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(-) Description

Title :  N9 TERN INFLUENZA NEURAMINIDASE COMPLEXED WITH A 2,5-DISUBSTITUTED TETRAHYDROFURAN-5-CARBOXYLIC ACID
 
Authors :  G. T. Wang, S. Wang, R. Gentles, T. Sowin, C. J. Maring, D. J. Kempf, W. M. K V. Stoll, K. D. Stewart, G. Laver
Date :  06 Oct 04  (Deposition) - 11 Jan 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Influenza, Neuraminidase, Tetrahydrofuran Inhibitors, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. T. Wang, S. Wang, R. Gentles, T. Sowin, C. J. Maring, D. J. Kempf, W. M. Kati, V. Stoll, K. D. Stewart, G. Laver
Design, Synthesis, And Structural Analysis Of Inhibitors Of Influenza Neuraminidase Containing A 2, 3-Disubstituted Tetrahydrofuran-5-Carboxylic Acid Core.
Bioorg. Med. Chem. Lett. V. 15 125 2005
PubMed-ID: 15582424  |  Reference-DOI: 10.1016/J.BMCL.2004.10.022

(-) Compounds

Molecule 1 - NEURAMINIDASE
    Chains: A
    EC Number: 3.2.1.18
    Fragment: N9 TERN NEURAMINIDAS
    Organism Scientific: INFLUENZA A VIRUS
    Organism Taxid: 11320
    Strain: STRAIN A/TERN/AUSTRALIA/G70C/75

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 10)

Asymmetric/Biological Unit (4, 10)
No.NameCountTypeFull Name
1ABW1Ligand/Ion5-[1-(ACETYLAMINO)-3-METHYLBUTYL]-2,5-ANHYDRO-3,4-DIDEOXY-4-(METHOXYCARBONYL)PENTONIC ACID
2BMA1Ligand/IonBETA-D-MANNOSE
3MAN4Ligand/IonALPHA-D-MANNOSE
4NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:201 , ASN A:202 , ARG A:222 , LEU A:455 , GLY A:456 , GLN A:457 , NAG A:502BINDING SITE FOR RESIDUE NAG A 501
02AC2SOFTWAREGLN A:393 , GLY A:394 , NAG A:501 , BMA A:503BINDING SITE FOR RESIDUE NAG A 502
03AC3SOFTWARELEU A:378 , PRO A:391 , THR A:392 , GLN A:393 , GLY A:394 , NAG A:502 , MAN A:504 , MAN A:507BINDING SITE FOR RESIDUE BMA A 503
04AC4SOFTWAREARG A:365 , GLU A:376 , BMA A:503 , MAN A:505 , MAN A:506BINDING SITE FOR RESIDUE MAN A 504
05AC5SOFTWAREASP A:332 , LYS A:390 , PRO A:391 , MAN A:504 , MAN A:506BINDING SITE FOR RESIDUE MAN A 505
06AC6SOFTWAREARG A:329 , ASN A:331 , ASP A:332 , ARG A:365 , ILE A:367 , ILE A:369 , MAN A:504 , MAN A:505BINDING SITE FOR RESIDUE MAN A 506
07AC7SOFTWARETHR A:392 , BMA A:503BINDING SITE FOR RESIDUE MAN A 507
08AC8SOFTWAREASN A:147 , TRP A:439BINDING SITE FOR RESIDUE NAG A 511
09AC9SOFTWAREASP A:84 , PHE A:85 , ASN A:87 , ASN A:236BINDING SITE FOR RESIDUE NAG A 512
10BC1SOFTWAREARG A:119 , GLU A:120 , ASP A:152 , ARG A:153 , ARG A:157 , TRP A:180 , ARG A:226 , GLU A:278 , GLU A:279 , ARG A:294 , ARG A:372 , TYR A:406BINDING SITE FOR RESIDUE ABW A 1000

(-) SS Bonds  (9, 9)

Asymmetric/Biological Unit
No.Residues
1A:93 -A:419
2A:125 -A:130
3A:177 -A:195
4A:185 -A:232
5A:234 -A:239
6A:280 -A:293
7A:282 -A:291
8A:320 -A:338
9A:423 -A:449

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Asn A:327 -Pro A:328
2Arg A:432 -Pro A:433

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1XOG)

(-) 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:387
 aligned with NRAM_I75A5 | P03472 from UniProtKB/Swiss-Prot  Length:470

    Alignment length:387
                                    93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       
           NRAM_I75A5    84 DFNNLTKGLCTINSWHIYGKDNAVRIGEDSDVLVTREPYVSCDPDECRFYALSQGTTIRGKHSNGTIHDRSQYRALISWPLSSPPTVYNSRVECIGWSSTSCHDGKTRMSICISGPNNNASAVIWYNRRPVTEINTWARNILRTQESECVCHNGVCPVVFTDGSATGPAETRIYYFKEGKILKWEPLAGTAKHIEECSCYGERAEITCTCRDNWQGSNRPVIRIDPVAMTHTSQYICSPVLTDNPRPNDPTVGKCNDPYPGNNNNGVKGFSYLDGVNTWLGRTISIASRSGYEMLKVPNALTDDKSKPTQGQTIVLNTDWSGYSGSFMDYWAEGECYRACFYVELIRGRPKEDKVWWTSNSIVSMCSSTEFLGQWDWPDGAKIEYFL 470
               SCOP domains d1xoga_ A: Influenza neuraminidase                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains 1xogA00 A:84-470  [code=2.120.10.10, no name defined]                                                                                                                                                                                                                                                                                                                                               CATH domains
               Pfam domains Neur-1xogA01 A:84-468                                                                                                                                                                                                                                                                                                                                                                            -- Pfam domains
         Sec.struct. author .............eeeeeee.hhhhhh.....eeeeeeeeee....eeeeeeeeeee..hhhhh..........eeeeee..........eeeee..eeeeee....eeeeeee......eeeeee..eeeeeee....................eeeeeeee.....eeeeeeeee..eeeeeee...........eeeee..eeeee..........eeeeee....eeeeee...................................ee......eeeee......eeeeeee.............eeeeeeeeeee...eeee............eeeeeeeee.........eeeeeeeeeee.............hhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xog A  84 DFNNLTKGLCTINSWHIYGKDNAVRIGEDSDVLVTREPYVSCDPDECRFYALSQGTTIRGKHSNGTIHDRSQYRALISWPLSSPPTVYNSRVECIGWSSTSCHDGKTRMSICISGPNNNASAVIWYNRRPVTEINTWARNILRTQESECVCHNGVCPVVFTDGSATGPAETRIYYFKEGKILKWEPLAGTAKHIEECSCYGERAEITCTCRDNWQGSNRPVIRIDPVAMTHTSQYICSPVLTDNPRPNDPTVGKCNDPYPGNNNNGVKGFSYLDGVNTWLGRTISIASRSGYEMLKVPNALTDDKSKPTQGQTIVLNTDWSGYSGSFMDYWAEGECYRACFYVELIRGRPKEDKVWWTSNSIVSMCSSTEFLGQWDWPDGAKIEYFL 470
                                    93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463
   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  (1, 1)

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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Sialidase (56)

(-) Gene Ontology  (15, 15)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (NRAM_I75A5 | P03472)
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

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

UniProtKB/Swiss-Prot
        NRAM_I75A5 | P03472: 1a14 1bji 1f8b 1f8c 1f8d 1f8e 1iny 1l7f 1l7g 1l7h 1mwe 1nca 1ncb 1ncc 1nmc 1nna 1nnb 1nnc 1xoe 2c4a 2c4l 2qwa 2qwb 2qwc 2qwd 2qwe 2qwf 2qwg 2qwh 2qwi 2qwj 2qwk 3nn9 3w09 4dgr 4nn9 4weg 5nn9 6nn9 7nn9

(-) Related Entries Specified in the PDB File

1xoe