SMTL ID : 3hsh.1 (2 other biounits)

Crystal structure of human collagen XVIII trimerization domain (Tetragonal crystal form)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-trimer

Ligands

10 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 5 residues within 4Å: Chain A: E.23, R.38, V.39, Q.40, N.41 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.23, A:E.23, A:N.41 Water bridges: A:E.23 Salt bridges: A:R.38 SO4.2: 2 residues within 4Å: Chain A: R.11, L.15 3 PLIP interactions: 3 interactions with chain A Water bridges: A:Q.12, A:Q.12 Salt bridges: A:R.11 SO4.3: 2 residues within 4Å: Chain A: Q.17, E.20 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.17, A:E.20 SO4.4: 2 residues within 4Å: Chain A: P.55, R.56 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.56 Water bridges: A:L.54 Salt bridges: A:R.56 SO4.5: 2 residues within 4Å: Chain A: K.45 Chain B: E.49 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Water bridges: A:K.45, A:K.45 Salt bridges: A:K.45 Hydrogen bonds: B:E.49 SO4.8: 1 residues within 4Å: Chain B: R.51 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Water bridges: B:R.51, B:R.51, B:R.51 Salt bridges: B:R.51 Hydrogen bonds: A:R.44 SO4.9: 3 residues within 4Å: Chain B: R.11, Q.32, E.34 2 PLIP interactions: 2 interactions with chain B Water bridges: B:R.11 Salt bridges: B:R.11 SO4.10: 3 residues within 4Å: Chain B: W.8, A.9, A.13 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:A.9 SO4.15: 5 residues within 4Å: Chain C: E.23, R.38, V.39, Q.40, N.41 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:E.23, C:N.41 Water bridges: C:V.21, C:E.23 Salt bridges: C:R.38 SO4.16: 2 residues within 4Å: Chain C: R.11, Q.32 2 PLIP interactions: 2 interactions with chain C Water bridges: C:R.11 Salt bridges: C:R.11

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 6 residues within 4Å: Chain A: R.11, E.34, Y.36, F.43, K.45 Chain B: T.52 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.11, A:R.11, A:Y.36, A:Y.36, B:T.52 Water bridges: A:K.45 GOL.7: 1 residues within 4Å: Chain A: N.41 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.41 GOL.11: 1 residues within 4Å: Chain B: E.31 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.31 GOL.12: 3 residues within 4Å: Chain B: E.34, K.45 Chain C: E.49 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.34 GOL.13: 1 residues within 4Å: Chain B: R.56 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.56 GOL.14: 3 residues within 4Å: Chain A: Q.47 Chain B: E.49, A.50 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.47, B:A.50 Water bridges: B:A.50 GOL.17: 3 residues within 4Å: Chain A: A.50, R.51 Chain C: R.44 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:R.44, C:R.44, A:R.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boudko, S.P. et al., Crystal structure of human collagen XVIII trimerization domain: A novel collagen trimerization Fold. J.Mol.Biol. (2009)

Release Date

2009-08-11

Peptides

Collagen alpha-1(XVIII) chain: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Collagen alpha-1(XVIII) chain

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