SMTL ID : 2nap.1

DISSIMILATORY NITRATE REDUCTASE (NAP) FROM DESULFOVIBRIO DESULFURICANS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

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

SF4.1: 12 residues within 4Å: Chain A: C.13, Y.15, C.16, T.18, G.19, C.20, L.46, C.47, K.49, G.50, P.182, V.183 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.13, A:C.16, A:C.20, A:C.47

1 x MO: MOLYBDENUM ATOM(Non-covalent)

MO.2: 3 residues within 4Å: Chain A: C.140 Ligands: MGD.3, MGD.4 Ligand excluded by PLIP

2 x MGD: 2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINE DINUCLEOTIDE(Non-covalent)

MGD.3: 35 residues within 4Å: Chain A: R.14, Q.111, N.136, L.139, C.140, M.308, Q.312, Q.346, E.416, T.417, N.418, T.422, I.443, E.444, A.445, F.446, A.449, P.461, A.462, F.463, R.467, S.615, R.617, W.622, H.623, T.624, T.626, M.627, F.689, N.697, F.700, Y.713, K.714 Ligands: MO.2, MGD.4 35 PLIP interactions: 35 interactions with chain A Hydrogen bonds: A:R.14, A:Q.111, A:N.136, A:Q.312, A:E.416, A:N.418, A:N.418, A:T.422, A:I.443, A:A.445, A:F.446, A:W.464, A:S.615, A:S.615, A:R.617, A:W.622, A:T.624, A:T.626, A:T.626, A:N.697, A:N.697, A:K.714 Water bridges: A:T.417, A:T.422, A:R.467, A:R.467, A:R.467, A:A.625 Salt bridges: A:E.416, A:E.444, A:H.623, A:H.623 pi-Stacking: A:F.689, A:Y.713 pi-Cation interactions: A:F.689 MGD.4: 37 residues within 4Å: Chain A: C.16, K.49, C.140, I.173, G.174, S.175, N.176, E.179, A.180, H.181, D.204, P.205, R.206, T.208, F.220, P.222, G.223, D.225, C.307, M.308, G.309, I.310, R.313, G.345, Q.346, T.614, M.616, R.617, V.618, I.619, H.621, W.622, H.623, K.714, I.715 Ligands: MO.2, MGD.3 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:N.176, A:A.180, A:R.206, A:G.223, A:M.308, A:G.309, A:R.617, A:R.617, A:H.621, A:H.621, A:H.623, A:H.623 Water bridges: A:K.49, A:K.49, A:N.176, A:V.618 Salt bridges: A:D.225, A:R.617, A:R.617, A:K.714

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.5: 10 residues within 4Å: Chain A: R.138, A.142, V.145, G.146, V.149, T.150, V.317, H.361, V.707, S.708 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.138 Salt bridges: A:H.361

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dias, J.M. et al., Crystal structure of the first dissimilatory nitrate reductase at 1.9 A solved by MAD methods. Structure Fold.Des. (1999)

Release Date

1999-09-19

Peptides

PROTEIN (PERIPLASMIC NITRATE REDUCTASE): A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PROTEIN (PERIPLASMIC NITRATE REDUCTASE)

Related Entries With Identical Sequence