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(-) Description

Title :  INFLUENZA VIRUS B/LEE/40 NEURAMINIDASE COMPLEXED WITH BANA113 INHIBITOR
 
Authors :  M. J. Jedrzejas, M. Luo
Date :  07 Jul 95  (Deposition) - 17 Aug 96  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Neuraminidase, Sialidase, Hydrolase, O-Glycosyl, Hydrolase (O- Glycosyl) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Singh, M. J. Jedrzejas, G. M. Air, M. Luo, W. G. Laver, W. J. Brouillette
Structure-Based Inhibitors Of Influenza Virus Sialidase. A Benzoic Acid Lead With Novel Interaction.
J. Med. Chem. V. 38 3217 1995
PubMed-ID: 7650674  |  Reference-DOI: 10.1021/JM00017A005
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - INFLUENZA VIRUS B/LEE/40 NEURAMINIDASE
    Chains: A
    EC Number: 3.2.1.18
    Organism Scientific: INFLUENZA B VIRUS
    Organism Taxid: 11520
    Strain: STRAIN B-LEE-40
    Synonym: SIALIDASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (4x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric Unit (3, 4)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
3ST41Ligand/Ion4-(ACETYLAMINO)-3-GUANIDINOBENZOIC ACID
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
3ST44Ligand/Ion4-(ACETYLAMINO)-3-GUANIDINOBENZOIC ACID

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:82 , PRO A:83 , ARG A:84 , LEU A:85 , ASN A:284BINDING SITE FOR RESIDUE NAG A 467
2AC2SOFTWAREASP A:293 , THR A:297 , ASP A:324 , GLY A:346 , HOH A:502 , HOH A:582BINDING SITE FOR RESIDUE CA A 500
3AC3SOFTWAREGLU A:168 , HOH A:536BINDING SITE FOR RESIDUE CA A 501
4AC4SOFTWAREARG A:116 , GLU A:117 , ASP A:149 , ARG A:150 , TRP A:177 , ARG A:223 , GLU A:275 , GLU A:276 , ARG A:292 , ARG A:374 , TYR A:409 , HOH A:539BINDING SITE FOR RESIDUE ST4 A 471
5CATUNKNOWNARG A:116 , GLU A:117 , ASP A:149 , ARG A:150 , TRP A:177 , ILE A:221 , ARG A:223 , GLU A:275 , ARG A:292 , ARG A:374 , TYR A:409SUBSTRATE (SIALIC ACID) BINDING RESIDUES CATALYTIC SITE

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1A:87 -A:420
2A:122 -A:127
3A:182 -A:229
4A:231 -A:236
5A:277 -A:291
6A:279 -A:289
7A:318 -A:337
8A:424 -A:447

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gln A:138 -Pro A:139
2Thr A:325 -Pro A:326

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1INF)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1INF)

(-) Exons   (0, 0)

(no "Exon" information available for 1INF)

(-) Sequences/Alignments

Asymmetric 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:390
 aligned with NRAM_INBLE | P03474 from UniProtKB/Swiss-Prot  Length:466

    Alignment length:390
                                    86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466
           NRAM_INBLE    77 EPEWTYPRLSCQGSTFQKALLISPHRFGEIKGNSAPLIIREPFVACGPKECRHFALTHYAAQPGGYYNGTRKDRNKLRHLVSVKLGKIPTVENSIFHMAAWSGSACHDGREWTYIGVDGPDNDALVKIKYGEAYTDTYHSYAHNILRTQESACNCIGGDCYLMITDGSASGISKCRFLKIREGRIIKEILPTGRVEHTEECTCGFASNKTIECACRDNSYTAKRPFVKLNVETDTAEIRLMCTKTYLDTPRPDDGSIAGPCESNGDKWLGGIKGGFVHQRMASKIGRWYSRTMSKTNRMGMELYVKYDGDPWTDSDALTLSGVMVSIEEPGWYSFGFEIKDKKCDVPCIGIEMVHDGGKDTWHSAATAIYCLMGSGQLLWDTVTGVDMAL 466
               SCOP domains d1infa_ A: Influenza neuraminidase                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1infA00 A:77-466  [code=2.120.10.10, no name defined]                                                                                                                                                                                                                                                                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
     Sec.struct. author (1) ...............eeeeeee.hhhh...............eeee....eeeeeee.....................eeeeee..........eeeee..eeeeee....eeeeeeeeehhh-------..eeeeeee..............eee..eeeeeeeee.....eeeeeeeee..eeeeeee...........eeee....eeeee..........eeeeee....eeeeee...................................eeeeee..eeeeeeee.........eeeeeee..............eeee........eeeeeee....eeeeeeeeeeee......eeeeeeeeee.................. Sec.struct. author (1)
     Sec.struct. author (2) --------------------------------------------------------------------------------------------------------------------------eeeeeeee-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Sec.struct. author (2)
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1inf A  77 EPEWTYPRLSCQGSTFQKALLISPHRFGEIKGNSAPLIIREPFVACGPKECRHFALTHYAAQPGGYYNGTRKDRNKLRHLVSVKLGKIPTVENSIFHMAAWSGSACHDGREWTYIGVDGPDNDALVKIKYGEAYTDTYHSYAHNILRTQESACNCIGGDCYLMITDGSASGISKCRFLKIREGRIIKEILPTGRVEHTEECTCGFASNKTIECACRDNSYTAKRPFVKLNVETDTAEIRLMCTKTYLDTPRPDDGSIAGPCESNGDKWLGGIKGGFVHQRMASKIGRWYSRTMSKTNRMGMELYVKYDGDPWTDSDALTLSGVMVSIEEPGWYSFGFEIKDKKCDVPCIGIEMVHDGGKDTWHSAATAIYCLMGSGQLLWDTVTGVDMAL 466
                                    86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466
   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 Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1INF)

(-) Gene Ontology  (15, 15)

Asymmetric Unit(hide GO term definitions)
Chain A   (NRAM_INBLE | P03474)
molecular function
    GO:0052794    exo-alpha-(2->3)-sialidase activity    Catalysis of the hydrolysis of alpha-(2->3)-glycosidic linkages of terminal sialic residues in substrates.
    GO:0052795    exo-alpha-(2->6)-sialidase activity    Catalysis of the hydrolysis of alpha-(2->6)-glycosidic linkages of terminal sialic residues in substrates.
    GO:0052796    exo-alpha-(2->8)-sialidase activity    Catalysis of the hydrolysis of alpha-(2->8)-glycosidic linkages of terminal sialic residues in substrates.
    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.
    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:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
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.
cellular component
    GO:0033644    host cell membrane    Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0020002    host cell plasma membrane    The plasma membrane surrounding a host cell.
    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.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.
    GO:0055036    virion membrane    The lipid bilayer surrounding a virion.

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 Related Entries

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        NRAM_INBLE | P03474: 1b9s 1b9t 1b9v 1inv 1ivb 1vcj

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