- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.10 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x DTN: DITHIONITE(Non-covalent)
- 24 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)(Covalent)
HEM.2: 25 residues within 4Å:- Chain A: I.150, K.154, C.155, C.158, H.159, C.351, E.352, H.355, G.358, G.359, H.360, L.361, L.367
- Chain C: Y.71, R.136, V.137, A.138, L.368, I.369, S.370, N.371, C.372, E.373, R.374
- Ligands: HEM.4
21 PLIP interactions:9 interactions with chain A, 12 interactions with chain C,- Hydrophobic interactions: A:I.150, A:E.352, A:H.355, A:L.361, A:L.361, A:L.367, A:L.367, C:Y.71, C:R.136, C:A.138, C:E.373, C:R.374
- Metal complexes: A:H.159, A:H.360
- Hydrogen bonds: C:N.371, C:N.371, C:C.372, C:E.373, C:R.374
- Water bridges: C:I.369, C:I.369
HEM.3: 28 residues within 4Å:- Chain A: Y.135, R.170, V.214, G.215, H.216, R.218, T.219, K.220, F.221, G.222, F.224, R.230, Y.313, C.314, C.317, H.318, C.375, H.376, R.378, C.411, G.412, E.414, C.507, R.525
- Ligands: HEM.5, HEM.6, CU.10, SO3.12
19 PLIP interactions:19 interactions with chain A,- Hydrophobic interactions: A:V.214, A:V.214, A:K.220, A:F.224, A:R.230, A:Y.313, A:Y.313
- Hydrogen bonds: A:H.216, A:T.219, A:T.219, A:K.220, A:G.412, A:R.525
- Salt bridges: A:H.216, A:H.376, A:R.525
- pi-Cation interactions: A:K.220, A:R.378
- Metal complexes: A:H.318
HEM.4: 22 residues within 4Å:- Chain A: C.155, H.159, Q.162, Y.163, W.166, H.171, V.349, S.350, C.351, C.354, H.355, I.369, S.370, A.431, P.436, H.437, K.471
- Chain C: N.371, E.373, Y.424
- Ligands: HEM.2, HEM.5
15 PLIP interactions:10 interactions with chain A, 5 interactions with chain C,- Hydrophobic interactions: A:H.159, A:W.166, A:W.166, A:I.369, A:P.436
- Hydrogen bonds: A:Q.162, C:Y.424
- Salt bridges: A:H.437, A:K.471, C:R.429
- Metal complexes: A:H.355, A:H.437
- Water bridges: C:N.371, C:R.429, C:R.429
HEM.5: 26 residues within 4Å:- Chain A: R.170, H.171, T.174, G.215, H.216, V.316, C.317, H.318, V.349, C.354, S.370, C.372, R.374, C.375, H.376, C.430, H.434, P.436, V.439, T.440, S.466, P.468, R.525
- Ligands: HEM.3, HEM.4, HEM.6
14 PLIP interactions:14 interactions with chain A,- Hydrophobic interactions: A:V.349, A:P.436, A:V.439, A:V.439, A:V.439, A:P.468
- Hydrogen bonds: A:T.174, A:S.466, A:R.525
- Salt bridges: A:R.170, A:H.216, A:R.525
- Metal complexes: A:H.171, A:H.376
HEM.6: 23 residues within 4Å:- Chain A: R.218, H.376, E.414, G.415, H.423, M.428, R.429, C.430, C.433, H.434, S.466, K.467, P.468, L.470, M.501, F.503, R.525, R.526, H.528, W.530
- Ligands: HEM.3, HEM.5, HEM.7
21 PLIP interactions:21 interactions with chain A,- Hydrophobic interactions: A:H.376, A:E.414, A:E.414, A:P.468, A:L.470, A:R.526, A:W.530
- Hydrogen bonds: A:S.466
- Water bridges: A:S.466, A:S.466, A:S.466, A:K.467, A:K.467, A:K.467, A:R.526
- Salt bridges: A:R.218, A:K.467, A:R.525, A:R.526
- Metal complexes: A:H.434, A:H.528
HEM.7: 16 residues within 4Å:- Chain A: A.422, H.423, K.426, M.428, K.472, E.473, C.474, C.477, H.478, H.500, M.501, W.530, K.531, R.565
- Ligands: HEM.6, HEM.8
12 PLIP interactions:12 interactions with chain A,- Hydrophobic interactions: A:A.422, A:K.472, A:H.500
- Water bridges: A:K.531, A:K.531, A:E.563, A:R.565
- Salt bridges: A:K.426, A:K.531, A:R.565
- Metal complexes: A:H.423, A:H.478
HEM.8: 23 residues within 4Å:- Chain A: C.474, T.475, H.478, Q.481, A.482, Q.485, H.491, N.494, S.495, C.496, C.499, H.500, I.532, V.534, Q.618, D.669, G.670, S.671, W.672, M.674, H.675
- Ligands: HEM.7, HEM.9
16 PLIP interactions:16 interactions with chain A,- Hydrophobic interactions: A:T.475, A:H.478, A:Q.481, A:Q.481, A:Q.485, A:N.494, A:I.532
- Hydrogen bonds: A:Q.618
- Water bridges: A:K.531, A:K.531, A:K.531, A:I.532
- Salt bridges: A:K.531, A:K.531
- Metal complexes: A:H.500, A:H.675
HEM.9: 19 residues within 4Å:- Chain A: T.490, H.491, N.494, S.498, C.499, A.573, C.574, R.576, A.587, C.590, H.591, L.598, L.602, F.604, E.613, V.614, W.617, M.674
- Ligands: HEM.8
9 PLIP interactions:9 interactions with chain A,- Hydrophobic interactions: A:A.587, A:L.598, A:L.602, A:F.604, A:V.614, A:W.617, A:W.617
- Metal complexes: A:H.491, A:H.591
HEM.14: 25 residues within 4Å:- Chain A: Y.71, R.136, V.137, A.138, L.368, I.369, S.370, N.371, C.372, E.373, R.374
- Chain B: I.150, K.154, C.155, C.158, H.159, C.351, E.352, H.355, G.358, G.359, H.360, L.361, L.367
- Ligands: HEM.16
21 PLIP interactions:12 interactions with chain A, 9 interactions with chain B,- Hydrophobic interactions: A:Y.71, A:R.136, A:A.138, A:E.373, A:R.374, B:I.150, B:E.352, B:H.355, B:L.361, B:L.361, B:L.367, B:L.367
- Hydrogen bonds: A:N.371, A:N.371, A:C.372, A:E.373, A:R.374
- Water bridges: A:I.369, A:I.369
- Metal complexes: B:H.159, B:H.360
HEM.15: 28 residues within 4Å:- Chain B: Y.135, R.170, V.214, G.215, H.216, R.218, T.219, K.220, F.221, G.222, F.224, R.230, Y.313, C.314, C.317, H.318, C.375, H.376, R.378, C.411, G.412, E.414, C.507, R.525
- Ligands: HEM.17, HEM.18, CU.22, SO3.24
19 PLIP interactions:19 interactions with chain B,- Hydrophobic interactions: B:V.214, B:V.214, B:K.220, B:F.224, B:R.230, B:Y.313, B:Y.313
- Hydrogen bonds: B:H.216, B:T.219, B:T.219, B:K.220, B:G.412, B:R.525
- Salt bridges: B:H.216, B:H.376, B:R.525
- pi-Cation interactions: B:K.220, B:R.378
- Metal complexes: B:H.318
HEM.16: 22 residues within 4Å:- Chain A: N.371, E.373, Y.424
- Chain B: C.155, H.159, Q.162, Y.163, W.166, H.171, V.349, S.350, C.351, C.354, H.355, I.369, S.370, A.431, P.436, H.437, K.471
- Ligands: HEM.14, HEM.17
15 PLIP interactions:5 interactions with chain A, 10 interactions with chain B,- Hydrogen bonds: A:Y.424, B:Q.162
- Water bridges: A:N.371, A:R.429, A:R.429
- Salt bridges: A:R.429, B:H.437, B:K.471
- Hydrophobic interactions: B:H.159, B:W.166, B:W.166, B:I.369, B:P.436
- Metal complexes: B:H.355, B:H.437
HEM.17: 26 residues within 4Å:- Chain B: R.170, H.171, T.174, G.215, H.216, V.316, C.317, H.318, V.349, C.354, S.370, C.372, R.374, C.375, H.376, C.430, H.434, P.436, V.439, T.440, S.466, P.468, R.525
- Ligands: HEM.15, HEM.16, HEM.18
14 PLIP interactions:14 interactions with chain B,- Hydrophobic interactions: B:V.349, B:P.436, B:V.439, B:V.439, B:V.439, B:P.468
- Hydrogen bonds: B:T.174, B:S.466, B:R.525
- Salt bridges: B:R.170, B:H.216, B:R.525
- Metal complexes: B:H.171, B:H.376
HEM.18: 23 residues within 4Å:- Chain B: R.218, H.376, E.414, G.415, H.423, M.428, R.429, C.430, C.433, H.434, S.466, K.467, P.468, L.470, M.501, F.503, R.525, R.526, H.528, W.530
- Ligands: HEM.15, HEM.17, HEM.19
21 PLIP interactions:21 interactions with chain B,- Hydrophobic interactions: B:H.376, B:E.414, B:E.414, B:P.468, B:L.470, B:R.526, B:W.530
- Hydrogen bonds: B:S.466
- Water bridges: B:S.466, B:S.466, B:S.466, B:K.467, B:K.467, B:K.467, B:R.526
- Salt bridges: B:R.218, B:K.467, B:R.525, B:R.526
- Metal complexes: B:H.434, B:H.528
HEM.19: 16 residues within 4Å:- Chain B: A.422, H.423, K.426, M.428, K.472, E.473, C.474, C.477, H.478, H.500, M.501, W.530, K.531, R.565
- Ligands: HEM.18, HEM.20
12 PLIP interactions:12 interactions with chain B,- Hydrophobic interactions: B:A.422, B:K.472, B:H.500
- Water bridges: B:K.531, B:K.531, B:E.563, B:R.565
- Salt bridges: B:K.426, B:K.531, B:R.565
- Metal complexes: B:H.423, B:H.478
HEM.20: 23 residues within 4Å:- Chain B: C.474, T.475, H.478, Q.481, A.482, Q.485, H.491, N.494, S.495, C.496, C.499, H.500, I.532, V.534, Q.618, D.669, G.670, S.671, W.672, M.674, H.675
- Ligands: HEM.19, HEM.21
16 PLIP interactions:16 interactions with chain B,- Hydrophobic interactions: B:T.475, B:H.478, B:Q.481, B:Q.481, B:Q.485, B:N.494, B:I.532
- Hydrogen bonds: B:Q.618
- Water bridges: B:K.531, B:K.531, B:K.531, B:I.532
- Salt bridges: B:K.531, B:K.531
- Metal complexes: B:H.500, B:H.675
HEM.21: 19 residues within 4Å:- Chain B: T.490, H.491, N.494, S.498, C.499, A.573, C.574, R.576, A.587, C.590, H.591, L.598, L.602, F.604, E.613, V.614, W.617, M.674
- Ligands: HEM.20
9 PLIP interactions:9 interactions with chain B,- Hydrophobic interactions: B:A.587, B:L.598, B:L.602, B:F.604, B:V.614, B:W.617, B:W.617
- Metal complexes: B:H.491, B:H.591
HEM.26: 25 residues within 4Å:- Chain B: Y.71, R.136, V.137, A.138, L.368, I.369, S.370, N.371, C.372, E.373, R.374
- Chain C: I.150, K.154, C.155, C.158, H.159, C.351, E.352, H.355, G.358, G.359, H.360, L.361, L.367
- Ligands: HEM.28
21 PLIP interactions:9 interactions with chain C, 12 interactions with chain B,- Hydrophobic interactions: C:I.150, C:E.352, C:H.355, C:L.361, C:L.361, C:L.367, C:L.367, B:Y.71, B:R.136, B:A.138, B:E.373, B:R.374
- Metal complexes: C:H.159, C:H.360
- Hydrogen bonds: B:N.371, B:N.371, B:C.372, B:E.373, B:R.374
- Water bridges: B:I.369, B:I.369
HEM.27: 28 residues within 4Å:- Chain C: Y.135, R.170, V.214, G.215, H.216, R.218, T.219, K.220, F.221, G.222, F.224, R.230, Y.313, C.314, C.317, H.318, C.375, H.376, R.378, C.411, G.412, E.414, C.507, R.525
- Ligands: HEM.29, HEM.30, CU.34, SO3.36
19 PLIP interactions:19 interactions with chain C,- Hydrophobic interactions: C:V.214, C:V.214, C:K.220, C:F.224, C:R.230, C:Y.313, C:Y.313
- Hydrogen bonds: C:H.216, C:T.219, C:T.219, C:K.220, C:G.412, C:R.525
- Salt bridges: C:H.216, C:H.376, C:R.525
- pi-Cation interactions: C:K.220, C:R.378
- Metal complexes: C:H.318
HEM.28: 22 residues within 4Å:- Chain B: N.371, E.373, Y.424
- Chain C: C.155, H.159, Q.162, Y.163, W.166, H.171, V.349, S.350, C.351, C.354, H.355, I.369, S.370, A.431, P.436, H.437, K.471
- Ligands: HEM.26, HEM.29
15 PLIP interactions:10 interactions with chain C, 5 interactions with chain B,- Hydrophobic interactions: C:H.159, C:W.166, C:W.166, C:I.369, C:P.436
- Hydrogen bonds: C:Q.162, B:Y.424
- Salt bridges: C:H.437, C:K.471, B:R.429
- Metal complexes: C:H.355, C:H.437
- Water bridges: B:N.371, B:R.429, B:R.429
HEM.29: 26 residues within 4Å:- Chain C: R.170, H.171, T.174, G.215, H.216, V.316, C.317, H.318, V.349, C.354, S.370, C.372, R.374, C.375, H.376, C.430, H.434, P.436, V.439, T.440, S.466, P.468, R.525
- Ligands: HEM.27, HEM.28, HEM.30
14 PLIP interactions:14 interactions with chain C,- Hydrophobic interactions: C:V.349, C:P.436, C:V.439, C:V.439, C:V.439, C:P.468
- Hydrogen bonds: C:T.174, C:S.466, C:R.525
- Salt bridges: C:R.170, C:H.216, C:R.525
- Metal complexes: C:H.171, C:H.376
HEM.30: 23 residues within 4Å:- Chain C: R.218, H.376, E.414, G.415, H.423, M.428, R.429, C.430, C.433, H.434, S.466, K.467, P.468, L.470, M.501, F.503, R.525, R.526, H.528, W.530
- Ligands: HEM.27, HEM.29, HEM.31
21 PLIP interactions:21 interactions with chain C,- Hydrophobic interactions: C:H.376, C:E.414, C:E.414, C:P.468, C:L.470, C:R.526, C:W.530
- Hydrogen bonds: C:S.466
- Water bridges: C:S.466, C:S.466, C:S.466, C:K.467, C:K.467, C:K.467, C:R.526
- Salt bridges: C:R.218, C:K.467, C:R.525, C:R.526
- Metal complexes: C:H.434, C:H.528
HEM.31: 16 residues within 4Å:- Chain C: A.422, H.423, K.426, M.428, K.472, E.473, C.474, C.477, H.478, H.500, M.501, W.530, K.531, R.565
- Ligands: HEM.30, HEM.32
12 PLIP interactions:12 interactions with chain C,- Hydrophobic interactions: C:A.422, C:K.472, C:H.500
- Water bridges: C:K.531, C:K.531, C:E.563, C:R.565
- Salt bridges: C:K.426, C:K.531, C:R.565
- Metal complexes: C:H.423, C:H.478
HEM.32: 23 residues within 4Å:- Chain C: C.474, T.475, H.478, Q.481, A.482, Q.485, H.491, N.494, S.495, C.496, C.499, H.500, I.532, V.534, Q.618, D.669, G.670, S.671, W.672, M.674, H.675
- Ligands: HEM.31, HEM.33
16 PLIP interactions:16 interactions with chain C,- Hydrophobic interactions: C:T.475, C:H.478, C:Q.481, C:Q.481, C:Q.485, C:N.494, C:I.532
- Hydrogen bonds: C:Q.618
- Water bridges: C:K.531, C:K.531, C:K.531, C:I.532
- Salt bridges: C:K.531, C:K.531
- Metal complexes: C:H.500, C:H.675
HEM.33: 19 residues within 4Å:- Chain C: T.490, H.491, N.494, S.498, C.499, A.573, C.574, R.576, A.587, C.590, H.591, L.598, L.602, F.604, E.613, V.614, W.617, M.674
- Ligands: HEM.32
9 PLIP interactions:9 interactions with chain C,- Hydrophobic interactions: C:A.587, C:L.598, C:L.602, C:F.604, C:V.614, C:W.617, C:W.617
- Metal complexes: C:H.491, C:H.591
- 3 x CU: COPPER (II) ION(Non-covalent)
CU.10: 5 residues within 4Å:- Chain A: K.405, C.411, C.507
- Ligands: HEM.3, SO3.12
2 PLIP interactions:2 interactions with chain A- Metal complexes: A:C.411, A:C.507
CU.22: 5 residues within 4Å:- Chain B: K.405, C.411, C.507
- Ligands: HEM.15, SO3.24
2 PLIP interactions:2 interactions with chain B- Metal complexes: B:C.411, B:C.507
CU.34: 5 residues within 4Å:- Chain C: K.405, C.411, C.507
- Ligands: HEM.27, SO3.36
2 PLIP interactions:2 interactions with chain C- Metal complexes: C:C.411, C:C.507
- 6 x SO3: SULFITE ION(Non-covalent)
SO3.11: 5 residues within 4Å:- Chain A: N.189, Q.203, G.204, T.206, L.239
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:G.204
SO3.12: 9 residues within 4Å:- Chain A: K.220, Y.297, Y.313, R.378, K.405, C.411, C.507
- Ligands: HEM.3, CU.10
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:K.220, A:Y.297, A:R.378, A:R.378, A:K.405, A:K.405
SO3.23: 5 residues within 4Å:- Chain B: N.189, Q.203, G.204, T.206, L.239
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:G.204
SO3.24: 9 residues within 4Å:- Chain B: K.220, Y.297, Y.313, R.378, K.405, C.411, C.507
- Ligands: HEM.15, CU.22
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:K.220, B:Y.313, B:R.378, B:R.378, B:K.405
SO3.35: 5 residues within 4Å:- Chain C: N.189, Q.203, G.204, T.206, L.239
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:G.204
SO3.36: 9 residues within 4Å:- Chain C: K.220, Y.297, Y.313, R.378, K.405, C.411, C.507
- Ligands: HEM.27, CU.34
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:K.220, C:Y.313, C:R.378, C:R.378, C:K.405
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Hermann, B. et al., The octahaem MccA is a haem c-copper sulfite reductase. Nature (2015)
- Release Date
- 2015-02-04
- Peptides
- MccA: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
DB
DC
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.10 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x DTN: DITHIONITE(Non-covalent)
- 24 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)(Covalent)
- 3 x CU: COPPER (II) ION(Non-covalent)
- 6 x SO3: SULFITE ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Hermann, B. et al., The octahaem MccA is a haem c-copper sulfite reductase. Nature (2015)
- Release Date
- 2015-02-04
- Peptides
- MccA: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
DB
DC
D