SMTL ID : 1ehk.1

CRYSTAL STRUCTURE OF THE ABERRANT BA3-CYTOCHROME-C OXIDASE FROM THERMUS THERMOPHILUS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-1-1-1-mer

Ligands

3 x BNG: nonyl beta-D-glucopyranoside(Non-covalent)

BNG.1: 5 residues within 4Å: Chain A: K.19, W.107, L.108, W.111, I.115 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.108, A:W.111, A:W.111, A:I.115 Hydrogen bonds: A:K.19 Water bridges: A:W.107, A:W.107 BNG.2: 10 residues within 4Å: Chain A: H.440, W.441, L.444, L.445, N.446, H.462 Chain B: E.119, G.120 Chain C: V.28, R.32 11 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: A:H.440, A:W.441, A:W.441, A:L.444, A:L.444, A:L.445 Hydrogen bonds: A:H.462, C:R.32, C:R.32 Water bridges: B:G.120 Salt bridges: C:R.32 BNG.3: 7 residues within 4Å: Chain A: K.140, W.143, L.147, W.211, S.212, F.213, G.214 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:W.143, A:W.143, A:W.143, A:L.147, A:F.213, A:F.213, A:F.213 Hydrogen bonds: A:K.140, A:K.140, A:S.212 Water bridges: A:K.140

1 x CU: COPPER (II) ION(Non-covalent)

CU.4: 4 residues within 4Å: Chain A: H.233, H.282, H.283 Ligands: HAS.6 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.233, A:H.282, A:H.283, H2O.4

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.5: 25 residues within 4Å: Chain A: L.32, G.39, P.40, Q.42, A.43, Y.46, Y.65, L.69, H.72, N.76, A.77, L.132, Y.133, F.385, H.386, V.389, A.390, T.394, W.428, M.432, M.435, R.449, R.450, A.451, L.477 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:L.32, A:Q.42, A:Y.46, A:N.76, A:A.77, A:Y.133, A:Y.133, A:F.385, A:F.385, A:V.389, A:V.389, A:A.390, A:W.428, A:L.477, A:L.477 Hydrogen bonds: A:R.450, A:A.451 Water bridges: A:Y.133 Salt bridges: A:R.449, A:R.450 pi-Stacking: A:F.385 Metal complexes: A:H.72, A:H.386

1 x HAS: HEME-AS(Non-covalent)

HAS.6: 38 residues within 4Å: Chain A: Y.133, W.229, V.236, Y.237, W.239, L.240, H.282, H.283, T.302, A.306, S.309, L.310, A.313, V.316, A.317, L.320, W.335, V.350, L.353, L.354, F.356, I.357, G.360, G.363, N.366, A.367, D.372, H.376, V.381, H.384, F.385, Q.388, V.389, R.449, R.450 Chain C: V.10, L.14 Ligands: CU.4 43 PLIP interactions: 40 interactions with chain A, 2 interactions with chain C, 1 Ligand-Water interactions, Hydrophobic interactions: A:W.229, A:V.236, A:V.236, A:V.236, A:W.239, A:W.239, A:L.240, A:T.302, A:L.310, A:A.313, A:V.316, A:A.317, A:L.320, A:W.335, A:V.350, A:L.353, A:L.353, A:L.354, A:F.356, A:I.357, A:N.366, A:A.367, A:V.381, A:V.381, A:F.385, A:F.385, A:Q.388, A:V.389, C:V.10, C:L.14 Hydrogen bonds: A:Y.133, A:Y.237, A:Y.237 Water bridges: A:S.309, A:N.377, A:R.449 Salt bridges: A:H.376, A:R.449, A:R.450 pi-Stacking: A:H.384 pi-Cation interactions: A:H.233, A:H.233 Metal complexes: H2O.4

1 x CUA: DINUCLEAR COPPER ION(Non-covalent)

CUA.7: 6 residues within 4Å: Chain B: H.114, C.149, Q.151, C.153, H.157, M.160 7 PLIP interactions: 7 interactions with chain B Metal complexes: B:H.114, B:C.149, B:C.149, B:Q.151, B:C.153, B:C.153, B:H.157

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Soulimane, T. et al., Structure and mechanism of the aberrant ba(3)-cytochrome c oxidase from thermus thermophilus. EMBO J. (2000)

Release Date

2001-02-22

Peptides

BA3-TYPE CYTOCHROME-C OXIDASE: A
BA3-TYPE CYTOCHROME-C OXIDASE: B
BA3-TYPE CYTOCHROME-C OXIDASE: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Membrane

We predict this structure to be a membrane protein.
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BA3-TYPE CYTOCHROME-C OXIDASE

BA3-TYPE CYTOCHROME-C OXIDASE

BA3-TYPE CYTOCHROME-C OXIDASE

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