SMTL ID : 5lvs.1

Self-assembled protein-aromatic foldamer complexes with 2:3 and 2:2:1 stoichiometries

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.42 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: H.93, H.95, E.105, H.118, T.197 Ligands: 6H0.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.93, A:H.95, A:H.118 ZN.16: 6 residues within 4Å: Chain B: H.93, H.95, H.118, T.197 Ligands: 6H0.17, GOL.22 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.93, B:H.95, B:H.118

2 x 6H0: ~{N}-[[3-(4-formamidobutoxy)phenyl]methyl]-4-sulfamoyl-benzamide(Non-covalent)

6H0.2: 25 residues within 4Å: Chain A: F.19, Q.91, H.93, H.95, H.118, V.120, F.129, V.141, S.195, L.196, T.197, T.198, P.200, W.207 Chain B: Q.134 Ligands: ZN.1, QUK.3, QVS.4, GOL.6, GOL.7, GOL.9, QUJ.11, QUK.13, QUJ.14, QUJ.15 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:V.120, A:L.196, A:P.200 Hydrogen bonds: A:T.197, A:T.197, B:Q.134 Water bridges: A:T.198 6H0.17: 25 residues within 4Å: Chain A: Q.134 Chain B: F.19, Q.91, H.93, H.95, H.118, V.120, F.129, V.141, S.195, L.196, T.197, T.198, P.200, W.207 Ligands: QUJ.11, QUJ.15, ZN.16, QUK.18, QVS.19, GOL.21, GOL.22, GOL.25, QUJ.28, QUK.29 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:V.120, B:F.129, B:L.196, B:L.196, B:P.200 Hydrogen bonds: B:T.197, B:T.197, A:Q.134 Water bridges: B:T.198, B:T.198

4 x QUK: 8-azanyl-4-(3-azanylpropoxy)quinoline-2-carboxylic acid(Non-covalent)(Non-functional Binders)

QUK.3: 8 residues within 4Å: Chain A: H.2 Ligands: 6H0.2, QVS.4, QVE.5, GOL.6, QUK.13, QUJ.15, QUJ.28 No protein-ligand interaction detected (PLIP) QUK.13: 8 residues within 4Å: Ligands: 6H0.2, QUK.3, GOL.6, FOR.12, QUJ.14, QUJ.15, QUJ.28, QUK.29 No protein-ligand interaction detected (PLIP) QUK.18: 8 residues within 4Å: Chain B: H.2 Ligands: QUJ.11, QUJ.14, 6H0.17, QVS.19, QVE.20, GOL.21, QUK.29 No protein-ligand interaction detected (PLIP) QUK.29: 8 residues within 4Å: Ligands: QUJ.11, FOR.12, QUK.13, QUJ.14, 6H0.17, QUK.18, GOL.21, QUJ.28 No protein-ligand interaction detected (PLIP)

2 x QVS: 8-azanyl-4-oxidanyl-quinoline-2-carboxylic acid(Non-covalent)

QVS.4: 10 residues within 4Å: Chain A: H.2, D.18, F.19 Chain B: D.128, G.130, K.131 Ligands: 6H0.2, QUK.3, QVE.5, QUJ.15 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:D.128, B:K.131 Hydrophobic interactions: A:D.18, A:F.19 pi-Stacking: A:H.2, A:H.2 QVS.19: 10 residues within 4Å: Chain A: D.128, G.130, K.131 Chain B: H.2, D.18, F.19 Ligands: QUJ.11, 6H0.17, QUK.18, QVE.20 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:D.18, B:F.19 pi-Stacking: B:H.2, B:H.2 Hydrogen bonds: A:D.128, A:K.131

2 x QVE: 8-azanyl-4-(2-hydroxy-2-oxoethyloxy)quinoline-2-carboxylic acid(Non-covalent)

QVE.5: 5 residues within 4Å: Chain A: S.1, H.2 Ligands: QUK.3, QVS.4, QUJ.15 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.2, A:H.2 Salt bridges: A:H.2 QVE.20: 5 residues within 4Å: Chain B: S.1, H.2 Ligands: QUJ.11, QUK.18, QVS.19 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.2 Salt bridges: B:H.2

12 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 8 residues within 4Å: Chain A: W.4, F.19, P.199, P.200 Ligands: 6H0.2, QUK.3, QUK.13, QUJ.14 2 PLIP interactions: 2 interactions with chain A Water bridges: A:W.4, A:H.63 GOL.7: 8 residues within 4Å: Chain A: N.61, H.63, A.64, N.66, Q.91, H.93, T.198 Ligands: 6H0.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.61, A:N.66, A:N.66, A:Q.91 GOL.8: 5 residues within 4Å: Chain A: Y.6, P.12, D.241, W.243, P.245 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.6 GOL.9: 6 residues within 4Å: Chain A: N.66, I.90, Q.91, F.129 Ligands: 6H0.2, QUJ.11 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.66, A:E.68, A:Q.91 GOL.10: 6 residues within 4Å: Chain A: T.34, A.37, W.190, A.256, F.258, K.259 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.190, A:K.259 GOL.21: 7 residues within 4Å: Chain B: W.4, F.19, P.199, P.200 Ligands: 6H0.17, QUK.18, QUK.29 No protein-ligand interaction detected (PLIP) GOL.22: 8 residues within 4Å: Chain B: N.61, A.64, N.66, Q.91, H.93, T.198 Ligands: ZN.16, 6H0.17 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.61, B:N.66, B:N.66, B:Q.91, B:T.198 GOL.23: 5 residues within 4Å: Chain B: Y.6, P.12, D.241, W.243, P.245 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.6 GOL.24: 7 residues within 4Å: Chain B: K.166, N.228, N.230, G.231, E.232, G.233, E.234 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:K.166, B:K.166, B:N.228, B:N.230, B:E.232, B:G.233, B:E.234 GOL.25: 7 residues within 4Å: Chain B: N.66, E.68, I.90, Q.91, F.129 Ligands: QUJ.15, 6H0.17 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.66, B:E.68, B:E.68, B:Q.91 GOL.26: 8 residues within 4Å: Chain B: Y.50, D.51, Q.52, A.53, N.176, D.178, P.179, R.180 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Y.50, B:D.51, B:A.53, B:N.176, B:R.180 Water bridges: B:N.176 GOL.27: 6 residues within 4Å: Chain B: T.34, A.37, W.190, A.256, F.258, K.259 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:W.190, B:K.259, B:K.259

4 x QUJ: 8-azanyl-4-(2-methylpropoxy)quinoline-2-carboxylic acid(Non-covalent)(Non-functional Binders)

QUJ.11: 10 residues within 4Å: Chain A: F.129, G.130 Ligands: 6H0.2, GOL.9, QUJ.14, 6H0.17, QUK.18, QVS.19, QVE.20, QUK.29 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.129, A:F.129 QUJ.14: 8 residues within 4Å: Ligands: 6H0.2, GOL.6, QUJ.11, FOR.12, QUK.13, QUK.18, QUJ.28, QUK.29 No protein-ligand interaction detected (PLIP) QUJ.15: 11 residues within 4Å: Chain B: F.129, G.130, Q.134 Ligands: 6H0.2, QUK.3, QVS.4, QVE.5, QUK.13, 6H0.17, GOL.25, QUJ.28 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:F.129, B:F.129 QUJ.28: 7 residues within 4Å: Ligands: QUK.3, FOR.12, QUK.13, QUJ.14, QUJ.15, 6H0.17, QUK.29 No protein-ligand interaction detected (PLIP)

1 x FOR: FORMYL GROUP(Non-functional Binders)

FOR.12: 4 residues within 4Å: Ligands: QUK.13, QUJ.14, QUJ.28, QUK.29 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jewginski, M. et al., Self-Assembled Protein-Aromatic Foldamer Complexes with 2:3 and 2:2:1 Stoichiometries. J. Am. Chem. Soc. (2017)

Release Date

2017-03-08

Peptides

Carbonic anhydrase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Carbonic anhydrase 2

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