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

GDPALF4 complex of the SRP GTPases Ffh and FtsY

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.39 Å

Oligo State

hetero-1-1-mer

Ligands

2 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.1: 23 residues within 4Å: Chain A: G.108, S.109, G.110, K.111, T.112, T.113, K.117, R.138, Q.144, T.245, K.246, D.248, G.271, V.272, S.273, E.274 Chain B: N.91, G.92, R.122, L.176 Ligands: MG.2, ALF.3, ALF.6 30 PLIP interactions: 26 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:G.108, A:S.109, A:G.110, A:K.111, A:T.112, A:T.113, A:T.113, A:K.117, A:Q.144, A:K.246, A:K.246, A:S.273, B:N.91, B:N.91 Water bridges: A:T.112, A:T.113, A:T.113, A:R.138, A:R.138, A:G.190, A:E.274, A:E.274, B:R.122, B:G.174 Salt bridges: A:K.111, A:R.138, A:R.138, A:D.248, A:E.274 pi-Cation interactions: A:K.246 GDP.4: 21 residues within 4Å: Chain A: Q.107, G.108, R.138 Chain B: G.92, V.93, G.94, K.95, T.96, T.97, K.101, Q.128, T.235, K.236, D.238, G.261, V.262, G.263, E.264 Ligands: ALF.3, MG.5, ALF.6 26 PLIP interactions: 25 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:G.92, B:V.93, B:G.94, B:K.95, B:T.96, B:T.97, B:T.97, B:K.101, B:Q.128, B:Q.128, B:K.236, B:K.236, B:G.263, B:E.264 Water bridges: B:T.96, B:T.97, B:R.122, B:R.122, B:R.122, B:R.122, B:D.171, B:G.174 Salt bridges: B:K.95, B:D.238, B:E.264, A:R.138

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: T.112 Ligands: GDP.1, ALF.3 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.112, H2O.3, H2O.4, H2O.5 MG.5: 6 residues within 4Å: Chain B: T.96, D.119, R.122, D.171 Ligands: GDP.4, ALF.6 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:T.96, H2O.6, H2O.7, H2O.8

2 x ALF: TETRAFLUOROALUMINATE ION(Non-covalent)

ALF.3: 12 residues within 4Å: Chain A: L.106, Q.107, G.108, K.111, D.135, R.138, T.188, A.189, G.190 Ligands: GDP.1, MG.2, GDP.4 No protein-ligand interaction detected (PLIP) ALF.6: 11 residues within 4Å: Chain B: N.91, G.92, K.95, D.119, R.122, T.172, A.173, G.174 Ligands: GDP.1, GDP.4, MG.5 No protein-ligand interaction detected (PLIP)

1 x 5GP: GUANOSINE-5'-MONOPHOSPHATE(Non-covalent)

5GP.7: 7 residues within 4Å: Chain A: E.274, K.275 Chain B: F.121, A.173, G.174, L.182, E.185 11 PLIP interactions: 8 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:G.174, B:G.174, B:E.185, B:E.185, A:E.274 Water bridges: B:G.174 pi-Stacking: B:F.121, B:F.121 pi-Cation interactions: B:F.121 Salt bridges: A:E.274, A:K.275

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Focia, P.J. et al., Structure of a Gdp:Alf(4) Complex of the Srp Gtpases Ffh and Ftsy, and Identification of a Peripheral Nucleotide Interaction Site. J.Mol.Biol. (2006)

Release Date

2006-10-11

Peptides

SIGNAL RECOGNITION PARTICLE PROTEIN: A
CELL DIVISION PROTEIN FTSY: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
F

SIGNAL RECOGNITION PARTICLE PROTEIN

CELL DIVISION PROTEIN FTSY

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