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(-) Description

Title :  CRYSTAL STRUCTURE OF DTDP-4-DEHYDRORHAMNOSE 3,5-EPIMERASE HOMOLOGUE FROM SULFOLOBUS TOKODAII
 
Authors :  N. Watanabe, N. Sakai, Z. Zilian, Y. Kawarabayasi, I. Tanaka
Date :  29 Jun 04  (Deposition) - 26 Jul 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Jelly Roll-Like Topology, Flattened Barrel, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Watanabe, N. Sakai, Z. Zilian, Y. Kawarabayasi, I. Tanaka
Crystal Structure Of Dtdp-4-Dehydrorhamnose 3, 5-Epimerase Homologue
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 176AA LONG HYPOTHETICAL DTDP-4-DEHYDRORHAMNOSE 3, 5-EPIMERASE
    Chains: A, B
    EC Number: 5.1.3.13
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET23Q
    Expression System Strain: B834(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: SULFOLOBUS TOKODAII
    Organism Taxid: 111955
    Synonym: DTDP-4-DEHYDRORHAMNOSE 3,5-EPIMERASE HOMOLOGUE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1WLT)

(-) Sites  (0, 0)

(no "Site" information available for 1WLT)

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:144 -A:166
2B:144 -B:166

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Gly A:59 -Leu A:60
2Thr A:65 -Pro A:66
3Met B:1 -Pro B:2
4Gly B:59 -Leu B:60
5Thr B:65 -Pro B:66

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1WLT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1WLT)

(-) Exons   (0, 0)

(no "Exon" information available for 1WLT)

(-) 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:176
 aligned with Q96Z62_SULTO | Q96Z62 from UniProtKB/TrEMBL  Length:176

    Alignment length:176
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170      
         Q96Z62_SULTO     1 MPFEFENLGMGIILIKPKVFPDKRGFFLEVFKSEDFTKMRIPNVIQTNMSFSRKGVVRGLHYQRTPKEQGKIIFVPKGRILDVAVDVRKSSPTFGKYVKAELNEENHYMLWIPPGFAHGFQALEDSIVIYFITHNEYSPPHERCISYSYIDWPIKEVIISDKDLQCPSLEKAEVFD 176
               SCOP domains d1wlta1 A:1-176 dTDP-4-dehydrorhamnose 3,5-epimerase RmlC                                                                                                                        SCOP domains
               CATH domains 1wltA00 A:1-176 Jelly Rolls                                                                                                                                                      CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee..eeeeee..eee..eeeeeeeehhhhhhh....eeeeeeeee....eeeeeee......eeeeeeee.eeeeeeee..........eeeeeee.....eeee...eeeeeee...eeeeeeee....hhh.eee.hhhhh.........hhhhhh........... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1wlt A   1 MPFEFENLGMGIILIKPKVFPDKRGFFLEVFKSEDFTKMRIPNVIQTNMSFSRKGVVRGLHYQRTPKEQGKIIFVPKGRILDVAVDVRKSSPTFGKYVKAELNEENHYMLWIPPGFAHGFQALEDSIVIYFITHNEYSPPHERCISYSYIDWPIKEVIISDKDLQCPSLEKAEVFD 176
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170      


Chain B from PDB  Type:PROTEIN  Length:176
 aligned with Q96Z62_SULTO | Q96Z62 from UniProtKB/TrEMBL  Length:176

    Alignment length:176
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170      
         Q96Z62_SULTO     1 MPFEFENLGMGIILIKPKVFPDKRGFFLEVFKSEDFTKMRIPNVIQTNMSFSRKGVVRGLHYQRTPKEQGKIIFVPKGRILDVAVDVRKSSPTFGKYVKAELNEENHYMLWIPPGFAHGFQALEDSIVIYFITHNEYSPPHERCISYSYIDWPIKEVIISDKDLQCPSLEKAEVFD 176
               SCOP domains d1wltb_ B: dTDP-4-dehydrorhamnose 3,5-epimerase RmlC                                                                                                                             SCOP domains
               CATH domains 1wltB00 B:1-176 Jelly Rolls                                                                                                                                                      CATH domains
           Pfam domains (1) ------dTDP_sugar_isom-1wltB01 B:7-172                                                                                                                                       ---- Pfam domains (1)
           Pfam domains (2) ------dTDP_sugar_isom-1wltB02 B:7-172                                                                                                                                       ---- Pfam domains (2)
         Sec.struct. author ..eeeeeee..eeeeee..eee..eeeeeeeehhhhhhh....eeeeeeeee....eeeeeee......eeeeeeee.eeeeeeee..........eeeeeee.....eeee...eeeeeee...eeeeeeee....hhh.eee.hhhhh.........hhhhhh..hhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1wlt B   1 MPFEFENLGMGIILIKPKVFPDKRGFFLEVFKSEDFTKMRIPNVIQTNMSFSRKGVVRGLHYQRTPKEQGKIIFVPKGRILDVAVDVRKSSPTFGKYVKAELNEENHYMLWIPPGFAHGFQALEDSIVIYFITHNEYSPPHERCISYSYIDWPIKEVIISDKDLQCPSLEKAEVFD 176
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170
   Legend:   → Mismatch (orange background)
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  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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: Cupin (179)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q96Z62_SULTO | Q96Z62)
molecular function
    GO:0008830    dTDP-4-dehydrorhamnose 3,5-epimerase activity    Catalysis of the reaction: dTDP-4-dehydro-6-deoxy-alpha-D-glucose = dTDP-4-dehydro-6-deoxy-L-mannose.
    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.

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  Cis Peptide Bonds
    Gly A:59 - Leu A:60   [ RasMol ]  
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 Related Entries

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UniProtKB/TrEMBL
        Q96Z62_SULTO | Q96Z62: 2b9u

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