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(-) Description

Title :  COMPLEX STRUCTURE OF BETA-GALACTOSIDASE FROM TRICHODERMA REESEI WITH GALACTOSE
 
Authors :  M. Maksimainen, J. Rouvinen
Date :  17 Aug 10  (Deposition) - 16 Mar 11  (Release) - 18 May 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Tim Barrel Domain, Glycoside Hydrolase, Family 35, Glycoprotein, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Maksimainen, N. Hakulinen, J. M. Kallio, T. Timoharju, O. Turunen, J. Rouvinen
Crystal Structures Of Trichoderma Reesei Beta-Galactosidase Reveal Conformational Changes In The Active Site
J. Struct. Biol. V. 174 156 2011
PubMed-ID: 21130883  |  Reference-DOI: 10.1016/J.JSB.2010.11.024

(-) Compounds

Molecule 1 - BETA-GALACTOSIDASE
    Chains: A
    EC Number: 3.2.1.23
    Organism Common: HYPOCREA JECORINA
    Organism Scientific: TRICHODERMA REESEI
    Organism Taxid: 51453

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 22)

Asymmetric/Biological Unit (5, 22)
No.NameCountTypeFull Name
1BMA2Ligand/IonBETA-D-MANNOSE
2GAL1Ligand/IonBETA-D-GALACTOSE
3GLC1Ligand/IonALPHA-D-GLUCOSE
4MAN10Ligand/IonALPHA-D-MANNOSE
5NAG8Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (22, 22)

Asymmetric Unit (22, 22)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:96 , ILE A:139 , ASN A:140 , ALA A:141 , GLU A:142 , ASN A:199 , GLU A:200 , TYR A:260 , GLU A:298 , PHE A:304 , TYR A:342 , TYR A:364 , HOH A:1643 , HOH A:1799BINDING SITE FOR RESIDUE GAL A 1024
02AC2SOFTWARETYR A:608 , ASN A:627 , NAG A:1026 , HOH A:1077 , HOH A:1134 , HOH A:1393 , HOH A:2041BINDING SITE FOR RESIDUE NAG A 1025
03AC3SOFTWAREASP A:375 , GLU A:377 , TYR A:576 , ASN A:577 , NAG A:1025 , BMA A:1027 , HOH A:1119 , HOH A:1126 , HOH A:1364 , HOH A:1405 , HOH A:1440 , HOH A:1644BINDING SITE FOR RESIDUE NAG A 1026
04AC4SOFTWAREGLU A:377 , NAG A:1026 , MAN A:1028 , MAN A:1031 , HOH A:1182 , HOH A:1639BINDING SITE FOR RESIDUE BMA A 1027
05AC5SOFTWAREGLU A:377 , ASN A:573 , BMA A:1027 , MAN A:1029 , HOH A:1289 , HOH A:1368 , HOH A:1680 , HOH A:1867BINDING SITE FOR RESIDUE MAN A 1028
06AC6SOFTWAREHIS A:321 , GLU A:322 , ARG A:325 , ARG A:572 , MAN A:1028 , MAN A:1030 , HOH A:1184 , HOH A:1639BINDING SITE FOR RESIDUE MAN A 1029
07AC7SOFTWAREMAN A:1029 , HOH A:1471 , HOH A:1579BINDING SITE FOR RESIDUE MAN A 1030
08AC8SOFTWAREALA A:317 , ASN A:320 , BMA A:1027 , HOH A:1182 , HOH A:1198 , HOH A:1403 , HOH A:1615 , HOH A:1783 , HOH A:1929BINDING SITE FOR RESIDUE MAN A 1031
09AC9SOFTWAREASN A:930 , THR A:932 , TYR A:951 , VAL A:952 , SER A:953 , ILE A:955 , GLY A:956 , PRO A:957 , GLN A:958 , NAG A:1033 , HOH A:1445 , HOH A:1554 , HOH A:1731 , HOH A:1802 , HOH A:2018BINDING SITE FOR RESIDUE NAG A 1032
10BC1SOFTWAREGLY A:308 , ILE A:955 , NAG A:1032 , BMA A:1034 , HOH A:1118 , HOH A:1543BINDING SITE FOR RESIDUE NAG A 1033
11BC2SOFTWAREPHE A:775 , ASP A:776 , NAG A:1033 , MAN A:1035 , MAN A:1038 , HOH A:1386 , HOH A:1401 , HOH A:1543 , HOH A:1753BINDING SITE FOR RESIDUE BMA A 1034
12BC3SOFTWAREBMA A:1034 , MAN A:1036 , MAN A:1037 , HOH A:1640 , HOH A:1865BINDING SITE FOR RESIDUE MAN A 1035
13BC4SOFTWAREMAN A:1035 , HOH A:1543BINDING SITE FOR RESIDUE MAN A 1036
14BC5SOFTWAREMAN A:1035 , HOH A:1795BINDING SITE FOR RESIDUE MAN A 1037
15BC6SOFTWAREBMA A:1034 , MAN A:1039 , HOH A:1476 , HOH A:1744 , HOH A:1965 , HOH A:1995 , HOH A:2002BINDING SITE FOR RESIDUE MAN A 1038
16BC7SOFTWAREASP A:265 , PRO A:306 , GLY A:308 , GLY A:309 , TRP A:310 , MAN A:1038 , MAN A:1040 , HOH A:1059 , HOH A:1317 , HOH A:1665BINDING SITE FOR RESIDUE MAN A 1039
17BC8SOFTWAREPRO A:306 , ASP A:776 , ALA A:777 , MAN A:1039 , GLC A:1041 , HOH A:1059 , HOH A:1346 , HOH A:1498 , HOH A:1511 , HOH A:1826BINDING SITE FOR RESIDUE MAN A 1040
18BC9SOFTWAREPHE A:264 , ASP A:265 , PHE A:304 , MAN A:1040 , HOH A:1317 , HOH A:1498 , HOH A:1662 , HOH A:1665 , HOH A:1700 , HOH A:1826 , HOH A:1968BINDING SITE FOR RESIDUE GLC A 1041
19CC1SOFTWAREGLU A:668 , THR A:707 , ASN A:709 , HOH A:1235 , HOH A:1383 , HOH A:1933 , HOH A:1939BINDING SITE FOR RESIDUE NAG A 1042
20CC2SOFTWAREALA A:780 , ASN A:782 , HOH A:1551 , HOH A:1781 , HOH A:2066BINDING SITE FOR RESIDUE NAG A 1043
21CC3SOFTWAREASP A:274 , ASN A:434 , SER A:436 , SER A:437 , THR A:438 , NAG A:1045 , HOH A:1787BINDING SITE FOR RESIDUE NAG A 1044
22CC4SOFTWARESER A:270 , NAG A:1044 , HOH A:1439 , HOH A:1893BINDING SITE FOR RESIDUE NAG A 1045

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:266 -A:315

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Gly A:136 -Pro A:137
2Phe A:210 -Pro A:211
3Tyr A:342 -Met A:343
4Ile A:456 -Pro A:457
5Gly A:956 -Pro A:957

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3OGR)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3OGR)

(-) Exons   (0, 0)

(no "Exon" information available for 3OGR)

(-) 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:986
 aligned with Q70SY0_HYPJE | Q70SY0 from UniProtKB/TrEMBL  Length:1023

    Alignment length:986
                                    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       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767       777       787       797       807       817       827       837       847       857       867       877       887       897       907       917       927       937       947       957       967       977       987       997      1007      1017      
        Q70SY0_HYPJE     38 AKGPLQNIVTWDEHSLFVHGERVVIFSGEVHPFRLPVPSLYLDVFHKIKALGFNTVSFYVDWALLEGKPGRFRADGIFSLEPFFEAATKAGIYLLARPGPYINAEVSGGGFPGWLQRVKGKLRTDAPDYLHATDNYVAHIASIIAKAQITNGGPVILYQPENEYSGAAEGVLFPNKPYMQYVIDQARNAGIIVPLINNDAFPGGTGAPGTGLGSVDIYGHDGYPLGFDCAHPSAWPDNGLPTTWRQDHLNISPSTPFSLVEFQGGAFDPFGGWGFEQCSALVNHEFERVFYKNNMAAGVTIFNIYMTFGGTNWGNLGHPGGYTSYDYGASIREDRRIDREKYSELKLQGQFLKVSPGYITATPENATQGVYSDSQNIVITPLLAKESGDFFVVRHANYSSTDTASYTVKLPTSAGDLTIPQLGGSLTLTGRDSKIHVTDYPVGKFTLLYSTAEIFTWNEFAEKTVLVLYGGAQELHEFAVKNPFGSSKTAKAKKIEGSNVTIHTTSNLTVVLQWTASSARQVVQLGSLVIYMVDRNSAYNYWVPTLPGSGKQSAYGSSLMNPDSVIINGGYLIRSVAIKGNALSVQADFNVTTPLEIIGIPKGISKLAVNGKELGYSVSELGDWIAHPAIEIPHVQVPELTKLKWYKVDSLPEIRSNYDDSRWPLANLRTSNNTYAPLKTPVSLYGSDYGFHAGTLLFRGRFTARTARQQLFLSTQGGSAFASSVWLNDRFIGSFTGFDAASAANSSYTLDRLVRGRRYILTVVVDSTGLDENWTTGDDSMKAPRGILDYALTSSSGANVSISWKLTGNLGGEDYRDVFRGPLNEGGLFFERQGFHLPSPPLSDFTHGPSSSSSSSSPLDGIAHAGIAFYAAKLPLHLPAQEYDIPLSFVFDNATAAAPYRALLYVNGFQYGKYVSNIGPQTEFPVPEGILDYNGDNWIGVALWALESRGAKVPGLALKSKSPILTGRERVEVVKGPHFKKRHGAY 1023
               SCOP domains d3ogra1 A:38-393 automated matches                                                                                                                                                                                                                                                                                                                                  d3ogra2 A:394-571 automated matches                                                                                                                                               d3ogra3 A:572-668 automated matches                                                              d3ogra4 A:669-852 automated matches                                                                                                                                                     d3ogra5 A:853-1023 automated matches                                                                                                                                        SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eee....eee..eee.eeeeee.hhhh.hhhhhhhhhhhhhhh...eeeee.hhhhhh........hhhhhhhhhhhhhhhhh.eeeeeee......hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee..............hhhhhhhhhhhhhhh.............................eeee....................hhhhhhhhhh.....eeeeee..........hhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee..............................hhhhhhhhhhhhhhhh.hhhhhhee.............eeeeeee.....eeeeeee........eee.eee......eee......eee....eeeeeeeeee..eeeeee..eeeeeee....eeeeeee....eeeeee............eeee....eeee.....eeeeee.....eeeee..eeeeeeehhhhh.ee.........hhhhh.........eee...eeeeeeee..eeeeeee......eeee.......eeee..eee..ee.....eee............hhhhh..eeee.hhhhh.............................hhhhhh.....eeeeeeee.....eeeeeeee......eeeee..eeeeee.......eeeeeeee.......eeeeeeee.............hhhhh..eeeeeeeee........eeeee....................hhhhhh.......hhhhh....................eeeeeeeeeeee.....ee..eeeee........eeeeeee..eeeeeee.......eeee.......eeeeeeeeeeee..........eeeee...ee..................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3ogr A   38 AKGPLQNIVTWDEHSLFVHGERVVIFSGEVHPFRLPVPSLYLDVFHKIKALGFNTVSFYVDWALLEGKPGRFRADGIFSLEPFFEAATKAGIYLLARPGPYINAEVSGGGFPGWLQRVKGKLRTDAPDYLHATDNYVAHIASIIAKAQITNGGPVILYQPENEYSGAAEGVLFPNKPYMQYVIDQARNAGIIVPLINNDAFPGGTGAPGTGLGSVDIYGHDGYPLGFDCAHPSAWPDNGLPTTWRQDHLNISPSTPFSLVEFQGGAFDPFGGWGFEQCSALVNHEFERVFYKNNMAAGVTIFNIYMTFGGTNWGNLGHPGGYTSYDYGASIREDRRIDREKYSELKLQGQFLKVSPGYITATPENATQGVYSDSQNIVITPLLAKESGDFFVVRHANYSSTDTASYTVKLPTSAGDLTIPQLGGSLTLTGRDSKIHVTDYPVGKFTLLYSTAEIFTWNEFAEKTVLVLYGGAQELHEFAVKNPFGSSKTAKAKKIEGSNVTIHTTSNLTVVLQWTASSARQVVQLGSLVIYMVDRNSAYNYWVPTLPGSGKQSAYGSSLMNPDSVIINGGYLIRSVAIKGNALSVQADFNVTTPLEIIGIPKGISKLAVNGKELGYSVSELGDWIAHPAIEIPHVQVPELTKLKWYKVDSLPEIRSNYDDSRWPLANLRTSNNTYAPLKTPVSLYGSDYGFHAGTLLFRGRFTARTARQQLFLSTQGGSAFASSVWLNDRFIGSFTGFDAASAANSSYTLDRLVRGRRYILTVVVDSTGLDENWTTGDDSMKAPRGILDYALTSSSGANVSISWKLTGNLGGEDYRDVFRGPLNEGGLFFERQGFHLPSPPLSDFTHGPSSSSSSSSPLDGIAHAGIAFYAAKLPLHLPAQEYDIPLSFVFDNATAAAPYRALLYVNGFQYGKYVSNIGPQTEFPVPEGILDYNGDNWIGVALWALESRGAKVPGLALKSKSPILTGRERVEVVKGPHFKKRHGAY 1023
                                    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       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717       727       737       747       757       767       777       787       797       807       817       827       837       847       857       867       877       887       897       907       917       927       937       947       957       967       977       987       997      1007      1017
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (4, 5)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OGR)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3OGR)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q70SY0_HYPJE | Q70SY0)
molecular function
    GO:0004565    beta-galactosidase activity    Catalysis of the hydrolysis of terminal, non-reducing beta-D-galactose residues in beta-D-galactosides.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016798    hydrolase activity, acting on glycosyl bonds    Catalysis of the hydrolysis of any glycosyl bond.
    GO:0004553    hydrolase activity, hydrolyzing O-glycosyl compounds    Catalysis of the hydrolysis of any O-glycosyl bond.
biological process
    GO:0005975    carbohydrate metabolic process    The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

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  Q70SY0_HYPJE | Q70SY0
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 Related Entries

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

UniProtKB/TrEMBL
        Q70SY0_HYPJE | Q70SY0: 3og2 3ogs 3ogv

(-) Related Entries Specified in the PDB File

3og2 NATIVE STRUCTURE OF BETA-GALACTOSIDASE FROM TRICHODERMA REESEI
3ogs COMPLEX STRUCTURE OF BETA-GALACTOSIDASE FROM TRICHODERMA REESEI WITH IPTG
3ogv COMPLEX STRUCTURE OF BETA-GALACTOSIDASE FROM TRICHODERMA REESEI WITH PETG