SMTL ID : 3djl.1

Crystal structure of alkylation response protein E. coli AidB

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-tetramer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 2 residues within 4Å: Chain A: Q.333, E.525 No protein-ligand interaction detected (PLIP) CA.3: 2 residues within 4Å: Chain B: Q.333, E.525 No protein-ligand interaction detected (PLIP) CA.5: 2 residues within 4Å: Chain C: Q.333, E.525 No protein-ligand interaction detected (PLIP) CA.7: 2 residues within 4Å: Chain D: Q.333, E.525 No protein-ligand interaction detected (PLIP)

4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.2: 33 residues within 4Å: Chain A: M.182, G.183, M.184, T.185, G.189, G.190, S.191, F.216, F.217, S.218, K.260, N.263, S.268, V.420, I.423, W.424, E.425, G.426, S.427, N.429, I.430, L.433 Chain B: R.324, V.326, F.327, L.331, Q.334, M.337, E.398, V.399, G.401, G.402, Y.405 35 PLIP interactions: 27 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:F.216, A:F.216, A:K.260, A:W.424, B:Y.405 Hydrogen bonds: A:M.182, A:M.184, A:T.185, A:T.185, A:G.190, A:S.191, A:S.191, A:S.218, A:E.425, A:G.426, A:S.427, A:S.427, A:N.429, A:N.429, A:I.430, B:Q.334, B:E.398, B:G.402 Water bridges: A:T.185, A:G.189, A:G.190, A:D.192, A:F.216, A:F.216, A:G.428, A:G.428, B:R.324, B:I.403 Salt bridges: B:R.324, B:R.324 FAD.4: 33 residues within 4Å: Chain A: R.324, V.326, F.327, L.331, Q.334, M.337, E.398, V.399, G.401, G.402, Y.405 Chain B: M.182, G.183, M.184, T.185, G.189, G.190, S.191, F.216, F.217, S.218, K.260, N.263, S.268, V.420, I.423, W.424, E.425, G.426, S.427, N.429, I.430, L.433 35 PLIP interactions: 27 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:F.216, B:F.216, B:K.260, B:W.424, A:Y.405 Hydrogen bonds: B:M.182, B:M.184, B:T.185, B:T.185, B:G.190, B:S.191, B:S.191, B:S.218, B:E.425, B:G.426, B:S.427, B:S.427, B:N.429, B:N.429, B:I.430, A:Q.334, A:E.398, A:G.402 Water bridges: B:T.185, B:G.189, B:G.190, B:D.192, B:F.216, B:F.216, B:G.428, B:G.428, A:R.324, A:I.403 Salt bridges: A:R.324, A:R.324 FAD.6: 33 residues within 4Å: Chain C: M.182, G.183, M.184, T.185, G.189, G.190, S.191, F.216, F.217, S.218, K.260, N.263, S.268, V.420, I.423, W.424, E.425, G.426, S.427, N.429, I.430, L.433 Chain D: R.324, V.326, F.327, L.331, Q.334, M.337, E.398, V.399, G.401, G.402, Y.405 36 PLIP interactions: 27 interactions with chain C, 9 interactions with chain D Hydrophobic interactions: C:F.216, C:F.216, C:K.260, C:W.424, D:Y.405 Hydrogen bonds: C:M.182, C:M.184, C:T.185, C:T.185, C:G.190, C:S.191, C:S.191, C:S.218, C:E.425, C:G.426, C:S.427, C:S.427, C:N.429, C:N.429, C:I.430, D:Q.334, D:E.398, D:G.402 Water bridges: C:T.185, C:G.189, C:G.190, C:D.192, C:F.216, C:F.216, C:G.428, C:G.428, D:R.324, D:R.324, D:I.403 Salt bridges: D:R.324, D:R.324 FAD.8: 33 residues within 4Å: Chain C: R.324, V.326, F.327, L.331, Q.334, M.337, E.398, V.399, G.401, G.402, Y.405 Chain D: M.182, G.183, M.184, T.185, G.189, G.190, S.191, F.216, F.217, S.218, K.260, N.263, S.268, V.420, I.423, W.424, E.425, G.426, S.427, N.429, I.430, L.433 36 PLIP interactions: 27 interactions with chain D, 9 interactions with chain C Hydrophobic interactions: D:F.216, D:F.216, D:K.260, D:W.424, C:Y.405 Hydrogen bonds: D:M.182, D:M.184, D:T.185, D:T.185, D:G.190, D:S.191, D:S.191, D:S.218, D:E.425, D:G.426, D:S.427, D:S.427, D:N.429, D:N.429, D:I.430, C:Q.334, C:E.398, C:G.402 Water bridges: D:T.185, D:G.189, D:G.190, D:D.192, D:F.216, D:F.216, D:G.428, D:G.428, C:R.324, C:R.324, C:I.403 Salt bridges: C:R.324, C:R.324

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bowles, T. et al., Structure and DNA binding of alkylation response protein AidB. Proc.Natl.Acad.Sci.USA (2008)

Release Date

2008-09-23

Peptides

Protein aidB: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Protein aidB

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