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(-) Description

Title :  CRYSTAL STRUCTURE OF PURO FROM METHANOTHERMOBACTER THERMOAUTOTROPHICUS
 
Authors :  Y. N. Kang, A. Tran, R. H. White, S. E. Ealick
Date :  07 Nov 06  (Deposition) - 24 Apr 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Alpha-Beta-Beta-Alpha Ntn Hydrolase Fold (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. N. Kang, A. Tran, R. H. White, S. E. Ealick
A Novel Function For The N-Terminal Nucleophile Hydrolase Fold Demonstrated By The Structure Of An Archaeal Inosine Monophosphate Cyclohydrolase.
Biochemistry V. 46 5050 2007
PubMed-ID: 17407260  |  Reference-DOI: 10.1021/BI061637J
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - IMP CYCLOHYDROLASE
    Chains: A, B, C, D
    EC Number: 3.5.4.10
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PET15B
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: PURO
    Organism Scientific: METHANOTHERMOBACTER THERMAUTOTROPHICUS
    Organism Taxid: 145262
    Synonym: INOSINICASE, IMP SYNTHETASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2NTM)

(-) Sites  (0, 0)

(no "Site" information available for 2NTM)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2NTM)

(-) 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:202
 aligned with PURO_METTH | O27099 from UniProtKB/Swiss-Prot  Length:202

    Alignment length:202
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200  
           PURO_METTH     1 MYLGRILAVGRNSNGSFVAYRVSSRSFPNRTTSIQEERVAVVPVEGHERDVFRNPYIAYNCIRIVGDTAVVSNGSHTDTIADKVALGMNLRDAIGLSLLAMDYEKDELNTPRIAAAINGSEAFIGIVTADGLMVSRVPEETPVYISTYEQTEPAATEFKAGSPEEAAEFILKGGEFAAFTHPVTAAAAFNDGEGWNLATREM 202
               SCOP domains d2ntma_ A: Hypothetical protein MTH1020                                                                                                                                                                    SCOP domains
               CATH domains 2ntmA00 A:1-202 Hypothetical protein MTH1020                                                                                                                                                               CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee..eeeeeeeee......eeeeee..eeeeee...hhhhhhh.....eeeeeee..eeeee..hhhhhhhhhhhh..hhhhhhhhhhhhhh.........eeeeee....eeeeee...eeeeee......eeee.......ee......hhhhhhhhhhhhhhhhhh..eeeeeeeee....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ntm A   1 MYLGRILAVGRNSNGSFVAYRVSSRSFPNRTTSIQEERVAVVPVEGHERDVFRNPYIAYNCIRIVGDTAVVSNGSHTDTIADKVALGMNLRDAIGLSLLAMDYEKDELNTPRIAAAINGSEAFIGIVTADGLMVSRVPEETPVYISTYEQTEPAATEFKAGSPEEAAEFILKGGEFAAFTHPVTAAAAFNDGEGWNLATREM 202
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200  


Chain B from PDB  Type:PROTEIN  Length:202
 aligned with PURO_METTH | O27099 from UniProtKB/Swiss-Prot  Length:202

    Alignment length:202
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200  
           PURO_METTH     1 MYLGRILAVGRNSNGSFVAYRVSSRSFPNRTTSIQEERVAVVPVEGHERDVFRNPYIAYNCIRIVGDTAVVSNGSHTDTIADKVALGMNLRDAIGLSLLAMDYEKDELNTPRIAAAINGSEAFIGIVTADGLMVSRVPEETPVYISTYEQTEPAATEFKAGSPEEAAEFILKGGEFAAFTHPVTAAAAFNDGEGWNLATREM 202
               SCOP domains d2ntmb_ B: Hypothetical protein MTH1020                                                                                                                                                                    SCOP domains
               CATH domains 2ntmB00 B:1-202 Hypothetical protein MTH1020                                                                                                                                                               CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee..eeeeeeeee......eeeeee..eeeeee...hhhhhhh.....eeeeeee..eeeee..hhhhhhhhhhhh..hhhhhhhhhhhhhh.........eeeeee....eeeeee...eeeeee......eeee.......ee......hhhhhhhhhhhhhhhhhh..eeeeeeeee....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ntm B   1 MYLGRILAVGRNSNGSFVAYRVSSRSFPNRTTSIQEERVAVVPVEGHERDVFRNPYIAYNCIRIVGDTAVVSNGSHTDTIADKVALGMNLRDAIGLSLLAMDYEKDELNTPRIAAAINGSEAFIGIVTADGLMVSRVPEETPVYISTYEQTEPAATEFKAGSPEEAAEFILKGGEFAAFTHPVTAAAAFNDGEGWNLATREM 202
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200  


Chain C from PDB  Type:PROTEIN  Length:202
 aligned with PURO_METTH | O27099 from UniProtKB/Swiss-Prot  Length:202

    Alignment length:202
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200  
           PURO_METTH     1 MYLGRILAVGRNSNGSFVAYRVSSRSFPNRTTSIQEERVAVVPVEGHERDVFRNPYIAYNCIRIVGDTAVVSNGSHTDTIADKVALGMNLRDAIGLSLLAMDYEKDELNTPRIAAAINGSEAFIGIVTADGLMVSRVPEETPVYISTYEQTEPAATEFKAGSPEEAAEFILKGGEFAAFTHPVTAAAAFNDGEGWNLATREM 202
               SCOP domains d2ntmc_ C: Hypothetical protein MTH1020                                                                                                                                                                    SCOP domains
               CATH domains 2ntmC00 C:1-202 Hypothetical protein MTH1020                                                                                                                                                               CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee..eeeeeeeee......eeeeee..eeeeee...hhhhhhh.....eeeeeee..eeeee..hhhhhhhhhhhh..hhhhhhhhhhhhhh.........eeeeee....eeeeee...eeeeee......eeee.......ee......hhhhhhhhhhhhhhhhhh..eeeeeeeee....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ntm C   1 MYLGRILAVGRNSNGSFVAYRVSSRSFPNRTTSIQEERVAVVPVEGHERDVFRNPYIAYNCIRIVGDTAVVSNGSHTDTIADKVALGMNLRDAIGLSLLAMDYEKDELNTPRIAAAINGSEAFIGIVTADGLMVSRVPEETPVYISTYEQTEPAATEFKAGSPEEAAEFILKGGEFAAFTHPVTAAAAFNDGEGWNLATREM 202
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200  


Chain D from PDB  Type:PROTEIN  Length:205
 aligned with PURO_METTH | O27099 from UniProtKB/Swiss-Prot  Length:202

    Alignment length:205
                               1                                                                                                                                                                                                         
                               |     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197     
           PURO_METTH     - ---MYLGRILAVGRNSNGSFVAYRVSSRSFPNRTTSIQEERVAVVPVEGHERDVFRNPYIAYNCIRIVGDTAVVSNGSHTDTIADKVALGMNLRDAIGLSLLAMDYEKDELNTPRIAAAINGSEAFIGIVTADGLMVSRVPEETPVYISTYEQTEPAATEFKAGSPEEAAEFILKGGEFAAFTHPVTAAAAFNDGEGWNLATREM 202
               SCOP domains d2ntmd_ D: Hypothetical protein MTH1020                                                                                                                                                                       SCOP domains
               CATH domains 2ntmD00 D:-2-202 Hypothetical protein MTH1020                                                                                                                                                                 CATH domains
           Pfam domains (1) ---IMP_cyclohyd-2ntmD01 D:1-202                                                                                                                                                                               Pfam domains (1)
           Pfam domains (2) ---IMP_cyclohyd-2ntmD02 D:1-202                                                                                                                                                                               Pfam domains (2)
           Pfam domains (3) ---IMP_cyclohyd-2ntmD03 D:1-202                                                                                                                                                                               Pfam domains (3)
           Pfam domains (4) ---IMP_cyclohyd-2ntmD04 D:1-202                                                                                                                                                                               Pfam domains (4)
         Sec.struct. author ........eeeeeee..eeeeeeeee......eeeeee..eeeeee...hhhhhhh.....eeeeeee..eeeee..hhhhhhhhhhhh..hhhhhhhhhhhhhh.........eeeeee....eeeeee...eeeeee......eeee.......ee......hhhhhhhhhhhhhhhhhh..eeeeeeeee....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ntm D  -2 GSHMYLGRILAVGRNSNGSFVAYRVSSRSFPNRTTSIQEERVAVVPVEGHERDVFRNPYIAYNCIRIVGDTAVVSNGSHTDTIADKVALGMNLRDAIGLSLLAMDYEKDELNTPRIAAAINGSEAFIGIVTADGLMVSRVPEETPVYISTYEQTEPAATEFKAGSPEEAAEFILKGGEFAAFTHPVTAAAAFNDGEGWNLATREM 202
                                     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197
   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, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: IMP_cyclohyd] (3)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (PURO_METTH | O27099)
molecular function
    GO:0003937    IMP cyclohydrolase activity    Catalysis of the reaction: IMP + H2O = 5-formamido-1-(5-phosphoribosyl)imidazole-4-carboxamide.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
biological process
    GO:0006189    'de novo' IMP biosynthetic process    The chemical reactions and pathways resulting in the formation of IMP, inosine monophosphate, by the stepwise assembly of a purine ring on ribose 5-phosphate.
    GO:0006188    IMP biosynthetic process    The chemical reactions and pathways resulting in the formation of IMP, inosine monophosphate.
    GO:0006164    purine nucleotide biosynthetic process    The chemical reactions and pathways resulting in the formation of a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PURO_METTH | O27099: 1kuu 2ntk 2ntl

(-) Related Entries Specified in the PDB File

2ntk SAME PROTEIN COMPLEXED WITH IMP
2ntl SAME PROTEIN COMPLEXED WITH AICAR