SMTL ID : 1li1.1

The 1.9-A crystal structure of the noncollagenous (NC1) domain of human placenta collagen IV shows stabilization via a novel type of covalent Met-Lys cross-link

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-oligomer

Ligands

9 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 5 residues within 4Å: Chain A: Y.185, A.186 Chain D: F.64, N.66 Chain E: Y.189 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:N.66, A:A.186 Water bridges: D:N.72 ACT.2: 6 residues within 4Å: Chain A: F.64, N.66, N.72 Chain B: Y.189 Chain D: Y.185, A.186 4 PLIP interactions: 2 interactions with chain A, 1 interactions with chain D, 1 interactions with chain B Hydrogen bonds: A:N.66, D:A.186, B:Y.189 Water bridges: A:N.72 ACT.3: 7 residues within 4Å: Chain B: Y.185, A.186 Chain D: Y.189 Chain F: Y.64, N.66, Y.72, R.76 7 PLIP interactions: 5 interactions with chain F, 1 interactions with chain D, 1 interactions with chain B Hydrophobic interactions: F:Y.64, F:N.66, F:Y.72 Hydrogen bonds: F:R.76, D:Y.189, B:A.186 Water bridges: F:Y.72 ACT.4: 7 residues within 4Å: Chain A: Y.189 Chain C: Y.64, N.66, Y.72, R.76 Chain E: Y.185, A.186 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain E Hydrophobic interactions: C:Y.64, C:Y.72 Hydrogen bonds: C:Y.64, C:Y.64, C:R.76, E:A.186 Water bridges: C:Y.72 ACT.5: 6 residues within 4Å: Chain C: Y.184, A.185 Chain E: F.64, N.66, N.72 Chain F: Y.188 5 PLIP interactions: 3 interactions with chain E, 1 interactions with chain C, 1 interactions with chain F Hydrophobic interactions: E:F.64, E:N.72 Hydrogen bonds: E:N.66, C:A.185, F:Y.188 ACT.6: 6 residues within 4Å: Chain B: F.64, N.66, N.72 Chain C: Y.188 Chain F: Y.184, A.185 5 PLIP interactions: 2 interactions with chain F, 3 interactions with chain B Hydrophobic interactions: F:Y.184, B:F.64, B:N.72 Hydrogen bonds: F:A.185, B:N.66 ACT.7: 5 residues within 4Å: Chain B: A.212, G.213, E.214, L.215, R.216 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:R.216 Hydrogen bonds: B:G.213, B:E.214, B:L.215, B:R.216 ACT.8: 4 residues within 4Å: Chain D: R.102 Chain E: R.198, M.201, F.202 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain E Salt bridges: D:R.102 Hydrophobic interactions: E:R.198 Water bridges: E:R.198 ACT.9: 4 residues within 4Å: Chain A: R.102 Chain B: R.198, M.201, F.202 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Salt bridges: A:R.102 Hydrophobic interactions: B:R.198 Water bridges: B:R.198, B:R.198

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Than, M.E. et al., The 1.9-A crystal structure of the noncollagenous (NC1) domain of human placenta collagen IV shows stabilization via a novel type of covalent Met-Lys cross-link. Proc.Natl.Acad.Sci.USA (2002)

Release Date

2002-05-22

Peptides

Collagen alpha 1(IV): ABDE
Collagen alpha 2(IV): CF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

D
D

E
E

C
C

F
F

Collagen alpha 1(IV)

Collagen alpha 2(IV)

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