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(-) Description

Title :  CRYSTAL STRUCTURE OF GLUCURONATE ISOMERASE FROM CAULOBACTER CRESCENTUS
 
Authors :  Y. Patskovsky, J. Bonanno, V. Sridhar, J. M. Sauder, J. Freeman, A. Powe J. Koss, C. Groshong, T. Gheyi, S. R. Wasserman, F. Raushel, S. K. Burle S. C. Almo, New York Sgx Research Center For Structural Genomi (Nysgxrc)
Date :  18 May 07  (Deposition) - 29 May 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.34
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Isomerase, Structural Genomics, Protein Structure Initiative, Psi, New York Sgx Research Center For Structural Genomics, Nysgxrc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Patskovsky, J. Bonanno, V. Sridhar, J. M. Sauder, J. Freeman, A. Powell, J. Koss, C. Groshong, T. Gheyi, S. R. Wasserman, F. Raushel, S. K. Burley, S. C. Almo
Crystal Structure Of Glucuronate Isomerase From Caulobacter Crescentus.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - URONATE ISOMERASE
    Atcc: 19089
    Chains: A, B, C
    EC Number: 5.3.1.12
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PSGX3(BC)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: UXAC, CC_1490
    Organism Scientific: CAULOBACTER CRESCENTUS
    Organism Taxid: 190650
    Strain: CB15
    Synonym: GLUCURONATE ISOMERASE, URONIC ISOMERASE

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1K3Ligand/IonPOTASSIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:373 , TYR A:376 , LEU A:379 , ASN A:409 , HOH A:604 , SER B:73BINDING SITE FOR RESIDUE K A 501
2AC2SOFTWAREALA B:373 , TYR B:376 , LEU B:379 , ASN B:409 , HOH B:578 , SER C:73BINDING SITE FOR RESIDUE K B 502
3AC3SOFTWARESER A:73 , HOH A:599 , ALA C:373 , TYR C:376 , LEU C:379 , ASN C:409BINDING SITE FOR RESIDUE K C 503

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2Q01)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2Q01)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2Q01)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2Q01)

(-) Exons   (0, 0)

(no "Exon" information available for 2Q01)

(-) 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:479
 aligned with UXAC_CAUCR | Q9A874 from UniProtKB/Swiss-Prot  Length:487

    Alignment length:479
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472         
           UXAC_CAUCR     3 RPLSFHEDRLFPSDPATRSYARGLYALVKDLPIISPHGHTDPSWFATNAPFQDATDLLLAPDHYLFRMLYSQGVSLDALKVRSKAGVPDTDPREAWRVFASHFYLFRGTPSWVWLNHVFSQVFGFTEFLEASNADDYFDRITAALATDAFRPRALFDRFNIETLATTEGPHESLQHHAAIRESGWGGHVITAYRPDAVIDFEDERSPRAFERFAETSGQDVYSWKSYLEAHRLRRQAFIDAGATSSDHGHPTAATADLSDVEAEALFNSLVKGDVTPEKAELFRAQMLTEMAKMSLDDGLVMQIHPGSHRNHNVGLLNSHGRDKGADIPMRTEYVDALKPLLTRLGNDPRLSIILFTLDETTYSRELAPLAGHYPVLKLGPSWWFHDSPEGMMRFREQVTETAGFYNTVGFNDDTRAFLSIPARHDVARRVDSAFLARMVAEHRMDLVEAEELIVDLTYNLPKKAYKLDQRPDWARPAT 481
               SCOP domains d2q01a_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains --2q01A01 A:5-51,A:152-481                       2q01A02 A:52-151 uronate isomerase, domain 2, chain A                                               2q01A01 A:5-51,A:152-481 Metal-dependent hydrolases                                                                                                                                                                                                                                                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhhhhh.....eee......hhhhhhh....hhhhhh...hhhhhhhhhh...................hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeee........hhhhhhhhhh.....ee..............hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh...eeee..........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh.eeee...ee...hhhhhhhh.......ee........hhhhhhhhh......eee.....hhhhhhhhhhhh....eee...hhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2q01 A   3 RPLSFHEDRLFPSDPATRSYARGLYALVKDLPIISPHGHTDPSWFATNAPFQDATDLLLAPDHYLFRMLYSQGVSLDALKVRSKAGVPDTDPREAWRVFASHFYLFRGTPSWVWLNHVFSQVFGFTEFLEASNADDYFDRITAALATDAFRPRALFDRFNIETLATTEGPHESLQHHAAIRESGWGGHVITAYRPDAVIDFEDERSPRAFERFAETSGQDVYSWKSYLEAHRLRRQAFIDAGATSSDHGHPTAATADLSDVEAEALFNSLVKGDVTPEKAELFRAQMLTEMAKMSLDDGLVMQIHPGSHRNHNVGLLNSHGRDKGADIPMRTEYVDALKPLLTRLGNDPRLSIILFTLDETTYSRELAPLAGHYPVLKLGPSWWFHDSPEGMMRFREQVTETAGFYNTVGFNDDTRAFLSIPARHDVARRVDSAFLARMVAEHRMDLVEAEELIVDLTYNLPKKAYKLDQRPDWARPAT 481
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472         


Chain B from PDB  Type:PROTEIN  Length:480
 aligned with UXAC_CAUCR | Q9A874 from UniProtKB/Swiss-Prot  Length:487

    Alignment length:480
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482
           UXAC_CAUCR     3 RPLSFHEDRLFPSDPATRSYARGLYALVKDLPIISPHGHTDPSWFATNAPFQDATDLLLAPDHYLFRMLYSQGVSLDALKVRSKAGVPDTDPREAWRVFASHFYLFRGTPSWVWLNHVFSQVFGFTEFLEASNADDYFDRITAALATDAFRPRALFDRFNIETLATTEGPHESLQHHAAIRESGWGGHVITAYRPDAVIDFEDERSPRAFERFAETSGQDVYSWKSYLEAHRLRRQAFIDAGATSSDHGHPTAATADLSDVEAEALFNSLVKGDVTPEKAELFRAQMLTEMAKMSLDDGLVMQIHPGSHRNHNVGLLNSHGRDKGADIPMRTEYVDALKPLLTRLGNDPRLSIILFTLDETTYSRELAPLAGHYPVLKLGPSWWFHDSPEGMMRFREQVTETAGFYNTVGFNDDTRAFLSIPARHDVARRVDSAFLARMVAEHRMDLVEAEELIVDLTYNLPKKAYKLDQRPDWARPATL 482
               SCOP domains d2q01b_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains --2q01B01 B:5-51,B:152-482                       2q01B02 B:52-151 uronate isomerase, domain 2, chain A                                               2q01B01 B:5-51,B:152-482 Metal-dependent hydrolases                                                                                                                                                                                                                                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .............hhhhhhhhhhhhhh.....eee......hhhhhhh....hhhhhhh..hhhhhhhhhh...................hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeee........hhhhhhhhhh....eee....hhhhh.....hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh...eeee..........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh.eeee...ee...hhhhhhhh.......ee........hhhhhhhhh......eee.....hhhhhhhhhhhh....eee...hhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2q01 B   3 RPLSFHEDRLFPSDPATRSYARGLYALVKDLPIISPHGHTDPSWFATNAPFQDATDLLLAPDHYLFRMLYSQGVSLDALKVRSKAGVPDTDPREAWRVFASHFYLFRGTPSWVWLNHVFSQVFGFTEFLEASNADDYFDRITAALATDAFRPRALFDRFNIETLATTEGPHESLQHHAAIRESGWGGHVITAYRPDAVIDFEDERSPRAFERFAETSGQDVYSWKSYLEAHRLRRQAFIDAGATSSDHGHPTAATADLSDVEAEALFNSLVKGDVTPEKAELFRAQMLTEMAKMSLDDGLVMQIHPGSHRNHNVGLLNSHGRDKGADIPMRTEYVDALKPLLTRLGNDPRLSIILFTLDETTYSRELAPLAGHYPVLKLGPSWWFHDSPEGMMRFREQVTETAGFYNTVGFNDDTRAFLSIPARHDVARRVDSAFLARMVAEHRMDLVEAEELIVDLTYNLPKKAYKLDQRPDWARPATL 482
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482


Chain C from PDB  Type:PROTEIN  Length:480
 aligned with UXAC_CAUCR | Q9A874 from UniProtKB/Swiss-Prot  Length:487

    Alignment length:480
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482
           UXAC_CAUCR     3 RPLSFHEDRLFPSDPATRSYARGLYALVKDLPIISPHGHTDPSWFATNAPFQDATDLLLAPDHYLFRMLYSQGVSLDALKVRSKAGVPDTDPREAWRVFASHFYLFRGTPSWVWLNHVFSQVFGFTEFLEASNADDYFDRITAALATDAFRPRALFDRFNIETLATTEGPHESLQHHAAIRESGWGGHVITAYRPDAVIDFEDERSPRAFERFAETSGQDVYSWKSYLEAHRLRRQAFIDAGATSSDHGHPTAATADLSDVEAEALFNSLVKGDVTPEKAELFRAQMLTEMAKMSLDDGLVMQIHPGSHRNHNVGLLNSHGRDKGADIPMRTEYVDALKPLLTRLGNDPRLSIILFTLDETTYSRELAPLAGHYPVLKLGPSWWFHDSPEGMMRFREQVTETAGFYNTVGFNDDTRAFLSIPARHDVARRVDSAFLARMVAEHRMDLVEAEELIVDLTYNLPKKAYKLDQRPDWARPATL 482
               SCOP domains d2q01c_ C: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains --2q01C01 C:5-51,C:152-482                       2q01C02 C:52-151 uronate isomerase, domain 2, chain A                                               2q01C01 C:5-51,C:152-482 Metal-dependent hydrolases                                                                                                                                                                                                                                                                                         CATH domains
           Pfam domains (1) -UxaC-2q01C01 C:4-473                                                                                                                                                                                                                                                                                                                                                                                                                                                                  --------- Pfam domains (1)
           Pfam domains (2) -UxaC-2q01C02 C:4-473                                                                                                                                                                                                                                                                                                                                                                                                                                                                  --------- Pfam domains (2)
           Pfam domains (3) -UxaC-2q01C03 C:4-473                                                                                                                                                                                                                                                                                                                                                                                                                                                                  --------- Pfam domains (3)
         Sec.struct. author .............hhhhhhhhhhhhhh.....eee......hhhhhhh.....hhhhhh..hhhhhhhhhhh...hhhhh..........hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeee........hhhhhhhhhh.....ee...hhhhhh.....hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh....eeee..........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh.eeee...ee...hhhhhhhh.......ee........hhhhhhhhh......eee.....hhhhhhhhhhhh....eee...hhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2q01 C   3 RPLSFHEDRLFPSDPATRSYARGLYALVKDLPIISPHGHTDPSWFATNAPFQDATDLLLAPDHYLFRMLYSQGVSLDALKVRSKAGVPDTDPREAWRVFASHFYLFRGTPSWVWLNHVFSQVFGFTEFLEASNADDYFDRITAALATDAFRPRALFDRFNIETLATTEGPHESLQHHAAIRESGWGGHVITAYRPDAVIDFEDERSPRAFERFAETSGQDVYSWKSYLEAHRLRRQAFIDAGATSSDHGHPTAATADLSDVEAEALFNSLVKGDVTPEKAELFRAQMLTEMAKMSLDDGLVMQIHPGSHRNHNVGLLNSHGRDKGADIPMRTEYVDALKPLLTRLGNDPRLSIILFTLDETTYSRELAPLAGHYPVLKLGPSWWFHDSPEGMMRFREQVTETAGFYNTVGFNDDTRAFLSIPARHDVARRVDSAFLARMVAEHRMDLVEAEELIVDLTYNLPKKAYKLDQRPDWARPATL 482
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482
   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  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 6)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: UxaC] (1)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (UXAC_CAUCR | Q9A874)
molecular function
    GO:0008880    glucuronate isomerase activity    Catalysis of the reaction: D-glucuronate = D-fructuronate.
    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:0006064    glucuronate catabolic process    The chemical reactions and pathways resulting in the breakdown of glucuronate, any salt or ester of glucuronic acid.

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