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(-) Description

Title :  PREMAT-GALACTOSE OXIDASE
 
Authors :  M. S. Rogers, R. Hurtado-Guerrero, S. J. Firbank, M. A. Halcrow, D. M. Dooley, S. E. V. Phillips, P. F. Knowles, M. J. Mcpherson
Date :  29 Jul 08  (Deposition) - 16 Sep 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.91
Chains :  Asym./Biol. Unit :  A
Keywords :  Oxidoreductase, Copper, Secreted, Kelch Repeat, Metal-Binding, Galactose Oxidase, Anaerobic Processing, Thioether Bond, Thio-Ether Bond (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. S. Rogers, R. Hurtado-Guerrero, S. J. Firbank, M. A. Halcrow, D. M. Dooley, S. E. V. Phillips, P. F. Knowles, M. J. Mcpherson
Cross-Link Formation Of The Cysteine 228-Tyrosine 272 Catalytic Cofactor Of Galactose Oxidase Does Not Require Dioxygen.
Biochemistry V. 47 10428 2008
PubMed-ID: 18771294  |  Reference-DOI: 10.1021/BI8010835

(-) Compounds

Molecule 1 - GALACTOSE OXIDASE
    Chains: A
    EC Number: 1.1.3.9
    Engineered: YES
    Expression System: PICHIA PASTORIS
    Expression System Strain: X33
    Expression System Taxid: 4922
    Expression System Vector: PPICZALPHAB
    Organism Scientific: GIBBERELLA ZEAE
    Organism Taxid: 5518
    Synonym: GAO, GAOASE, GO, PREMAT-GALACTOSE OXIDASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2CA1Ligand/IonCALCIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:29 , ASP A:32 , ASN A:34 , THR A:37 , ALA A:141 , GLU A:142BINDING SITE FOR RESIDUE CA A1640
2AC2SOFTWAREARG A:371 , ALA A:378 , THR A:398 , PHE A:399 , GLY A:400 , ASN A:413 , ALA A:414 , HIS A:415 , HOH A:2567BINDING SITE FOR RESIDUE ACT A1641

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:18 -A:27
2A:515 -A:518

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Pro A:51 -Pro A:52
2Gly A:162 -Pro A:163
3Gly A:349 -Pro A:350

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2VZ1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2VZ1)

(-) Exons   (0, 0)

(no "Exon" information available for 2VZ1)

(-) 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:639
 aligned with GAOA_GIBZA | P0CS93 from UniProtKB/Swiss-Prot  Length:680

    Alignment length:639
                                    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       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661       671         
           GAOA_GIBZA    42 ASAPIGSAISRNNWAVTCDSAQSGNECNKAIDGNKDTFWHTFYGANGDPKPPHTYTIDMKTTQNVNGLSMLPRQDGNQNGWIGRHEVYLSSDGTNWGSPVASGSWFADSTTKYSNFETRPARYVRLVAITEANGQPWTSIAEINVFQASSYTAPQPGLGRWGPTIDLPIVPAAAAIEPTSGRVLMWSSYRNDAFGGSPGGITLTSSWDPSTGIVSDRTVTVTKHDMFCPGISMDGNGQIVVTGGNDAKKTSLYDSSSDSWIPGPDMQVARGYQSSATMSDGRVFTIGGSWSGGVFEKNGEVYSPSSKTWTSLPNAKVNPMLTADKQGLYRSDNHAWLFGWKKGSVFQAGPSTAMNWYYTSGSGDVKSAGKRQSNRGVAPDAMCGNAVMYDAVKGKILTFGGSPDYQDSDATTNAHIITLGEPGTSPNTVFASNGLYFARTFHTSVVLPDGSTFITGGQRRGIPFEDSTPVFTPEIYVPEQDTFYKQNPNSIVRVYHSISLLLPDGRVFNGGGGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQSVKVGGRITISTDSSISKASLIRYGTATHTVNTDQRRIPLTLTNNGGNSYSFQVPSDSGVALPGYWMLFVMNSAGVPSVASTIRVTQ 680
               SCOP domains d2vz1a2 A:1-150 Galactose oxidase, N-terminal domain                                                                                                  d2vz1a3 A:151-537 Galactose oxidase, central domain                                                                                                                                                                                                                                                                                                                                                d2vz1a1 A:538-639 Galactose oxidase, C-terminal domain                                                 SCOP domains
               CATH domains 2vz1A01 A:1-153 Galactose-binding domain-like                                                                                                            2vz1A02 A:154-541 Galactose oxidase, central domain                                                                                                                                                                                                                                                                                                                                                 2vz1A03 A:542-639 Immunoglobulins                                                                  CATH domains
               Pfam domains ------------F5_F8_type_C-2vz1A02 A:13-143                                                                                                      -------------------------------------------------------------------------------------------------------------------------------Kelch_1-2vz1A01 A:271-316                     ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DUF1929-2vz1A03 A:543-637                                                                      -- Pfam domains
         Sec.struct. author ......ee......eeee.......hhhhhhh......ee..hhhhh.....eeeeeeeeeeeeeeeeeee............eeeeeee..........eeee.......eeeeeeeeeeeeeeeee..........ee.eeeeee............eeeeeee......eeee......eeee...............eeeeee......eeeeee..........eeee....eeeee.......eeeee....eeee...........eeee.....eeee............eeeee....eeeee....hhhhh.....hhhhhh....eee.hhh.eee.....eeeeee.....eeeeeee.ee..ee.......eeeeee....eeeee..............eeeee........eeee............eeee.....eeee..................eeee....eeee...........eeeee.....eeeee............eeeeeehhhh............eeee...eee...eeeeee...eeeeeeee..eee.......eeee...ee....eeeee..........eeeeeeeee........eeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vz1 A   1 ASAPIGSAISRNNWAVTCDSAQSGNECNKAIDGNKDTFWHTFYGANGDPKPPHTYTIDMKTTQNVNGLSMLPRQDGNQNGWIGRHEVYLSSDGTNWGSPVASGSWFADSTTKYSNFETRPARYVRLVAITEANGQPWTSIAEINVFQASSYTAPQPGLGRWGPTIDLPIVPAAAAIEPTSGRVLMWSSYRNDAFGGSPGGITLTSSWDPSTGIVSDRTVTVTKHDMFCPGISMDGNGQIVVTGGNDAKKTSLYDSSSDSWIPGPDMQVARGYQSSATMSDGRVFTIGGSWSGGVFEKNGEVYSPSSKTWTSLPNAKVNPMLTADKQGLYRSDNHAWLFGWKKGSVFQAGPSTAMNWYYTSGSGDVKSAGKRQSNRGVAPDAMCGNAVMYDAVKGKILTFGGSPDYQDSDATTNAHIITLGEPGTSPNTVFASNGLYFARTFHTSVVLPDGSTFITGGQRRGIPFEDSTPVFTPEIYVPEQDTFYKQNPNSIVRVYHSISLLLPDGRVFNGGGGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQSVKVGGRITISTDSSISKASLIRYGTATHTVNTDQRRIPLTLTNNGGNSYSFQVPSDSGVALPGYWMLFVMNSAGVPSVASTIRVTQ 639
                                    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       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630         


Chain A from PDB  Type:PROTEIN  Length:639
 aligned with GAOA_GIBZE | I1S2N3 from UniProtKB/Swiss-Prot  Length:680

    Alignment length:639
                                    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       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661       671         
           GAOA_GIBZE    42 ASAPIGSAISRNNWAVTCDSAQSGNECNKAIDGNKDTFWHTFYGANGDPKPPHTYTIDMKTTQNVNGLSMLPRQDGNQNGWIGRHEVYLSSDGTNWGSPVASGSWFADSTTKYSNFETRPARYVRLVAVTEANGQPWTSIAEINVFQASSYTAPQPGLGRWGPTIDLPIVPAAAAIEPTSGRVLMWSSYRNDAFGGSPGGITLTSSWDPSTGIVSDRTVTVTKHDMFCPGISMDGNGQIVVTGGNDAKKTSLYDSSSDSWIPGPDMQVARGYQSSATMSDGRVFTIGGSWSGGVFEKNGEVYSPSSKTWTSLPNAKVNPMLTADKQGLYRSDNHAWLFGWKKGSVFQAGPSTAMNWYYTSGSGDVKSAGKRQSNRGVAPDAMCGNAVMYDAVKGKILTFGGSPDYQDSDATTNAHIITLGEPGTSPNTVFASNGLYFARTFHTSVVLPDGSTFITGGQRRGIPFEDSTPVFTPEIYVPEQDTFYKQNPNSIVRVYHSISLLLPDGRVFNGGGGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQSVKVGGRITISTDSSITKASLIRYGTATHTVNTDQRRIPLTLTNNGGNSYSFQVPSDSGVALPGYWMLFVMNSAGVPSVASTIRVTQ 680
               SCOP domains d2vz1a2 A:1-150 Galactose oxidase, N-terminal domain                                                                                                  d2vz1a3 A:151-537 Galactose oxidase, central domain                                                                                                                                                                                                                                                                                                                                                d2vz1a1 A:538-639 Galactose oxidase, C-terminal domain                                                 SCOP domains
               CATH domains 2vz1A01 A:1-153 Galactose-binding domain-like                                                                                                            2vz1A02 A:154-541 Galactose oxidase, central domain                                                                                                                                                                                                                                                                                                                                                 2vz1A03 A:542-639 Immunoglobulins                                                                  CATH domains
               Pfam domains ------------F5_F8_type_C-2vz1A02 A:13-143                                                                                                      -------------------------------------------------------------------------------------------------------------------------------Kelch_1-2vz1A01 A:271-316                     ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------DUF1929-2vz1A03 A:543-637                                                                      -- Pfam domains
         Sec.struct. author ......ee......eeee.......hhhhhhh......ee..hhhhh.....eeeeeeeeeeeeeeeeeee............eeeeeee..........eeee.......eeeeeeeeeeeeeeeee..........ee.eeeeee............eeeeeee......eeee......eeee...............eeeeee......eeeeee..........eeee....eeeee.......eeeee....eeee...........eeee.....eeee............eeeee....eeeee....hhhhh.....hhhhhh....eee.hhh.eee.....eeeeee.....eeeeeee.ee..ee.......eeeeee....eeeee..............eeeee........eeee............eeee.....eeee..................eeee....eeee...........eeeee.....eeeee............eeeeeehhhh............eeee...eee...eeeeee...eeeeeeee..eee.......eeee...ee....eeeee..........eeeeeeeee........eeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vz1 A   1 ASAPIGSAISRNNWAVTCDSAQSGNECNKAIDGNKDTFWHTFYGANGDPKPPHTYTIDMKTTQNVNGLSMLPRQDGNQNGWIGRHEVYLSSDGTNWGSPVASGSWFADSTTKYSNFETRPARYVRLVAITEANGQPWTSIAEINVFQASSYTAPQPGLGRWGPTIDLPIVPAAAAIEPTSGRVLMWSSYRNDAFGGSPGGITLTSSWDPSTGIVSDRTVTVTKHDMFCPGISMDGNGQIVVTGGNDAKKTSLYDSSSDSWIPGPDMQVARGYQSSATMSDGRVFTIGGSWSGGVFEKNGEVYSPSSKTWTSLPNAKVNPMLTADKQGLYRSDNHAWLFGWKKGSVFQAGPSTAMNWYYTSGSGDVKSAGKRQSNRGVAPDAMCGNAVMYDAVKGKILTFGGSPDYQDSDATTNAHIITLGEPGTSPNTVFASNGLYFARTFHTSVVLPDGSTFITGGQRRGIPFEDSTPVFTPEIYVPEQDTFYKQNPNSIVRVYHSISLLLPDGRVFNGGGGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQSVKVGGRITISTDSSISKASLIRYGTATHTVNTDQRRIPLTLTNNGGNSYSFQVPSDSGVALPGYWMLFVMNSAGVPSVASTIRVTQ 639
                                    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       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630
   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)

(-) CATH Domains  (3, 3)

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

(-) Pfam Domains  (3, 3)

Asymmetric/Biological Unit
(-)
Clan: Beta_propeller (192)
(-)
Clan: GBD (153)
(-)
Clan: no clan defined [family: DUF1929] (4)

(-) Gene Ontology  (5, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (GAOA_GIBZE | I1S2N3)
molecular function
    GO:0045480    galactose oxidase activity    Catalysis of the reaction: D-galactose + O2 = D-galacto-hexodialdose + hydrogen peroxide.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Chain A   (GAOA_GIBZA | P0CS93)
molecular function
    GO:0045480    galactose oxidase activity    Catalysis of the reaction: D-galactose + O2 = D-galacto-hexodialdose + hydrogen peroxide.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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  2vz1
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 Related Entries

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

UniProtKB/Swiss-Prot
        GAOA_GIBZA | P0CS93: 1gof 1gog 1goh 1k3i 1t2x 2eib 2eic 2eid 2eie 2jkx 2vz3 2wq8
        GAOA_GIBZE | I1S2N3: 1gof 1gog 1goh 2eib 2eic 2eid 2eie 2jkx 2vz3 2wq8

(-) Related Entries Specified in the PDB File

1gof GALACTOSE OXIDASE (PH 4.5)
1gog GALACTOSE OXIDASE (PH 7.0)
1goh GALACTOSE OXIDASE (APO FORM)
1k3i CRYSTAL STRUCTURE OF THE PRECURSOR OF GALACTOSE OXIDASE
1t2x GLACTOSE OXIDASE C383S MUTANT IDENTIFIED BY DIRECTEDEVOLUTION
2vz3 BLEACHED GALACTOSE OXIDASE