SMTL ID : 6blq.1

Crystal Structure of IAg7 in complex with insulin mimotope p8E9E

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 3 residues within 4Å: Chain A: N.122, E.170, W.172 No protein-ligand interaction detected (PLIP)

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.2: 1 residues within 4Å: Chain A: N.82 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.82 NAG.9: 2 residues within 4Å: Chain B: N.44, Q.47 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.44, B:Q.47 Water bridges: B:Q.47

4 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.3: 3 residues within 4Å: Chain A: V.143, N.144, R.145 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:N.144, A:R.145 Hydrogen bonds: A:V.143, A:R.145 IPA.4: 5 residues within 4Å: Chain A: S.19, L.74, G.75, T.78 Chain B: F.32 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:F.32, A:L.74 Hydrogen bonds: A:S.19 Water bridges: A:G.75 IPA.5: 5 residues within 4Å: Chain A: K.98 Chain B: E.119, D.145, D.176, T.178 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:D.145, B:T.178 Hydrogen bonds: B:E.119 Water bridges: B:R.117, B:R.117, B:D.176 IPA.10: 4 residues within 4Å: Chain A: F.112 Chain B: L.171, I.172, R.173 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:R.173, A:F.112

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

EDO.6: 4 residues within 4Å: Chain A: R.48, Y.137, Y.154 Chain B: D.176 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.48, A:R.48 Water bridges: B:D.176, B:D.176 EDO.7: 5 residues within 4Å: Chain A: I.121, N.122, I.123, T.124, E.138 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.123, A:E.138 EDO.8: 3 residues within 4Å: Chain A: Q.25, Y.37, S.140 3 PLIP interactions: 3 interactions with chain A Water bridges: A:V.38, A:E.138, A:T.139 EDO.11: 6 residues within 4Å: Chain A: R.80 Chain B: E.13, G.14, H.81, S.82, Y.85 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.14 EDO.12: 2 residues within 4Å: Chain B: R.73, A.74 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:A.74 EDO.13: 4 residues within 4Å: Chain B: P.112, T.113, R.116, R.117 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.116 Water bridges: B:T.113, B:R.117 EDO.14: 3 residues within 4Å: Chain A: S.81, T.84 Chain B: E.60 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:E.60, A:T.84, A:T.84 Water bridges: B:E.60

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Y. et al., C-terminal modification of the insulin B:11-23 peptide creates superagonists in mouse and human type 1 diabetes. Proc. Natl. Acad. Sci. U.S.A. (2018)

Release Date

2017-12-20

Peptides

H-2 class II histocompatibility antigen, A-D alpha chain: A
H2-Ab1 protein: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

H-2 class II histocompatibility antigen, A-D alpha chain

H2-Ab1 protein

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