SMTL ID : 6oa8.1

Superfolder Green Fluorescent Protein with 4-cyano-L-phenylalanine at the chromophore (position 66)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.37 Å

Oligo State

monomer

Ligands

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 6 residues within 4Å: Chain A: Y.150, I.151, T.152, N.163, N.197, H.198 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:I.151, A:N.163, A:N.163, A:H.198 EDO.2: 7 residues within 4Å: Chain A: D.20, G.21, D.22, E.123, L.124, K.125 Ligands: SO4.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.20, A:D.20 EDO.3: 4 residues within 4Å: Chain A: K.53, K.213, R.214, D.215 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.213, A:D.215, A:D.215 Water bridges: A:H.216, A:H.216

8 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 6 residues within 4Å: Chain A: H.147, N.148, Y.150, R.167 Ligands: SO4.5, NA.12 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.148, A:Y.150, A:Y.150 Water bridges: A:R.167, A:R.167 Salt bridges: A:R.167 SO4.5: 4 residues within 4Å: Chain A: N.148, Y.150 Ligands: SO4.4, NA.12 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.148 Water bridges: A:Y.150, A:Y.150 SO4.6: 5 residues within 4Å: Chain A: N.143, F.144, S.204, V.205, L.206 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.144, A:F.144, A:L.206 SO4.7: 1 residues within 4Å: Chain A: K.27 3 PLIP interactions: 3 interactions with chain A Water bridges: A:D.22, A:K.27 Salt bridges: A:K.27 SO4.8: 7 residues within 4Å: Chain A: K.106, T.107, R.108, E.123, L.124, K.125 Ligands: EDO.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.108, A:E.123, A:K.125 Water bridges: A:T.107 SO4.9: 6 residues within 4Å: Chain A: E.94, R.95, T.96, Y.181, Q.182, Q.183 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.96, A:T.96, A:Q.182 SO4.10: 4 residues within 4Å: Chain A: F.99, K.100, D.101, D.102 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.101, A:D.102 SO4.11: 6 residues within 4Å: Chain A: R.108, A.109, E.110, R.121, I.122, E.123 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.123, A:E.123 Water bridges: A:I.122, A:I.122 Salt bridges: A:R.108

4 x NA: SODIUM ION(Non-functional Binders)

NA.12: 2 residues within 4Å: Ligands: SO4.4, SO4.5 No protein-ligand interaction detected (PLIP) NA.13: 5 residues within 4Å: Chain A: F.144, N.145, S.146, Q.203, S.204 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.144, A:S.204 Water bridges: A:S.204 NA.14: 4 residues within 4Å: Chain A: P.57, W.58, P.59, Y.142 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.58 NA.15: 2 residues within 4Å: Chain A: G.5, E.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.6, A:E.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Olenginski, G.M. et al., Structural and spectrophotometric investigation of two unnatural amino-acid altered chromophores in the superfolder green fluorescent protein. Acta Crystallogr.,Sect.D (2021)

Release Date

2020-08-05

Peptides

Green fluorescent protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Green fluorescent protein

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