SMTL ID : 6xi2.2 (1 other biounit)

Apo form of POMGNT2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.57 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 3 residues within 4Å: Chain A: T.456, N.496, T.498 No protein-ligand interaction detected (PLIP)

11 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 5 residues within 4Å: Chain A: N.116, R.247, R.251, G.299, A.300 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.116, A:A.300 Water bridges: A:G.299 Salt bridges: A:R.247, A:R.251 PO4.3: 4 residues within 4Å: Chain A: K.207, A.208, N.209 Chain B: R.21 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:A.208, A:N.209, A:N.209, B:R.21 PO4.4: 3 residues within 4Å: Chain A: V.100, G.177, R.178 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.178 Salt bridges: A:R.178 PO4.5: 5 residues within 4Å: Chain A: R.33, K.35 Chain B: P.132, G.133, H.136 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:G.133, B:H.136 Water bridges: B:A.135, A:R.33 Salt bridges: A:R.33, A:K.35 PO4.6: 5 residues within 4Å: Chain A: Y.320, P.351, T.354, L.379, R.398 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.379 Salt bridges: A:R.398 PO4.7: 2 residues within 4Å: Chain A: H.326, R.386 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.326, A:R.386 PO4.8: 5 residues within 4Å: Chain A: P.136, G.137, H.140 Chain B: R.29, K.31 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.137 Salt bridges: B:R.29, B:K.31 PO4.9: 2 residues within 4Å: Chain B: R.434, K.461 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.434, B:K.461 PO4.10: 4 residues within 4Å: Chain A: R.25 Chain B: K.203, A.204, N.205 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Salt bridges: A:R.25, B:K.203 Hydrogen bonds: B:A.204, B:N.205, B:N.205 PO4.11: 5 residues within 4Å: Chain B: N.112, R.243, R.247, G.295, A.296 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.112, B:A.296 Water bridges: B:G.295 Salt bridges: B:R.243, B:R.247 PO4.12: 3 residues within 4Å: Chain B: R.139, K.161, Q.162 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.162 Salt bridges: B:R.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, J.Y. et al., Crystal structures of beta-1,4-N-acetylglucosaminyltransferase 2: structural basis for inherited muscular dystrophies. Acta Crystallogr D Struct Biol (2021)

Release Date

2021-04-21

Peptides

Protein O-linked-mannose beta-1,4-N-acetylglucosaminyltransferase 2: A
Protein O-linked-mannose beta-1,4-N-acetylglucosaminyltransferase 2: B
ALA-ALA-ALA-ALA-ALA-ALA-ALA-ALA-ALA-ALA: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
C

C
G

Protein O-linked-mannose beta-1,4-N-acetylglucosaminyltransferase 2

Protein O-linked-mannose beta-1,4-N-acetylglucosaminyltransferase 2

ALA-ALA-ALA-ALA-ALA-ALA-ALA-ALA-ALA-ALA

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