- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.70 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 2 x M3R: Methyl phosphonated L-Arginine(Non-covalent)
M3R.3: 20 residues within 4Å:- Chain A: H.64, H.66, H.145, K.185, G.191, V.192, F.193, H.226, H.228, H.246, D.268, N.271, T.272, D.292, I.295, G.296, Q.299, D.318
- Ligands: ZN.1, ZN.2
14 PLIP interactions:14 interactions with chain A- Hydrophobic interactions: A:F.193
- Hydrogen bonds: A:H.145, A:V.192, A:F.193, A:Q.299, A:Q.299, A:Q.299
- Water bridges: A:T.272
- Salt bridges: A:H.145, A:H.226, A:H.228, A:H.246, A:D.268, A:D.292
M3R.22: 20 residues within 4Å:- Chain B: H.64, H.66, H.145, K.185, G.191, V.192, F.193, H.226, H.228, H.246, D.268, N.271, T.272, D.292, I.295, G.296, Q.299, D.318
- Ligands: ZN.20, ZN.21
14 PLIP interactions:14 interactions with chain B- Hydrophobic interactions: B:F.193
- Hydrogen bonds: B:H.145, B:V.192, B:F.193, B:Q.299, B:Q.299, B:Q.299
- Water bridges: B:T.272
- Salt bridges: B:H.145, B:H.226, B:H.228, B:H.246, B:D.268, B:D.292
- 14 x SO4: SULFATE ION(Non-functional Binders)
SO4.4: 3 residues within 4Å:- Chain A: A.230, S.231, R.234
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:S.231
- Water bridges: A:A.230, A:S.231, A:R.234
- Salt bridges: A:R.234
SO4.5: 2 residues within 4Å:- Chain A: R.358
- Ligands: SO4.10
3 PLIP interactions:3 interactions with chain A- Water bridges: A:G.357, A:R.358
- Salt bridges: A:R.358
SO4.6: 2 residues within 4Å:- Chain A: R.304, Y.337
6 PLIP interactions:6 interactions with chain A- Water bridges: A:E.301, A:R.304, A:R.304, A:R.336, A:Y.337
- Salt bridges: A:R.304
SO4.7: 2 residues within 4Å:- Chain A: R.31, Y.370
2 PLIP interactions:2 interactions with chain A- Water bridges: A:G.30
- Salt bridges: A:R.31
SO4.8: 4 residues within 4Å:- Chain A: E.2, K.4, A.398, V.399
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:V.399
- Water bridges: A:K.4, A:K.4
- Salt bridges: A:K.4
SO4.9: 2 residues within 4Å:- Chain A: R.290, R.293
3 PLIP interactions:3 interactions with chain A- Water bridges: A:R.293, A:D.294
- Salt bridges: A:R.293
SO4.10: 4 residues within 4Å:- Chain A: R.358, Y.370
- Ligands: SO4.5, GOL.13
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:Y.370, A:Y.370
- Water bridges: A:R.358
- Salt bridges: A:R.358
SO4.23: 3 residues within 4Å:- Chain B: A.230, S.231, R.234
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:S.231
- Water bridges: B:A.230, B:S.231, B:R.234
- Salt bridges: B:R.234
SO4.24: 2 residues within 4Å:- Chain B: R.358
- Ligands: SO4.29
3 PLIP interactions:3 interactions with chain B- Water bridges: B:G.357, B:R.358
- Salt bridges: B:R.358
SO4.25: 2 residues within 4Å:- Chain B: R.304, Y.337
6 PLIP interactions:6 interactions with chain B- Water bridges: B:E.301, B:R.304, B:R.304, B:R.336, B:Y.337
- Salt bridges: B:R.304
SO4.26: 2 residues within 4Å:- Chain B: R.31, Y.370
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:Y.370
- Water bridges: B:G.30
- Salt bridges: B:R.31
SO4.27: 4 residues within 4Å:- Chain B: E.2, K.4, A.398, V.399
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:V.399
- Water bridges: B:K.4, B:K.4
- Salt bridges: B:K.4
SO4.28: 2 residues within 4Å:- Chain B: R.290, R.293
3 PLIP interactions:3 interactions with chain B- Water bridges: B:R.293, B:D.294
- Salt bridges: B:R.293
SO4.29: 4 residues within 4Å:- Chain B: R.358, Y.370
- Ligands: SO4.24, GOL.32
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:Y.370
- Water bridges: B:R.358
- Salt bridges: B:R.358
- 14 x GOL: GLYCEROL(Non-functional Binders)
GOL.11: 4 residues within 4Å:- Chain A: A.124, G.125, Y.126
- Chain B: K.96
3 PLIP interactions:1 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:A.124, B:K.96, B:K.96
GOL.12: 4 residues within 4Å:- Chain A: R.131, Y.370, K.395, G.396
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:R.131, A:R.131, A:K.395, A:K.395
- Water bridges: A:I.122, A:D.123
GOL.13: 8 residues within 4Å:- Chain A: R.119, D.123, R.131, I.132, V.133, Q.182, R.358
- Ligands: SO4.10
8 PLIP interactions:8 interactions with chain A- Hydrogen bonds: A:D.123, A:I.132, A:Q.182, A:R.358
- Water bridges: A:R.131, A:Q.182, A:R.358, A:R.358
GOL.14: 3 residues within 4Å:- Chain A: V.20, D.21, K.37
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.21, A:D.21, A:D.21, A:K.37
GOL.15: 5 residues within 4Å:- Chain A: P.160, F.161, K.171, A.172, T.175
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:K.171, A:T.175
GOL.16: 3 residues within 4Å:- Chain A: D.68, S.69, W.86
1 PLIP interactions:1 interactions with chain A- Water bridges: A:A.111
GOL.17: 3 residues within 4Å:- Chain A: R.10, G.378, D.379
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.10, A:R.10, A:G.378
GOL.30: 4 residues within 4Å:- Chain A: K.96
- Chain B: A.124, G.125, Y.126
3 PLIP interactions:1 interactions with chain B, 2 interactions with chain A- Hydrogen bonds: B:A.124, A:K.96, A:K.96
GOL.31: 4 residues within 4Å:- Chain B: R.131, Y.370, K.395, G.396
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:R.131, B:R.131, B:K.395, B:K.395
- Water bridges: B:I.122, B:D.123
GOL.32: 8 residues within 4Å:- Chain B: R.119, D.123, R.131, I.132, V.133, Q.182, R.358
- Ligands: SO4.29
8 PLIP interactions:8 interactions with chain B- Hydrogen bonds: B:D.123, B:I.132, B:Q.182, B:R.358
- Water bridges: B:R.131, B:Q.182, B:R.358, B:R.358
GOL.33: 3 residues within 4Å:- Chain B: V.20, D.21, K.37
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:D.21, B:D.21, B:D.21, B:K.37
GOL.34: 5 residues within 4Å:- Chain B: P.160, F.161, K.171, A.172, T.175
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:K.171
GOL.35: 3 residues within 4Å:- Chain B: D.68, S.69, W.86
1 PLIP interactions:1 interactions with chain B- Water bridges: B:A.111
GOL.36: 3 residues within 4Å:- Chain B: R.10, G.378, D.379
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:R.10, B:R.10, B:G.378
- 4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.18: 3 residues within 4Å:- Chain A: E.80, Y.81
- Chain B: E.120
5 PLIP interactions:4 interactions with chain A, 1 interactions with chain B- Water bridges: A:E.80, A:E.80, A:Y.81, A:Y.81
- Hydrogen bonds: B:E.120
PEG.19: 2 residues within 4Å:- Chain A: K.360, R.369
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:K.360, A:R.369, A:R.369
PEG.37: 3 residues within 4Å:- Chain A: E.120
- Chain B: E.80, Y.81
7 PLIP interactions:5 interactions with chain B, 2 interactions with chain A- Water bridges: B:E.80, B:E.80, B:Y.81, B:Y.81, B:Y.81
- Hydrogen bonds: A:E.120, A:E.120
PEG.38: 2 residues within 4Å:- Chain B: K.360, R.369
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:K.360, B:R.369, B:R.369
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Xiang, D.F. et al., Functional Identification and Structure Determination of Two Novel Prolidases from cog1228 in the Amidohydrolase Superfamily. Biochemistry (2010)
- Release Date
- 2010-07-28
- Peptides
- L-Arginine carboxypeptidase Cc2672: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.70 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 2 x M3R: Methyl phosphonated L-Arginine(Non-covalent)
- 14 x SO4: SULFATE ION(Non-functional Binders)
- 14 x GOL: GLYCEROL(Non-functional Binders)
- 4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Xiang, D.F. et al., Functional Identification and Structure Determination of Two Novel Prolidases from cog1228 in the Amidohydrolase Superfamily. Biochemistry (2010)
- Release Date
- 2010-07-28
- Peptides
- L-Arginine carboxypeptidase Cc2672: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A