SMTL ID : 1xb1.2 (1 other biounit)

The Structure of the BIR domain of IAP-like protein 2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-12-mer

Ligands

12 x ALA- VAL- PRO- ILE- ALA: Diablo homolog, mitochondrial(Non-covalent)

ALA-VAL-PRO-ILE-ALA.1: 10 residues within 4Å: Chain A: K.49, V.50, G.58, L.59, A.60, N.61, W.62, E.66, Q.71, W.75 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:K.49, A:L.59, A:W.62, A:Q.71, A:W.75 Hydrogen bonds: A:G.58, A:A.60, A:A.60, A:E.66 ALA-VAL-PRO-ILE-ALA.2: 12 residues within 4Å: Chain A: I.22 Chain B: K.49, V.50, G.58, L.59, A.60, N.61, W.62, E.66, Q.71, W.75, Y.76 12 PLIP interactions: 11 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:K.49, B:A.60, B:W.62, B:W.75, B:W.75, A:I.22 Hydrogen bonds: B:G.58, B:A.60, B:A.60, B:E.66 Water bridges: B:G.58, B:K.74 ALA-VAL-PRO-ILE-ALA.3: 10 residues within 4Å: Chain C: K.49, G.58, L.59, A.60, N.61, W.62, E.66, Q.71, W.75, Y.76 11 PLIP interactions: 11 interactions with chain C Hydrophobic interactions: C:K.49, C:A.60, C:W.62, C:W.75 Hydrogen bonds: C:G.58, C:A.60, C:A.60, C:Q.71, C:Y.76 Water bridges: C:Q.71, C:K.74 ALA-VAL-PRO-ILE-ALA.4: 12 residues within 4Å: Chain C: I.22 Chain D: I.44, K.49, G.58, L.59, A.60, N.61, W.62, E.66, Q.71, W.75, Y.76 13 PLIP interactions: 12 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:I.44, D:K.49, D:L.59, D:A.60, D:W.62, D:W.75, C:I.22 Hydrogen bonds: D:G.58, D:A.60, D:A.60, D:Q.71 Water bridges: D:Q.71, D:K.74 ALA-VAL-PRO-ILE-ALA.5: 12 residues within 4Å: Chain D: I.22 Chain E: K.49, V.50, G.58, L.59, A.60, N.61, W.62, E.66, Q.71, W.75, Y.76 10 PLIP interactions: 1 interactions with chain D, 9 interactions with chain E Hydrophobic interactions: D:I.22, E:K.49, E:L.59, E:A.60, E:W.62, E:W.75 Hydrogen bonds: E:G.58, E:A.60, E:A.60, E:Q.71 ALA-VAL-PRO-ILE-ALA.6: 10 residues within 4Å: Chain E: I.22 Chain F: K.49, G.58, L.59, A.60, W.62, E.66, Q.71, W.75, Y.76 8 PLIP interactions: 7 interactions with chain F, 1 interactions with chain E Hydrophobic interactions: F:K.49, F:A.60, F:W.75, E:I.22 Hydrogen bonds: F:G.58, F:A.60, F:A.60, F:E.66 ALA-VAL-PRO-ILE-ALA.30: 10 residues within 4Å: Chain G: K.49, V.50, G.58, L.59, A.60, N.61, W.62, E.66, Q.71, W.75 9 PLIP interactions: 9 interactions with chain G Hydrophobic interactions: G:K.49, G:L.59, G:W.62, G:Q.71, G:W.75 Hydrogen bonds: G:G.58, G:A.60, G:A.60, G:E.66 ALA-VAL-PRO-ILE-ALA.31: 12 residues within 4Å: Chain G: I.22 Chain H: K.49, V.50, G.58, L.59, A.60, N.61, W.62, E.66, Q.71, W.75, Y.76 12 PLIP interactions: 11 interactions with chain H, 1 interactions with chain G Hydrophobic interactions: H:K.49, H:A.60, H:W.62, H:W.75, H:W.75, G:I.22 Hydrogen bonds: H:G.58, H:A.60, H:A.60, H:E.66 Water bridges: H:G.58, H:K.74 ALA-VAL-PRO-ILE-ALA.32: 10 residues within 4Å: Chain I: K.49, G.58, L.59, A.60, N.61, W.62, E.66, Q.71, W.75, Y.76 11 PLIP interactions: 11 interactions with chain I Hydrophobic interactions: I:K.49, I:A.60, I:W.62, I:W.75 Hydrogen bonds: I:G.58, I:A.60, I:A.60, I:E.66, I:Y.76 Water bridges: I:Q.71, I:K.74 ALA-VAL-PRO-ILE-ALA.33: 12 residues within 4Å: Chain I: I.22 Chain J: I.44, K.49, G.58, L.59, A.60, N.61, W.62, E.66, Q.71, W.75, Y.76 13 PLIP interactions: 12 interactions with chain J, 1 interactions with chain I Hydrophobic interactions: J:I.44, J:K.49, J:L.59, J:A.60, J:W.62, J:W.75, I:I.22 Hydrogen bonds: J:G.58, J:A.60, J:A.60, J:E.66 Water bridges: J:Q.71, J:K.74 ALA-VAL-PRO-ILE-ALA.34: 12 residues within 4Å: Chain J: I.22 Chain K: K.49, V.50, G.58, L.59, A.60, N.61, W.62, E.66, Q.71, W.75, Y.76 10 PLIP interactions: 9 interactions with chain K, 1 interactions with chain J Hydrophobic interactions: K:K.49, K:L.59, K:A.60, K:W.62, K:W.75, J:I.22 Hydrogen bonds: K:G.58, K:A.60, K:A.60, K:E.66 ALA-VAL-PRO-ILE-ALA.35: 10 residues within 4Å: Chain K: I.22 Chain L: K.49, G.58, L.59, A.60, W.62, E.66, Q.71, W.75, Y.76 8 PLIP interactions: 7 interactions with chain L, 1 interactions with chain K Hydrophobic interactions: L:K.49, L:A.60, L:W.75, K:I.22 Hydrogen bonds: L:G.58, L:A.60, L:A.60, L:E.66

46 x ZN: ZINC ION(Non-covalent)

ZN.7: 3 residues within 4Å: Chain A: E.85 Chain B: L.104 Chain L: H.88 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.85, A:E.85, H2O.30 ZN.8: 2 residues within 4Å: Chain A: H.54, E.84 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.54, A:E.84, H2O.57 ZN.9: 3 residues within 4Å: Chain A: E.18 Chain B: H.95, T.108 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Metal complexes: B:H.95, B:T.108, A:E.18, A:E.18 ZN.10: 4 residues within 4Å: Chain A: C.52, C.55, H.72, C.79 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.52, A:C.55, A:H.72, A:C.79 ZN.11: 3 residues within 4Å: Chain B: H.54, E.84 Chain K: E.101 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:H.54, B:E.84 ZN.12: 2 residues within 4Å: Chain B: E.18 Chain C: H.95 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain B Metal complexes: C:H.95, B:E.18, B:E.18 ZN.13: 2 residues within 4Å: Chain B: E.85 Chain K: H.88 4 PLIP interactions: 2 interactions with chain B, 1 interactions with chain K, 1 Ligand-Water interactions Metal complexes: B:E.85, B:E.85, K:H.88, H2O.343 ZN.14: 2 residues within 4Å: Chain C: E.85 Chain J: H.88 3 PLIP interactions: 1 interactions with chain J, 2 interactions with chain C Metal complexes: J:H.88, C:E.85, C:E.85 ZN.15: 2 residues within 4Å: Chain C: H.54, E.84 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.54, C:E.84, H2O.70 ZN.16: 2 residues within 4Å: Chain C: E.18 Chain D: H.95 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Metal complexes: C:E.18, D:H.95 ZN.17: 4 residues within 4Å: Chain C: C.52, C.55, H.72, C.79 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.52, C:C.55, C:H.72, C:C.79 ZN.18: 3 residues within 4Å: Chain D: E.85 Chain E: L.104 Chain I: H.88 3 PLIP interactions: 1 interactions with chain I, 2 interactions with chain D Metal complexes: I:H.88, D:E.85, D:E.85 ZN.19: 2 residues within 4Å: Chain D: H.54, E.84 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:H.54, D:E.84 ZN.20: 3 residues within 4Å: Chain D: E.18 Chain E: H.95, T.108 4 PLIP interactions: 2 interactions with chain E, 2 interactions with chain D Metal complexes: E:H.95, E:T.108, D:E.18, D:E.18 ZN.21: 4 residues within 4Å: Chain D: C.52, C.55, H.72, C.79 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.52, D:C.55, D:H.72, D:C.79 ZN.22: 2 residues within 4Å: Chain E: E.85 Chain H: H.88 2 PLIP interactions: 2 interactions with chain E Metal complexes: E:E.85, E:E.85 ZN.23: 3 residues within 4Å: Chain E: H.54, E.84 Chain H: E.101 2 PLIP interactions: 2 interactions with chain E Metal complexes: E:H.54, E:E.84 ZN.24: 2 residues within 4Å: Chain E: E.18 Chain F: H.95 4 PLIP interactions: 2 interactions with chain E, 1 interactions with chain F, 1 Ligand-Water interactions Metal complexes: E:E.18, E:E.18, F:H.95, H2O.140 ZN.25: 4 residues within 4Å: Chain E: C.52, C.55, H.72, C.79 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:C.52, E:C.55, E:H.72, E:C.79 ZN.26: 2 residues within 4Å: Chain F: E.85 Chain G: H.88 3 PLIP interactions: 1 interactions with chain G, 2 interactions with chain F Metal complexes: G:H.88, F:E.85, F:E.85 ZN.27: 3 residues within 4Å: Chain F: N.7, H.54, E.84 2 PLIP interactions: 2 interactions with chain F Metal complexes: F:H.54, F:E.84 ZN.28: 2 residues within 4Å: Chain A: H.95 Chain F: E.18 4 PLIP interactions: 2 interactions with chain F, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: F:E.18, F:E.18, A:H.95, H2O.165 ZN.29: 4 residues within 4Å: Chain F: C.52, C.55, H.72, C.79 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:C.52, F:C.55, F:H.72, F:C.79 ZN.36: 3 residues within 4Å: Chain F: H.88 Chain G: E.85 Chain H: L.104 3 PLIP interactions: 2 interactions with chain G, 1 Ligand-Water interactions Metal complexes: G:E.85, G:E.85, H2O.218 ZN.37: 2 residues within 4Å: Chain G: H.54, E.84 3 PLIP interactions: 2 interactions with chain G, 1 Ligand-Water interactions Metal complexes: G:H.54, G:E.84, H2O.245 ZN.38: 3 residues within 4Å: Chain G: E.18 Chain H: H.95, T.108 4 PLIP interactions: 2 interactions with chain H, 2 interactions with chain G Metal complexes: H:H.95, H:T.108, G:E.18, G:E.18 ZN.39: 4 residues within 4Å: Chain G: C.52, C.55, H.72, C.79 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.52, G:C.55, G:H.72, G:C.79 ZN.40: 3 residues within 4Å: Chain E: E.101 Chain H: H.54, E.84 2 PLIP interactions: 2 interactions with chain H Metal complexes: H:H.54, H:E.84 ZN.41: 2 residues within 4Å: Chain H: E.18 Chain I: H.95 3 PLIP interactions: 1 interactions with chain I, 2 interactions with chain H Metal complexes: I:H.95, H:E.18, H:E.18 ZN.42: 2 residues within 4Å: Chain E: H.88 Chain H: E.85 4 PLIP interactions: 2 interactions with chain H, 1 interactions with chain E, 1 Ligand-Water interactions Metal complexes: H:E.85, H:E.85, E:H.88, H2O.155 ZN.43: 2 residues within 4Å: Chain D: H.88 Chain I: E.85 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain I Metal complexes: D:H.88, I:E.85, I:E.85 ZN.44: 2 residues within 4Å: Chain I: H.54, E.84 3 PLIP interactions: 2 interactions with chain I, 1 Ligand-Water interactions Metal complexes: I:H.54, I:E.84, H2O.258 ZN.45: 2 residues within 4Å: Chain I: E.18 Chain J: H.95 2 PLIP interactions: 1 interactions with chain I, 1 interactions with chain J Metal complexes: I:E.18, J:H.95 ZN.46: 4 residues within 4Å: Chain I: C.52, C.55, H.72, C.79 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.52, I:C.55, I:H.72, I:C.79 ZN.47: 3 residues within 4Å: Chain C: H.88 Chain J: E.85 Chain K: L.104 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain J Metal complexes: C:H.88, J:E.85, J:E.85 ZN.48: 2 residues within 4Å: Chain J: H.54, E.84 2 PLIP interactions: 2 interactions with chain J Metal complexes: J:H.54, J:E.84 ZN.49: 3 residues within 4Å: Chain J: E.18 Chain K: H.95, T.108 4 PLIP interactions: 2 interactions with chain K, 2 interactions with chain J Metal complexes: K:H.95, K:T.108, J:E.18, J:E.18 ZN.50: 4 residues within 4Å: Chain J: C.52, C.55, H.72, C.79 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:C.52, J:C.55, J:H.72, J:C.79 ZN.51: 2 residues within 4Å: Chain B: H.88 Chain K: E.85 2 PLIP interactions: 2 interactions with chain K Metal complexes: K:E.85, K:E.85 ZN.52: 3 residues within 4Å: Chain B: E.101 Chain K: H.54, E.84 2 PLIP interactions: 2 interactions with chain K Metal complexes: K:H.54, K:E.84 ZN.53: 2 residues within 4Å: Chain K: E.18 Chain L: H.95 4 PLIP interactions: 2 interactions with chain K, 1 interactions with chain L, 1 Ligand-Water interactions Metal complexes: K:E.18, K:E.18, L:H.95, H2O.328 ZN.54: 4 residues within 4Å: Chain K: C.52, C.55, H.72, C.79 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.52, K:C.55, K:H.72, K:C.79 ZN.55: 2 residues within 4Å: Chain A: H.88 Chain L: E.85 3 PLIP interactions: 2 interactions with chain L, 1 interactions with chain A Metal complexes: L:E.85, L:E.85, A:H.88 ZN.56: 3 residues within 4Å: Chain L: N.7, H.54, E.84 2 PLIP interactions: 2 interactions with chain L Metal complexes: L:H.54, L:E.84 ZN.57: 2 residues within 4Å: Chain G: H.95 Chain L: E.18 4 PLIP interactions: 2 interactions with chain L, 1 interactions with chain G, 1 Ligand-Water interactions Metal complexes: L:E.18, L:E.18, G:H.95, H2O.353 ZN.58: 4 residues within 4Å: Chain L: C.52, C.55, H.72, C.79 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:C.52, L:C.55, L:H.72, L:C.79

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shin, H. et al., The BIR domain of IAP-like protein 2 is conformationally unstable: implications for caspase inhibition. Biochem.J. (2005)

Release Date

2004-11-02

Peptides

Baculoviral IAP repeat-containing protein 8: ABCDEFGHIJKL

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

Baculoviral IAP repeat-containing protein 8

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