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(-) Description

Title :  1.76A STRUCTURE OF UROCANATE HYDRATASE FROM PSEUDOMONAS PUTIDA
 
Authors :  D. Kessler, J. Retey, G. E. Schulz
Date :  05 Feb 04  (Deposition) - 19 Aug 04  (Release) - 16 Jun 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.76
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hydrolase, Urocanase, Imidazolonepropionate, Histidine Metabolism, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Kessler, J. Retey, G. E. Schulz
Structure And Action Of Urocanase
J. Mol. Biol. V. 342 183 2004
PubMed-ID: 15313616  |  Reference-DOI: 10.1016/J.JMB.2004.07.028

(-) Compounds

Molecule 1 - UROCANATE HYDRATASE
    Chains: A, B
    EC Number: 4.2.1.49
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: BL21 DE3
    Expression System Taxid: 562
    Mutation: YES
    Organism Scientific: PSEUDOMONAS PUTIDA
    Organism Taxid: 303
    Other Details: CONTAINING NAD+
    Synonym: UROCANASE, IMIDAZOLONEPROPIONATE HYDROLASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1NAD2Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:44 , TYR A:52 , GLY A:53 , GLY A:54 , GLN A:131 , ILE A:145 , GLY A:176 , GLY A:177 , MET A:178 , GLY A:179 , ILE A:196 , GLU A:197 , SER A:198 , GLN A:199 , ARG A:202 , GLY A:242 , ASN A:243 , ALA A:244 , GLN A:264 , THR A:265 , SER A:266 , HIS A:268 , GLY A:273 , TYR A:274 , LEU A:275 , TYR A:323 , ASN A:325 , PHE A:345 , LEU A:445 , ARG A:455 , GLY A:493 , HOH A:2043 , HOH A:2441 , HOH A:2442 , HOH A:2443BINDING SITE FOR RESIDUE NAD A1555
2AC2SOFTWAREGLU B:44 , TYR B:52 , GLY B:53 , GLY B:54 , GLN B:131 , ILE B:145 , GLY B:176 , GLY B:177 , MET B:178 , GLY B:179 , GLU B:197 , SER B:198 , GLN B:199 , ARG B:202 , GLY B:242 , ASN B:243 , ALA B:244 , GLN B:264 , THR B:265 , SER B:266 , HIS B:268 , GLY B:273 , TYR B:274 , LEU B:275 , TYR B:323 , ASN B:325 , PHE B:345 , LEU B:445 , ARG B:455 , GLY B:493 , HOH B:2042 , HOH B:2337 , HOH B:2404 , HOH B:2405 , HOH B:2406BINDING SITE FOR RESIDUE NAD B1555

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1UWL)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1UWL)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1UROCANASEPS01233 Urocanase signature.HUTU_PSEPU442-457
 		  2A:442-457
B:442-457

(-) Exons   (0, 0)

(no "Exon" information available for 1UWL)

(-) 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:551
 aligned with HUTU_PSEPU | P25080 from UniProtKB/Swiss-Prot  Length:557

    Alignment length:551
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554 
           HUTU_PSEPU     5 NKYRDVEIRAPRGNKLTAKSWLTEAPLRMLMNNLDPQVAENPKELVVYGGIGRAARNWECYDKIVETLTRLEDDETLLVQSGKPVGVFKTHSNAPRVLIANSNLVPHWANWEHFNELDAKGLAMYGQMTAGSWIYIGSQGIVQGTYETFVEAGRQHYGGTVKAKWVLTAGLGGMGGAQPLAATLAGACSLNIECQQSRIDFRLETRYVDEQATDLDDALVRIAKYTAEGKAISIALHGNAAEILPELVKRGVRPDMVTDQTSAHDPLNGYLPAGWTWEQYRDRAQTEPAAVVKAAKQSMAVHVQAMLDFQKQGVPTFDYGNNIRQMAKEEGVANAFDFPGFVPAYIRPLFCRGVGPFRWAALSGEAEDIYKTDAKVKELIPDDAHLHRWLDMARERISFQGLPARICWVGLGLRAKLGLAFNEMVRSGELSAPVVIGRDHLDSGSVSSPNRETEAMRDGSDAVSDWPLLNALLNTAGGATWVSLHHGGGVGMGFSQHSGMVIVCDGTDEAAERIARVLTNDPGTGVMRHADAGYDIAIDCAKEQGLDLPMI 555
               SCOP domains d1uwla_ A: Urocanate hydratase HutU                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -----------------------------------------------------------------------------------------------------------------------------------------1uwlA02 A:142-349 Urocanase like domains                                                                                                                                                                        -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................hhhhhhhhhhhhhhh.......hhh.eee...ee...hhhhhhhhhhhhhhh...eeeeee..eeeeeee.......eeeee...hhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhhhh......eeeee......hhhhhhhhhh..eeeeee.hhhhhhhhhhh....ee..hhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhh....ee..................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhh...hhhhh.hhhhhhhhhhhh.....eeeee...hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh......eee.....hhhhhhhhhhhhhhhh......eeeee.......ee................hhhhhhhhhhhhhhh..eeeeee.........eeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UROCANASE       -------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1uwl A   5 NNYRDVEIRAPRGNKLTAKSWLTEAPLRMLMNNLDPQVAENPKELVVYGGIGRAARNWECYDKIVETLTRLEDDETLLVQSGKPVGVFKTHSNAPRVLIANSNLVPHWANWEHFNELDAKGLAMYGQMTAGSWIYIGSQGIVQGTYETFVEAGRQHYGGSLKGKWVLTAGLGGMGGAQPLAATLAGACSLNIESQQSRIDFRLETRYVDEQATDLDDALVRIAKYTAEGKAISIALHGNAAEILPELVKRGVRPDMVTDQTSAHDPLNGYLPAGWTWEQYRDRAQTEPAAVVKAAKQSMAVHVQAMLDFQKQGVPTFDYGNNIRQMAKEEGVANAFDFPGFVPAYIRPLFCRGVGPFRWAALSGEAEDIYKTDAKVKELIPDDAHLHRWLDMARERISFQGLPARICWVGLGLRAKLGLAFNEMVRSGELSAPVVIGRDHLDSGSVSSPNRETEAMRDGSDAVSDWPLLNALLNTAGGATWVSLHHGGGVGMGFSQHSGMVIVCDGTDEAAERIARVLTNDPGTGVMRHADAGYDIAIDCAKEQGLDLPMI 555
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554 


Chain B from PDB  Type:PROTEIN  Length:550
 aligned with HUTU_PSEPU | P25080 from UniProtKB/Swiss-Prot  Length:557

    Alignment length:550
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554
           HUTU_PSEPU     5 NKYRDVEIRAPRGNKLTAKSWLTEAPLRMLMNNLDPQVAENPKELVVYGGIGRAARNWECYDKIVETLTRLEDDETLLVQSGKPVGVFKTHSNAPRVLIANSNLVPHWANWEHFNELDAKGLAMYGQMTAGSWIYIGSQGIVQGTYETFVEAGRQHYGGTVKAKWVLTAGLGGMGGAQPLAATLAGACSLNIECQQSRIDFRLETRYVDEQATDLDDALVRIAKYTAEGKAISIALHGNAAEILPELVKRGVRPDMVTDQTSAHDPLNGYLPAGWTWEQYRDRAQTEPAAVVKAAKQSMAVHVQAMLDFQKQGVPTFDYGNNIRQMAKEEGVANAFDFPGFVPAYIRPLFCRGVGPFRWAALSGEAEDIYKTDAKVKELIPDDAHLHRWLDMARERISFQGLPARICWVGLGLRAKLGLAFNEMVRSGELSAPVVIGRDHLDSGSVSSPNRETEAMRDGSDAVSDWPLLNALLNTAGGATWVSLHHGGGVGMGFSQHSGMVIVCDGTDEAAERIARVLTNDPGTGVMRHADAGYDIAIDCAKEQGLDLPM 554
               SCOP domains d1uwlb_ B: Urocanate hydratase HutU                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains -----------------------------------------------------------------------------------------------------------------------------------------1uwlB02 B:142-349 Urocanase like domains                                                                                                                                                                        ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ------Urocanase-1uwlB01 B:11-554                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Pfam domains (1)
           Pfam domains (2) ------Urocanase-1uwlB02 B:11-554                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Pfam domains (2)
         Sec.struct. author ...................hhhhhhhhhhhhhh........hhh.eee...ee...hhhhhhhhhhhhhhh...eeeeee..eeeeeee.......eeeee...hhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhhh.......eeeee......hhhhhhhhhh..eeeeee.hhhhhhhhhhh....ee..hhhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhh.....ee.......hhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhh...hhhhh.hhhhhhhhhhhh.....eeeee...hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh......eee.....hhhhhhhhhhhhhhhh......eeeee.......ee................hhhhhhhhhhhhhhh..eeeeee.........eeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UROCANASE       ------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1uwl B   5 NNYRDVEIRAPRGNKLTAKSWLTEAPLRMLMNNLDPQVAENPKELVVYGGIGRAARNWECYDKIVETLTRLEDDETLLVQSGKPVGVFKTHSNAPRVLIANSNLVPHWANWEHFNELDAKGLAMYGQMTAGSWIYIGSQGIVQGTYETFVEAGRQHYGGSLKGKWVLTAGLGGMGGAQPLAATLAGACSLNIESQQSRIDFRLETRYVDEQATDLDDALVRIAKYTAEGKAISIALHGNAAEILPELVKRGVRPDMVTDQTSAHDPLNGYLPAGWTWEQYRDRAQTEPAAVVKAAKQSMAVHVQAMLDFQKQGVPTFDYGNNIRQMAKEEGVANAFDFPGFVPAYIRPLFCRGVGPFRWAALSGEAEDIYKTDAKVKELIPDDAHLHRWLDMARERISFQGLPARICWVGLGLRAKLGLAFNEMVRSGELSAPVVIGRDHLDSGSVSSPNRETEAMRDGSDAVSDWPLLNALLNTAGGATWVSLHHGGGVGMGFSQHSGMVIVCDGTDEAAERIARVLTNDPGTGVMRHADAGYDIAIDCAKEQGLDLPM 554
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554
   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, 2)

Asymmetric/Biological Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Urocanase] (5)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (HUTU_PSEPU | P25080)
molecular function
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0016153    urocanate hydratase activity    Catalysis of the reaction: 4-imidazolone-5-propanoate + H(+) = trans-urocanate + H(2)O.
biological process
    GO:0006548    histidine catabolic process    The chemical reactions and pathways resulting in the breakdown of histidine, 2-amino-3-(1H-imidazol-4-yl)propanoic acid.
    GO:0019556    histidine catabolic process to glutamate and formamide    The chemical reactions and pathways resulting in the breakdown of histidine into other compounds, including glutamate and formamide.
    GO:0019557    histidine catabolic process to glutamate and formate    The chemical reactions and pathways resulting in the breakdown of histidine into other compounds, including glutamate and formate.
    GO:0006547    histidine metabolic process    The chemical reactions and pathways involving histidine, 2-amino-3-(1H-imidazol-4-yl)propanoic acid.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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  1uwl
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  4.2.1.49
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 Related Entries

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

UniProtKB/Swiss-Prot
        HUTU_PSEPU | P25080: 1uwk 1w1u 2v7g

(-) Related Entries Specified in the PDB File

1uwk THE HIGH RESOLUTION STRUCTURE OF UROCANATE HYDRATASE FROM PSEUDOMONAS PUTIDA IN COMPLEX WITH UROCANATE
1w1u INACTIVE UROCANASE-SA COCRYSTALLIZED WITH UROCANATE