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(-) Description

Title :  STRUCTURE-BASED FUNCTIONAL ANNOTATION: YEAST YMR099C CODES FOR A D-HEXOSE-6-PHOSPHATE MUTAROTASE.
 
Authors :  M. Graille, J. -P. Baltaze, N. Leulliot, D. Liger, S. Quevillon-Cheruel, H. Van Tilbeurgh
Date :  24 Mar 06  (Deposition) - 11 Jul 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Epimerase, Isomerase, Mannose-6-Phosphate-1-Epimerase, Galactose-6-Phosphate-1-Epimerase, D-Hexose-6-Phosphate-1- Mutarotase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Graille, J. Baltaze, N. Leulliot, D. Liger, S. Quevillon-Cheruel, H. Van Tilbeurgh
Structure-Based Functional Annotation: Yeast Ymr099C Codes For A D-Hexose-6-Phosphate Mutarotase.
J. Biol. Chem. V. 281 30175 2006
PubMed-ID: 16857670  |  Reference-DOI: 10.1074/JBC.M604443200

(-) Compounds

Molecule 1 - HEXOSE-6-PHOSPHATE MUTAROTASE
    Chains: A
    EC Number: 5.1.3.15
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET9
    Expression System Strain: ROSETTA(DE3)PLYSS
    Expression System Taxid: 562
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Strain: S288C

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 5)

Asymmetric/Biological Unit (4, 5)
No.NameCountTypeFull Name
1EPE1Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINEETHANESULFONIC ACID
2GOL1Ligand/IonGLYCEROL
3NA1Ligand/IonSODIUM ION
4SO42Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:74 , ALA A:249 , GLU A:252 , HOH A:2099 , HOH A:2265 , HOH A:2268BINDING SITE FOR RESIDUE NA A1290
2AC2SOFTWAREARG A:57 , GLN A:81 , ARG A:86 , HOH A:2300 , HOH A:2301 , HOH A:2303BINDING SITE FOR RESIDUE SO4 A1292
3AC3SOFTWAREASN A:199 , GLN A:200BINDING SITE FOR RESIDUE SO4 A1293
4AC4SOFTWAREASN A:99 , SER A:210 , ALA A:211 , TYR A:230 , ASN A:231 , TRP A:280 , HOH A:2235 , HOH A:2296 , HOH A:2297BINDING SITE FOR RESIDUE EPE A1289
5AC5SOFTWAREPHE A:67 , HIS A:82 , HIS A:159 , GLN A:183 , ASP A:203 , GLU A:264 , HOH A:2110 , HOH A:2299 , HOH A:2300BINDING SITE FOR RESIDUE GOL A1291

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2CIQ)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Phe A:64 -Pro A:65
2Asn A:99 -Pro A:100
3Glu A:252 -Pro A:253

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2CIQ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2CIQ)

(-) Exons   (1, 1)

Asymmetric/Biological Unit (1, 1)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YMR099C1YMR099C.1XIII:464826-463933894YMY9_YEAST1-2972971A:2-288287

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:287
 aligned with YMY9_YEAST | Q03161 from UniProtKB/Swiss-Prot  Length:297

    Alignment length:287
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       
           YMY9_YEAST     2 PIKETDKEVVLTHPADETTSVHILKYGATVYSWKLKSEEQLWLSTAAKLDGSKPVRGGIPLVFPVFGKNSTDEHLSKLPQHGLARNSTWEFLGQTKENPPTVQFGLKPEIANPELTKLWPMDYLLILTVELGSDYLKTAIEVENTSSSKELKFNWLFHTYFRIEDIEGTMVSNLAGMKLYDQLLKESYVDKHPVVTFNQETDVIYQNVSAERAIQIVDKGVQIHTLKRYNLPDTVVWNPWIEKSQGMADFEPKTGYQQMICIEPGHVHDFISLAPGKKWNAYQLLCK 288
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...eeeeee..eeeeeeeee....eeeeeee..ee.....................ee...........hhhhh....hhhhh..eeeeeee....eeeeeehhhhhhhhhhhhh....eeeeeeee...eeeeeeeee.......eeeeeee..eee..hhh.eeee.....eeee....eeee....ee.....eeeee........eeeee..eeeeeeeee...eeeeeehhhhhhhhh......hhhh.eeeeeeeeeeeeeee....eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: A:2-288 UniProt: 1-297 [INCOMPLETE]                                                                                                                                                                                                                                              Transcript 1
                 2ciq A   2 PIKETDKEVVLTHPADETTSVHILKYGATVYSWKLKSEEQLWLSTAAKLDGSKPVRGGIPLVFPVFGKNSTDEHLSKLPQHGLARNSTWEFLGQTKENPPTVQFGLKPEIANPELTKLWPMDYLLILTVELGSDYLKTAIEVENTSSSKELKFNWLFHTYFRIEDIEGTMVSNLAGMKLYDQLLKESYVDKHPVVTFNQETDVIYQNVSAERAIQIVDKGVQIHTLKRYNLPDTVVWNPWIEKSQGMADFEPKTGYQQMICIEPGHVHDFISLAPGKKWNAYQLLCK 288
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 2CIQ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2CIQ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2CIQ)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (YMY9_YEAST | Q03161)
molecular function
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0047938    glucose-6-phosphate 1-epimerase activity    Catalysis of the reaction: alpha-D-glucose 6-phosphate = beta-D-glucose 6-phosphate.
    GO:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0044262    cellular carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y, as carried out by individual cells.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        YMY9_YEAST | Q03161: 2cir 2cis

(-) Related Entries Specified in the PDB File

2cir STRUCTURE-BASED FUNCTIONAL ANNOTATION: YEAST YMR099C CODES FOR A D-HEXOSE-6-PHOSPHATE MUTAROTASE. COMPLEX WITH GLUCOSE-6-PHOSPHATE
2cis STRUCTURE-BASED FUNCTIONAL ANNOTATION: YEAST YMR099C CODES FOR A D-HEXOSE-6-PHOSPHATE MUTAROTASE. COMPLEX WITH TAGATOSE-6-PHOSPHATE