SMTL ID : 2odb.2 (3 other biounits)

The crystal structure of human cdc42 in complex with the CRIB domain of human p21-activated kinase 6 (PAK6)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-2-2-mer

Ligands

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 1 residues within 4Å: Chain A: T.4 Ligand excluded by PLIP CL.7: 1 residues within 4Å: Chain C: T.4 Ligand excluded by PLIP

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: T.18, T.36, D.58 Ligands: GCP.5 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.18, A:T.36, H2O.1, H2O.1 MG.8: 4 residues within 4Å: Chain C: T.18, T.36, D.58 Ligands: GCP.11 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:T.18, C:T.36, H2O.2, H2O.2

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

SO4.3: 4 residues within 4Å: Chain A: G.48 Chain B: E.1 Chain D: Q.6, N.7 5 PLIP interactions: 2 interactions with chain D, 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: D:N.7, A:G.48, B:E.1, B:E.1 Water bridges: D:F.8 SO4.4: 3 residues within 4Å: Chain A: K.6, F.57 Chain B: Q.29 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Water bridges: A:N.40, A:N.40 Salt bridges: A:K.6 Hydrogen bonds: B:Q.29 SO4.6: 5 residues within 4Å: Chain B: S.3, A.4 Chain D: S.3, A.4 Ligands: SO4.12 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain D Hydrogen bonds: B:A.4, D:A.4 Water bridges: B:A.4 SO4.9: 4 residues within 4Å: Chain B: Q.6, N.7 Chain C: G.48 Chain D: E.1 4 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D, 2 interactions with chain B Hydrogen bonds: C:G.48, D:E.1, B:N.7 Water bridges: B:F.8 SO4.10: 3 residues within 4Å: Chain C: K.6, F.57 Chain D: Q.29 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain D Water bridges: C:N.40, C:N.40 Salt bridges: C:K.6 Hydrogen bonds: D:Q.29 SO4.12: 5 residues within 4Å: Chain B: S.3, A.4 Chain D: S.3, A.4 Ligands: SO4.6 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain D Hydrogen bonds: B:A.4, D:A.4 Water bridges: D:A.4

2 x GCP: PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER(Non-covalent)

GCP.5: 21 residues within 4Å: Chain A: D.12, G.13, A.14, V.15, G.16, K.17, T.18, C.19, F.29, Y.33, P.35, T.36, T.59, G.61, Q.117, D.119, L.120, S.159, A.160, L.161 Ligands: MG.2 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:V.15, A:G.16, A:K.17, A:K.17, A:T.18, A:C.19, A:T.36, A:T.36, A:T.36, A:G.61, A:Q.117, A:Q.117, A:A.160, A:L.161 Water bridges: A:T.18, A:L.20, A:V.34, A:V.34, A:T.36, A:Q.62 Salt bridges: A:D.119 pi-Stacking: A:F.29, A:F.29 GCP.11: 21 residues within 4Å: Chain C: D.12, G.13, A.14, V.15, G.16, K.17, T.18, C.19, F.29, Y.33, P.35, T.36, T.59, G.61, Q.117, D.119, L.120, S.159, A.160, L.161 Ligands: MG.8 24 PLIP interactions: 24 interactions with chain C Hydrogen bonds: C:V.15, C:G.16, C:K.17, C:K.17, C:T.18, C:C.19, C:Y.33, C:T.36, C:T.36, C:T.36, C:G.61, C:Q.117, C:Q.117, C:A.160, C:L.161 Water bridges: C:T.18, C:L.20, C:V.34, C:V.34, C:T.36, C:Q.62 Salt bridges: C:D.119 pi-Stacking: C:F.29, C:F.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, X. et al., The crystal structure of human cdc42 in complex with the CRIB domain of human p21-activated kinase 6 (PAK6). To be Published

Release Date

2007-01-30

Peptides

Human Cell Division Cycle 42 (CDC42): AC
Serine/threonine-protein kinase PAK 6: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Human Cell Division Cycle 42 (CDC42)

Serine/threonine-protein kinase PAK 6

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