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(-) Description

Title :  THE CRYSTAL STRUCTURE OF MOLYBDOPTERIN BIOSYNTHESIS MOEA PROTEIN FROM PYROCOCCUS HORIKOSII
 
Authors :  H. Takahashi, T. H. Tahirov
Date :  05 Mar 04  (Deposition) - 10 Mar 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym./Biol. Unit :  A
Keywords :  Molybdopterin Biosynthesis, Moea Molybdopterin, Synthesis, Mocf Biosynthesis, Riken Structural Genomics/Proteomics Initiative, Rsgi, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Takahashi, M. Miyano, T. H. Tahirov
The Crystal Structure Of Molybdopterin Biosynthesis Moeaprotein From Pyrococcus Horikosii
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - 402AA LONG HYPOTHETICAL MOLYBDOPTERIN BIOSYNTHESIS MOEA PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET 11A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Organism Scientific: PYROCOCCUS HORIKOSHII
    Organism Taxid: 70601
    Strain: OT3
    Synonym: MOEA PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric/Biological Unit (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:84 , ALA A:85 , SER A:102 , HOH A:2234 , HOH A:2235BINDING SITE FOR RESIDUE SO4 A1403
2AC2SOFTWAREGLU A:157 , ARG A:158 , ARG A:325 , LYS A:328 , HOH A:2154BINDING SITE FOR RESIDUE SO4 A1404
3AC3SOFTWAREGLU A:31 , ARG A:210 , GLY A:223 , PHE A:225 , HOH A:2236 , HOH A:2237 , HOH A:2238 , HOH A:2239 , HOH A:2240BINDING SITE FOR RESIDUE SO4 A1405
4AC4SOFTWAREILE A:281 , GLN A:282 , PRO A:283 , GLY A:284 , LYS A:285 , PRO A:286 , ARG A:346BINDING SITE FOR RESIDUE SO4 A1406
5AC5SOFTWAREASP A:231 , ASP A:262 , LEU A:263 , THR A:264 , HOH A:2241BINDING SITE FOR RESIDUE SO4 A1407
6AC6SOFTWAREARG A:53 , MET A:140 , ASP A:145 , GLY A:367 , ALA A:368 , HOH A:2052 , HOH A:2242BINDING SITE FOR RESIDUE SO4 A1408

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1UZ5)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Val A:48 -Pro A:49
2Gln A:282 -Pro A:283

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1UZ5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1UZ5)

(-) Exons   (0, 0)

(no "Exon" information available for 1UZ5)

(-) 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:391
 aligned with O58335_PYRHO | O58335 from UniProtKB/TrEMBL  Length:402

    Alignment length:398
                                    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        
         O58335_PYRHO     5 KVVPLEKALEVVQSFKISPGIEEVPIEKGLGRIAAEDIYSPIDVPPFDRATVDGYAVRAEDTFMASEASPVRLKVIGSVHAGEEPKFKLGKGEAAYISTGAMLPGNADAVIQFEDVERVNGEILIYKPAYPGLGVMKKGIDIEKGRLLVKKGERLGFKQTALLSAVGINKVKVFRKPKVAVISTGNEIVPPGNELKPGQIYDINGRALCDAINELGGEGIFMGVARDDKESLKALIEKAVNVGDVVVISGGASGGTKDLTASVIEELGEVKVHGIAIQPGKPTIIGVIKGKPVFGLPGYPTSCLTNFTLLVVPLLLRALGREGKIGKKVARLKHKVFSVKGRRQFLPVKLEGDLAVPILKGSGAVTSFIDADGFVEIPETVESLDEGEEVEVTLFKGW 402
               SCOP domains d1uz5a2 A:5-180 Molybdenum cofactor biosynthesis protein MoeA, N-terminal and linker domains                                                                                    d1uz5a3 A:181-328 MoeA, central domain                                                                                                              d1uz5a1 A:329-4  02                                                        SCOP domains
               CATH domains 1uz5A01             1uz5A02                 1uz5A03 A:49-145 Molybdopterin biosynthesis moea protein, domain 3.                              1uz5A02 A:25-48,A:146-178        1uz5A01 A:5-24,A:179-328 Molybdenum Cofactor Biosythetic Enzyme; Chain A                                                                              1uz5A04 A:329-4  02 MoeA C-terminal domain-like                            CATH domains
               Pfam domains -MoeA_N-1uz5A03 A:6-171                                                                                                                                                ------------MoCF_biosynth-1uz5A01 A:184-321                                                                                                           -----------MoeA_C-1uz5  A02 A:333-399                                         --- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhh.....eeeee.hhh........ee.........ee...eeeehhhhhh.......eeeeeeeee.............eeeee...........eeee.hhheee..eeee.........ee..........eee......hhhhhhhhhhh...eeeee...eeeeeee...ee..........ee.hhhhhhhhhhhhhh.eeeeeeee..hhhhhhhhhhhhhhhh.eeeee...-----hhhhhhhhhhheeeee...ee.....eeeee..eeeeee..hhhhhhhhhhhhhhhhhhhhh.......eeeeee.......--.eeeeeeee...eeee.....hhhhhhhhh.eeeee.........eeeeeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1uz5 A   5 KVVPLEKALEVVQSFKISPGIEEVPIEKGLGRIAAEDIYSPIDVPPFDRATVDGYAVRAEDTFMASEASPVRLKVIGSVHAGEEPKFKLGKGEAAYISTGAMLPGNADAVIQFEDVERVNGEILIYKPAYPGLGVMKKGIDIEKGRLLVKKGERLGFKQTALLSAVGINKVKVFRKPKVAVISTGNEIVPPGNELKPGQIYDINGRALCDAINELGGEGIFMGVARDDKESLKALIEKAVNVGDVVVISGGA-----DLTASVIEELGEVKVHGIAIQPGKPTIIGVIKGKPVFGLPGYPTSCLTNFTLLVVPLLLRALGREGKIGKKVARLKHKVFSV--RRQFLPVKLEGDLAVPILKGSGAVTSFIDADGFVEIPETVESLDEGEEVEVTLFKGW 402
                                    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        |- |     354       364       374       384       394        
                                                                                                                                                                                                                                                                                     256   262                                                                              343  |                                                        
                                                                                                                                                                                                                                                                                                                                                                               346
   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  (3, 3)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (4, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (3, 3)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: MoCF_biosynth] (31)
(-)
Clan: no clan defined [family: MoeA_C] (15)
(-)
Clan: no clan defined [family: MoeA_N] (15)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (O58335_PYRHO | O58335)
biological process
    GO:0032324    molybdopterin cofactor biosynthetic process    The chemical reactions and pathways resulting in the formation of the molybdopterin cofactor (Moco), essential for the catalytic activity of some enzymes, e.g. sulfite oxidase, xanthine dehydrogenase, and aldehyde oxidase. The cofactor consists of a mononuclear molybdenum (Mo-molybdopterin) or tungsten ion (W-molybdopterin) coordinated by one or two molybdopterin ligands.

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