SMTL ID : 6wgg.1

Atomic model of pre-insertion mutant OCCM-DNA complex(ORC-Cdc6-Cdt1-Mcm2-7 with Mcm6 WHD truncation)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

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

AGS.1: 16 residues within 4Å: Chain B: T.82, P.109, P.110, G.111, T.112, G.113, K.114, T.115, A.116, E.224, Y.291, I.299, D.330, K.333 Chain C: S.615, R.616 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:G.111, B:T.112, B:G.113, B:K.114, B:T.115, B:T.115, B:T.115, B:A.116, C:S.615 Salt bridges: B:K.333 AGS.2: 16 residues within 4Å: Chain C: S.432, L.449, P.481, G.482, V.483, G.484, K.485, T.486, L.487, E.567, Y.627, I.635, R.639, A.703, R.704 Chain G: R.267 16 PLIP interactions: 16 interactions with chain C Hydrogen bonds: C:G.482, C:V.483, C:G.484, C:K.485, C:T.486, C:T.486, C:L.487, C:E.567, C:E.567, C:Y.627, C:R.639, C:R.704, C:R.704 Salt bridges: C:K.485, C:R.704, C:R.704 AGS.3: 14 residues within 4Å: Chain F: A.9, F.10, Y.38, S.39, G.40, T.41, G.42, K.43, T.44, Y.45, Y.192, I.200, I.255, F.256 13 PLIP interactions: 13 interactions with chain F Hydrogen bonds: F:A.9, F:F.10, F:G.40, F:T.41, F:G.42, F:K.43, F:T.44, F:Y.45, F:Y.45, F:Y.192 Salt bridges: F:K.43 pi-Stacking: F:Y.45, F:Y.45 AGS.4: 15 residues within 4Å: Chain F: K.151, K.158 Chain G: Y.61, G.62, R.104, Q.105, S.106, Y.107, K.108, T.109, Y.110, D.217, E.218, P.335, K.338 16 PLIP interactions: 13 interactions with chain G, 3 interactions with chain F Hydrogen bonds: G:Q.105, G:S.106, G:Y.107, G:K.108, G:K.108, G:T.109, G:T.109, G:T.109, G:Y.110, G:K.338, G:K.338, F:K.151, F:K.151, F:K.151 Salt bridges: G:K.108, G:K.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yuan, Z. et al., Structural mechanism of helicase loading onto replication origin DNA by ORC-Cdc6. Proc.Natl.Acad.Sci.USA (2020)

Release Date

2020-07-15

Peptides

Cell division cycle protein CDT1: A
Cell division control protein 6: B
Origin recognition complex subunit 1: C
Origin recognition complex subunit 2: D
Origin recognition complex subunit 3: E
Origin recognition complex subunit 5: F
Origin recognition complex subunit 4: G
Origin recognition complex subunit 6: H
DNA replication licensing factor MCM2: K
DNA replication licensing factor MCM3: L
DNA replication licensing factor MCM4: M
Minichromosome maintenance protein 5: N
DNA replication licensing factor MCM6: O
DNA replication licensing factor MCM7: P

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
8

B
9

C
A

D
B

E
C

F
E

G
D

H
F

K
2

L
3

M
4

N
5

O
6

P
7

Cell division cycle protein CDT1

Cell division control protein 6

Origin recognition complex subunit 1

Origin recognition complex subunit 2

Origin recognition complex subunit 3

Origin recognition complex subunit 5

Origin recognition complex subunit 4

Origin recognition complex subunit 6

DNA replication licensing factor MCM2

DNA replication licensing factor MCM3

DNA replication licensing factor MCM4

Minichromosome maintenance protein 5

DNA replication licensing factor MCM6

DNA replication licensing factor MCM7

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