SMTL ID : 4j8a.1

Irradiated-state structure of sfGFP containing the unnatural amino acid p-azido-phenylalanine at residue 145

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.26 Å

Oligo State

monomer

Ligands

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

SO4.1: 8 residues within 4Å: Chain A: K.53, V.56, P.57, W.58, P.59, H.138, Y.142 Ligands: EDO.10 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:V.56, A:W.58 Water bridges: A:L.140, A:K.208, A:K.208 Salt bridges: A:K.53, A:H.138 SO4.2: 5 residues within 4Å: Chain A: F.99, K.100, D.101, D.102 Ligands: EDO.35 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.98, A:D.101, A:D.101, A:D.102 SO4.3: 2 residues within 4Å: Chain A: K.106, K.125 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.106, A:K.125 SO4.4: 3 residues within 4Å: Chain A: E.18, R.31, R.121 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.31, A:R.121 SO4.5: 5 residues within 4Å: Chain A: D.20, G.21, D.22, E.123, L.124 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.123, A:L.124 Water bridges: A:G.21, A:D.22, A:D.22 SO4.37: 2 residues within 4Å: Chain A: N.145, R.167 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.167

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

EDO.6: 5 residues within 4Å: Chain A: K.106, T.107, R.108, E.123, K.125 Ligand excluded by PLIP EDO.7: 4 residues within 4Å: Chain A: R.108, E.110, R.121, E.123 Ligand excluded by PLIP EDO.8: 5 residues within 4Å: Chain A: E.94, R.95, T.96, Y.181, Q.183 Ligand excluded by PLIP EDO.9: 6 residues within 4Å: Chain A: P.74, H.76, A.226, G.227, I.228, T.229 Ligand excluded by PLIP EDO.10: 4 residues within 4Å: Chain A: W.58, Y.142, K.208 Ligands: SO4.1 Ligand excluded by PLIP EDO.11: 2 residues within 4Å: Chain A: F.164, K.165 Ligand excluded by PLIP EDO.12: 3 residues within 4Å: Chain A: K.165, R.167, L.177 Ligand excluded by PLIP EDO.13: 3 residues within 4Å: Chain A: K.130, E.131 Ligands: EDO.32 Ligand excluded by PLIP EDO.14: 6 residues within 4Å: Chain A: V.12, E.35, G.36, D.37, K.42, T.44 Ligand excluded by PLIP EDO.15: 3 residues within 4Å: Chain A: N.40, F.222, T.224 Ligand excluded by PLIP EDO.16: 2 residues within 4Å: Chain A: G.25, H.26 Ligand excluded by PLIP EDO.17: 5 residues within 4Å: Chain A: N.158, D.189, G.190, P.191 Ligands: EDO.26 Ligand excluded by PLIP EDO.18: 5 residues within 4Å: Chain A: L.45, K.46, V.218 Ligands: EDO.27, EDO.33 Ligand excluded by PLIP EDO.19: 5 residues within 4Å: Chain A: R.31, G.32, E.33, K.46 Ligands: EDO.20 Ligand excluded by PLIP EDO.20: 3 residues within 4Å: Chain A: E.33, R.214 Ligands: EDO.19 Ligand excluded by PLIP EDO.21: 5 residues within 4Å: Chain A: T.185, P.186, I.187, G.188, D.189 Ligand excluded by PLIP EDO.22: 4 residues within 4Å: Chain A: E.89, I.187, G.188 Ligands: EDO.23 Ligand excluded by PLIP EDO.23: 2 residues within 4Å: Chain A: E.89 Ligands: EDO.22 Ligand excluded by PLIP EDO.24: 4 residues within 4Å: Chain A: S.207, V.218, L.220 Ligands: EDO.33 Ligand excluded by PLIP EDO.25: 2 residues within 4Å: Chain A: K.112, E.114 Ligand excluded by PLIP EDO.26: 5 residues within 4Å: Chain A: N.158, P.191, V.192, L.194 Ligands: EDO.17 Ligand excluded by PLIP EDO.27: 5 residues within 4Å: Chain A: S.207, K.208, D.209, V.218 Ligands: EDO.18 Ligand excluded by PLIP EDO.28: 3 residues within 4Å: Chain A: N.148, Y.199, S.201 Ligand excluded by PLIP EDO.29: 1 residues within 4Å: Chain A: T.50 Ligand excluded by PLIP EDO.30: 6 residues within 4Å: Chain A: K.100, D.101, D.102, G.133, N.134, Q.176 Ligand excluded by PLIP EDO.31: 10 residues within 4Å: Chain A: P.59, T.60, L.61, V.62, T.63, F.99, I.166, H.168, A.178, H.180 Ligand excluded by PLIP EDO.32: 5 residues within 4Å: Chain A: K.130, E.131, D.132, G.133 Ligands: EDO.13 Ligand excluded by PLIP EDO.33: 2 residues within 4Å: Ligands: EDO.18, EDO.24 Ligand excluded by PLIP EDO.34: 2 residues within 4Å: Chain A: R.79, L.194 Ligand excluded by PLIP EDO.35: 5 residues within 4Å: Chain A: S.98, F.99, K.100, D.179 Ligands: SO4.2 Ligand excluded by PLIP

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.36: 4 residues within 4Å: Chain A: R.72, P.74, D.75, H.76 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.72, A:R.72, A:D.75, A:H.76, A:H.76

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Reddington, S.C. et al., Different Photochemical Events of a Genetically Encoded Phenyl Azide Define and Modulate GFP Fluorescence. Angew.Chem.Int.Ed.Engl. (2013)

Release Date

2013-05-15

Peptides

Green fluorescent protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Green fluorescent protein