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(-) Description

Title :  HELICOBACTER PYLORI PSEC, AMINOTRANSFERASE INVOLVED IN THE BIOSYNTHESIS OF PSEUDOAMINIC ACID
 
Authors :  M. Cygler, V. V. Lunin, A. Matte, Montreal-Kingston Bacterial Struc Genomics Initiative (Bsgi)
Date :  10 Jan 06  (Deposition) - 24 Jan 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.48
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Aminotransferase, Pseudoaminic Acid Biosynthesis, Flagellar Modification, 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
1PO42Ligand/IonPHOSPHATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:55 , ALA A:56 , THR A:57 , SER A:178 , HOH A:418 , ASN B:228BINDING SITE FOR RESIDUE PO4 A 376
2AC2SOFTWAREASN A:228 , SER B:55 , ALA B:56 , THR B:57 , SER B:178BINDING SITE FOR RESIDUE PO4 B 376

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2FN6)

(-) 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 2FN6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2FN6)

(-) Exons   (0, 0)

(no "Exon" information available for 2FN6)

(-) 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:372
 aligned with PSEC_HELPY | O25130 from UniProtKB/Swiss-Prot  Length:375

    Alignment length:372
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371  
           PSEC_HELPY     2 KEFAYSEPCLDKEDKKAVLEVLNSKQLTQGKRSLLFEEALCEFLGVKHALVFNSATSALLTLYRNFSEFSADRNEIITTPISFVATANMLLESGYTPVFAGIKNDGNIDELALEKLINERTKAIVSVDYAGKSVEVESVQKLCKKHSLSFLSDSSHALGSEYQNKKVGGFALASVFSFHAIKPITTAEGGAVVTNDSELHEKMKLFRSHGMLKKDFFEGEVKSIGHNFRLNEIQSALGLSQLKKAPFLMQKREEAALTYDRIFKDNPYFTPLHPLLKDKSSNHLYPILMHQKFFTCKKLILESLHKRGILAQVHYKPIYQYQLYQQLFNTAPLKSAEDFYHAEISLPCHANLNLESVQNIAHSVLKTFESFK 373
               SCOP domains d2fn6a1 A:2-372 Spore coat polysaccharide biosynthesis protein C                                                                                                                                                                                                                                                                                                                   - SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..ee......hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhh........eeee.....hhhhhhhhhh..eeee.........hhhhhhhhh...eeeeeee.hhhh..hhhhhhhhhhhh..eeeee.......ee..ee......eeeee............eeeee.hhhhhhhhhhhh...eee.....eee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eee.hhhh........eeeee.hhhhhhhhhhhhhhhhh.ee......hhhhhhhhhhhh....hhhhhhhhhheeee......hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2fn6 A   2 KEFAYSEPCLDKEDKKAVLEVLNSKQLTQGKRSLLFEEALCEFLGVKHALVFNSATSALLTLYRNFSEFSADRNEIITTPISFVATANMLLESGYTPVFAGIKNDGNIDELALEKLINERTKAIVSVDYAGKSVEVESVQKLCKKHSLSFLSDSSHALGSEYQNKKVGGFALASVFSFHAIKPITTAEGGAVVTNDSELHEKMKLFRSHGMLKKDFFEGEVKSIGHNFRLNEIQSALGLSQLKKAPFLMQKREEAALTYDRIFKDNPYFTPLHPLLKDKSSNHLYPILMHQKFFTCKKLILESLHKRGILAQVHYKPIYQYQLYQQLFNTAPLKSAEDFYHAEISLPCHANLNLESVQNIAHSVLKTFESFK 373
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371  


Chain B from PDB  Type:PROTEIN  Length:371
 aligned with PSEC_HELPY | O25130 from UniProtKB/Swiss-Prot  Length:375

    Alignment length:371
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371 
           PSEC_HELPY     2 KEFAYSEPCLDKEDKKAVLEVLNSKQLTQGKRSLLFEEALCEFLGVKHALVFNSATSALLTLYRNFSEFSADRNEIITTPISFVATANMLLESGYTPVFAGIKNDGNIDELALEKLINERTKAIVSVDYAGKSVEVESVQKLCKKHSLSFLSDSSHALGSEYQNKKVGGFALASVFSFHAIKPITTAEGGAVVTNDSELHEKMKLFRSHGMLKKDFFEGEVKSIGHNFRLNEIQSALGLSQLKKAPFLMQKREEAALTYDRIFKDNPYFTPLHPLLKDKSSNHLYPILMHQKFFTCKKLILESLHKRGILAQVHYKPIYQYQLYQQLFNTAPLKSAEDFYHAEISLPCHANLNLESVQNIAHSVLKTFESF 372
               SCOP domains d2fn6b_ B: Spore coat polysaccharide biosynthesis protein C                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee......hhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhh........eeee.....hhhhhhhhhh..eeee.....................eeeeeee.hhhh..hhhhhhhhhhhh..eeeee.......ee..ee......eeeee............eeeee.hhhhhhhhhhhhh..eee.....eee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eee.hhhh........eeeee.hhhhhhhhhhhhhhhhh.ee......hhhhhhhhhhhhh...hhhhhhhhhheeee......hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fn6 B   2 KEFAYSEPCLDKEDKKAVLEVLNSKQLTQGKRSLLFEEALCEFLGVKHALVFNSATSALLTLYRNFSEFSADRNEIITTPISFVATANMLLESGYTPVFAGIKNDGNIDELALEKLINERTKAIVSVDYAGKSVEVESVQKLCKKHSLSFLSDSSHALGSEYQNKKVGGFALASVFSFHAIKPITTAEGGAVVTNDSELHEKMKLFRSHGMLKKDFFEGEVKSIGHNFRLNEIQSALGLSQLKKAPFLMQKREEAALTYDRIFKDNPYFTPLHPLLKDKSSNHLYPILMHQKFFTCKKLILESLHKRGILAQVHYKPIYQYQLYQQLFNTAPLKSAEDFYHAEISLPCHANLNLESVQNIAHSVLKTFESF 372
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371
   Legend:   → Mismatch (orange background)
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  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 2FN6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2FN6)

(-) 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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  2fn6
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 Related Entries

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

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

(-) Related Entries Specified in the PDB File

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