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(-) Description

Title :  CRYSTAL STRUCTURE OF 1918 PANDEMIC INFLUENZA VIRUS HEMAGGLUTININ MUTANT D225G COMPLEXED WITH AVIAN RECEPTOR ANALOGUE LSTA
 
Authors :  W. Zhang, Y. Shi, J. Qi, F. Gao, Q. Li, Z. Fan, J. Yan, G. F. Gao
Date :  24 Mar 13  (Deposition) - 01 May 13  (Release) - 07 Aug 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.81
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Virus Attachment, Membrane Fusion, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. Zhang, Y. Shi, J. Qi, F. Gao, Q. Li, Z. Fan, J. Yan, G. F. Gao
Molecular Basis Of The Receptor Binding Specificity Switch Of The Hemagglutinins From Both The 1918 And 2009 Pandemic Influenza A Viruses By A D225G Substitution
J. Virol. V. 87 5949 2013
PubMed-ID: 23514882  |  Reference-DOI: 10.1128/JVI.00545-13

(-) Compounds

Molecule 1 - HEMAGGLUTININ
    Chains: A, C, E
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Cell Line: HI5
    Expression System Common: CABBAGE LOOPER
    Expression System Plasmid: PFASTBAC1
    Expression System Taxid: 7111
    Expression System Vector Type: BACULOVIRUS
    Fragment: HEMAGGLUTININ HA1 CHAIN, UNP RESIDUES 18-339
    Gene: HA
    Mutation: YES
    Organism Scientific: INFLUENZA A VIRUS
    Organism Taxid: 59375
    Strain: A/SOUTH CAROLINA/1/18 (H1N1)
 
Molecule 2 - HEMAGGLUTININ
    Chains: B, D, F
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Cell Line: HI5
    Expression System Common: CABBAGE LOOPER
    Expression System Plasmid: PFASTBAC1
    Expression System Taxid: 7111
    Expression System Vector Type: BACULOVIRUS
    Fragment: HEMAGGLUTININ HA2 CHAIN, UNP RESIDUES 345-514
    Gene: HA
    Organism Scientific: INFLUENZA A VIRUS
    Organism Taxid: 59375
    Strain: A/SOUTH CAROLINA/1/18 (H1N1)

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric/Biological Unit (3, 9)
No.NameCountTypeFull Name
1GAL1Ligand/IonBETA-D-GALACTOSE
2NAG7Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SIA1Ligand/IonO-SIALIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:68 , GLU A:70 , GLU A:90 , ASN A:91 , CYS A:94 , ARG A:224 , HOH A:933BINDING SITE FOR LINKED RESIDUES A 801 to 802
2AC2SOFTWARETYR A:95 , LYS A:133 , VAL A:135 , THR A:136 , ALA A:137 , HIS A:183 , LEU A:194 , GLN A:226 , HOH A:906 , HOH A:928BINDING SITE FOR LINKED RESIDUES A 803 to 805
3AC3SOFTWAREASN C:68 , GLU C:70 , GLU C:90 , ASN C:91 , ARG C:224BINDING SITE FOR LINKED RESIDUES C 801 to 802
4AC4SOFTWAREASN E:68 , GLU E:90 , ASN E:91 , CYS E:94 , ARG E:224 , HOH E:919 , HOH E:925 , HOH E:938BINDING SITE FOR LINKED RESIDUES E 801 to 802

(-) SS Bonds  (18, 18)

Asymmetric/Biological Unit
No.Residues
1A:8 -B:637
2A:47 -A:278
3A:59 -A:71
4A:94 -A:139
5A:282 -A:306
6B:644 -B:648
7C:8 -D:637
8C:47 -C:278
9C:59 -C:71
10C:94 -C:139
11C:282 -C:306
12D:644 -D:648
13E:8 -F:637
14E:47 -E:278
15E:59 -E:71
16E:94 -E:139
17E:282 -E:306
18F:644 -F:648

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ser D:663 -Glu D:664

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4JUH)

(-) 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:324
                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4juha_ A: Hemagglutinin                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee.......ee.......ee...eee.ee......eeee.....ee....hhhhhhhhhhhhhhhhhh.....eee...............hhhhhhhhhh.eeeeeeee..........ee.....eeeeee..eee....eee.ee.......eeeeee......eeeeeeeee..hhhhhhhhh......eeee....eeee...............eeeeeeeee....eeeeee...eeee.eeeeeee.....eee....eeeeee.ee...........ee......ee...ee......eee......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4juh A    5 DTICIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDSHNGKLCKLKGIAPLQLGKCNIAGWLLGNPECDLLLTASSWSYIVETSNSENGTCYPGDFIDYEELREQLSSVSSFEKFEIFPKTSSWPNHETTKGVTAACSYAGASSFYRNLLWLTKKGSSYPKLSKSYVNNKGKEVLVLWGVHHPPTGTDQQSLYQNADAYVSVGSSKYNRRFTPEIAARPKVRGQAGRMNYYWTLLEPGDTITFEATGNLIAPWYAFALNRGSGSGIITSDAPVHDCNTKCQTPHGAINSSLPFQNIHPVTIGECPKYVRSTKLRMATGLRNIPAR  327
                                    14        24        34       |45    |   54        64        74        84        94       104       114       124       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323    
                                                                42|   49A                                                                                132A                                                                                                                                                                                                   
                                                                 44                                                                                                                                                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:170
                                                                                                                                                                                                           
               SCOP domains d4juhb_ B: Influenza hemagglutinin (stalk)                                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................eeeeee......eeehhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eee....eeee....hhhhhhhhh.....hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4juh B  501 GLFGAIAGFIEGGWTGMIDGWYGYHHQNEQGSGYAADQKSTQNAIDGITNKVNSVIEKMNTQFTAVGKEFNNLERRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDFHDSNVRNLYEKVKSQLKNNAKEIGNGCFEFYHKCDDACMESVRNGTYDYPKYSEESKLNR  670
                                   510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670


Chain C from PDB  Type:PROTEIN  Length:324
                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4juhc_ C: Hemagglutinin                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee.......ee.......ee...eee.ee......eeee.....ee....hhhhhhhhhhhhhhhh.......eee...............hhhhhhhhhh.eeeeeeee.................eeeeee..eee....eee..........eeeeee......eeeeeeeee..hhhhhhhhh......eeee....eeee...............eeeeeeeee....eeeeee...eeee.eeeeeee.....eee....eeeeee.ee...........ee......ee...ee......eee......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4juh C    5 DTICIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDSHNGKLCKLKGIAPLQLGKCNIAGWLLGNPECDLLLTASSWSYIVETSNSENGTCYPGDFIDYEELREQLSSVSSFEKFEIFPKTSSWPNHETTKGVTAACSYAGASSFYRNLLWLTKKGSSYPKLSKSYVNNKGKEVLVLWGVHHPPTGTDQQSLYQNADAYVSVGSSKYNRRFTPEIAARPKVRGQAGRMNYYWTLLEPGDTITFEATGNLIAPWYAFALNRGSGSGIITSDAPVHDCNTKCQTPHGAINSSLPFQNIHPVTIGECPKYVRSTKLRMATGLRNIPAR  327
                                    14        24        34       |45    |   54        64        74        84        94       104       114       124       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323    
                                                                42|   49A                                                                                132A                                                                                                                                                                                                   
                                                                 44                                                                                                                                                                                                                                                                                             


Chain D from PDB  Type:PROTEIN  Length:164
                                                                                                                                                                                                     
               SCOP domains d4juhd_ D: Influenza hemagglutinin (stalk)                                                                                                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................eee..........eehhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eee....eeee....hhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4juh D  501 GLFGAIAGFIEGGWTGMIDGWYGYHHQNEQGSGYAADQKSTQNAIDGITNKVNSVIEKMNTQFTAVGKEFNNLERRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDFHDSNVRNLYEKVKSQLKNNAKEIGNGCFEFYHKCDDACMESVRNGTYDYPKYSE  664
                                   510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660    


Chain E from PDB  Type:PROTEIN  Length:324
                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4juhe_ E: Hemagglutinin                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee.......ee.......ee...eee.ee......eeee.....ee....hhhhhhhhhhhhhhhhh......eee...............hhhhhhhhhh.eeeeeee..................eeeeee..eee....eee..........eeeeee.....eeeeeeeeee..hhhhhhhhh......eeee....eeee...............eeeeeeeee....eeeeee...eeee..eeeeee.....eee....eeeeee.ee...........ee......ee...ee......eee......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4juh E    5 DTICIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDSHNGKLCKLKGIAPLQLGKCNIAGWLLGNPECDLLLTASSWSYIVETSNSENGTCYPGDFIDYEELREQLSSVSSFEKFEIFPKTSSWPNHETTKGVTAACSYAGASSFYRNLLWLTKKGSSYPKLSKSYVNNKGKEVLVLWGVHHPPTGTDQQSLYQNADAYVSVGSSKYNRRFTPEIAARPKVRGQAGRMNYYWTLLEPGDTITFEATGNLIAPWYAFALNRGSGSGIITSDAPVHDCNTKCQTPHGAINSSLPFQNIHPVTIGECPKYVRSTKLRMATGLRNIPAR  327
                                    14        24        34       |45    |   54        64        74        84        94       104       114       124       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323    
                                                                42|   49A                                                                                132A                                                                                                                                                                                                   
                                                                 44                                                                                                                                                                                                                                                                                             


Chain F from PDB  Type:PROTEIN  Length:165
                                                                                                                                                                                                      
               SCOP domains d4juhf_ F: Influenza hemagglutinin (stalk)                                                                                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................eeee........eeehhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eee....eeee....hhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4juh F  501 GLFGAIAGFIEGGWTGMIDGWYGYHHQNEQGSGYAADQKSTQNAIDGITNKVNSVIEKMNTQFTAVGKEFNNLERRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDFHDSNVRNLYEKVKSQLKNNAKEIGNGCFEFYHKCDDACMESVRNGTYDYPKYSEE  665
                                   510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660
   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  (2, 6)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Coiled coil proteins (689)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (17, 17)

Asymmetric/Biological Unit(hide GO term definitions)

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  4juh
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  HEMA_I18A0 | Q9WFX3
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 Related Entries

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

UniProtKB/Swiss-Prot
        HEMA_I18A0 | Q9WFX3: 1rd8 1ruz 2wrg 3gbn 3lzf 3r2x 4eef 4gxu 4gxx 4jug 4juj 4py8

(-) Related Entries Specified in the PDB File

4jtv 4jtx 4ju0 4jug 4juj