SMTL ID : 8unj.1

Atomic model of the human CTF18-RFC alone in the apo state (State 1)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain B: T.83, D.141 Ligands: AGS.2 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:T.83, B:D.141 MG.3: 4 residues within 4Å: Chain C: T.67, D.125 Chain D: R.165 Ligands: AGS.4 No protein-ligand interaction detected (PLIP) MG.5: 3 residues within 4Å: Chain D: T.85, R.239 Ligands: AGS.6 No protein-ligand interaction detected (PLIP)

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

AGS.2: 16 residues within 4Å: Chain B: V.39, Y.42, R.43, P.44, I.50, V.51, P.78, G.79, T.80, G.81, K.82, T.83, T.84, N.172, M.229 Ligands: MG.1 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:V.51, B:G.79, B:T.80, B:T.80, B:G.81, B:K.82, B:K.82, B:T.83, B:T.84, B:T.84, B:N.172 Salt bridges: B:K.82 AGS.4: 22 residues within 4Å: Chain C: V.23, Y.26, R.27, P.28, D.33, L.34, I.35, P.62, G.63, T.64, G.65, K.66, T.67, S.68, L.177, R.185, M.213, R.214, L.217 Chain D: R.164, R.165 Ligands: MG.3 13 PLIP interactions: 12 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:Y.26, C:R.27, C:I.35, C:G.63, C:T.64, C:G.65, C:K.66, C:T.67, C:T.67, C:T.67, C:S.68, D:R.165 Salt bridges: C:K.66 AGS.6: 20 residues within 4Å: Chain D: V.41, Y.44, R.45, P.46, E.51, V.52, A.53, P.79, P.80, G.81, T.82, G.83, K.84, T.85, S.86, N.181, R.210, L.238, R.239 Ligands: MG.5 14 PLIP interactions: 14 interactions with chain D Hydrogen bonds: D:Y.44, D:A.53, D:G.81, D:T.82, D:G.83, D:K.84, D:K.84, D:T.85, D:S.86, D:N.181, D:R.210 Salt bridges: D:R.239, D:R.239 pi-Cation interactions: D:R.210

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

ADP.7: 19 residues within 4Å: Chain A: R.751 Chain E: V.5, Y.8, R.9, P.10, L.16, D.17, Y.18, P.43, S.44, G.45, A.46, G.47, K.48, K.49, T.50, R.51, L.223, R.224 15 PLIP interactions: 15 interactions with chain E Hydrogen bonds: E:V.5, E:D.17, E:Y.18, E:P.43, E:G.45, E:A.46, E:G.47, E:K.48, E:K.49, E:T.50, E:R.51, E:R.51 Salt bridges: E:K.48, E:R.224, E:R.224

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

He, Q. et al., Cryo-EM reveals a nearly complete PCNA loading process and unique features of the human alternative clamp loader CTF18-RFC. Proc.Natl.Acad.Sci.USA (2024)

Release Date

2024-05-08

Peptides

Chromosome transmission fidelity protein 18 homolog: A
Replication factor C subunit 2: B
Replication factor C subunit 5: C
Replication factor C subunit 4: D
Replication factor C subunit 3: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Chromosome transmission fidelity protein 18 homolog

Replication factor C subunit 2

Replication factor C subunit 5

Replication factor C subunit 4

Replication factor C subunit 3

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