- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x CA: CALCIUM ION(Non-covalent)
- 4 x SNZ: N-(3,4-dihydroxyphenyl)-N'-[2-(3,4-dihydroxyphenyl)ethyl]urea(Non-covalent)
SNZ.2: 14 residues within 4Å:- Chain A: T.154, A.264, S.265, W.327, D.328, S.329, S.330, S.335, G.338, A.339, W.384, R.392
- Ligands: CA.1, NA.3
11 PLIP interactions:11 interactions with chain A- Hydrophobic interactions: A:A.264
- Hydrogen bonds: A:T.154, A:S.265, A:S.265, A:W.327, A:S.335, A:G.338, A:R.392, A:R.392
- Water bridges: A:A.264, A:S.386
SNZ.5: 13 residues within 4Å:- Chain B: T.154, A.264, S.265, W.327, D.328, S.329, S.330, S.335, G.338, A.339, W.384, R.392
- Ligands: EDO.7
9 PLIP interactions:9 interactions with chain B- Hydrophobic interactions: B:A.264, B:W.327, B:W.384
- Hydrogen bonds: B:S.265, B:W.327, B:S.335, B:G.338, B:R.392, B:R.392
SNZ.9: 13 residues within 4Å:- Chain C: T.154, A.264, S.265, W.327, D.328, S.329, S.330, S.335, G.338, A.339, W.384, R.392
- Ligands: NA.10
9 PLIP interactions:9 interactions with chain C- Hydrophobic interactions: C:A.264
- Hydrogen bonds: C:S.265, C:D.328, C:D.328, C:S.335, C:G.338, C:R.392, C:R.392
- pi-Cation interactions: C:R.392
SNZ.14: 13 residues within 4Å:- Chain D: D.80, T.154, T.220, L.221, S.265, D.328, S.330, W.384, N.388, K.390, R.392
- Ligands: NA.15, EDO.16
7 PLIP interactions:7 interactions with chain D- Hydrophobic interactions: D:L.221, D:W.384
- Hydrogen bonds: D:T.220, D:N.388, D:N.388, D:R.392, D:R.392
- 3 x NA: SODIUM ION(Non-functional Binders)
NA.3: 3 residues within 4Å:- Chain A: V.155, W.384
- Ligands: SNZ.2
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:V.155
NA.10: 4 residues within 4Å:- Chain C: T.154, V.155, W.384
- Ligands: SNZ.9
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:W.384
NA.15: 3 residues within 4Å:- Chain D: V.155, W.384
- Ligands: SNZ.14
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:V.155
- 2 x SO4: SULFATE ION(Non-functional Binders)
SO4.6: 6 residues within 4Å:- Chain A: N.158, S.159, Q.160
- Chain B: K.203, K.205, K.277
8 PLIP interactions:6 interactions with chain B, 2 interactions with chain A- Water bridges: B:K.203, B:K.277, B:K.277, A:S.159
- Salt bridges: B:K.203, B:K.205, B:K.277
- Hydrogen bonds: A:Q.160
SO4.12: 5 residues within 4Å:- Chain C: K.203, K.205, K.277
- Chain D: S.159, Q.160
9 PLIP interactions:1 interactions with chain D, 8 interactions with chain C- Hydrogen bonds: D:Q.160
- Water bridges: C:K.205, C:K.205, C:K.205, C:K.277, C:K.277
- Salt bridges: C:K.203, C:K.205, C:K.277
- 3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.7: 6 residues within 4Å:- Chain B: F.224, E.274, I.383, W.384
- Ligands: CA.4, SNZ.5
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:E.274, B:W.384
EDO.11: 5 residues within 4Å:- Chain C: D.122, E.274, I.383, W.384
- Ligands: CA.8
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:E.274, C:W.384
- Water bridges: C:N.382
EDO.16: 7 residues within 4Å:- Chain D: D.122, E.274, N.382, I.383, W.384
- Ligands: CA.13, SNZ.14
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:E.274, D:W.384
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Schormann, N. et al., The structure of the Streptococcus gordonii surface protein SspB in complex with TEV peptide provides clues to the adherence of oral streptococcal adherence to salivary agglutinin. To Be Published
- Release Date
- 2020-09-16
- Peptides
- Surface protein adhesin: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x CA: CALCIUM ION(Non-covalent)
- 4 x SNZ: N-(3,4-dihydroxyphenyl)-N'-[2-(3,4-dihydroxyphenyl)ethyl]urea(Non-covalent)
- 3 x NA: SODIUM ION(Non-functional Binders)
- 2 x SO4: SULFATE ION(Non-functional Binders)
- 3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Schormann, N. et al., The structure of the Streptococcus gordonii surface protein SspB in complex with TEV peptide provides clues to the adherence of oral streptococcal adherence to salivary agglutinin. To Be Published
- Release Date
- 2020-09-16
- Peptides
- Surface protein adhesin: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D