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(-) Description

Title :  PSEC AMINOTRANSFERASE INVOLVED IN PSEUDOAMINIC ACID BIOSYNTHESIS
 
Authors :  M. Cygler, A. Matte, V. V. Lunin, Montreal-Kingston Bacterial Struc Genomics Initiative (Bsgi)
Date :  11 Jan 06  (Deposition) - 24 Jan 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Aminotransferase, Structural Genomics, Montreal-Kingston Bacterial Structural Genomics Initiative, Bsgi, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. C. Schoenhofen, V. V. Lunin, J. P. Julien, Y. Li, E. Ajamian, A. Matte M. Cygler, J. R. Brisson, A. Aubry, S. M. Logan, S. Bhatia, W. W. Wakarchuk, N. M. Young
Structural And Functional Characterization Of Psec, An Aminotransferase Involved In The Biosynthesis Of Pseudamini Acid, An Essential Flagellar Modification In Helicobacter Pylori
J. Biol. Chem. V. 281 8907 2006
PubMed-ID: 16421095  |  Reference-DOI: 10.1074/JBC.M512987200

(-) Compounds

Molecule 1 - AMINOTRANSFERASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: HP0366
    Organism Scientific: HELICOBACTER PYLORI
    Organism Taxid: 85962
    Strain: 26695

 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
1PLP2Ligand/IonPYRIDOXAL-5'-PHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:55 , ALA A:56 , THR A:57 , SER A:83 , PHE A:84 , ASP A:154 , SER A:156 , HIS A:157 , SER A:178 , LYS A:183 , GLY A:190 , TYR A:316 , HOH A:386 , ASN B:228BINDING SITE FOR RESIDUE PLP A 376
2AC2SOFTWAREASN A:228 , HOH A:377 , SER B:55 , ALA B:56 , THR B:57 , SER B:83 , ASP B:154 , SER B:156 , HIS B:157 , SER B:178 , HIS B:180 , LYS B:183 , GLY B:190 , TYR B:316 , HOH B:378BINDING SITE FOR RESIDUE PLP B 376

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1His A:315 -Tyr A:316
2His B:315 -Tyr B:316

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2FNI)

(-) 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:374
 aligned with PSEC_HELPY | O25130 from UniProtKB/Swiss-Prot  Length:375

    Alignment length:374
                                    10        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    
           PSEC_HELPY     1 MKEFAYSEPCLDKEDKKAVLEVLNSKQLTQGKRSLLFEEALCEFLGVKHALVFNSATSALLTLYRNFSEFSADRNEIITTPISFVATANMLLESGYTPVFAGIKNDGNIDELALEKLINERTKAIVSVDYAGKSVEVESVQKLCKKHSLSFLSDSSHALGSEYQNKKVGGFALASVFSFHAIKPITTAEGGAVVTNDSELHEKMKLFRSHGMLKKDFFEGEVKSIGHNFRLNEIQSALGLSQLKKAPFLMQKREEAALTYDRIFKDNPYFTPLHPLLKDKSSNHLYPILMHQKFFTCKKLILESLHKRGILAQVHYKPIYQYQLYQQLFNTAPLKSAEDFYHAEISLPCHANLNLESVQNIAHSVLKTFESFKI 374
               SCOP domains d2fnia_ A: Spore coat polysaccharide biosynthesis protein C                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhh........hhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhh........eeee.....hhhhhhhhhh..eeee.........hhhhhhhhh...eeeeeee.hhhh..hhhhhhhhhhhh..eeeee.......ee..ee......eeeee............eeeee.hhhhhhhhhhhh...eeeee..eeee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eee.hhhh........eeeee...hhhhhhhhhhhhhhh.........hhhhhhhhhhhh....hhhhhhhhhheeee......hhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fni A   1 MKEFAYSEPCLDKEDKKAVLEVLNSKQLTQGKRSLLFEEALCEFLGVKHALVFNSATSALLTLYRNFSEFSADRNEIITTPISFVATANMLLESGYTPVFAGIKNDGNIDELALEKLINERTKAIVSVDYAGKSVEVESVQKLCKKHSLSFLSDSSHALGSEYQNKKVGGFALASVFSFHAIKPITTAEGGAVVTNDSELHEKMKLFRSHGMLKKDFFEGEVKSIGHNFRLNEIQSALGLSQLKKAPFLMQKREEAALTYDRIFKDNPYFTPLHPLLKDKSSNHLYPILMHQKFFTCKKLILESLHKRGILAQVHYKPIYQYQLYQQLFNTAPLKSAEDFYHAEISLPCHANLNLESVQNIAHSVLKTFESFKI 374
                                    10        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    


Chain B from PDB  Type:PROTEIN  Length:374
 aligned with PSEC_HELPY | O25130 from UniProtKB/Swiss-Prot  Length:375

    Alignment length:374
                                    10        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    
           PSEC_HELPY     1 MKEFAYSEPCLDKEDKKAVLEVLNSKQLTQGKRSLLFEEALCEFLGVKHALVFNSATSALLTLYRNFSEFSADRNEIITTPISFVATANMLLESGYTPVFAGIKNDGNIDELALEKLINERTKAIVSVDYAGKSVEVESVQKLCKKHSLSFLSDSSHALGSEYQNKKVGGFALASVFSFHAIKPITTAEGGAVVTNDSELHEKMKLFRSHGMLKKDFFEGEVKSIGHNFRLNEIQSALGLSQLKKAPFLMQKREEAALTYDRIFKDNPYFTPLHPLLKDKSSNHLYPILMHQKFFTCKKLILESLHKRGILAQVHYKPIYQYQLYQQLFNTAPLKSAEDFYHAEISLPCHANLNLESVQNIAHSVLKTFESFKI 374
               SCOP domains d2fnib_ B: Spore coat polysaccharide biosynthesis protein C                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhh........hhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhh........eeee.....hhhhhhhhhh..eeee.........hhhhhhhhh...eeeeeee.hhhh..hhhhhhhhhhhh..eeeee.......ee..ee......eeeee............eeeee.hhhhhhhhhhhhh..eeeee..eeee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eee.hhhh........eeeee...hhhhhhhhhhhhhhh.........hhhhhhhhhhhh....hhhhhhhhhheeee......hhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fni B   1 MKEFAYSEPCLDKEDKKAVLEVLNSKQLTQGKRSLLFEEALCEFLGVKHALVFNSATSALLTLYRNFSEFSADRNEIITTPISFVATANMLLESGYTPVFAGIKNDGNIDELALEKLINERTKAIVSVDYAGKSVEVESVQKLCKKHSLSFLSDSSHALGSEYQNKKVGGFALASVFSFHAIKPITTAEGGAVVTNDSELHEKMKLFRSHGMLKKDFFEGEVKSIGHNFRLNEIQSALGLSQLKKAPFLMQKREEAALTYDRIFKDNPYFTPLHPLLKDKSSNHLYPILMHQKFFTCKKLILESLHKRGILAQVHYKPIYQYQLYQQLFNTAPLKSAEDFYHAEISLPCHANLNLESVQNIAHSVLKTFESFKI 374
                                    10        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
   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: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2FNI)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2FNI)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (PSEC_HELPY | O25130)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0008483    transaminase activity    Catalysis of the transfer of an amino group to an acceptor, usually a 2-oxo acid.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PSEC_HELPY | O25130: 2fn6 2fnu

(-) Related Entries Specified in the PDB File

2fn6 APO PSEC
2fnu RELATED ID: HEP0366_HELPY RELATED DB: TARGETDB