SMTL ID : 1wd9.1

Calcium bound form of human peptidylarginine deiminase type4 (PAD4)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

10 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: Q.356, E.360, F.414, G.415, L.417, E.418 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.360, A:F.414, A:L.417, A:E.418 CA.2: 6 residues within 4Å: Chain A: N.160, D.162, D.164, D.172, D.183, D.186 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.162, A:D.164, A:D.172, A:D.183, A:D.186 CA.3: 4 residues within 4Å: Chain A: D.162, D.164, D.186, D.395 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.162, A:D.164, A:D.186, A:D.186 CA.4: 5 residues within 4Å: Chain A: E.358, D.376, S.377, R.379, N.380 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.376, A:S.377 CA.5: 3 residues within 4Å: Chain A: D.172, D.175, E.177 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.172, A:D.175, A:E.177 CA.9: 6 residues within 4Å: Chain B: Q.356, E.360, F.414, G.415, L.417, E.418 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.360, B:F.414, B:L.417, B:E.418 CA.10: 6 residues within 4Å: Chain B: N.160, D.162, D.164, D.172, D.183, D.186 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.162, B:D.164, B:D.172, B:D.183, B:D.186 CA.11: 4 residues within 4Å: Chain B: D.162, D.164, D.186, D.395 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.162, B:D.164, B:D.186, B:D.186 CA.12: 5 residues within 4Å: Chain B: E.358, D.376, S.377, R.379, N.380 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.376, B:S.377 CA.13: 3 residues within 4Å: Chain B: D.172, D.175, E.177 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.172, B:D.175, B:E.177

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

SO4.6: 3 residues within 4Å: Chain A: S.409, G.410, R.448 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.410 Salt bridges: A:R.448 SO4.7: 4 residues within 4Å: Chain A: R.502, S.503, K.506, K.622 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.503 Salt bridges: A:R.502, A:K.506, A:K.622 SO4.8: 3 residues within 4Å: Chain A: E.518, K.532, N.535 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.535 SO4.14: 3 residues within 4Å: Chain B: S.409, G.410, R.448 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.410 Salt bridges: B:R.448 SO4.15: 4 residues within 4Å: Chain B: R.502, S.503, K.506, K.622 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.503 Salt bridges: B:R.502, B:K.506, B:K.622 SO4.16: 3 residues within 4Å: Chain B: E.518, K.532, N.535 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.535

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Arita, K. et al., Structural basis for Ca(2+)-induced activation of human PAD4. Nat.Struct.Mol.Biol. (2004)

Release Date

2004-07-13

Peptides

Protein-arginine deiminase type IV: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Protein-arginine deiminase type IV

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