PDBsum entry: 1o59

Hydrolase

PDB id: 1o59

Contents

Protein chain

318 a.a. *

Waters ×218

* Residue conservation analysis

PDB id:

1o59

Name:

Hydrolase

Title:

Crystal structure of allantoicase (yir029w) from saccharomyc cerevisiae at 2.40 a resolution

Structure:

Allantoicase. Chain: a. Synonym: allantoate amidinohydrolase. Engineered: yes

Source:

Saccharomyces cerevisiae. Baker's yeast. Organism_taxid: 4932. Gene: yir029w. Expressed in: escherichia coli. Expression_system_taxid: 562.

Biol. unit:

Hexamer (from PQS)

Resolution:

2.40Å R-factor: 0.178 R-free: 0.222

Authors:

Joint Center For Structural Genomics (Jcsg)

Key ref:

Q.Xu et al. (2004). Crystal structure of an allantoicase (YIR029W) from Saccharomyces cerevisiae at 2.4 A resolution. Proteins, 56, 619-624. PubMed id: 15229895 DOI: 10.1002/prot.20164

Date:

22-Aug-03 Release date: 02-Sep-03

Protein chain

P25335  (ALLC_YEAST) -  Allantoicase

Seq: 343 a.a.

Struc: 318 a.a.

Enzyme reactions

• Enzyme class: E.C.3.5.3.4 - Allantoicase.
• Pathway: AMP Catabolism
• Reaction: Allantoate + H₂O = (S)-ureidoglycolate + urea

Molecule diagrams generated from .mol files obtained from the KEGG ftp site

 Gene Ontology (GO) functional annotation 

• Cellular component: cellular_component (1 term)
• Biological process: allantoin catabolic process (2 terms)
• Biochemical function: protein binding (3 terms)

reference

DOI no: 10.1002/prot.20164

Proteins 56:619-624 (2004)

PubMed id: 15229895

Crystal structure of an allantoicase (YIR029W) from Saccharomyces cerevisiae at 2.4 A resolution.

Q.Xu, R.Schwarzenbacher, R.Page, E.Sims, P.Abdubek, E.Ambing, T.Biorac, L.S.Brinen, J.Cambell, J.M.Canaves, H.J.Chiu, X.Dai, A.M.Deacon, M.DiDonato, M.A.Elsliger, R.Floyd, A.Godzik, C.Grittini, S.K.Grzechnik, E.Hampton, L.Jaroszewski, C.Karlak, H.E.Klock, E.Koesema, J.S.Kovarik, A.Kreusch, P.Kuhn, S.A.Lesley, I.Levin, D.McMullan, T.M.McPhillips, M.D.Miller, A.Morse, K.Moy, J.Ouyang, K.Quijano, R.Reyes, F.Rezezadeh, A.Robb, G.Spraggon, R.C.Stevens, H.van den Bedem, J.Velasquez, J.Vincent, F.von Delft, X.Wang, B.West, G.Wolf, K.O.Hodgson, J.Wooley, I.A.Wilson.

ABSTRACT

No abstract given.

Selected figure(s)

Figure 1.
Figure 1. Crystal structure of YIR029W. A: Stereo ribbon diagram of Saccharomyces cerevisiae YIR029W color coded from N-terminus (blue) to C-terminus (red) showing the domain organization. Helices H1-H7, and -strands ( 1- 24) in -sheets A-F are indicated. Residue numbers at the beginning and end of missing loops are indicated. B: Diagram showing the secondary structure elements in YIR029W superimposed on its primary sequence. The disordered regions are depicted by a dashed line with the corresponding sequence in brackets. The -sheet designation of the individual -strands are indicated by a red A-F and -hairpins are depicted as red loops.

Figure 2.
Figure 2. A: The YIR029W hexamer in surface representation, shown normal and parallel to the three-fold. Upper and lower trimers are colored grey and green, respectively. One subunit of the gray trimers is shown in blue and the clusters of conserved residues are highlighted in yellow. B: Ribbon diagram of a superposition of YIR029W AR1 (residues 1-187) in yellow and AR2 (residues 193-343) in blue. The cluster of conserved residues in AR1 and AR2 (labels shown in brackets) is shown in ball and stick. C: Ribbon diagram of a superposition of YIR029W AR2 (residues 193-343) in blue and the galactose-binding domain (PDB:1euu) in white with bound substrate (D-galactose) The cluster of conserved residues in AR2 (blue) and the D-galactose (white) are shown in ball and stick.

The above figures are reprinted by permission from John Wiley & Sons, Inc.: Proteins (2004, 56, 619-624) copyright 2004.