SMTL ID : 8d6h.1

Q108K:K40L:T51C:T53A:R58L:Q38F:Q4F mutant of hCRBPII bound to synthetic fluorophore CM1V after UV irradiation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

11 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 2 residues within 4Å: Chain A: T.7 Ligands: ACT.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.7 GOL.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.3: 1 residues within 4Å: Chain A: Y.116 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Y.116 GOL.4: 4 residues within 4Å: Chain A: A.22, K.101, E.102, G.122 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.22, A:E.102, A:G.122 GOL.9: 1 residues within 4Å: Ligands: GOL.13 No protein-ligand interaction detected (PLIP) GOL.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.11: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.12: 2 residues within 4Å: Chain A: Y.73, K.75 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.73, A:K.75 GOL.13: 1 residues within 4Å: Ligands: GOL.9 No protein-ligand interaction detected (PLIP) GOL.14: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.15: 1 residues within 4Å: Chain A: D.71 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.71

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.5: 3 residues within 4Å: Chain A: T.7, E.9 Ligands: GOL.1 No protein-ligand interaction detected (PLIP) ACT.6: 3 residues within 4Å: Chain A: E.102, N.103, R.104 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:E.102, A:N.103 Water bridges: A:R.104 Salt bridges: A:K.98 ACT.7: 4 residues within 4Å: Chain A: D.71, E.72, Y.73, H.81 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:D.71, A:H.81 Salt bridges: A:H.81

1 x RH6: (2E)-3-[7-(diethylamino)-2-oxo-2H-1-benzopyran-3-yl]prop-2-enal, bound form(Covalent)

RH6.8: 13 residues within 4Å: Chain A: F.16, Y.19, L.40, I.42, C.51, A.53, Y.60, L.77, W.106, K.108, L.117, L.119, Q.128 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.16, A:I.42, A:Y.60, A:L.77, A:W.106, A:W.106, A:K.108, A:L.117, A:L.119, A:L.119 Salt bridges: A:K.108 pi-Stacking: A:Y.60, A:W.106

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Maity, S. et al., Light controlled reversible Michael addition of cysteine: a new tool for dynamic site-specific labeling of proteins. Analyst (2023)

Release Date

2023-02-01

Peptides

Retinol-binding protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Retinol-binding protein 2

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