- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- monomer
- Ligands
- 3 x GLY- PRO- HYP- GLY- PRO- HYP: 6-mer peptide(Non-covalent)
- 1 x ZN: ZINC ION(Non-covalent)
- 4 x CA: CALCIUM ION(Non-covalent)
CA.5: 5 residues within 4Å:- Chain A: E.374, G.413, M.417, Y.418, G.419
6 PLIP interactions:4 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:E.374, A:G.413, A:M.417, A:G.419, H2O.2, H2O.4
CA.6: 3 residues within 4Å:- Chain A: D.304, N.349, E.390
5 PLIP interactions:2 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:D.304, A:E.390, H2O.3, H2O.5, H2O.8
CA.7: 3 residues within 4Å:- Chain A: T.451, D.454, S.456
5 PLIP interactions:4 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:T.451, A:D.454, A:S.456, A:S.456, H2O.5
CA.8: 4 residues within 4Å:- Chain A: E.86, N.89, S.90, I.92
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:E.86, A:N.89, A:I.92, H2O.5
- 44 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.9: 8 residues within 4Å:- Chain A: W.153, N.154, A.155, A.158, D.203, T.205, K.206, T.211
Ligand excluded by PLIPEDO.10: 4 residues within 4Å:- Chain A: D.337, H.339, A.378
- Ligands: EDO.11
Ligand excluded by PLIPEDO.11: 4 residues within 4Å:- Chain A: A.336, D.337, H.339
- Ligands: EDO.10
Ligand excluded by PLIPEDO.12: 5 residues within 4Å:- Chain A: Y.64, A.65, G.66, G.68, S.69
Ligand excluded by PLIPEDO.13: 4 residues within 4Å:- Chain A: Q.342, G.381, N.382, I.383
Ligand excluded by PLIPEDO.14: 3 residues within 4Å:- Chain A: V.473, D.474, R.478
Ligand excluded by PLIPEDO.15: 2 residues within 4Å:- Chain A: H.114
- Ligands: EDO.16
Ligand excluded by PLIPEDO.16: 5 residues within 4Å:- Chain A: Y.64, N.112, A.113, H.114
- Ligands: EDO.15
Ligand excluded by PLIPEDO.17: 5 residues within 4Å:- Chain A: D.351, Y.354, T.366, N.368, Y.389
Ligand excluded by PLIPEDO.18: 4 residues within 4Å:- Chain A: E.189, Q.190, T.191, A.192
Ligand excluded by PLIPEDO.19: 3 residues within 4Å:- Chain A: R.490, H.491, D.493
Ligand excluded by PLIPEDO.20: 2 residues within 4Å:- Chain A: F.292, I.293
Ligand excluded by PLIPEDO.21: 3 residues within 4Å:- Chain A: E.159, W.161, R.164
Ligand excluded by PLIPEDO.22: 4 residues within 4Å:- Chain A: R.220, A.256, L.259, G.260
Ligand excluded by PLIPEDO.23: 5 residues within 4Å:- Chain A: F.245, Y.248, P.249, S.250, W.258
Ligand excluded by PLIPEDO.24: 4 residues within 4Å:- Chain A: D.263, S.266, G.359, P.360
Ligand excluded by PLIPEDO.25: 7 residues within 4Å:- Chain A: N.402, L.403, E.404, H.405, E.437, S.440, R.441
Ligand excluded by PLIPEDO.26: 5 residues within 4Å:- Chain A: L.373, E.374, G.375, F.421
- Ligands: GLY-PRO-HYP-GLY-PRO-HYP.1
Ligand excluded by PLIPEDO.27: 7 residues within 4Å:- Chain A: Y.372, H.409, D.412, G.413, S.432
- Ligands: GLY-PRO-HYP-GLY-PRO-HYP.1, EDO.29
Ligand excluded by PLIPEDO.28: 6 residues within 4Å:- Chain A: L.427, V.429, T.467, Y.468, D.469
- Ligands: EDO.32
Ligand excluded by PLIPEDO.29: 5 residues within 4Å:- Chain A: F.421, P.424, V.428, S.432
- Ligands: EDO.27
Ligand excluded by PLIPEDO.30: 5 residues within 4Å:- Chain A: D.465, T.466, T.467, D.469, R.475
Ligand excluded by PLIPEDO.31: 4 residues within 4Å:- Chain A: T.291, K.299, R.301, Q.344
Ligand excluded by PLIPEDO.32: 5 residues within 4Å:- Chain A: G.422, P.424, E.426, L.427
- Ligands: EDO.28
Ligand excluded by PLIPEDO.33: 4 residues within 4Å:- Chain A: G.252, D.253, D.255, K.356
Ligand excluded by PLIPEDO.34: 4 residues within 4Å:- Chain A: V.110, Y.116, V.145
- Ligands: EDO.40
Ligand excluded by PLIPEDO.35: 5 residues within 4Å:- Chain A: A.461, F.464, D.465, K.511, S.515
Ligand excluded by PLIPEDO.36: 3 residues within 4Å:- Chain A: Y.51, P.100, A.101
Ligand excluded by PLIPEDO.37: 4 residues within 4Å:- Chain A: D.144, T.147, Q.148, A.192
Ligand excluded by PLIPEDO.38: 2 residues within 4Å:- Chain A: Y.116, D.117
Ligand excluded by PLIPEDO.39: 1 residues within 4Å:- Chain A: E.86
Ligand excluded by PLIPEDO.40: 6 residues within 4Å:- Chain A: V.110, N.112, A.113, F.115, Y.116
- Ligands: EDO.34
Ligand excluded by PLIPEDO.41: 6 residues within 4Å:- Chain A: D.134, T.172, F.175, G.176
- Ligands: GLY-PRO-HYP-GLY-PRO-HYP.2, GLY-PRO-HYP-GLY-PRO-HYP.2
Ligand excluded by PLIPEDO.42: 5 residues within 4Å:- Chain A: Q.178, R.224, R.227, Y.228, Y.268
Ligand excluded by PLIPEDO.43: 5 residues within 4Å:- Chain A: Q.309, E.390, A.391, S.392, F.399
Ligand excluded by PLIPEDO.44: 6 residues within 4Å:- Chain A: H.325, T.326, E.329, T.330, G.331, N.332
Ligand excluded by PLIPEDO.45: 4 residues within 4Å:- Chain A: T.297, T.341, Y.410, R.414
Ligand excluded by PLIPEDO.46: 8 residues within 4Å:- Chain A: T.457, Y.458, T.459, W.479, Q.522, F.525, A.526, T.529
Ligand excluded by PLIPEDO.47: 5 residues within 4Å:- Chain A: D.365, N.367, N.368, F.471
- Ligands: GLY-PRO-HYP-GLY-PRO-HYP.1
Ligand excluded by PLIPEDO.48: 4 residues within 4Å:- Chain A: L.202, D.203, R.204, T.205
Ligand excluded by PLIPEDO.49: 2 residues within 4Å:- Chain A: S.295, E.321
Ligand excluded by PLIPEDO.50: 5 residues within 4Å:- Chain A: R.227, Y.228, T.229, D.230, A.231
Ligand excluded by PLIPEDO.51: 4 residues within 4Å:- Chain A: W.161, R.164, N.165, F.213
Ligand excluded by PLIPEDO.52: 4 residues within 4Å:- Chain A: N.168, F.213, N.217
- Ligands: GLY-PRO-HYP.3
Ligand excluded by PLIP- 1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ueshima, S. et al., Insights into the catalytic mechanism of Grimontia hollisae collagenase through structural and mutational analyses. Febs Lett. (2023)
- Release Date
- 2024-02-07
- Peptides
- Microbial collagenase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- monomer
- Ligands
- 3 x GLY- PRO- HYP- GLY- PRO- HYP: 6-mer peptide(Non-covalent)
- 1 x ZN: ZINC ION(Non-covalent)
- 4 x CA: CALCIUM ION(Non-covalent)
- 44 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ueshima, S. et al., Insights into the catalytic mechanism of Grimontia hollisae collagenase through structural and mutational analyses. Febs Lett. (2023)
- Release Date
- 2024-02-07
- Peptides
- Microbial collagenase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A