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(-) Description

Title :  THREE-DIMENSIONAL STRUCTURE OF THE NEURAMINIDASE OF INFLUENZA VIRUS A(SLASH)TOKYO(SLASH)3(SLASH)67 AT 2.2 ANGSTROMS RESOLUTION
 
Authors :  J. N. Varghese, P. M. Colman
Date :  28 Mar 91  (Deposition) - 15 Jul 92  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Hydrolase (O-Glycosyl) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. N. Varghese, P. M. Colman
Three-Dimensional Structure Of The Neuraminidase Of Influenza Virus A/Tokyo/3/67 At 2. 2 A Resolution.
J. Mol. Biol. V. 221 473 1991
PubMed-ID: 1920428  |  Reference-DOI: 10.1016/0022-2836(91)80068-6

(-) Compounds

Molecule 1 - NEURAMINIDASE
    Chains: A
    EC Number: 3.2.1.18
    Engineered: YES
    Organism Scientific: INFLUENZA A VIRUS (A/TOKYO/3/1967(H2N2))
    Organism Taxid: 380960
    Strain: A/TOKYO/3/1967(H2N2)

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 18)

Asymmetric Unit (6, 18)
No.NameCountTypeFull Name
1BMA2Ligand/IonBETA-D-MANNOSE
2CA1Ligand/IonCALCIUM ION
3FUL1Ligand/IonBETA-L-FUCOSE
4MAN4Ligand/IonALPHA-D-MANNOSE
5NAG9Ligand/IonN-ACETYL-D-GLUCOSAMINE
6NGK1Ligand/Ion2-(ACETYLAMINO)-2-DEOXY-4-O-SULFO-ALPHA-D-GALACTOPYRANOSE
Biological Unit 1 (5, 68)
No.NameCountTypeFull Name
1BMA8Ligand/IonBETA-D-MANNOSE
2CA-1Ligand/IonCALCIUM ION
3FUL4Ligand/IonBETA-L-FUCOSE
4MAN16Ligand/IonALPHA-D-MANNOSE
5NAG36Ligand/IonN-ACETYL-D-GLUCOSAMINE
6NGK4Ligand/Ion2-(ACETYLAMINO)-2-DEOXY-4-O-SULFO-ALPHA-D-GALACTOPYRANOSE

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:83 , ASN A:86 , SER A:88 , TYR A:284 , NAG A:485ABINDING SITE FOR RESIDUE NAG A 470A
02AC2SOFTWAREASN A:146 , TRP A:437 , NAG A:473B , FUL A:478IBINDING SITE FOR RESIDUE NAG A 472A
03AC3SOFTWARENAG A:472ABINDING SITE FOR RESIDUE NAG A 473B
04AC4SOFTWAREGLU A:433 , THR A:434 , ARG A:435 , ASN A:465 , HOH A:488BINDING SITE FOR RESIDUE NGK A 477F
05AC5SOFTWAREASN A:463 , PHE A:466 , NAG A:472ABINDING SITE FOR RESIDUE FUL A 478I
06AC6SOFTWAREASN A:200 , TYR A:453 , GLY A:454 , THR A:455 , NAG A:480B , HOH A:565BINDING SITE FOR RESIDUE NAG A 479A
07AC7SOFTWAREASN A:393 , ARG A:394 , TYR A:453 , NAG A:479A , BMA A:481C , MAN A:482D , HOH A:557BINDING SITE FOR RESIDUE NAG A 480B
08AC8SOFTWAREGLN A:391 , ILE A:392 , ASN A:393 , ARG A:394 , NAG A:480B , MAN A:482D , MAN A:483E , MAN A:484FBINDING SITE FOR RESIDUE BMA A 481C
09AC9SOFTWAREGLN A:391 , NAG A:480B , BMA A:481C , MAN A:483E , HOH A:550BINDING SITE FOR RESIDUE MAN A 482D
10BC1SOFTWAREBMA A:481C , MAN A:482DBINDING SITE FOR RESIDUE MAN A 483E
11BC2SOFTWAREBMA A:481CBINDING SITE FOR RESIDUE MAN A 484F
12BC3SOFTWAREILE A:233 , ASN A:234 , TYR A:284 , PRO A:285 , NAG A:470ABINDING SITE FOR RESIDUE NAG A 485A
13BC4SOFTWAREASP A:293 , GLY A:297 , ASP A:324 , GLY A:345 , GLN A:347BINDING SITE FOR RESIDUE CA A 1

(-) SS Bonds  (9, 9)

Asymmetric Unit
No.Residues
1A:92 -A:417
2A:124 -A:129
3A:175 -A:193
4A:183 -A:230
5A:232 -A:237
6A:278 -A:291
7A:280 -A:289
8A:318 -A:337
9A:421 -A:447

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Tyr A:284 -Pro A:285
2Thr A:325 -Pro A:326
3Arg A:430 -Lys A:431

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1NN2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1NN2)

(-) Exons   (0, 0)

(no "Exon" information available for 1NN2)

(-) 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:388
 aligned with NRAM_I67A0 | P06820 from UniProtKB/Swiss-Prot  Length:469

    Alignment length:388
                                    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        
           NRAM_I67A0    82 VEYRNWSKPQCQITGFAPFSKDNSIRLSAGGDIWVTREPYVSCDPVKCYQFALGQGTTLDNKHSNDTVHDRIPHRTLLMNELGVPFHLGTRQVCIAWSSSSCHDGKAWLHVCITGDDKNATASFIYDGRLVDSIGSWSQNILRTQESECVCINGTCTVVMTDGSASGRADTRILFIEEGKIVHISPLAGSAQHVEECSCYPRYPGVRCICRDNWKGSNRPVVDINMEDYSIDSSYVCSGLVGDTPRNDDRSSNSNCRNPNNERGTQGVKGWAFDNGNDLWMGRTISKDLRSGYETFKVIGGWSTPNSKSQINRQVIVDSDNRSGYSGIFSVEGKSCINRCFYVELIRGRKQETRVWWTSNSIVVFCGTSGTYGTGSWPDGANINFMPI 469
               SCOP domains d1nn2a_ A: Influenza neuraminidase                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains 1nn2A00 A:82-469  [code=2.120.10.10, no name defined]                                                                                                                                                                                                                                                                                                                                                CATH domains
               Pfam domains Neur-1nn2A01 A:82-466                                                                                                                                                                                                                                                                                                                                                                            --- Pfam domains
         Sec.struct. author ..............eeeeeee.hhhhhh.....eeeeeeeeee....eeeeeeeeeee..hhhhh..........eeeeee.........eeeee..eeeeee....eeeeeeeee..eeeeeeee..eeeeeee.......ee.....eee..eeeeeeeee.....eeeeeeeee..eeeeeee........eeeeeeee..eeeeeee........eeeeee.....eeeee....................................eeee..eeeeee.......eeeeeeeee.........eeeeeeeeeeeeee...eeeeeee....eeeeeeeeeeee.........eeeeeeeeeee.................... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nn2 A  82 VEYRNWSKPQCQITGFAPFSKDNSIRLSAGGDIWVTREPYVSCDPVKCYQFALGQGTTLDNKHSNDTVHDRIPHRTLLMNELGVPFHLGTRQVCIAWSSSSCHDGKAWLHVCITGDDKNATASFIYDGRLVDSIGSWSQNILRTQESECVCINGTCTVVMTDGSASGRADTRILFIEEGKIVHISPLAGSAQHVEECSCYPRYPGVRCICRDNWKGSNRPVVDINMEDYSIDSSYVCSGLVGDTPRNDDRSSNSNCRDPNNERGTQGVKGWAFDNGNDLWMGRTISKDLRSGYETFKVIGGWSTPNSKSQINRQVIVDSDNRSGYSGIFSVEGKSCINRCFYVELIRGRKQETRVWWTSNSIVVFCGTSGTYGTGSWPDGANINFMPI 469
                                    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
   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 Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: Sialidase (56)

(-) Gene Ontology  (15, 15)

Asymmetric Unit(hide GO term definitions)
Chain A   (NRAM_I67A0 | P06820)
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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        NRAM_I67A0 | P06820: 1ing 1inh 1inw 1inx 1ivc 1ivd 1ive 1ivf 1ivg 2bat

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