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(-) Description

Title :  2.4A X-RAY STRUCTURE OF UROCANASE PROTEIN COMPLEXED WITH NAD
 
Authors :  V. Tereshko, J. Zaborske, R. Gilbreth, I. Dementieva, F. Collart, A. Jo A. Kossiakoff, Midwest Center For Structural Genomics (Mcsg)
Date :  17 Aug 04  (Deposition) - 05 Oct 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Putative Urocanase Protein, Protein Structure Initiative, Mcsg, Psi, Midwest Center For Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Tereshko, J. Zaborske, R. Gilbreth, I. Dementieva, F. Collart, A. Joachimiak, A. Kossiakoff
2. 4A X-Ray Structure Of Urocanase Protein Complexed With Na
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - UROCANASE PROTEIN
    Chains: A, B
    EC Number: 4.2.1.49
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: GEOBACILLUS STEAROTHERMOPHILUS
    Organism Taxid: 1422

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 29)

Asymmetric/Biological Unit (2, 29)
No.NameCountTypeFull Name
1MSE27Mod. Amino AcidSELENOMETHIONINE
2NAD2Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:171 , GLY A:172 , MSE A:173 , GLY A:174 , GLU A:192 , VAL A:193 , ARG A:197 , ASN A:238 , ALA A:239 , GLN A:259 , THR A:260 , SER A:261 , HIS A:263 , GLY A:268 , TYR A:269 , ILE A:270 , TYR A:318 , GLY A:319 , ASN A:320 , PHE A:340 , HOH A:621 , HOH A:627BINDING SITE FOR RESIDUE NAD A 600
2AC2SOFTWAREGLY B:169 , GLY B:171 , GLY B:172 , MSE B:173 , GLY B:174 , GLU B:192 , VAL B:193 , ARG B:197 , ASN B:238 , ALA B:239 , GLN B:259 , THR B:260 , HIS B:263 , GLY B:268 , TYR B:269 , ILE B:270 , TYR B:318 , ASN B:320 , PHE B:340 , HOH B:815BINDING SITE FOR RESIDUE NAD B 600

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1X87)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1X87)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1X87)

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1UROCANASEPS01233 Urocanase signature.HUTU_GEOKA437-452
 		  2A:437-440
B:437-438

(-) Exons   (0, 0)

(no "Exon" information available for 1X87)

(-) 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:495
 aligned with HUTU_GEOKA | Q5L084 from UniProtKB/Swiss-Prot  Length:551

    Alignment length:545
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546     
           HUTU_GEOKA     7 VSPPAGTERRAKGWIQEAALRMLNNNLHPDVAERPDELIVYGGIGKAARNWECYEAIVDTLLRLENDETLLIQSGKPVAVFRTHPDAPRVLIANSNLVPAWATWDHFHELDKKGLIMYGQMTAGSWIYIGSQGIVQGTYETFAEVARQHFGGTLAGTITLTAGLGGMGGAQPLAVTMNGGVCLAIEVDPARIQRRIDTNYLDTMTDSLDAALEMAKQAKEEKKALSIGLVGNAAEVLPRLVEMGFVPDVLTDQTSAHDPLNGYIPAGLTLDEAAELRARDPKQYIARAKQSIAAHVRAMLAMQKQGAVTFDYGNNIRQVAKDEGVDDAFSFPGFVPAYIRPLFCEGKGPFRWVALSGDPEDIYKTDEVILREFSDNERLCHWIRMAQKRIKFQGLPARICWLGYGERAKFGKIINDMVAKGELKAPIVIGRDHLDSGSVASPNRETEGMKDGSDAIADWPILNALLNAVGGASWVSVHHGGGVGMGYSIHAGMVIVADGTKEAEKRLERVLTTDPGLGVVRHADAGYELAIRTAKEKGIDMPMLK 551
               SCOP domains d1x87a_ A: Urocanate hydratase               HutU                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------1x87A02 A:136-353 Urocanase like domains                                                                                                                                                                                  ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhhh....--------------....hhhhhhhhhhhhhhh...eeeeee..eeeeeee.......eeeeeeee.hhhhh...-----------------.......hhhhhhhhhhhhhhhhhhhh.......eeeee....hhhhhhhhhhhh..eeeeee.hhhhhhhhhhh....eee.hhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhh.....ee..................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.....hhhhhhhhh...hhhhh.hhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh......eeeeee..hhhhhhhhhhhhhhhh......eeeee...-------------------...hhhhhhhhhhhhhhh..eeeeeeeee...eeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UROCANASE       --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1x87 A   7 VRPFAGTERRAKGWIQEAALRmLNNNLHPDV--------------KAARNWECYEAIVDTLLRLENDETLLIQSGKPVAVFRTHPDAPRVLIANSNLVPAWATWDH-----------------GSWIYIGSQGIVQGTYETFAEVARQHFGGTLAGTITLTAGLGGmGGAQPLAVTmNGGVCLAIEVDPARIQRRIDTNYLDTmTDSLDAALEmAKQAKEEKKALSIGLVGNAAEVLPRLVETGFVPDVLTDQTSAHDPLNGYIPAGLTLDEAAELRARDPKQYIARAKQSIAAHVRAmLAmQKQGAVTFDYGNNIRQVAKDEGVDDAFSFPGFVPAYIRPLFCEGKGPFRWVALSGDPEDIYKTDEVILREFSDNERLCHWIRmAQKRIKFQGLPARICWLGYGERAKFGKIINDmVAKGELKAPIVIGRDHL-------------------DAIADWPILNALLNAVGGASWVSVHHGGGVGmGYSIHAGmVIVADGTKEAEKRLERVLTTDPGLGVIRHADAGYELAIRTAKEKGIDmPmLK 551
                                    16        26 |      36|        -     |  56        66        76        86        96       106     |   -         -   |   136       146       156       166      |176      |186       196       206   |   216   |   226       236       246       256       266       276       286       296       306 |     316       326       336       346       356       366       376       386    |  396       406       416      |426       436   |     -         -   |   466       476       486    |  496  |    506       516       526       536       546| |  
                                                28-MSE   37             52                                                         112               130                                        173-MSE   183-MSE                    210-MSE   220-MSE                                                                              305-MSE                                                                               391-MSE                         423-MSE          440                 460                            491-MSE 499-MSE                                         547-MSE
                                                                                                                                                                                                                                                                                                                                       308-MSE                                                                                                                                                                                                                                          549-MSE


Chain B from PDB  Type:PROTEIN  Length:493
 aligned with HUTU_GEOKA | Q5L084 from UniProtKB/Swiss-Prot  Length:551

    Alignment length:540
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550
           HUTU_GEOKA    11 AGTERRAKGWIQEAALRMLNNNLHPDVAERPDELIVYGGIGKAARNWECYEAIVDTLLRLENDETLLIQSGKPVAVFRTHPDAPRVLIANSNLVPAWATWDHFHELDKKGLIMYGQMTAGSWIYIGSQGIVQGTYETFAEVARQHFGGTLAGTITLTAGLGGMGGAQPLAVTMNGGVCLAIEVDPARIQRRIDTNYLDTMTDSLDAALEMAKQAKEEKKALSIGLVGNAAEVLPRLVEMGFVPDVLTDQTSAHDPLNGYIPAGLTLDEAAELRARDPKQYIARAKQSIAAHVRAMLAMQKQGAVTFDYGNNIRQVAKDEGVDDAFSFPGFVPAYIRPLFCEGKGPFRWVALSGDPEDIYKTDEVILREFSDNERLCHWIRMAQKRIKFQGLPARICWLGYGERAKFGKIINDMVAKGELKAPIVIGRDHLDSGSVASPNRETEGMKDGSDAIADWPILNALLNAVGGASWVSVHHGGGVGMGYSIHAGMVIVADGTKEAEKRLERVLTTDPGLGVVRHADAGYELAIRTAKEKGIDMPML 550
               SCOP domains d1x87b_ B: Urocanate hydratase Hut       U                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains 1x87B01 B:11-135,B:354-550 Urocana       se superfamily                                                                      1x87B02 B:136-353 Urocanase like domains                                                                                                                                                                                  1x87B01 B:11-135,B:354-550 Urocanase superfamily                                                                                                                                                      CATH domains
           Pfam domains (1) Urocanase-1x87B01 B:11-550                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   Pfam domains (1)
           Pfam domains (2) Urocanase-1x87B02 B:11-550                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   Pfam domains (2)
         Sec.struct. author ........hhhhhhhhhhhhhhh...........-------....hhhhhhhhhhhhhhh...eeeeee..eeeeeee.......eeeeeee--------------------------........hhhhhhhhhhhhhhhhhhhh.......eeeee......hhhhhhhhhh..eeeeee.hhhhhhhhhhh....eee.hhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhhh.....ee..................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.....hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh......eeeeee..hhhhhhhhhhhhhhhh......eeeee.--------------..........hhhhhhhhhhhhhhh..eeeeeeeee...eeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UROCANASE       -------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1x87 B  11 AGTERRAKGWIQEAALRmLNNNLHPDVAERPDEL-------KAARNWECYEAIVDTLLRLENDETLLIQSGKPVAVFRTHPDAPRVLIANSN--------------------------AGSWIYIGSQGIVQGTYETFAEVARQHFGGTLAGTITLTAGLGGmGGAQPLAVTmNGGVCLAIEVDPARIQRRIDTNYLDTmTDSLDAALEmAKQAKEEKKALSIGLVGNAAEVLPRLVETGFVPDVLTDQTSAHDPLNGYIPAGLTLDEAAELRARDPKQYIARAKQSIAAHVRAmLAmQKQGAVTFDYGNNIRQVAKDEGVDDAFSFPGFVPAYIRPLFCEGKGPFRWVALSGDPEDIYKTDEVILREFSDNERLCHWIRmAQKRIKFQGLPARICWLGYGERAKFGKIINDmVAKGELKAPIVIGRD--------------EGmKDGSDAIADWPILNALLNAVGGASWVSVHHGGGVGmGYSIHAGmVIVADGTKEAEKRLERVLTTDPGLGVIRHADAGYELAIRTAKEKGIDmPmL 550
                                    20       |30        40   |     - |      60        70        80        90       100 |       -         -       130       140       150       160       170  |    180  |    190       200       210       220       230       240       250       260       270       280       290       300    |  310       320       330       340       350       360       370       380       390|      400       410       420  |    430       | -         -  | |  460       470       480       490|      500       510       520       530       540      |550
                                            28-MSE          44      52                                               102                        129                                         173-MSE   183-MSE                    210-MSE   220-MSE                                                                              305-MSE                                                                               391-MSE                         423-MSE        438            453 |                                 491-MSE 499-MSE                                         547-MSE
                                                                                                                                                                                                                                                                                                                                   308-MSE                                                                                                                                            455-MSE                                                                                       549-MSE
   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  (2, 3)

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_GEOKA | Q5L084)
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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  1x87
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  4.2.1.49
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 Related Entries

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