SMTL ID : 5l6j.1 (1 other biounit)

Uba1 in complex with Ub-MLN7243 covalent adduct

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.68 Å

Oligo State

hetero-1-1-mer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: R.21, N.478, R.481 Ligands: 61T.12 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.478 Water bridges: A:R.481, A:R.481, A:Q.482 Salt bridges: A:R.21, A:R.481 SO4.2: 3 residues within 4Å: Chain A: G.27, K.28, E.29 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.28, A:E.29 Water bridges: A:G.27, A:A.30

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 3 residues within 4Å: Chain A: V.25, G.178, K.381 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain A: D.130, R.157 Ligand excluded by PLIP

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 10 residues within 4Å: Chain A: L.134, S.153, E.155, N.162, H.293, F.296, Q.297, H.300, F.388, Y.390 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.153, A:S.153, A:N.162, A:H.293, A:H.300, A:Y.390 GOL.6: 4 residues within 4Å: Chain A: Y.465, V.467, N.514, F.532 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.514 GOL.7: 11 residues within 4Å: Chain A: D.282, K.285, F.391, D.392, S.393, E.395, L.876, L.879, E.880, K.895, F.908 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.282, A:K.285 Water bridges: A:S.281, A:K.285, A:E.395, A:K.883 GOL.8: 3 residues within 4Å: Chain A: R.713, A.714, F.846 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.714, A:A.714 GOL.9: 4 residues within 4Å: Chain A: Y.24, E.180, K.854, F.857 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.24 GOL.10: 2 residues within 4Å: Chain A: R.288, N.344 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.288, A:R.288, A:N.344 GOL.11: 6 residues within 4Å: Chain A: L.737, Y.740, V.819, N.828, H.829, H.830 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.820

1 x 61T: [(1~{R},2~{R},3~{S},4~{R})-2,3-bis(oxidanyl)-4-[[2-[3-(trifluoromethylsulfanyl)phenyl]pyrazolo[1,5-a]pyrimidin-7-yl]amino]cyclopentyl]methyl sulfamate(Covalent)

61T.12: 23 residues within 4Å: Chain A: V.440, G.441, G.443, A.444, T.469, D.470, D.472, R.481, Q.482, K.494, K.519, V.520, G.521, P.522, A.542, L.543, D.544, N.545, D.547, A.548, Y.551 Chain B: G.76 Ligands: SO4.1 20 PLIP interactions: 19 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:K.519, A:V.520, A:L.543, A:A.548 Hydrogen bonds: A:G.443, A:A.444, A:D.472, A:D.472, A:K.494, A:K.494, A:V.520, B:G.76 Water bridges: A:I.445, A:R.481, A:R.481, A:Q.482, A:Q.482 Salt bridges: A:R.481, A:K.494 pi-Cation interactions: A:K.519

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Misra, M. et al., Dissecting the Specificity of Adenosyl Sulfamate Inhibitors Targeting the Ubiquitin-Activating Enzyme. Structure (2017)

Release Date

2017-06-14

Peptides

Ubiquitin-activating enzyme E1 1: A
Ubiquitin-40S ribosomal protein S31: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ubiquitin-activating enzyme E1 1

Ubiquitin-40S ribosomal protein S31

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