SMTL ID : 3ksc.1 (1 other biounit)

Crystal structure of pea prolegumin, an 11S seed globulin from Pisum sativum L.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.61 Å

Oligo State

homo-trimer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: P.328, H.362, K.387, S.431 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.362, A:K.387 SO4.2: 3 residues within 4Å: Chain A: K.195, R.196, R.216 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.196, A:R.216 Salt bridges: A:R.196 SO4.5: 3 residues within 4Å: Chain B: Y.335, R.341, H.366 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.341, B:H.366 SO4.6: 2 residues within 4Å: Chain B: N.22, R.23 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.22, B:R.23 SO4.7: 2 residues within 4Å: Chain B: R.55, K.229 3 PLIP interactions: 3 interactions with chain B Water bridges: B:R.55, B:R.55 Salt bridges: B:R.55 SO4.8: 5 residues within 4Å: Chain B: R.115, K.321, R.323, L.324, N.325 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.325 Salt bridges: B:R.115, B:K.321, B:R.323 SO4.9: 1 residues within 4Å: Chain B: R.429 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.429 SO4.10: 4 residues within 4Å: Chain B: E.184, K.195, R.196, R.216 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.196 Salt bridges: B:K.195, B:R.196, B:R.216 SO4.16: 2 residues within 4Å: Chain C: R.389, S.427 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:R.389 SO4.17: 5 residues within 4Å: Chain C: K.195, R.196, D.197, R.207, R.216 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.196, C:D.197, C:R.207, C:R.216 Salt bridges: C:R.196

11 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: R.115, K.321, R.323, N.325 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.115, A:K.321, A:K.321, A:R.323, A:R.323, A:N.325 GOL.4: 3 residues within 4Å: Chain A: R.389, S.427, D.428 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.389, A:R.389, A:D.428 Water bridges: A:R.429 GOL.11: 3 residues within 4Å: Chain B: N.76, R.113, Q.134 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.76, B:Q.134 GOL.12: 7 residues within 4Å: Chain B: G.327, P.328, R.341, H.362, S.364, R.429, S.431 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.327, B:R.341, B:R.341, B:S.364, B:R.429, B:R.429, B:S.431 GOL.13: 3 residues within 4Å: Chain B: G.388, R.389, S.427 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.389, B:S.427 Water bridges: B:D.428 GOL.14: 10 residues within 4Å: Chain B: S.49, R.50, A.51, R.59, Y.62, I.70, F.128, A.140, S.142, R.159 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:S.49, B:A.51, B:R.59, B:Y.62, B:S.142, B:R.159, B:R.159 GOL.15: 3 residues within 4Å: Chain B: Q.54, R.55, K.227 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.54, B:R.55, B:K.227, B:K.227 GOL.18: 5 residues within 4Å: Chain C: V.317, T.319, A.320, K.321, P.351 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:T.319, C:K.321 Water bridges: C:K.321 GOL.19: 8 residues within 4Å: Chain C: E.361, H.374, N.376, S.381, I.383, V.421, Y.432, K.436 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:E.361, C:N.376, C:S.381, C:S.381, C:Y.432, C:K.436 GOL.20: 3 residues within 4Å: Chain C: R.115, R.323, N.325 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:R.115, C:R.323, C:N.325 GOL.21: 2 residues within 4Å: Chain C: R.196, R.207 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tandang-Silvas, M.R. et al., Conservation and divergence on plant seed 11S globulins based on crystal structures. Biochim.Biophys.Acta (2010)

Release Date

2010-04-21

Peptides

LegA class: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

LegA class

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