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(-) Description

Title :  HUMAN SIALIDASE 2 IN COMPLEX WITH 2,3-DIFLUOROSIALIC ACID (COVALENT INTERMEDIATE)
 
Authors :  S. Buchini, F. -X. Gallat, I. R. Greig, J. -H. Kim, S. Wakatsuki, L. M. G. C S. G. Withers
Date :  24 Oct 13  (Deposition) - 06 Nov 13  (Release) - 02 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.51
Chains :  Asym./Biol. Unit :  A
Keywords :  Human Neuraminidase, Sialidase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Buchini, F. X. Gallat, I. R. Greig, J. H. Kim, S. Wakatsuki, L. M. Chavas, S. G. Withers
Tuning Mechanism-Based Inactivators Of Neuraminidases: Mechanistic And Structural Insights.
Angew. Chem. Int. Ed. Engl. V. 53 3382 2014
PubMed-ID: 24591206  |  Reference-DOI: 10.1002/ANIE.201309675

(-) Compounds

Molecule 1 - SIALIDASE-2
    Chains: A
    EC Number: 3.2.1.18
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX-2T
    Expression System Strain: BL21
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: NEU2
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: NEU2, CYTOSOLIC SIALIDASE, N-ACETYL-ALPHA-NEURAMINIDASE 2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1FSI1Ligand/Ion5-(ACETYLAMINO)-3,5-DIDEOXY-3-FLUORO-D-ERYTHRO-ALPHA-L-MANNO-NON-2-ULOPYRANOSONIC ACID
2PO42Ligand/IonPHOSPHATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:21 , ILE A:22 , ARG A:41 , ASN A:86 , TYR A:179 , TYR A:181 , LEU A:217 , GLU A:218 , ARG A:237 , ARG A:304 , TYR A:334 , HOH A:515 , HOH A:585BINDING SITE FOR RESIDUE FSI A 401
2AC2SOFTWAREALA A:17 , HIS A:18 , TYR A:20 , PRO A:316 , ALA A:317BINDING SITE FOR RESIDUE PO4 A 402
3AC3SOFTWAREHIS A:210 , PHE A:211 , HOH A:571 , HOH A:582BINDING SITE FOR RESIDUE PO4 A 403

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:88 -A:164

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Gly A:160 -Pro A:161
2Pro A:315 -Pro A:316

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4NC5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4NC5)

(-) Exons   (0, 0)

(no "Exon" information available for 4NC5)

(-) 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    
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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:354
                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains d4nc5a_ A: automated matches                                                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eeeeeee....eeeeeeeeeehhh.eeeeeeeee...eeeeeeeeeehhhheeee...ee........eeeeeeeeeee....eeeeeeeeee........eeeeeee..........eehhhhhhhhhhh.eeeeee.....ee.......eeeeeeeee........eeeeeeeee.......ee.......eeeeeeeee....eeeeeeee...eeeeeee........eeeeeeeee.........eeeeee....eeeeeeee......eeeeeeee....hhhhh...eeeeeeeeeeeeeeeeee.....eeeeeeeee....eeeeeeeehhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4nc5 A   3 SLPVLQKESVFQSGAHAYRIPALLYLPGQQSLLAFAEQRAAELIVLRRGDYDAPTHQVQWQAQEVVAQARLDGHRSMNPCPLYDAQTGTLFLFFIAIPGQVRANVTRLCQVTSTDHGRTWSSPRDLTDAAIGPAYREWSTFAVGPGHCLQLNDRARSLVVPAYAYRKLHPIQRPIPSAFCFLSHDHGRTWARGHFVAQDTLECQVAEVETQRVVTLNARSHLRARVQAQSTNDGLDFQESQLVKKLVEPPPQGCQGSVISFPSPRAQWLLYTHPTHSWQRADLGAYLNPRPPAPEAWSEPVLLAKGSCAYSDLQSMGTGPDGSPLFGCLYEANDYEEIVFLMFTLKQAFPAEYL 378
                                    12        22        32        42|       58        68        78        88        98       108||     126       136       146       156       166       176       186       196       206       216       226|      238       248       258       268       278    || 294       304       314       324       334       344       354       364       374    
                                                                  42|                                                         109|                                                                                                         226|                                                   283|                                                                                        
                                                                   49                                                          118                                                                                                          229                                                    290
   Legend:   → Mismatch (orange background)
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  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 4NC5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4NC5)

(-) Gene Ontology  (21, 21)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        NEUR2_HUMAN | Q9Y3R4: 1snt 1so7 1vcu 2f0z 2f10 2f11 2f12 2f13 2f24 2f25 2f26 2f27 2f28 2f29 4ncs

(-) Related Entries Specified in the PDB File

2a75 TRYPANOSOMA RANGELI SIALIDASE IN COMPLEX WITH 2,3- DIFLUOROSIALIC ACID (COVALENT INTERMEDIATE)
2ah2 CRYSTAL STRUCTURE OF TRYPANOSOMA CRUZI TRANS-SIALIDASE IN COMPLEX WITH 2,3-DIFLUOROSIALIC ACID (COVALENT INTERMEDIATE)