- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x NA: SODIUM ION(Non-functional Binders)
- 8 x CL: CHLORIDE ION(Non-functional Binders)
CL.2: 6 residues within 4Å:- Chain A: S.20, Q.21, N.22
- Chain B: D.13
- Ligands: ZN.15, ZN.16
Ligand excluded by PLIPCL.13: 2 residues within 4Å:- Chain B: H.121
- Ligands: ZN.17
Ligand excluded by PLIPCL.21: 6 residues within 4Å:- Chain A: D.13
- Chain B: S.20, Q.21, N.22
- Ligands: ZN.3, ZN.4
Ligand excluded by PLIPCL.24: 3 residues within 4Å:- Chain A: N.12
- Chain B: L.78, Q.111
Ligand excluded by PLIPCL.27: 6 residues within 4Å:- Chain C: S.20, Q.21, N.22
- Chain D: D.13
- Ligands: ZN.40, ZN.41
Ligand excluded by PLIPCL.38: 2 residues within 4Å:- Chain D: H.121
- Ligands: ZN.42
Ligand excluded by PLIPCL.46: 6 residues within 4Å:- Chain C: D.13
- Chain D: S.20, Q.21, N.22
- Ligands: ZN.28, ZN.29
Ligand excluded by PLIPCL.49: 3 residues within 4Å:- Chain C: N.12
- Chain D: L.78, Q.111
Ligand excluded by PLIP- 36 x ZN: ZINC ION(Non-covalent)
ZN.3: 3 residues within 4Å:- Chain A: D.13
- Ligands: ZN.4, CL.21
5 PLIP interactions:1 interactions with chain A, 4 Ligand-Water interactions- Metal complexes: A:D.13, H2O.5, H2O.5, H2O.10, H2O.11
ZN.4: 4 residues within 4Å:- Chain A: D.13, K.69
- Ligands: ZN.3, CL.21
4 PLIP interactions:1 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:D.13, H2O.5, H2O.5, H2O.5
ZN.5: 1 residues within 4Å:- Chain A: D.118
5 PLIP interactions:2 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:D.118, A:D.118, H2O.6, H2O.6, H2O.6
ZN.6: 3 residues within 4Å:- Chain A: H.121, E.125
- Chain C: A.102
5 PLIP interactions:2 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:H.121, A:E.125, H2O.5, H2O.6, H2O.6
ZN.7: 1 residues within 4Å:- Chain A: H.121
5 PLIP interactions:1 interactions with chain A, 4 Ligand-Water interactions- Metal complexes: A:H.121, H2O.5, H2O.6, H2O.6, H2O.6
ZN.8: 1 residues within 4Å:- Chain A: H.70
4 PLIP interactions:1 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:H.70, H2O.6, H2O.6, H2O.6
ZN.9: 1 residues within 4Å:- Chain A: E.125
5 PLIP interactions:2 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:E.125, A:E.125, H2O.6, H2O.6, H2O.6
ZN.10: 1 residues within 4Å:- Chain B: N.108
No protein-ligand interaction detected (PLIP)ZN.11: 1 residues within 4Å:- Chain A: D.94
4 PLIP interactions:2 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.94, A:D.94, H2O.6, H2O.6
ZN.14: 1 residues within 4Å:- Chain B: D.27
5 PLIP interactions:2 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:D.27, B:D.27, H2O.11, H2O.11, H2O.11
ZN.15: 3 residues within 4Å:- Chain B: D.13
- Ligands: CL.2, ZN.16
5 PLIP interactions:2 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:D.13, B:D.13, H2O.4, H2O.11, H2O.11
ZN.16: 4 residues within 4Å:- Chain B: D.13, K.69
- Ligands: CL.2, ZN.15
3 PLIP interactions:1 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:D.13, H2O.11, H2O.11
ZN.17: 2 residues within 4Å:- Chain B: H.121
- Ligands: CL.13
2 PLIP interactions:1 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:H.121, H2O.11
ZN.18: 3 residues within 4Å:- Chain B: H.121, E.125
- Chain D: A.102
5 PLIP interactions:2 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:H.121, B:E.125, H2O.9, H2O.11, H2O.11
ZN.19: 2 residues within 4Å:- Chain B: E.125
- Chain D: Q.99
5 PLIP interactions:1 interactions with chain B, 4 Ligand-Water interactions- Metal complexes: B:E.125, H2O.9, H2O.11, H2O.11, H2O.11
ZN.20: 1 residues within 4Å:- Chain B: D.118
5 PLIP interactions:1 interactions with chain B, 4 Ligand-Water interactions- Metal complexes: B:D.118, H2O.11, H2O.11, H2O.11, H2O.11
ZN.23: 1 residues within 4Å:- Chain B: H.70
5 PLIP interactions:1 interactions with chain B, 4 Ligand-Water interactions- Metal complexes: B:H.70, H2O.10, H2O.10, H2O.12, H2O.12
ZN.25: 1 residues within 4Å:- Chain B: E.59
5 PLIP interactions:1 interactions with chain B, 4 Ligand-Water interactions- Metal complexes: B:E.59, H2O.11, H2O.12, H2O.12, H2O.12
ZN.28: 3 residues within 4Å:- Chain C: D.13
- Ligands: ZN.29, CL.46
5 PLIP interactions:1 interactions with chain C, 4 Ligand-Water interactions- Metal complexes: C:D.13, H2O.17, H2O.17, H2O.21, H2O.23
ZN.29: 4 residues within 4Å:- Chain C: D.13, K.69
- Ligands: ZN.28, CL.46
4 PLIP interactions:1 interactions with chain C, 3 Ligand-Water interactions- Metal complexes: C:D.13, H2O.16, H2O.17, H2O.17
ZN.30: 1 residues within 4Å:- Chain C: D.118
5 PLIP interactions:2 interactions with chain C, 3 Ligand-Water interactions- Metal complexes: C:D.118, C:D.118, H2O.17, H2O.17, H2O.17
ZN.31: 3 residues within 4Å:- Chain A: A.102
- Chain C: H.121, E.125
5 PLIP interactions:2 interactions with chain C, 3 Ligand-Water interactions- Metal complexes: C:H.121, C:E.125, H2O.16, H2O.17, H2O.17
ZN.32: 1 residues within 4Å:- Chain C: H.121
5 PLIP interactions:1 interactions with chain C, 4 Ligand-Water interactions- Metal complexes: C:H.121, H2O.16, H2O.17, H2O.17, H2O.17
ZN.33: 1 residues within 4Å:- Chain C: H.70
4 PLIP interactions:1 interactions with chain C, 3 Ligand-Water interactions- Metal complexes: C:H.70, H2O.17, H2O.17, H2O.17
ZN.34: 1 residues within 4Å:- Chain C: E.125
5 PLIP interactions:2 interactions with chain C, 3 Ligand-Water interactions- Metal complexes: C:E.125, C:E.125, H2O.17, H2O.17, H2O.17
ZN.35: 1 residues within 4Å:- Chain D: N.108
No protein-ligand interaction detected (PLIP)ZN.36: 1 residues within 4Å:- Chain C: D.94
4 PLIP interactions:2 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:D.94, C:D.94, H2O.17, H2O.17
ZN.39: 1 residues within 4Å:- Chain D: D.27
5 PLIP interactions:2 interactions with chain D, 3 Ligand-Water interactions- Metal complexes: D:D.27, D:D.27, H2O.22, H2O.22, H2O.22
ZN.40: 3 residues within 4Å:- Chain D: D.13
- Ligands: CL.27, ZN.41
5 PLIP interactions:2 interactions with chain D, 3 Ligand-Water interactions- Metal complexes: D:D.13, D:D.13, H2O.15, H2O.22, H2O.22
ZN.41: 4 residues within 4Å:- Chain D: D.13, K.69
- Ligands: CL.27, ZN.40
3 PLIP interactions:1 interactions with chain D, 2 Ligand-Water interactions- Metal complexes: D:D.13, H2O.22, H2O.22
ZN.42: 2 residues within 4Å:- Chain D: H.121
- Ligands: CL.38
2 PLIP interactions:1 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: D:H.121, H2O.22
ZN.43: 3 residues within 4Å:- Chain B: A.102
- Chain D: H.121, E.125
5 PLIP interactions:2 interactions with chain D, 3 Ligand-Water interactions- Metal complexes: D:H.121, D:E.125, H2O.21, H2O.22, H2O.22
ZN.44: 2 residues within 4Å:- Chain B: Q.99
- Chain D: E.125
5 PLIP interactions:1 interactions with chain D, 4 Ligand-Water interactions- Metal complexes: D:E.125, H2O.21, H2O.22, H2O.23, H2O.23
ZN.45: 1 residues within 4Å:- Chain D: D.118
5 PLIP interactions:1 interactions with chain D, 4 Ligand-Water interactions- Metal complexes: D:D.118, H2O.22, H2O.23, H2O.23, H2O.23
ZN.48: 1 residues within 4Å:- Chain D: H.70
5 PLIP interactions:1 interactions with chain D, 4 Ligand-Water interactions- Metal complexes: D:H.70, H2O.21, H2O.21, H2O.23, H2O.23
ZN.50: 1 residues within 4Å:- Chain D: E.59
5 PLIP interactions:1 interactions with chain D, 4 Ligand-Water interactions- Metal complexes: D:E.59, H2O.22, H2O.23, H2O.23, H2O.23
- 2 x ACT: ACETATE ION(Non-functional Binders)
ACT.12: 2 residues within 4Å:- Chain B: L.24, R.112
5 PLIP interactions:3 interactions with chain C, 2 interactions with chain B- Water bridges: C:N.12, C:N.12, C:S.15
- Hydrophobic interactions: B:L.24
- Salt bridges: B:R.112
ACT.37: 2 residues within 4Å:- Chain D: L.24, R.112
5 PLIP interactions:3 interactions with chain A, 2 interactions with chain D- Water bridges: A:N.12, A:N.12, A:S.15
- Hydrophobic interactions: D:L.24
- Salt bridges: D:R.112
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Cymborowski, M. et al., Crystal structure of the Staphylococcus aureus protein (NP_646141.1, domain 3912-4037) similar to streptococcal adhesins emb and ebhA/ebhB. To be Published
- Release Date
- 2013-05-29
- Peptides
- Extracellular matrix-binding protein ebh: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x NA: SODIUM ION(Non-functional Binders)
- 8 x CL: CHLORIDE ION(Non-functional Binders)
- 36 x ZN: ZINC ION(Non-covalent)
- 2 x ACT: ACETATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Cymborowski, M. et al., Crystal structure of the Staphylococcus aureus protein (NP_646141.1, domain 3912-4037) similar to streptococcal adhesins emb and ebhA/ebhB. To be Published
- Release Date
- 2013-05-29
- Peptides
- Extracellular matrix-binding protein ebh: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
AD
B