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(-) Description

Title :  CRYSTAL STRUCTURE OF THE ORNITHINE AMINOTRANSFERASE FROM TOXOPLASMA GONDII ME49 IN A COMPLEX WITH (S)-4-AMINO-5-FLUOROPENTANOIC ACID
 
Authors :  E. V. Filippova, G. Minasov, K. Flores, H. V. Le, R. B. Silverman, R. L. Mc W. F. Anderson, Center For Structural Genomics Of Infectious D (Csgid)
Date :  02 Oct 15  (Deposition) - 26 Oct 16  (Release) - 26 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Inhibitor, Complex, Parasite, Pyridoxal 5'-Phosphate, Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. V. Filippova, G. Minasov, K. Flores, H. V. Le, R. B. Silverman, R. L. Mcleod, W. F. Anderson, Center For Structural Genomics Of Infectious Diseases (Csgid)
Crystal Structure Of The Ornithine Aminotransferase From Toxoplasma Gondii Me49 In A Complex With (S)-4-Amino-5-Fluoropentanoic Acid
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - AMINOTRANSFERASE
    Chains: A, B
    EC Number: 2.6.1.13
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG28
    Expression System Strain: BL21(DE3)MAGIC
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: TGME49_269110
    Organism Scientific: TOXOPLASMA GONDII
    Organism Taxid: 508771
    Synonym: ORNITHINE AMINOTRANSFERASE, MITOCHONDRIAL

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 15)

Asymmetric/Biological Unit (4, 15)
No.NameCountTypeFull Name
15JV2Ligand/Ion4-[(E)-({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYLIDENE)AMINO]PENT-4-ENOICACID
2CO33Ligand/IonCARBONATE ION
3PEG3Ligand/IonDI(HYDROXYETHYL)ETHER
4SO47Ligand/IonSULFATE ION

(-) Sites  (15, 15)

Asymmetric Unit (15, 15)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:49 , VAL A:79 , GLY A:136 , ALA A:137 , TYR A:171 , TRP A:172 , GLU A:224 , GLU A:229 , ASP A:257 , ILE A:259 , GLN A:260 , LYS A:286 , HOH A:625 , HOH A:670 , HOH A:714 , HOH A:746 , HOH A:748 , HOH A:799 , HOH A:835 , SER B:315 , THR B:316 , HOH B:657 , HOH B:779binding site for residue 5JV A 501
02AC2SOFTWAREARG A:404 , ARG A:406 , CO3 A:506 , HOH A:692binding site for residue SO4 A 502
03AC3SOFTWAREASP A:204 , ASP A:205 , VAL A:206 , GLY A:207 , LYS A:236 , ARG A:242 , HOH A:704 , HOH A:763binding site for residue SO4 A 503
04AC4SOFTWAREARG A:351 , ARG A:355 , HOH A:639 , HOH A:652 , HOH A:659binding site for residue SO4 A 504
05AC5SOFTWAREARG A:119 , LEU B:29binding site for residue PEG A 505
06AC6SOFTWARETHR A:183 , PHE A:185 , SO4 A:502 , HOH A:692 , HOH A:828 , HOH A:854 , ARG B:18binding site for residue CO3 A 506
07AC7SOFTWARECYS A:179 , SER A:180 , SER A:182binding site for residue PEG A 507
08AC8SOFTWARESER A:315 , THR A:316 , HOH A:705 , TYR B:49 , VAL B:79 , GLY B:136 , ALA B:137 , TYR B:171 , TRP B:172 , GLU B:224 , GLU B:229 , ASP B:257 , ILE B:259 , GLN B:260 , LYS B:286 , HOH B:622 , HOH B:728 , HOH B:763 , HOH B:765 , HOH B:809 , HOH B:848binding site for residue 5JV B 501
09AC9SOFTWAREASP B:204 , ASP B:205 , VAL B:206 , GLY B:207 , LYS B:236 , ARG B:242 , HOH B:675 , HOH B:682binding site for residue SO4 B 502
10AD1SOFTWAREARG B:404 , ARG B:406 , HOH B:833binding site for residue SO4 B 503
11AD2SOFTWARETYR A:188 , ARG B:18 , LYS B:19 , HOH B:620binding site for residue SO4 B 504
12AD3SOFTWARELYS B:214 , ARG B:422 , HOH B:740binding site for residue SO4 B 505
13AD4SOFTWAREPRO B:196 , GLY B:197 , HOH B:811 , HOH B:821 , HOH B:828 , HOH B:877binding site for residue CO3 B 506
14AD5SOFTWAREARG B:351 , ARG B:355 , HOH B:603 , HOH B:864binding site for residue CO3 B 507
15AD6SOFTWARESER B:180 , SER B:182 , PHE B:194 , LEU B:200 , HOH B:685binding site for residue PEG B 508

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:96 -B:96

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Gly A:192 -Pro A:193
2Gly B:192 -Pro B:193

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5E3K)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5E3K)

(-) Exons   (0, 0)

(no "Exon" information available for 5E3K)

(-) 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:422
                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhh...hhhhhhhhhhhhh.........eeeeee..eeee....eeee.hhhhhh......hhhhhhhhhhhhh.........ee.hhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhhhhh........eeeee.......hhhhhh...hhhhhh........eeee...hhhhhhhhh....eeeeee..............hhhhhhhhhhhhh..eeeee............hhhhhhh....eeeehhhhhh.....eeeeehhhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeee..eeeeee.....hhhhhhhhhhhh.ee.......eeee......hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5e3k A  18 RKTNIEAYRDGLKLKTEEDFFACDRQYVCQNYAPVPVVISKGKGARVWDINGNEYYDFLAGVSSLSQGHCHPRVIAALCRQAERLTLTLRAFGNDVTGPACRFMAEMFGYDRVLLMNTGAEAGESALKIARKWAYEVKEIPPDSAKVILCNNNYWGRTITACSSSTTFDCYNNFGPFTPGFELIDYDDVGALEEALKDPNVAAFFVEPIQGEGGVNVPKPGYLKRAHELCRSKNVLLIVDEIQTGLCRTGRLLAADHDEVHPDILLLGKSLSAGVVPISAVMGRADVMDVLKPGTHGSTFGGNPLACAVAVEALTVLKDEKLADRAERLGAQFRDCLRRELYGKVPWIKEIRGRGLLNAVEVDSDAIDPNDVVMKLKENGILSKPTRGRVMRFIPPLVITDEEHRDATTRIIKSFLAVEEER 439
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437  


Chain B from PDB  Type:PROTEIN  Length:424
                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhh..hhhhhhhhhhhhh.........eeeeee..eeee....eeee.hhhhhh......hhhhhhhhhhhhh.........ee.hhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhhhhh........eeeee.......hhhhhhh..hhhhhh........eeee...hhhhhhhhh....eeeeee..............hhhhhhhhhhhhh..eeeee............hhhhhhh....eeeehhhhhh.....eeeeehhhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeee..eeeeee.....hhhhhhhhhhhh.ee.......eeee......hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5e3k B  17 ARKTNIEAYRDGLKLKTEEDFFACDRQYVCQNYAPVPVVISKGKGARVWDINGNEYYDFLAGVSSLSQGHCHPRVIAALCRQAERLTLTLRAFGNDVTGPACRFMAEMFGYDRVLLMNTGAEAGESALKIARKWAYEVKEIPPDSAKVILCNNNYWGRTITACSSSTTFDCYNNFGPFTPGFELIDYDDVGALEEALKDPNVAAFFVEPIQGEGGVNVPKPGYLKRAHELCRSKNVLLIVDEIQTGLCRTGRLLAADHDEVHPDILLLGKSLSAGVVPISAVMGRADVMDVLKPGTHGSTFGGNPLACAVAVEALTVLKDEKLADRAERLGAQFRDCLRRELYGKVPWIKEIRGRGLLNAVEVDSDAIDPNDVVMKLKENGILSKPTRGRVMRFIPPLVITDEEHRDATTRIIKSFLAVEEERK 440
                                    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
   Legend:   → Mismatch (orange background)
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    → 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  (0, 0)

(no "SCOP Domain" information available for 5E3K)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5E3K)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5E3K)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/TrEMBL
        S8EY38_TOXGM | S8EY38: 4nog 4zlv 4zwm 5dj9 5e5i 5eav 5eqc

(-) Related Entries Specified in the PDB File

4nog RELATED ID: IDP92102 RELATED DB: TARGETTRACK
4zlv
4zwm
5dj9 RELATED ID: CSGID-IDP92102 RELATED DB: TARGETTRACK