SMTL ID : 3hsh.3 (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-24-mer

Ligands

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

SO4.1: 10 residues within 4Å: Chain A: E.23, R.38, V.39, Q.40, N.41 Chain T: E.23, R.38, V.39, Q.40, N.41 Ligand excluded by PLIP SO4.2: 2 residues within 4Å: Chain A: R.11, L.15 Ligand excluded by PLIP SO4.3: 5 residues within 4Å: Chain A: Q.17, E.20 Chain U: W.8, A.9, A.13 Ligand excluded by PLIP SO4.4: 2 residues within 4Å: Chain A: P.55, R.56 Ligand excluded by PLIP SO4.5: 2 residues within 4Å: Chain A: K.45 Chain B: E.49 Ligand excluded by PLIP SO4.8: 1 residues within 4Å: Chain B: R.51 Ligand excluded by PLIP SO4.9: 3 residues within 4Å: Chain B: R.11, Q.32, E.34 Ligand excluded by PLIP SO4.10: 5 residues within 4Å: Chain B: W.8, A.9, A.13 Chain T: Q.17, E.20 Ligand excluded by PLIP SO4.15: 10 residues within 4Å: Chain C: E.23, R.38, V.39, Q.40, N.41 Chain D: E.23, R.38, V.39, Q.40, N.41 Ligand excluded by PLIP SO4.16: 2 residues within 4Å: Chain C: R.11, Q.32 Ligand excluded by PLIP SO4.18: 5 residues within 4Å: Chain A: W.8, A.9, A.13 Chain D: Q.17, E.20 Ligand excluded by PLIP SO4.21: 10 residues within 4Å: Chain F: E.23, R.38, V.39, Q.40, N.41 Chain Q: E.23, R.38, V.39, Q.40, N.41 Ligand excluded by PLIP SO4.22: 4 residues within 4Å: Chain C: Q.17, E.20 Chain F: W.8, A.9 Ligand excluded by PLIP SO4.23: 10 residues within 4Å: Chain G: E.23, R.38, V.39, Q.40, N.41 Chain N: E.23, R.38, V.39, Q.40, N.41 Ligand excluded by PLIP SO4.24: 2 residues within 4Å: Chain G: R.11, L.15 Ligand excluded by PLIP SO4.25: 5 residues within 4Å: Chain G: Q.17, E.20 Chain O: W.8, A.9, A.13 Ligand excluded by PLIP SO4.26: 2 residues within 4Å: Chain G: P.55, R.56 Ligand excluded by PLIP SO4.27: 2 residues within 4Å: Chain G: K.45 Chain H: E.49 Ligand excluded by PLIP SO4.30: 1 residues within 4Å: Chain H: R.51 Ligand excluded by PLIP SO4.31: 3 residues within 4Å: Chain H: R.11, Q.32, E.34 Ligand excluded by PLIP SO4.32: 5 residues within 4Å: Chain H: W.8, A.9, A.13 Chain N: Q.17, E.20 Ligand excluded by PLIP SO4.37: 10 residues within 4Å: Chain I: E.23, R.38, V.39, Q.40, N.41 Chain J: E.23, R.38, V.39, Q.40, N.41 Ligand excluded by PLIP SO4.38: 2 residues within 4Å: Chain I: R.11, Q.32 Ligand excluded by PLIP SO4.40: 5 residues within 4Å: Chain G: W.8, A.9, A.13 Chain J: Q.17, E.20 Ligand excluded by PLIP SO4.43: 10 residues within 4Å: Chain L: E.23, R.38, V.39, Q.40, N.41 Chain W: E.23, R.38, V.39, Q.40, N.41 Ligand excluded by PLIP SO4.44: 4 residues within 4Å: Chain I: Q.17, E.20 Chain L: W.8, A.9 Ligand excluded by PLIP SO4.45: 10 residues within 4Å: Chain B: E.23, R.38, V.39, Q.40, N.41 Chain M: E.23, R.38, V.39, Q.40, N.41 Ligand excluded by PLIP SO4.46: 2 residues within 4Å: Chain M: R.11, L.15 Ligand excluded by PLIP SO4.47: 5 residues within 4Å: Chain C: W.8, A.9, A.13 Chain M: Q.17, E.20 Ligand excluded by PLIP SO4.48: 2 residues within 4Å: Chain M: P.55, R.56 Ligand excluded by PLIP SO4.49: 2 residues within 4Å: Chain M: K.45 Chain N: E.49 Ligand excluded by PLIP SO4.52: 1 residues within 4Å: Chain N: R.51 Ligand excluded by PLIP SO4.53: 3 residues within 4Å: Chain N: R.11, Q.32, E.34 Ligand excluded by PLIP SO4.54: 5 residues within 4Å: Chain B: Q.17, E.20 Chain N: W.8, A.9, A.13 Ligand excluded by PLIP SO4.59: 10 residues within 4Å: Chain O: E.23, R.38, V.39, Q.40, N.41 Chain P: E.23, R.38, V.39, Q.40, N.41 Ligand excluded by PLIP SO4.60: 2 residues within 4Å: Chain O: R.11, Q.32 Ligand excluded by PLIP SO4.62: 5 residues within 4Å: Chain M: W.8, A.9, A.13 Chain P: Q.17, E.20 Ligand excluded by PLIP SO4.65: 10 residues within 4Å: Chain K: E.23, R.38, V.39, Q.40, N.41 Chain R: E.23, R.38, V.39, Q.40, N.41 Ligand excluded by PLIP SO4.66: 4 residues within 4Å: Chain O: Q.17, E.20 Chain R: W.8, A.9 Ligand excluded by PLIP SO4.67: 10 residues within 4Å: Chain H: E.23, R.38, V.39, Q.40, N.41 Chain S: E.23, R.38, V.39, Q.40, N.41 Ligand excluded by PLIP SO4.68: 2 residues within 4Å: Chain S: R.11, L.15 Ligand excluded by PLIP SO4.69: 5 residues within 4Å: Chain I: W.8, A.9, A.13 Chain S: Q.17, E.20 Ligand excluded by PLIP SO4.70: 2 residues within 4Å: Chain S: P.55, R.56 Ligand excluded by PLIP SO4.71: 2 residues within 4Å: Chain S: K.45 Chain T: E.49 Ligand excluded by PLIP SO4.74: 1 residues within 4Å: Chain T: R.51 Ligand excluded by PLIP SO4.75: 3 residues within 4Å: Chain T: R.11, Q.32, E.34 Ligand excluded by PLIP SO4.76: 5 residues within 4Å: Chain H: Q.17, E.20 Chain T: W.8, A.9, A.13 Ligand excluded by PLIP SO4.81: 10 residues within 4Å: Chain U: E.23, R.38, V.39, Q.40, N.41 Chain V: E.23, R.38, V.39, Q.40, N.41 Ligand excluded by PLIP SO4.82: 2 residues within 4Å: Chain U: R.11, Q.32 Ligand excluded by PLIP SO4.84: 5 residues within 4Å: Chain S: W.8, A.9, A.13 Chain V: Q.17, E.20 Ligand excluded by PLIP SO4.87: 10 residues within 4Å: Chain E: E.23, R.38, V.39, Q.40, N.41 Chain X: E.23, R.38, V.39, Q.40, N.41 Ligand excluded by PLIP SO4.88: 4 residues within 4Å: Chain U: Q.17, E.20 Chain X: W.8, A.9 Ligand excluded by PLIP

36 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 Ligand excluded by PLIP GOL.7: 4 residues within 4Å: Chain A: N.41 Chain T: Q.40, N.41 Chain U: R.51 Ligand excluded by PLIP GOL.11: 6 residues within 4Å: Chain B: E.31 Chain T: L.15, G.16, H.19 Chain U: P.55, R.56 Ligand excluded by PLIP GOL.12: 3 residues within 4Å: Chain B: E.34, K.45 Chain C: E.49 Ligand excluded by PLIP GOL.13: 1 residues within 4Å: Chain B: R.56 Ligand excluded by PLIP GOL.14: 3 residues within 4Å: Chain A: Q.47 Chain B: E.49, A.50 Ligand excluded by PLIP GOL.17: 3 residues within 4Å: Chain A: A.50, R.51 Chain C: R.44 Ligand excluded by PLIP GOL.19: 3 residues within 4Å: Chain D: R.11, Q.12, L.15 Ligand excluded by PLIP GOL.20: 4 residues within 4Å: Chain D: R.11, E.34, Y.36, K.45 Ligand excluded by PLIP GOL.28: 6 residues within 4Å: Chain G: R.11, E.34, Y.36, F.43, K.45 Chain H: T.52 Ligand excluded by PLIP GOL.29: 4 residues within 4Å: Chain G: N.41 Chain N: Q.40, N.41 Chain O: R.51 Ligand excluded by PLIP GOL.33: 6 residues within 4Å: Chain H: E.31 Chain N: L.15, G.16, H.19 Chain O: P.55, R.56 Ligand excluded by PLIP GOL.34: 3 residues within 4Å: Chain H: E.34, K.45 Chain I: E.49 Ligand excluded by PLIP GOL.35: 1 residues within 4Å: Chain H: R.56 Ligand excluded by PLIP GOL.36: 3 residues within 4Å: Chain G: Q.47 Chain H: E.49, A.50 Ligand excluded by PLIP GOL.39: 3 residues within 4Å: Chain G: A.50, R.51 Chain I: R.44 Ligand excluded by PLIP GOL.41: 3 residues within 4Å: Chain J: R.11, Q.12, L.15 Ligand excluded by PLIP GOL.42: 4 residues within 4Å: Chain J: R.11, E.34, Y.36, K.45 Ligand excluded by PLIP GOL.50: 6 residues within 4Å: Chain M: R.11, E.34, Y.36, F.43, K.45 Chain N: T.52 Ligand excluded by PLIP GOL.51: 4 residues within 4Å: Chain B: Q.40, N.41 Chain C: R.51 Chain M: N.41 Ligand excluded by PLIP GOL.55: 6 residues within 4Å: Chain B: L.15, G.16, H.19 Chain C: P.55, R.56 Chain N: E.31 Ligand excluded by PLIP GOL.56: 3 residues within 4Å: Chain N: E.34, K.45 Chain O: E.49 Ligand excluded by PLIP GOL.57: 1 residues within 4Å: Chain N: R.56 Ligand excluded by PLIP GOL.58: 3 residues within 4Å: Chain M: Q.47 Chain N: E.49, A.50 Ligand excluded by PLIP GOL.61: 3 residues within 4Å: Chain M: A.50, R.51 Chain O: R.44 Ligand excluded by PLIP GOL.63: 3 residues within 4Å: Chain P: R.11, Q.12, L.15 Ligand excluded by PLIP GOL.64: 4 residues within 4Å: Chain P: R.11, E.34, Y.36, K.45 Ligand excluded by PLIP GOL.72: 6 residues within 4Å: Chain S: R.11, E.34, Y.36, F.43, K.45 Chain T: T.52 Ligand excluded by PLIP GOL.73: 4 residues within 4Å: Chain H: Q.40, N.41 Chain I: R.51 Chain S: N.41 Ligand excluded by PLIP GOL.77: 6 residues within 4Å: Chain H: L.15, G.16, H.19 Chain I: P.55, R.56 Chain T: E.31 Ligand excluded by PLIP GOL.78: 3 residues within 4Å: Chain T: E.34, K.45 Chain U: E.49 Ligand excluded by PLIP GOL.79: 1 residues within 4Å: Chain T: R.56 Ligand excluded by PLIP GOL.80: 3 residues within 4Å: Chain S: Q.47 Chain T: E.49, A.50 Ligand excluded by PLIP GOL.83: 3 residues within 4Å: Chain S: A.50, R.51 Chain U: R.44 Ligand excluded by PLIP GOL.85: 3 residues within 4Å: Chain V: R.11, Q.12, L.15 Ligand excluded by PLIP GOL.86: 4 residues within 4Å: Chain V: R.11, E.34, Y.36, K.45 Ligand excluded by PLIP

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: ABCDEFGHIJKLMNOPQRSTUVWX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
A

H
B

I
C

J
D

K
E

L
F

M
A

N
B

O
C

P
D

Q
E

R
F

S
A

T
B

U
C

V
D

W
E

X
F

Collagen alpha-1(XVIII) chain

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