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(-) Description

Title :  T CRUZI TRANS-SIALIDASE COMPLEX WITH BENZOYLATED NANA DERIVATIVE
 
Authors :  A. Buschiazzo
Date :  28 Oct 07  (Deposition) - 13 May 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.67
Chains :  Asym./Biol. Unit :  A
Keywords :  Beta-Propeller, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Buchini, A. Buschiazzo, S. G. Withers
A New Generation Of Specific Trypanosoma Cruzi Trans-Sialidase Inhibitors.
Angew. Chem. Int. Ed. Engl. V. 47 2700 2008
PubMed-ID: 18300214  |  Reference-DOI: 10.1002/ANIE.200705435
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRANS-SIALIDASE
    Chains: A
    EC Number: 3.2.1.18
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTRCHISA
    Expression System Strain: TOP10
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: TRYPANOSOMA CRUZI
    Organism Taxid: 5693

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1BFN1Ligand/Ion5-(ACETYLAMINO)-2,6-ANHYDRO-3,5,9-TRIDEOXY-3-FLUORO-9-[(PHENYLCARBONYL)AMINO]-D-ARABINO-L-GALACTO-NONONICACID
2CL1Ligand/IonCHLORIDE ION
3EPE1Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:171 , ASN A:198BINDING SITE FOR RESIDUE CL A 635
2AC2SOFTWAREARG A:35 , LEU A:36 , ARG A:53 , ASP A:59 , ASP A:96 , TYR A:119 , TRP A:120 , LEU A:176 , ARG A:245 , ARG A:314 , TYR A:342 , HOH A:722 , HOH A:765 , HOH A:770 , HOH A:901BINDING SITE FOR RESIDUE BFN A 700
3AC3SOFTWAREASP A:59 , TYR A:119 , ARG A:311 , TRP A:312 , GLU A:362 , HOH A:796 , HOH A:854BINDING SITE FOR RESIDUE EPE A 701

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:396 -A:410

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3B69)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3B69)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3B69)

(-) Exons   (0, 0)

(no "Exon" information available for 3B69)

(-) 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:626
 aligned with Q26964_TRYCR | Q26964 from UniProtKB/TrEMBL  Length:1060

    Alignment length:635
                                    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       640       650       660     
         Q26964_TRYCR    31 HALAPGSSRVELFKRQSSKVPFEKGGKVTERVVHSFRLPALVNVDGVMVAIADARYETSNDNSLIDTVAKYSVDDGETWETQIAIKNSRASSVSRVVDPTVIVKGNKLYVLVGSYNSSRSYWTSHGDARDWDILLAVGEVTKSTAGGKITASIKWGSPVSLKEFFPAEMEGMHTNQFLGGAGVAIVASNGNLVYPVQVTNKKKQVFSKIFYSEDEGKTWKFGEGRSDFGCSEPVALEWEGKLIINTRVDYRRRLVYESSDMGNSWVEAVGTLSRVWGPSPKSNQPGSQSSFTAVTIEGMRVMLFTHPLNFKGRWLRDRLNLWLTDNQRIYNVGQVSIGDENSAYSSVLYKDDKLYCLHEINSNEVYSLVFARLVGELRIIKSVLQSWKNWDSHLSSICTPADPAASSSERGCGPAVTTVGLVGFLSHSATKTEWEDAYRCVNASTANAERVPNGLKFAGVGGGALWPVSQQGQNQRYHFANHAFTLVASVTIHEVPSVASPLLGASLDSSGGKKLLGLSYDEKHQWQPIYGSTPVTPTGSWEMGKRYHVVLTMANKIGSVYIDGEPLEGSGQTVVPDGRTPDISHFYVGGYGRSDMPTISHVTVNNVLLYNRQLNAEEIRTLFLSQDLIGTEAHM 665
               SCOP domains d3b69a2 A:-1-399 Trypanosoma sialidase                                                                                                                                                                                                                                                                                                                                                                           ---------d3b69a1 A:409-633 Trypanosoma sialidase, C-terminal domain                                                                                                                                                                        SCOP domains
               CATH domains 3b69A01 A:-1-370  [code=2.120.10.10, no name defined]                                                                                                                                                                                                                                                                                                                               3b69A02 A:371-633  [code=2.60         .120.200, no name defined]                                                                                                                                                                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeee.....eeeeee..eeeeee..eeeeeeeeee..eeeeeeeee.........eeeeeeee.......eeeeee.........eeeeeeeeee..eeeeeeeee.....hhhhh.....eeeeeeeeeeeeee....eeeeeee...ee.hhhh..ee..eeeeeeee..ee.ee.....eeeeeeeee....eeeeeeee.......ee.........eeeeeeee..eeeeeee.......eeee.......ee.......................eeeeee..eeeeeeeee...........eeeeee....eeeeee..........eeeee....eeeeeeeee..eeeeeeeehhhhhhhhhhhhhhhhhhhhhhhh.....---------..........eeeeeeeee...eeee......eeee.eeee..eeee.....eeeee.hhhh....hhhhh.eeeeeeeeee......eeeeeeee.......eeeeeeee...eeeeee...............eeeeeeeee..eeeeee..ee.....ee...........eeee.............eeeeeeeee....hhhhhhhhhhh.....hhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3b69 A  -1 ASLAPGSSRVELFKRQSSKVPFEKDGKVTERVVHSFRLPALVNVDGVMVAIADARYETSFDNSLIDTVAKYSVDDGETWETQIAIKNSRASSVSRVVDPTVIVKGNKLYVLVGSYNSSRSYWTSHGDARDWDILLAVGEVTKSTAGGKITASIKWGSPVSLKEFFPAEMEGMHTNQFLGGAGVAIVASNGNLVYPVQVTNKKKQVFSKIFYSEDEGKTWKFGKGRSAFGCSEPVALEWEGKLIINTRVDYRRRLVYESSDMGNTWLEAVGTLSRVWGPSPKSNQPGSQSSFTAVTIEGMRVMLFTHPLNFKGRWLRDRLNLWLTDNQRIYNVGQVSIGDENSAYSSVLYKDDKLYCLHEINSNEVYSLVFARLVGELRIIKSVLQSWKNWDSHLSSICTPA---------GCGPAVTTVGLVGFLSHSATKTEWEDAYRCVNASTANAERVPNGLKFAGVGGGALWPVSQQGQNQRYHFANHAFTLVASVTIHEVPKGASPLLGASLDSSGGKKLLGLSYDKRHQWQPIYGSTPVTPTGSWEMGKRYHVVLTMANKIGSVYIDGEPLEGSGQTVVPDERTPDISHFYVGGYKRSGMPTDSRVTVNNVLLYNRQLNAEEIRTLFLSQDLIGTEAHM 633
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398|        -|      418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628     
                                                                                                                                                                                                                                                                                                                                                                                                                                          399       409                                                                                                                                                                                                                                


Chain A from PDB  Type:PROTEIN  Length:626
 aligned with Q26966_TRYCR | Q26966 from UniProtKB/TrEMBL  Length:642

    Alignment length:635
                             1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629     
         Q26966_TRYCR     - -MLAPGSSRVELFKRQSSKVPFEKDGKVTERVVHSFRLPALVNVDGVMVAIADARYETSNDNSLIDTVAKYSVDDGETWETQIAIKNSRASSVSRVVDPTVIVKGNKLYVLVGSYNSSRSYWTSHGDARDWDILLAVGEVTKSTAGGKITASIKWGSPVSLKEFFPAEMEGMHTNQFLGGAGVAIVASNGNLVYPVQVTNKKKQVFSKIFYSEDEGKTWKFGKGRSAFGCSEPVALEWEGKLIINTRVDYRRRLVYESSDMGNSWLEAVGTLSRVWGPSPKSNQPGSQSSFTAVTIEGMRVMLFTHPLNFKGRWLRDRLNLWLTDNQRIYNVGQVSIGDENSAYSSVLYKDDKLYCLHEINSNEVYSLVFARLVGELRIIKSVLQSWKNWDSHLSSICTPADPAASSSERGCGPAVTTVGLVGFLSHSATKTEWEDAYRCVNASTANAERVPNGLKFAGVGGGALWPVSQQGQNQRYRFANHAFTVVASVTIHEVPSVASPLLGASLDSSGGKKLLGLSYDERHQWQPIYGSTPVTPTGSWEMGKRYHVVLTMANKIGSEYIDGEPLEGSGQTVVPDERTPDISHFYVGGYKRSDMPTISHVTVNNVLLYNRQLNAEEIRTLFLSQDLIGTEAHM 634
               SCOP domains d3b69a2 A:-1-399 Trypanosoma sialidase                                                                                                                                                                                                                                                                                                                                                                           ---------d3b69a1 A:409-633 Trypanosoma sialidase, C-terminal domain                                                                                                                                                                        SCOP domains
               CATH domains 3b69A01 A:-1-370  [code=2.120.10.10, no name defined]                                                                                                                                                                                                                                                                                                                               3b69A02 A:371-633  [code=2.60         .120.200, no name defined]                                                                                                                                                                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeee.....eeeeee..eeeeee..eeeeeeeeee..eeeeeeeee.........eeeeeeee.......eeeeee.........eeeeeeeeee..eeeeeeeee.....hhhhh.....eeeeeeeeeeeeee....eeeeeee...ee.hhhh..ee..eeeeeeee..ee.ee.....eeeeeeeee....eeeeeeee.......ee.........eeeeeeee..eeeeeee.......eeee.......ee.......................eeeeee..eeeeeeeee...........eeeeee....eeeeee..........eeeee....eeeeeeeee..eeeeeeeehhhhhhhhhhhhhhhhhhhhhhhh.....---------..........eeeeeeeee...eeee......eeee.eeee..eeee.....eeeee.hhhh....hhhhh.eeeeeeeeee......eeeeeeee.......eeeeeeee...eeeeee...............eeeeeeeee..eeeeee..ee.....ee...........eeee.............eeeeeeeee....hhhhhhhhhhh.....hhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3b69 A  -1 ASLAPGSSRVELFKRQSSKVPFEKDGKVTERVVHSFRLPALVNVDGVMVAIADARYETSFDNSLIDTVAKYSVDDGETWETQIAIKNSRASSVSRVVDPTVIVKGNKLYVLVGSYNSSRSYWTSHGDARDWDILLAVGEVTKSTAGGKITASIKWGSPVSLKEFFPAEMEGMHTNQFLGGAGVAIVASNGNLVYPVQVTNKKKQVFSKIFYSEDEGKTWKFGKGRSAFGCSEPVALEWEGKLIINTRVDYRRRLVYESSDMGNTWLEAVGTLSRVWGPSPKSNQPGSQSSFTAVTIEGMRVMLFTHPLNFKGRWLRDRLNLWLTDNQRIYNVGQVSIGDENSAYSSVLYKDDKLYCLHEINSNEVYSLVFARLVGELRIIKSVLQSWKNWDSHLSSICTPA---------GCGPAVTTVGLVGFLSHSATKTEWEDAYRCVNASTANAERVPNGLKFAGVGGGALWPVSQQGQNQRYHFANHAFTLVASVTIHEVPKGASPLLGASLDSSGGKKLLGLSYDKRHQWQPIYGSTPVTPTGSWEMGKRYHVVLTMANKIGSVYIDGEPLEGSGQTVVPDERTPDISHFYVGGYKRSGMPTDSRVTVNNVLLYNRQLNAEEIRTLFLSQDLIGTEAHM 633
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398|        -|      418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628     
                                                                                                                                                                                                                                                                                                                                                                                                                                          399       409
   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  (2, 2)

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

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3B69)

(-) Gene Ontology  (4, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q26966_TRYCR | Q26966)
molecular function
    GO:0004308    exo-alpha-sialidase activity    Catalysis of the hydrolysis of alpha-(2->3)-, alpha-(2->6)-, alpha-(2->8)-glycosidic linkages of terminal sialic residues in oligosaccharides, glycoproteins, glycolipids, colominic acid and synthetic substrates.
biological process
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.

Chain A   (Q26964_TRYCR | Q26964)
molecular function
    GO:0004308    exo-alpha-sialidase activity    Catalysis of the hydrolysis of alpha-(2->3)-, alpha-(2->6)-, alpha-(2->8)-glycosidic linkages of terminal sialic residues in oligosaccharides, glycoproteins, glycolipids, colominic acid and synthetic substrates.
biological process
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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  3b69
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  Q26964_TRYCR | Q26964
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  Q26966_TRYCR | Q26966
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  3.2.1.18
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 Related Entries

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

UniProtKB/Swiss-Prot
        Q26964_TRYCR | Q26964: 1ms0 1ms1 1ms3 1ms4 1ms5 1ms8 1ms9
UniProtKB/TrEMBL
        Q26966_TRYCR | Q26966: 1mr5 1ms0 1ms1 1ms3 1ms4 1ms5 1ms8 1ms9 1s0i 1s0j 2ah2 3opz 3pjq

(-) Related Entries Specified in the PDB File

2ah2