SMTL ID : 6wge.1

Cryo-EM structure of human Cohesin-NIPBL-DNA complex without STAG1

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-mer

Ligands

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 21 residues within 4Å: Chain A: K.13, S.14, P.33, N.34, G.35, G.37, K.38, S.39, N.40, R.57, D.63, L.64, G.67, P.69, C.1210, V.1211 Chain B: R.1110, Q.1114, L.1115, S.1116 Ligands: MG.2 17 PLIP interactions: 14 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:S.14, A:S.14, A:N.34, A:G.35, A:G.37, A:K.38, A:K.38, A:S.39, A:S.39, A:N.40, A:N.40, A:L.64, A:G.67, B:Q.1114, B:S.1116, B:Q.1119 Salt bridges: A:R.57 ANP.3: 18 residues within 4Å: Chain A: K.1120, R.1123, N.1127, S.1129, G.1130, G.1131 Chain B: R.12, N.34, G.35, G.37, K.38, S.39, N.40, A.63, L.65, E.67, Q.141 Ligands: MG.4 16 PLIP interactions: 10 interactions with chain B, 6 interactions with chain A Hydrogen bonds: B:G.35, B:G.37, B:K.38, B:S.39, B:N.40, B:N.40, B:L.65, B:L.65, B:E.67, B:Q.141, A:R.1123, A:R.1123, A:S.1129, A:G.1130, A:G.1131 pi-Cation interactions: A:R.1123

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: S.39, Q.137 Ligands: ANP.1 No protein-ligand interaction detected (PLIP) MG.4: 4 residues within 4Å: Chain A: S.1129 Chain B: S.39, Q.141 Ligands: ANP.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shi, Z. et al., Cryo-EM structure of the human cohesin-NIPBL-DNA complex. Science (2020)

Release Date

2020-05-20

Peptides

Structural maintenance of chromosomes protein 1A: A
Structural maintenance of chromosomes protein 3: B
Double-strand-break repair protein rad21 homolog: C
Nipped-B-like protein: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
E

Structural maintenance of chromosomes protein 1A

Structural maintenance of chromosomes protein 3

Double-strand-break repair protein rad21 homolog

Nipped-B-like protein

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