SMTL ID : 1vwj.2 (1 other biounit)

STREPTAVIDIN-CYCLO-[5-S-VALERAMIDE-HPQGPPC]K-NH2, PH 2.5, I222 COMPLEX

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-octamer

Ligands

8 x HIS- PRO- GLN- GLY- PRO- PRO- CYS- LYS- NH2: PEPTIDE LIGAND CONTAINING HPQ(Non-covalent)

HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.1: 19 residues within 4Å: Chain A: L.13, Y.31, S.33, A.34, V.35, Y.42, W.67, A.74, S.76, T.78, W.80, W.96, L.98, D.116 Chain E: A.88, E.89 Chain H: A.105, W.108 Ligands: LEA.3 11 PLIP interactions: 8 interactions with chain A, 2 interactions with chain H, 1 interactions with chain E Hydrophobic interactions: A:V.35, A:Y.42, A:W.67, A:W.67, H:W.108, H:W.108, E:A.88 Hydrogen bonds: A:W.67, A:S.76, A:T.78 pi-Stacking: A:W.67 HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.2: 17 residues within 4Å: Chain B: L.13, S.15, Y.31, S.33, A.34, V.35, Y.42, W.67, A.74, S.76, T.78, W.80, W.96, L.98 Chain G: A.105, W.108 Ligands: LEA.4 14 PLIP interactions: 2 interactions with chain G, 12 interactions with chain B Hydrophobic interactions: G:W.108, G:W.108, B:Y.42, B:W.67, B:W.67 Hydrogen bonds: B:S.15, B:S.33, B:W.67, B:S.76, B:T.78 Water bridges: B:A.34, B:A.34, B:D.116 pi-Stacking: B:W.67 HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.5: 19 residues within 4Å: Chain C: L.13, Y.31, S.33, A.34, V.35, Y.42, W.67, A.74, S.76, T.78, W.80, W.96, L.98, D.116 Chain F: A.105, W.108 Chain G: A.88, E.89 Ligands: LEA.7 11 PLIP interactions: 8 interactions with chain C, 1 interactions with chain G, 2 interactions with chain F Hydrophobic interactions: C:V.35, C:Y.42, C:W.67, C:W.67, G:A.88, F:W.108, F:W.108 Hydrogen bonds: C:W.67, C:S.76, C:T.78 pi-Stacking: C:W.67 HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.6: 17 residues within 4Å: Chain D: L.13, S.15, Y.31, S.33, A.34, V.35, Y.42, W.67, A.74, S.76, T.78, W.80, W.96, L.98 Chain E: A.105, W.108 Ligands: LEA.8 14 PLIP interactions: 12 interactions with chain D, 2 interactions with chain E Hydrophobic interactions: D:Y.42, D:W.67, D:W.67, E:W.108, E:W.108 Hydrogen bonds: D:S.15, D:S.33, D:W.67, D:S.76, D:T.78 Water bridges: D:A.34, D:A.34, D:D.116 pi-Stacking: D:W.67 HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.9: 19 residues within 4Å: Chain A: A.88, E.89 Chain D: A.105, W.108 Chain E: L.13, Y.31, S.33, A.34, V.35, Y.42, W.67, A.74, S.76, T.78, W.80, W.96, L.98, D.116 Ligands: LEA.11 11 PLIP interactions: 1 interactions with chain A, 2 interactions with chain D, 8 interactions with chain E Hydrophobic interactions: A:A.88, D:W.108, D:W.108, E:V.35, E:Y.42, E:W.67, E:W.67 Hydrogen bonds: E:W.67, E:S.76, E:T.78 pi-Stacking: E:W.67 HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.10: 17 residues within 4Å: Chain C: A.105, W.108 Chain F: L.13, S.15, Y.31, S.33, A.34, V.35, Y.42, W.67, A.74, S.76, T.78, W.80, W.96, L.98 Ligands: LEA.12 14 PLIP interactions: 12 interactions with chain F, 2 interactions with chain C Hydrophobic interactions: F:Y.42, F:W.67, F:W.67, C:W.108, C:W.108 Hydrogen bonds: F:S.15, F:S.33, F:W.67, F:S.76, F:T.78 Water bridges: F:A.34, F:A.34, F:D.116 pi-Stacking: F:W.67 HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.13: 19 residues within 4Å: Chain B: A.105, W.108 Chain C: A.88, E.89 Chain G: L.13, Y.31, S.33, A.34, V.35, Y.42, W.67, A.74, S.76, T.78, W.80, W.96, L.98, D.116 Ligands: LEA.15 11 PLIP interactions: 8 interactions with chain G, 2 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: G:V.35, G:Y.42, G:W.67, G:W.67, B:W.108, B:W.108, C:A.88 Hydrogen bonds: G:W.67, G:S.76, G:T.78 pi-Stacking: G:W.67 HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.14: 17 residues within 4Å: Chain A: A.105, W.108 Chain H: L.13, S.15, Y.31, S.33, A.34, V.35, Y.42, W.67, A.74, S.76, T.78, W.80, W.96, L.98 Ligands: LEA.16 14 PLIP interactions: 12 interactions with chain H, 2 interactions with chain A Hydrophobic interactions: H:Y.42, H:W.67, H:W.67, A:W.108, A:W.108 Hydrogen bonds: H:S.15, H:S.33, H:W.67, H:S.76, H:T.78 Water bridges: H:A.34, H:A.34, H:D.116 pi-Stacking: H:W.67

8 x LEA: PENTANOIC ACID(Non-functional Binders)

LEA.3: 4 residues within 4Å: Ligands: HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.1, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.1, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.1, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.1 No protein-ligand interaction detected (PLIP) LEA.4: 3 residues within 4Å: Ligands: HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.2, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.2, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.2 No protein-ligand interaction detected (PLIP) LEA.7: 4 residues within 4Å: Ligands: HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.5, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.5, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.5, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.5 No protein-ligand interaction detected (PLIP) LEA.8: 3 residues within 4Å: Ligands: HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.6, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.6, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.6 No protein-ligand interaction detected (PLIP) LEA.11: 4 residues within 4Å: Ligands: HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.9, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.9, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.9, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.9 No protein-ligand interaction detected (PLIP) LEA.12: 3 residues within 4Å: Ligands: HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.10, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.10, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.10 No protein-ligand interaction detected (PLIP) LEA.15: 4 residues within 4Å: Ligands: HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.13, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.13, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.13, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.13 No protein-ligand interaction detected (PLIP) LEA.16: 3 residues within 4Å: Ligands: HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.14, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.14, HIS-PRO-GLN-GLY-PRO-PRO-CYS-LYS-NH2.14 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Katz, B.A. et al., In crystals of complexes of streptavidin with peptide ligands containing the HPQ sequence the pKa of the peptide histidine is less than 3.0. J.Biol.Chem. (1997)

Release Date

1998-03-18

Peptides

STREPTAVIDIN: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

C
B

D
D

E
B

F
D

G
B

H
D

STREPTAVIDIN

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