SMTL ID : 5e7o.6 (5 other biounits)

Crystal structure of the perchlorate reductase PcrAB mutant W461E of PcrA from Azospira suillum PS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-1-1-mer

Ligands

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

SF4.1: 10 residues within 4Å: Chain A: H.32, V.34, C.36, G.38, A.39, C.40, H.42, G.73, C.74, G.77 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:H.32, A:C.36, A:C.40, A:C.74 SF4.8: 10 residues within 4Å: Chain B: C.137, N.138, H.139, C.140, P.143, A.144, C.145, C.180, Y.182, P.185 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.137, B:C.140, B:C.145, B:C.180 SF4.9: 10 residues within 4Å: Chain B: C.21, I.22, G.23, C.24, Q.25, C.27, R.47, C.216, V.217, G.218 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.21, B:C.24, B:C.27, B:C.216 SF4.10: 11 residues within 4Å: Chain B: Y.14, C.31, W.35, R.47, M.136, C.197, G.199, C.200, P.210, A.211, C.212 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.31, B:C.197, B:C.200, B:C.212

1 x MO: MOLYBDENUM ATOM(Non-covalent)

MO.2: 4 residues within 4Å: Chain A: D.170, G.459 Ligands: MGD.3, MD1.4 Ligand excluded by PLIP

1 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: 39 residues within 4Å: Chain A: N.35, K.76, D.170, W.200, G.201, S.202, N.203, Q.206, T.207, R.208, I.228, S.229, P.230, D.231, N.233, P.247, G.248, D.250, G.421, G.422, G.423, W.427, Y.457, I.458, G.459, N.761, S.762, P.763, H.764, S.765, R.766, S.768, V.769, H.770, R.830, H.835, R.882 Ligands: MO.2, MD1.4 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:G.201, A:N.203, A:T.207, A:I.228, A:N.233, A:G.248, A:G.422, A:G.423, A:Y.457, A:N.761, A:H.764, A:H.764, A:S.768, A:S.768, A:H.770, A:R.830, A:R.830, A:R.882 Water bridges: A:D.250, A:D.250, A:S.832 Salt bridges: A:D.250, A:H.764, A:R.882 pi-Stacking: A:H.770

1 x MD1: PHOSPHORIC ACID 4-(2-AMINO-4-OXO-3,4,5,6,-TETRAHYDRO-PTERIDIN-6-YL)-2-HYDROXY-3,4-DIMERCAPTO-BUT-3-EN-YL ESTER GUANYLATE ESTER(Non-covalent)

MD1.4: 34 residues within 4Å: Chain A: L.33, N.35, P.138, Y.168, D.170, Y.536, R.537, G.538, N.539, Q.543, K.545, I.564, N.565, I.566, R.567, D.569, S.581, W.584, K.587, D.615, S.762, H.764, V.769, H.770, S.771, T.772, H.835, C.836, Q.849, C.852, Q.881, R.882 Ligands: MO.2, MGD.3 27 PLIP interactions: 27 interactions with chain A Hydrogen bonds: A:Y.168, A:R.537, A:N.539, A:Q.543, A:K.545, A:I.564, A:N.565, A:D.569, A:S.581, A:K.587, A:K.587, A:S.762, A:S.762, A:S.762, A:H.764, A:V.769, A:S.771, A:T.772, A:Q.849, A:Q.881, A:R.882 Water bridges: A:G.538, A:G.538, A:D.615, A:D.615 Salt bridges: A:D.615, A:H.770

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 7 residues within 4Å: Chain A: W.242, I.243, H.244, V.398, T.399 Chain B: E.268, G.272 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.268, A:T.399 EDO.6: 6 residues within 4Å: Chain A: D.803, N.804, D.805, P.896, S.898 Chain B: P.110 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.804, A:D.805, B:P.110 EDO.11: 7 residues within 4Å: Chain B: G.85, I.86, F.88, T.109, P.110, R.111, S.112 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:I.82, B:I.86, B:R.111, B:S.112 EDO.12: 4 residues within 4Å: Chain A: W.806, A.894 Chain B: R.103, R.105 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:W.806, B:R.103, B:R.105

1 x F3S: FE3-S4 CLUSTER(Non-covalent)

F3S.7: 14 residues within 4Å: Chain B: C.149, P.150, N.151, A.153, I.154, I.165, C.170, K.171, G.172, A.173, Q.174, A.175, C.176, A.194 3 PLIP interactions: 3 interactions with chain B, Metal complexes: B:C.149, B:C.170, B:C.176

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Youngblut, M.D. et al., Perchlorate Reductase Is Distinguished by Active Site Aromatic Gate Residues. J.Biol.Chem. (2016)

Release Date

2016-03-09

Peptides

DMSO reductase family type II enzyme, molybdopterin subunit: A
DMSO reductase family type II enzyme, iron-sulfur subunit: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
K

B
L

DMSO reductase family type II enzyme, molybdopterin subunit

DMSO reductase family type II enzyme, iron-sulfur subunit

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