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(-) Description

Title :  CRYSTAL STRUCTURE OF A/VICTORIA/361/2011 (H3N2) INFLUENZA VIRUS HEMAGGLUTININ
 
Authors :  P. S. Lee, I. A. Wilson
Date :  19 Dec 13  (Deposition) - 16 Apr 14  (Release) - 14 May 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (3x)
Keywords :  Viral Fusion Protein, Virus Attachment And Entry, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. S. Lee, N. Ohshima, R. L. Stanfield, W. Yu, Y. Iba, Y. Okuno, Y. Kurosawa, I. A. Wilson
Receptor Mimicry By Antibody F045-092 Facilitates Universal Binding To The H3 Subtype Of Influenza Virus.
Nat Commun V. 5 3614 2014
PubMed-ID: 24717798  |  Reference-DOI: 10.1038/NCOMMS4614

(-) Compounds

Molecule 1 - HEMAGGLUTININ HA1 CHAIN
    Chains: A
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Taxid: 7111
    Gene: HA
    Organism Scientific: INFLUENZA A VIRUS
    Organism Taxid: 1331560
    Strain: A/SINGAPORE/H2011.447/2011(H3N2)
 
Molecule 2 - HEMAGGLUTININ HA2 CHAIN
    Chains: B
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Taxid: 7111
    Gene: HA
    Organism Scientific: INFLUENZA A VIRUS
    Organism Taxid: 1331560
    Strain: A/SINGAPORE/H2011.447/2011(H3N2)

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (3x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 18)

Asymmetric Unit (4, 18)
No.NameCountTypeFull Name
1BMA1Ligand/IonBETA-D-MANNOSE
2GOL8Ligand/IonGLYCEROL
3NAG8Ligand/IonN-ACETYL-D-GLUCOSAMINE
4PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 1 (4, 54)
No.NameCountTypeFull Name
1BMA3Ligand/IonBETA-D-MANNOSE
2GOL24Ligand/IonGLYCEROL
3NAG24Ligand/IonN-ACETYL-D-GLUCOSAMINE
4PEG3Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:22 , ASN A:38 , HOH A:622 , HOH A:705BINDING SITE FOR RESIDUE NAG A 401
02AC2SOFTWAREASN A:38 , THR A:318 , LEU B:52BINDING SITE FOR RESIDUE NAG A 402
03AC3SOFTWAREGLU A:62 , ASN A:63 , TYR A:94 , NAG A:404 , HOH A:676BINDING SITE FOR RESIDUE NAG A 403
04AC4SOFTWARENAG A:403BINDING SITE FOR RESIDUE NAG A 404
05AC5SOFTWAREASN A:165 , SER A:219 , ARG A:222 , NAG A:406 , HOH A:717BINDING SITE FOR RESIDUE NAG A 405
06AC6SOFTWAREPRO A:221 , ARG A:222 , NAG A:405 , BMA A:407 , HOH A:717BINDING SITE FOR RESIDUE NAG A 406
07AC7SOFTWARENAG A:406BINDING SITE FOR RESIDUE BMA A 407
08AC8SOFTWAREASN A:45 , ASN A:285 , VAL A:297 , HOH A:665 , HOH A:668BINDING SITE FOR RESIDUE NAG A 408
09AC9SOFTWAREASN A:133BINDING SITE FOR RESIDUE NAG A 409
10BC1SOFTWAREPRO A:293 , ARG A:307 , HOH A:538 , HOH A:669 , GOL B:202 , HOH B:442BINDING SITE FOR RESIDUE GOL A 410
11BC2SOFTWARETYR A:105 , ARG A:208BINDING SITE FOR RESIDUE GOL A 411
12BC3SOFTWAREHIS A:18 , MET B:17 , VAL B:18 , GLY B:20 , TRP B:21 , HOH B:472 , HOH B:486BINDING SITE FOR RESIDUE PEG B 201
13BC4SOFTWAREGOL A:410 , ARG B:54 , LEU B:55 , HOH B:459BINDING SITE FOR RESIDUE GOL B 202
14BC5SOFTWAREVAL B:161 , TYR B:162 , GLU B:165 , HOH B:367BINDING SITE FOR RESIDUE GOL B 203
15BC6SOFTWAREARG B:32 , GLN B:34BINDING SITE FOR RESIDUE GOL B 204
16BC7SOFTWAREPHE B:9 , MET B:133 , GLY B:134 , ASN B:135 , HOH B:392BINDING SITE FOR RESIDUE GOL B 205
17BC8SOFTWAREALA B:43 , ASP B:46 , GLN B:47 , GOL B:207 , HOH B:395BINDING SITE FOR RESIDUE GOL B 206
18BC9SOFTWARELYS B:39 , ALA B:43 , GLU B:114 , LYS B:117 , GOL B:206 , HOH B:395BINDING SITE FOR RESIDUE GOL B 207

(-) SS Bonds  (6, 6)

Asymmetric Unit
No.Residues
1A:14 -B:137
2A:52 -A:277
3A:64 -A:76
4A:97 -A:139
5A:281 -A:305
6B:144 -B:148

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ser A:54 -Pro A:55

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4O5N)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4O5N)

(-) Exons   (0, 0)

(no "Exon" information available for 4O5N)

(-) 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:317
                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee......eee.......eee..eee.ee......eeee...eee....hhhhhhhhhhhhhhhh.....eeee..........ee..hhhhhhhhhhhhh...eee.............eeeeee..eee....eee..........eeeeee......eeeeeeeee..hhhhhhhhhh.....eeee....eeee...............eeeeeeeee....eeeeee...eeee.eeee......eeee....eeeee..eee..eee.....ee.......eee.ee......eee........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o5n A   9 PGATLCLGHHAVPNGTIVKTITNDQIEVTNATELVQNSSIGEICDSPHQILDGENCTLIDALLGDPQCDGFQNKKWDLFVERSKAYSNCYPYDVPDYASLRSLVASSGTLEFNNESFNWTGVTQNGTSSACIRRSNNSFFSRLNWLTHLNFKYPALNVTMPNNEQFDKLYIWGVHHPGTDKDQIFLYAQSSGRITVSTKRSQQAVIPNIGSRPRIRNIPSRISIYWTIVKPGDILLINSTGNLIAPRGYFKIRSGKSSIMRSDAPIGKCNSECITPNGSIPNDKPFQNVNRITYGACPRYVKQSTLKLATGMRNVPE 325
                                    18        28        38        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       


Chain B from PDB  Type:PROTEIN  Length:173
                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................eeeeeee..eeeeeehhhhhhhhhhhhhhhhhhhh...eee............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eee....eeee....hhhhhhhhhh...hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o5n B   1 GIFGAIAGFIENGWEGMVDGWYGFRHQNSEGRGQAADLKSTQAAIDQINGKLNRLIGKTNEKFHQIEKEFSEVEGRIQDLEKYVEDTKIDLWSYNAELLVALENQHTIDLTDSEMNKLFEKTKKQLRENAEDMGNGCFKIYHKCDNACIGSIRNGTYDHDVYRDEALNNRFQI 173
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 4O5N)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4O5N)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4O5N)

(-) Gene Ontology  (17, 34)

Asymmetric Unit(hide GO term definitions)

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(-) Related Entries Specified in the PDB File

4o58 4o5i 4o5l