SMTL ID : 1xd9.1

Crystal Structure of the Nitrogenase Fe protein Asp39Asn with MgADP bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 6 residues within 4Å: Chain A: K.15, S.16, N.39, D.43, S.44 Ligands: ADP.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:S.16, A:D.43, A:D.43 MG.4: 5 residues within 4Å: Chain B: K.15, S.16, D.43, S.44 Ligands: ADP.5 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:S.16, B:D.43, B:D.43

1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.2: 10 residues within 4Å: Chain A: C.97, A.98, C.132, G.134, F.135 Chain B: C.97, A.98, C.132, G.134, F.135 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A, Metal complexes: B:C.97, B:C.132, A:C.97, A:C.132

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.3: 18 residues within 4Å: Chain A: K.10, G.11, G.12, I.13, G.14, K.15, S.16, T.17, N.185, V.211, P.212, R.213, D.214, V.217, Q.218, E.221, Y.240 Ligands: MG.1 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:K.10, A:G.12, A:I.13, A:G.14, A:K.15, A:S.16, A:T.17, A:T.17, A:D.43, A:N.185, A:P.212, A:D.214, A:E.221 Salt bridges: A:K.15 ADP.5: 19 residues within 4Å: Chain B: K.10, G.11, G.12, I.13, G.14, K.15, S.16, T.17, N.185, V.211, P.212, R.213, D.214, V.217, Q.218, E.221, Q.236, Y.240 Ligands: MG.4 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:G.12, B:I.13, B:G.14, B:K.15, B:S.16, B:T.17, B:T.17, B:D.43, B:N.185, B:P.212, B:D.214, B:E.221, B:Y.240 Salt bridges: B:K.15

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jang, S.B. et al., Structural and biochemical implications of single amino acid substitutions in the nucleotide-dependent switch regions of the nitrogenase Fe protein from Azotobacter vinelandii. J.Biol.Inorg.Chem. (2004)

Release Date

2005-03-01

Peptides

Nitrogenase iron protein 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nitrogenase iron protein 1

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