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(-) Description

Title :  TRYPANOSOMA CRUZI TRANS-SIALIDASE IN COMPLEX WITH 2,3-DIFLUOROSIALIC ACID (COVALENT INTERMEDIATE)
 
Authors :  M. F. Amaya, A. G. Watts, I. Damager, A. Wehenkel, T. Nguyen, A. Buschiaz G. Paris, A. C. Frasch, S. G. Withers, P. M. Alzari
Date :  27 Jul 05  (Deposition) - 23 Aug 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A
Keywords :  Transglycosidase, Covalent Intermediate, Trypanosoma Cruzi, Sialic Acid, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. F. Amaya, A. G. Watts, I. Damager, A. Wehenkel, T. Nguyen, A. Buschiazzo, G. Paris, A. C. Frasch, S. G. Withers, P. M. Alzari
Structural Insights Into The Catalytic Mechanism Of Trypanosoma Cruzi Trans-Sialidase
Structure V. 12 775 2004
PubMed-ID: 15130470  |  Reference-DOI: 10.1016/J.STR.2004.02.036

(-) 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: TOP10F'
    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  (4, 6)

Asymmetric/Biological Unit (4, 6)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2FSI1Ligand/Ion5-(ACETYLAMINO)-2,6-ANHYDRO-3,5-DIDEOXY-3-FLUORONONONICACID
3GOL3Ligand/IonGLYCEROL
4IPA1Ligand/IonISOPROPYL ALCOHOL

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMET A:170 , HIS A:171 , LYS A:199 , HOH A:2251 , HOH A:2289BINDING SITE FOR RESIDUE CL A 1001
2AC2SOFTWAREARG A:35 , LEU A:36 , ARG A:53 , ASP A:59 , ASP A:96 , TYR A:119 , TRP A:120 , LEU A:176 , GLN A:195 , GLU A:230 , ARG A:245 , ARG A:314 , TYR A:342 , GOL A:1800 , GOL A:1801 , HOH A:1985 , HOH A:2398 , HOH A:2753BINDING SITE FOR RESIDUE FSI A 700
3AC3SOFTWARETYR A:119 , ARG A:245 , ASP A:247 , TRP A:312 , FSI A:700 , GOL A:1801 , HOH A:2236BINDING SITE FOR RESIDUE GOL A 1800
4AC4SOFTWAREASP A:59 , TRP A:312 , FSI A:700 , GOL A:1800 , HOH A:1941 , HOH A:2126 , HOH A:2753BINDING SITE FOR RESIDUE GOL A 1801
5AC5SOFTWAREARG A:7 , GLU A:9 , ARG A:13 , ILE A:358 , ASN A:553 , LYS A:554 , ILE A:555 , HOH A:2185 , HOH A:2362 , HOH A:2413 , HOH A:2421BINDING SITE FOR RESIDUE GOL A 1802
6AC6SOFTWAREILE A:183 , VAL A:184 , GLY A:593 , HOH A:2073 , HOH A:2106BINDING SITE FOR RESIDUE IPA A 1903

(-) 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 2AH2)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2AH2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2AH2)

(-) Exons   (0, 0)

(no "Exon" information available for 2AH2)

(-) 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:624
 aligned with Q26966_TRYCR | Q26966 from UniProtKB/TrEMBL  Length:642

    Alignment length:633
                                    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       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   
         Q26966_TRYCR     2 LAPGSSRVELFKRQSSKVPFEKDGKVTERVVHSFRLPALVNVDGVMVAIADARYETSNDNSLIDTVAKYSVDDGETWETQIAIKNSRASSVSRVVDPTVIVKGNKLYVLVGSYNSSRSYWTSHGDARDWDILLAVGEVTKSTAGGKITASIKWGSPVSLKEFFPAEMEGMHTNQFLGGAGVAIVASNGNLVYPVQVTNKKKQVFSKIFYSEDEGKTWKFGKGRSAFGCSEPVALEWEGKLIINTRVDYRRRLVYESSDMGNSWLEAVGTLSRVWGPSPKSNQPGSQSSFTAVTIEGMRVMLFTHPLNFKGRWLRDRLNLWLTDNQRIYNVGQVSIGDENSAYSSVLYKDDKLYCLHEINSNEVYSLVFARLVGELRIIKSVLQSWKNWDSHLSSICTPADPAASSSERGCGPAVTTVGLVGFLSHSATKTEWEDAYRCVNASTANAERVPNGLKFAGVGGGALWPVSQQGQNQRYRFANHAFTVVASVTIHEVPSVASPLLGASLDSSGGKKLLGLSYDERHQWQPIYGSTPVTPTGSWEMGKRYHVVLTMANKIGSEYIDGEPLEGSGQTVVPDERTPDISHFYVGGYKRSDMPTISHVTVNNVLLYNRQLNAEEIRTLFLSQDLIGTEAHM 634
               SCOP domains d2ah2a2 A:1-399 Trypanosoma sialidase                                                                                                                                                                                                                                                                                                                                                                          ---------d2ah2a1 A:409-633 Trypanosoma sialidase, C-terminal domain                                                                                                                                                                        SCOP domains
               CATH domains 2ah2A01 A:1-370  [code=2.120.10.10, no name defined]                                                                                                                                                                                                                                                                                                                              2ah2A02 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.....eeeeeeeeeeeeehhhhh.eeeeee...ee.hhhh..ee..eeeeeeee..ee.ee.....eeeeeeeee....eeeeeeee.......ee.........eeeeeeee..eeeeeee.......eeee.......ee.......................eeeeee..eeeeeeeee...........eeeeee....eeeeee..........eeeeee..eeeeeeeeee..eeeeeeeehhhhhhhhhhhhhhhhhhhhhhhhh....---------..........eeeeeeeee...eeee......eeee.eeee..eeee.....eeeee.hhhh....hhhhh.eeeeeeeeee......eeeeeeee.......eeeeeeee....eeeee...............eeeeeeeee..eeeeee..ee.....ee...........eeee.............eeeeeeeee....hhhhhhhhhhh.....hhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ah2 A   1 LAPGSSRVELFKRQSSKVPFEKDGKVTERVVHSFRLPALVNVDGVMVAIADARYETSFDNSLIDTVAKYSVDDGETWETQIAIKNSRASSVSRVVDPTVIVKGNKLYVLVGSYNSSRSYWTSHGDARDWDILLAVGEVTKSTAGGKITASIKWGSPVSLKEFFPAEMEGMHTNQFLGGAGVAIVASNGNLVYPVQVTNKKKQVFSKIFYSEDEGKTWKFGKGRSAFGCSEPVALEWEGKLIINTRVDYRRRLVYESSDMGNTWLEAVGTLSRVWGPSPKSNQPGSQSSFTAVTIEGMRVMLFTHPLNFKGRWLRDRLNLWLTDNQRIYNVGQVSIGDENSAYSSVLYKDDKLYCLHEINSNEVYSLVFARLVGELRIIKSVLQSWKNWDSHLSSICTPA---------GCGPAVTTVGLVGFLSHSATKTEWEDAYRCVNASTANAERVPNGLKFAGVGGGALWPVSQQGQNQRYHFANHAFTLVASVTIHEVPKGASPLLGASLDSSGGKKLLGLSYDKRHQWQPIYGSTPVTPTGSWEMGKRYHVVLTMANKIGSVYIDGEPLEGSGQTVVPDERTPDISHFYVGGYKRSGMPTDSRVTVNNVLLYNRQLNAEEIRTLFLSQDLIGTEAHM 633
                                    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        |-       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630   
                                                                                                                                                                                                                                                                                                                                                                                                                                        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 2AH2)

(-) Gene Ontology  (2, 2)

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.

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  2ah2
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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
        Q26966_TRYCR | Q26966: 3b69
UniProtKB/TrEMBL
        Q26966_TRYCR | Q26966: 1mr5 1ms0 1ms1 1ms3 1ms4 1ms5 1ms8 1ms9 1s0i 1s0j 3opz 3pjq

(-) Related Entries Specified in the PDB File

2a75 CRYSTAL STRUCTURE OF TRYPANOSOMA RANGELI SIALIDASE IN COMPLEX WITH 2,3- DIFLUOROSIALIC ACID (COVALENT INTERMEDIATE)
2ags CRYSTAL STRUCTURE OF TRYPANOSOMA RANGELI SIALIDASE IN INCOMPLEX WITH 2-KETO-3-DEOXY-D-GLYCERO-D-GALACTO-2,3_ DIFLUORO-NONONIC ACID (2,3-DIFLUORO-KDN)