SMTL ID : 7jps.1

ORC-DNA: Human Origin Recognition Complex (ORC) with DNA bound in the core

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

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

ATP.1: 22 residues within 4Å: Chain A: V.28, V.31, P.32, L.35, P.36, R.38, P.67, T.69, G.70, K.71, T.72, A.73, D.151, E.152, Y.212, I.220, R.224, A.250, R.251 Chain D: R.205, R.209 Ligands: MG.2 12 PLIP interactions: 11 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:P.36, A:P.67, A:G.70, A:K.71, A:T.72, A:T.72, A:A.73, A:Y.212, A:R.224 Salt bridges: A:R.251, A:R.251, D:R.209 ATP.4: 15 residues within 4Å: Chain D: Q.31, H.34, N.36, L.37, F.38, R.69, G.70, S.71, G.72, K.73, T.74, M.75, L.276, R.277 Ligands: MG.5 18 PLIP interactions: 18 interactions with chain D Hydrogen bonds: D:Q.31, D:F.38, D:F.38, D:G.70, D:S.71, D:G.72, D:K.73, D:T.74, D:T.74, D:T.74, D:M.75, D:Q.233 Salt bridges: D:R.69, D:K.73, D:K.73, D:R.277, D:R.277, D:R.277 ATP.6: 16 residues within 4Å: Chain E: V.7, V.8, L.9, H.38, T.39, A.40, S.41, G.42, K.43, T.44, Y.45, K.126, Y.182, L.222, K.223 Ligands: MG.7 12 PLIP interactions: 12 interactions with chain E Hydrogen bonds: E:L.9, E:L.9, E:H.38, E:S.41, E:K.43, E:T.44, E:T.44, E:Y.45 Salt bridges: E:K.43, E:K.43, E:K.126, E:K.223

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: T.72, D.151 Ligands: ATP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.72 MG.5: 2 residues within 4Å: Chain D: T.74 Ligands: ATP.4 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:T.74 MG.7: 3 residues within 4Å: Chain E: T.44, D.125 Ligands: ATP.6 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:T.44

1 x K: POTASSIUM ION(Non-covalent)

K.3: 5 residues within 4Å: Chain B: F.309, N.310, S.413, L.415, I.418 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:I.418

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jaremko, M.J. et al., The dynamic nature of the human Origin Recognition Complex revealed through five cryoEM structures. Elife (2020)

Release Date

2020-09-09

Peptides

Origin recognition complex subunit 1: A
Origin recognition complex subunit 2: B
Origin recognition complex subunit 3: C
Origin recognition complex subunit 4: D
Origin recognition complex subunit 5: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Origin recognition complex subunit 1

Origin recognition complex subunit 2

Origin recognition complex subunit 3

Origin recognition complex subunit 4

Origin recognition complex subunit 5

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