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(-) Description

Title :  CRYSTAL STRUCTURE OF ALGINATE LYASE A1-II' N141C/N199C
 
Authors :  K. Ogura, M. Yamasaki, B. Mikami, W. Hashimoto, K. Murata
Date :  02 Oct 07  (Deposition) - 27 May 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Alginate Lyase, Polysaccharide Lyase Family 7, N141C/N199C, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Ogura, M. Yamasaki, B. Mikami, W. Hashimoto, K. Murata
Substrate Recognition In Tunnel Of Family 7 Alginate Lyase From Sphingomonas Sp. A1
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ALGINATE LYASE
    Chains: A
    EC Number: 4.2.2.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21B
    Expression System Strain: BL21(DE3)
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 81-313
    Gene: ALY
    Mutation: YES
    Organism Scientific: SPHINGOMONAS SP.
    Strain: A1
    Synonym: ALGINATE LYASE A1-II

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1SO42Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:143 , PRO A:202 , TYR A:284 , HOH A:424 , HOH A:438 , HOH A:459BINDING SITE FOR RESIDUE SO4 A 401
2AC2SOFTWARELYS A:95 , GLN A:97 , ARG A:150 , SER A:158 , ILE A:193 , HOH A:509 , HOH A:558BINDING SITE FOR RESIDUE SO4 A 402

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:141 -A:199

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2ZA9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2ZA9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2ZA9)

(-) Exons   (0, 0)

(no "Exon" information available for 2ZA9)

(-) 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:227
 aligned with Q75WP3_9SPHN | Q75WP3 from UniProtKB/TrEMBL  Length:308

    Alignment length:227
                                    90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       
         Q75WP3_9SPHN    81 PAAAPGKNFDLSHWKLQLPDANTTEISSANLGLGYTSQYFYTDTDGAMTFWAPTTGGTTANSSYPRSELREMLDPSNSKVNWGWQGTHTMKLSGKTVQLPSSGKIIVAQIHGIMDDGTNAPPLVKAVFQDGQLDMQVKQNSDGTGSDVHNYFTGIKLGDLYNMEIRVTDGVAYVTMNGDTRSVDFVGKDAGWKNLKYYFKAGNYVQDNTSTGGSAIAKLYSLSVSHS 307
               SCOP domains d2za9a_ A: automated matches                                                                                                                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------Alginate_lyase2-2za9A01 A:89-306                                                                                                                                                                                          - Pfam domains
         Sec.struct. author ...hhhhhh....eeee.......eehhhhhhhh.....eee.....eeeeee............eeeeee...............eeeeeeeeeeee.....eeeeeeeeee.....eeeeeeeeeee..eeeeeee........ee..eee.......eeeeeeee..eeeeee..eeeeehhhhhhhhhhhheeeeeeeeee........eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2za9 A  81 PAAAPGKNFDLSHWKLQLPDANTTEISSANLGLGYTSQYFYTDTDGAMTFWAPTTGGTTACSSYPRSELREMLDPSNSKVNWGWQGTHTMKLSGKTVQLPSSGKIIVAQIHGIMDDGTCAPPLVKAVFQDGQLDMQVKQNSDGTGSDVHNYFTGIKLGDLYNMEIRVTDGVAYVTMNGDTRSVDFVGKDAGWKNLKYYFKAGNYVQDNTSTGGSAIAKLYSLSVSHS 307
                                    90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300
   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, 1)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2ZA9)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Alginate_lyase2] (7)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q75WP3_9SPHN | Q75WP3)
molecular function
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.

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  2za9
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  4.2.2.3
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 Related Entries

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

UniProtKB/TrEMBL
        Q75WP3_9SPHN | Q75WP3: 2cws 2z42 2zaa 2zab 2zac

(-) Related Entries Specified in the PDB File

2cws THE WILD-TYPE PROTEIN
2z42 THE WILID-TYPE PROTEIN
2zaa
2zab
2zac