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(-) Description

Title :  CRYSTAL STRUCTURE OF THE NANB SIALIDASE FROM STREPTOCOCCUS PNEUMONIAE IN COMPLEX WITH 2-[(4-FLUORO-3-METHYLBENZYL)AMMONIO]ETHANESULFONATE
 
Authors :  P. Brear
Date :  25 Jun 12  (Deposition) - 31 Oct 12  (Release) - 14 Nov 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.84
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Intramolecular Trans-Sialidase, Glycosidase, Drug Design, Neuraminidase, Hydrolase-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Brear, J. Telford, G. L. Taylor, N. J. Westwood
Synthesis And Structural Characterisation Of Selective Non-Carbohydrate-Based Inhibitors Of Bacterial Sialidases.
Chembiochem V. 13 2374 2012
PubMed-ID: 23070966  |  Reference-DOI: 10.1002/CBIC.201200433

(-) Compounds

Molecule 1 - SIALIDASE B
    Chains: A
    EC Number: 3.2.1.18
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET23B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: NANB, SP_1687
    Organism Scientific: STREPTOCOCCUS PNEUMONIAE
    Organism Taxid: 1313
    Strain: TIGR4
    Synonym: NEURAMINIDASE B

 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
1DMS1Ligand/IonDIMETHYL SULFOXIDE
2IJ41Ligand/Ion2-[(4-FLUORO-3-METHYLBENZYL)AMINO]ETHANESULFONIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:245 , ASP A:270 , SER A:271 , ILE A:326 , ASP A:327 , ASP A:344 , MET A:346 , ASN A:352 , TYR A:489 , ARG A:557 , ARG A:619 , TYR A:653 , TRP A:674 , HOH A:1204 , HOH A:1273 , HOH A:1359BINDING SITE FOR RESIDUE IJ4 A 701
2AC2SOFTWARETYR A:250 , THR A:251 , GLN A:494 , THR A:657BINDING SITE FOR RESIDUE DMS A 702

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4FQ4)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ser A:271 -Lys A:272

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4FQ4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4FQ4)

(-) Exons   (0, 0)

(no "Exon" information available for 4FQ4)

(-) 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:658
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeee...eehhhhhhhhh....eeeeeeee......eeeeeeee.........eeeeeee....eeeeeee....eeeeeee......ee..ee..eeeeeeee....eeeeee..eeeeeee..............eeee..eee..eee...eeeeeeeeee....hhhhhhh....................eee....ee.....eeeeeeee..........eeeeeeee..........eeee...........................eeeeeeeee......eeeeeeee...............eee....eeeeeee.......eee....eeee....eeeeeee.....eee..ee.eeeeeeee......eeeeeeeeee.........ee.....eeeeeee..........ee............ee..ee.ee......eee.eee..eeeeeee.......eeeeee.........eeeeeee..eeeeee.......eeeee..........ee.............eeee.........eeeeeee........eeeeeeee......eeeeeeee..........eeeee.....eeeeee...............eeeeeehhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fq4 A  39 ISPIFQGGSYQLNNKSIDISSLLLDKLSGESQTVVMKFKADKPNSLQALFGLSNSKAGFKNNYFSIFMRDSGEIGVEIRDAQKGINYLFSRPASLWGKHKGQAVENTLVFVSDSKDKTYTMYVNGIEVFSETVDTFLPISNINGIDKATLGAVNREGKEHYLAKGSIDEISLFNKAISDQEVSTIPLSNPFQLIFQSGDSTQANYFRIPTLYTLSSGRVLSSIDARYGGTHDSKSKINIATSYSDDNGKTWSEPIFAMKFNDYEEQLVYWPRDNKLKNSQISGSASFIDSSIVEDKKSGKTILLADVMPAGIGNNNANKADSGFKEINGHYYLKLKKNGDNDFRYTVRENGVVYNETTNKPTNYTINDKYEVLEGGKSLTVEQYSVDFDSGSLRERHNGKQVPMNVFYKDSLFKVTPTNYIAMTTSQNRGESWEQFKLLPPFLGEKHNGTYLCPGQGLALKSSNRLIFATYTSGELTYLISDDSGQTWKKSSASIPFKNATAEAQMVELRDGVIRTFFRTTTGKIAYMTSRDSGETWSKVSYIDGIQQTSYGTQVSAIKYSQLIDGKEAVILSTPNSRSGRKGGQLVVGLVNKEDDSIDWKYHYDIDLPSYGYAYSAITELPNHHIGVLFEKYDSWSRNELHLSNVVQYIDLEINDLT 696
                                    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       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 4FQ4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4FQ4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4FQ4)

(-) Gene Ontology  (8, 8)

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
        NANB_STRPN | Q54727: 2jkb 2vw0 2vw1 2vw2 4foq 4fov 4fow 4foy 4fp2 4fp3 4fpc 4fpe 4fpf 4fpg 4fph 4fpj 4fpk 4fpl 4fpo 4fpy 4xe9 4xhb 4xhx 4xik 4xil 4xio 4xj8 4xj9 4xja 4xju 4xjw 4xjz 4xma 4xmi 4xog 4xyx

(-) Related Entries Specified in the PDB File

2vw0 2vw1 2vw2 4foq 4fov 4fow 4foy 4fp2 4fp3 4fpc 4fpe 4fpf 4fpg 4fph 4fpj 4fpk 4fpl 4fpo 4fpy