SMTL ID : 3va7.1

Crystal structure of the Kluyveromyces lactis Urea Carboxylase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

1 x BTI: 5-(HEXAHYDRO-2-OXO-1H-THIENO[3,4-D]IMIDAZOL-6-YL)PENTANAL(Covalent)

BTI.1: 15 residues within 4Å: Chain A: F.700, G.701, Y.731, N.737, T.739, V.744, P.751, G.754, G.755, F.756, S.1016, P.1041, G.1042, K.1202 Ligands: URE.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:F.700, A:T.739, A:V.744, A:V.744, A:P.751, A:P.1041 Hydrogen bonds: A:Y.731, A:N.737, A:G.755 Water bridges: A:R.703, A:R.703

1 x URE: UREA(Non-functional Binders)

URE.2: 8 residues within 4Å: Chain A: D.991, V.992, C.1033, Y.1035, G.1042, G.1043, Y.1044 Ligands: BTI.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.991, A:Y.1035, A:G.1043, A:Y.1044

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: Q.383, D.1055, K.1056, L.1057, I.1059, D.1094 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.383, A:D.1055, A:K.1056, A:K.1056, A:L.1057 Water bridges: A:K.1056 GOL.4: 7 residues within 4Å: Chain A: K.265, E.303, R.321, Q.323, V.324, E.325, R.367 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.265, A:K.265, A:R.321, A:R.321, A:Q.323, A:V.324, A:R.367 GOL.5: 12 residues within 4Å: Chain A: P.109, S.115, F.131, V.132, G.133, P.134, C.298, A.299, A.320, R.321, L.322, M.341 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.115, A:V.132, A:A.299, A:A.299 GOL.6: 7 residues within 4Å: Chain A: R.261, Q.264, K.265, V.266, Y.369, E.371, F.377 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.261, A:R.261, A:Q.264, A:E.371 GOL.7: 7 residues within 4Å: Chain A: H.694, N.696, R.703, E.742, I.950, P.1015, S.1016 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:H.694, A:N.696, A:R.703, A:E.742 Water bridges: A:R.703, A:S.1016, A:S.1016 GOL.8: 5 residues within 4Å: Chain A: N.486, T.533, R.587, N.698, M.1201 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.587, A:R.587 Water bridges: A:T.533, A:T.533, A:N.698 GOL.9: 4 residues within 4Å: Chain A: P.381, G.441, N.617, R.619 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.441, A:R.619

1 x NA: SODIUM ION(Non-functional Binders)

NA.10: 4 residues within 4Å: Chain A: E.764, R.790, K.793, D.845 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.764, A:R.790

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fan, C. et al., Crystal structure of urea carboxylase provides insights into the carboxyltransfer reaction. J.Biol.Chem. (2012)

Release Date

2012-02-01

Peptides

KLLA0E08119p: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

KLLA0E08119p