SMTL ID : 1j34.1

Crystal Structure of Mg(II)-and Ca(II)-bound Gla Domain of Factor IX Complexed with Binding Protein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

hetero-1-1-1-mer

Ligands

7 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: S.41, E.43, E.47, E.128 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:S.41, A:E.43, A:E.47, A:E.128, A:E.128 CA.2: 4 residues within 4Å: Chain B: S.41, Q.43, E.47, E.120 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:S.41, B:E.47, B:E.120, H2O.10, H2O.10 CA.4: 4 residues within 4Å: Chain C: E.8, E.27, E.30 Ligands: CA.5 No protein-ligand interaction detected (PLIP) CA.5: 6 residues within 4Å: Chain C: E.8, E.17, E.27, E.30 Ligands: CA.4, CA.6 No protein-ligand interaction detected (PLIP) CA.6: 8 residues within 4Å: Chain C: Y.1, N.2, E.7, E.8, E.17, E.27 Ligands: CA.5, CA.7 No protein-ligand interaction detected (PLIP) CA.7: 5 residues within 4Å: Chain C: Y.1, E.7, E.17, E.21 Ligands: CA.6 3 PLIP interactions: 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:Y.1, H2O.15, H2O.15 CA.8: 1 residues within 4Å: Chain C: E.21 No protein-ligand interaction detected (PLIP)

3 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: E.98 Chain B: Y.98 Chain C: E.26, R.29, E.30 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.98, H2O.17 MG.9: 2 residues within 4Å: Chain C: E.15, E.20 No protein-ligand interaction detected (PLIP) MG.10: 2 residues within 4Å: Chain C: E.36, E.40 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shikamoto, Y. et al., Crystal Structure of Mg2+- and Ca2+-bound Gla Domain of Factor IX Complexed with Binding Protein. J.Biol.Chem. (2003)

Release Date

2003-07-08

Peptides

coagulation factor IX-binding protein A chain: A
coagulation factor IX-binding protein B chain: B
Coagulation factor IX: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

coagulation factor IX-binding protein A chain

coagulation factor IX-binding protein B chain

Coagulation factor IX

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