: Chain D: T.72, D.140 Ligands: AGS.6 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:D.140

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

ADP.8: 20 residues within 4Å: Chain A: Q.712 Chain E: V.5, Y.8, R.9, P.10, L.16, S.17, H.18, N.45, G.46, T.47, G.48, K.49, K.50, T.51, R.52, I.201, L.230, R.231, L.234 17 PLIP interactions: 17 interactions with chain E Hydrogen bonds: E:Y.8, E:S.17, E:S.17, E:H.18, E:H.18, E:G.46, E:T.47, E:G.48, E:K.49, E:K.50, E:T.51, E:T.51, E:R.52, E:R.52 Salt bridges: E:K.49, E:R.231, E:R.231

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zheng, F. et al., Structure of the PCNA unloader Elg1-RFC. Sci Adv (2024)

Release Date

2024-05-22

Peptides

ELG1 isoform 1: A
Replication factor C subunit 4: B
Replication factor C subunit 3: C
Replication factor C subunit 2: D
Replication factor C subunit 5: E
Proliferating cell nuclear antigen: FGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

ELG1 isoform 1

Replication factor C subunit 4

Replication factor C subunit 3

Replication factor C subunit 2

Replication factor C subunit 5

Proliferating cell nuclear antigen

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