SMTL ID : 4js0.1

Complex of Cdc42 with the CRIB-PR domain of IRSp53

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.1: 21 residues within 4Å: Chain A: D.11, V.12, A.13, V.14, G.15, K.16, T.17, C.18, F.28, Y.32, P.34, T.35, A.59, G.60, Q.116, D.118, L.119, S.158, A.159, L.160 Ligands: MG.2 26 PLIP interactions: 26 interactions with chain A Hydrogen bonds: A:D.11, A:A.13, A:V.14, A:G.15, A:K.16, A:K.16, A:T.17, A:T.17, A:C.18, A:Y.32, A:T.35, A:T.35, A:G.60, A:Q.116, A:Q.116, A:A.159, A:L.160 Water bridges: A:T.17, A:L.19, A:P.29, A:Y.32, A:V.33, A:Q.61 Salt bridges: A:D.118 pi-Stacking: A:F.28, A:F.28

2 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.2: 4 residues within 4Å: Chain A: K.16, T.17, T.35 Ligands: GNP.1 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.17, A:T.35, H2O.1, H2O.1 MG.3: 2 residues within 4Å: Chain A: T.3, Q.74 No protein-ligand interaction detected (PLIP)

3 x PE4: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL(Non-functional Binders)

PE4.4: 4 residues within 4Å: Chain A: V.85, T.125, K.128, L.129 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.85, A:K.128 PE4.5: 5 residues within 4Å: Chain A: F.90, E.91, K.94, L.145, D.148 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.91, A:K.94, A:E.95 Water bridges: A:K.144 PE4.6: 6 residues within 4Å: Chain A: T.24, T.25, N.26 Chain B: D.10, P.11, P.13 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Water bridges: B:D.10 Hydrogen bonds: A:N.26

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kast, D.J. et al., Mechanism of IRSp53 inhibition and combinatorial activation by Cdc42 and downstream effectors. Nat.Struct.Mol.Biol. (2014)

Release Date

2014-03-05

Peptides

Cell division control protein 42 homolog: A
Brain-specific angiogenesis inhibitor 1-associated protein 2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cell division control protein 42 homolog

Brain-specific angiogenesis inhibitor 1-associated protein 2