Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit - manually
(-)Asym./Biol. Unit
(-)Asym./Biol. Unit - sites
collapse expand < >
Image Asym./Biol. Unit - manually
Asym./Biol. Unit - manually  (Jmol Viewer)
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)
Image Asym./Biol. Unit - sites
Asym./Biol. Unit - sites  (Jmol Viewer)

(-) Description

Title :  1930 H1 HEMAGGLUTININ IN COMPLEX WITH LSTC
 
Authors :  J. J. Skehel, S. J. Gamblin, L. F. Haire, R. J. Russell, D. J. Stevens, B. X N. Vasisht, D. A. Steinhauer, R. S. Daniels
Date :  15 Dec 03  (Deposition) - 30 Mar 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  H,I,J,K,L,M
Keywords :  Hemagglutinin, Influenza A Virus, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. J. Gamblin, L. F. Haire, R. J. Russell, D. J. Stevens, B. Xiao, Y. Ha, N. Vasisht, D. A. Steinhauer, R. S. Daniels, A. Elliot, D. C. Wiley, J. J. Skehel
The Structure And Receptor Binding Properties Of The 1918 Influenza Hemagglutinin.
Science V. 303 1838 2004
PubMed-ID: 14764886  |  Reference-DOI: 10.1126/SCIENCE.1093155

(-) Compounds

Molecule 1 - HEMAGGLUTININ
    Chains: H, J, L
    Organism Scientific: UNIDENTIFIED INFLUENZA VIRUS
    Organism Taxid: 11309
    Other Details: HEMAGGLUTININ HA1 CHAIN
    Other Details - Source: BROMELAIN DIGESTION
    Strain: A/SWINE/IOWA/15/30
 
Molecule 2 - HEMAGGLUTININ
    Chains: I, K, M
    Organism Scientific: UNIDENTIFIED INFLUENZA VIRUS
    Organism Taxid: 11309
    Other Details: HEMAGGLUTININ HA2 CHAIN
    Other Details - Source: BROMELAIN DIGESTION
    Strain: A/SWINE/IOWA/15/30

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : HIJKLM

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 12)

Asymmetric/Biological Unit (5, 12)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2GAL4Ligand/IonBETA-D-GALACTOSE
3NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
4NDG3Ligand/Ion2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
5SIA3Ligand/IonO-SIALIC ACID

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR J:95 , ARG J:133A , VAL J:135 , THR J:136 , ALA J:137 , TRP J:153 , HIS J:183 , PRO J:186 , LEU J:194 , GLN J:226 , GAL J:802 , NAG J:803 , HOH J:833 , HOH J:922BINDING SITE FOR RESIDUE SIA J 801
02AC2SOFTWARELYS J:222 , GLY J:225 , SIA J:801 , NAG J:803 , HOH J:886 , HOH J:913 , HOH J:917BINDING SITE FOR RESIDUE GAL J 802
03AC3SOFTWAREASP J:190 , SIA J:801 , GAL J:802 , GAL J:804BINDING SITE FOR RESIDUE NAG J 803
04AC4SOFTWAREASP J:190 , SER J:193 , NAG J:803 , BGC J:805 , HOH J:910BINDING SITE FOR RESIDUE GAL J 804
05AC5SOFTWARETHR J:189 , GLN J:192 , SER J:193 , GAL J:804 , HOH J:838BINDING SITE FOR RESIDUE BGC J 805
06AC6SOFTWARETYR H:95 , ARG H:133A , VAL H:135 , THR H:136 , ALA H:137 , HIS H:183 , PRO H:186 , LEU H:194 , GLN H:226 , GAL H:807 , HOH H:829 , HOH H:861 , HOH H:885BINDING SITE FOR RESIDUE SIA H 806
07AC7SOFTWARELYS H:222 , GLY H:225 , SIA H:806 , HOH H:828BINDING SITE FOR RESIDUE GAL H 807
08AC8SOFTWARETYR L:95 , ARG L:133A , VAL L:135 , THR L:136 , ALA L:137 , HIS L:183 , PRO L:186 , LEU L:194 , GLN L:226 , GAL L:809 , HOH L:845BINDING SITE FOR RESIDUE SIA L 808
09AC9SOFTWARELYS L:222 , GLY L:225 , SIA L:808 , HOH L:912BINDING SITE FOR RESIDUE GAL L 809
10BC1SOFTWAREASN J:68 , GLU J:70 , ASN J:91 , CYS J:94 , PRO J:140 , ARG J:224BINDING SITE FOR RESIDUE NDG J 740
11BC2SOFTWAREASN H:68 , GLU H:70 , ASN H:91 , CYS H:94 , CYS H:139 , PRO H:140 , ARG H:224BINDING SITE FOR RESIDUE NDG H 742
12BC3SOFTWAREASN L:68 , GLU L:70 , ASN L:91 , CYS L:94 , ARG L:224BINDING SITE FOR RESIDUE NDG L 744

(-) SS Bonds  (18, 18)

Asymmetric/Biological Unit
No.Residues
1H:8 -I:637
2H:47 -H:278
3H:59 -H:71
4H:94 -H:139
5H:282 -H:306
6I:644 -I:648
7J:8 -K:637
8J:47 -J:278
9J:59 -J:71
10J:94 -J:139
11J:282 -J:306
12K:644 -K:648
13L:8 -M:637
14L:47 -L:278
15L:59 -L:71
16L:94 -L:139
17L:282 -L:306
18M:644 -M:648

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1RVT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1RVT)

(-) 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 H from PDB  Type:PROTEIN  Length:324
 aligned with Q82500_9INFA | Q82500 from UniProtKB/TrEMBL  Length:566

    Alignment length:327
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       
        Q82500_9INFA     18 DTLCIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDSHNGKLCRLGGIAPLQLGKCNIAGWLLGNPECDLLLTVSSWSYIVETSNSDNGTCYPGDFIDYEELREQLSSVSSFEKFEIFPKTSSWPNHETTRGVTAACPYAGASSFYRNLLWLVKKEXSYPKLSKSYVNNKGKEVLVLWGVHHPPTSTDQQSLYQNADAYVSVGSSKYDRRFTPEIAARPKVRGQAGRMNYYWTLLEPGDTITFEATGNLVAPRYAFALNRGSESGIITSDAPVHDCDTKCQTPHGAINSSLPFQNIHPVTIGECPKYVKSTKLRMVTGLRNIPSIQSR  344
               SCOP domains d1rvth_ H: Hemagglutinin                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains 1rvtH01 H:5-46,H:277-327                 1rvtH02 H:47-276  [code=3.90.209.20, no name defined]                                                                                                                                                                                   1rvtH01 H:5-46,H:277-327                               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.......ee.......ee...eee.ee......eee......eeee..hhhhhhhhhhhhhhhh.......eee...............hhhhhhhhhh.eeeeeee..................eeeeee..eee....eee..........eeeeee......eeeeeeeee..hhhhhhhhhh.....eeee....eeee...............eeeeeeeee....eeeeee...eeee..eeeeee.....eee....eeeee..ee....ee.....ee......ee...ee......eee.......---.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1rvt H    5 DTLCIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDSHNGKLCRLGGIAPLQLGKCNIAGWLLGNPECDLLLTVSSWSYIVETSNSDNGTCYPGDFIDYEELREQLSSVSSFEKFEIFPKTSSWPNHETTRGVTAACPYAGASSFYRNLLWLVKKGNSYPKLSKSYVNNKGKEVLVLWGVHHPPTSTDQQSLYQNADAYVSVGSSKYDRRFTPEIAARPKVRGQAGRMNYYWTLLEPGDTITFEATGNLVAPRYAFALNRGSGSGIITSDAPVHDCDTKCQTPHGAINSSLPFQNIHPVTIGECPKYVKSTKLRMATGLRNIP---AR  327
                                    14        24        34       |45    |   54        64        74        84        94       104       114       124      133A       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323 |   | 
                                                                42|   49A                                                                                 133A                                                                                                                                                                                             325 326 
                                                                 44                                                                                                                                                                                                                                                                                                


Chain I from PDB  Type:PROTEIN  Length:160
 aligned with Q82500_9INFA | Q82500 from UniProtKB/TrEMBL  Length:566

    Alignment length:160
                                   354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504
        Q82500_9INFA    345 GLFGAIAGFIEGGWTGLIDGWYGYHHQNGQGSGYAADQKSTQNAIDGITNKVNSVIEKMNTQFTVVGKEFNNLERRIKNLNKKVDDGFLDVWTYNAELLVLLENERTLDFHDSNVKNLYEKARSQLRNNAKEIGNGCFEFYHKCDDACMESVRNGTYDYP  504
               SCOP domains d1rvti_ I: Influenza hemagglutinin (stalk)                                                                                                                       SCOP domains
               CATH domains 1rvtI00 I:501-660  [code=3.90.20.10, no name defined]                                                                                                            CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................eee..ee..ee..eehhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee..eeee....hhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1rvt I  501 GLFGAIAGFIEGGWTGLIDGWYGYHHQNEQGSGYAADQKSTQNAIDGITNKVNSVIEKMNTQFTAVGKEFNNLERRIKNLNKKVDDGFLDVWTYNAELLVLLENERTLDFHDSNVKNLYEKARSQLRNNAKEIGNGCFEFYHKCDDACMESVRNGTYDYP  660
                                   510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660


Chain J from PDB  Type:PROTEIN  Length:324
 aligned with Q82500_9INFA | Q82500 from UniProtKB/TrEMBL  Length:566

    Alignment length:327
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       
        Q82500_9INFA     18 DTLCIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDSHNGKLCRLGGIAPLQLGKCNIAGWLLGNPECDLLLTVSSWSYIVETSNSDNGTCYPGDFIDYEELREQLSSVSSFEKFEIFPKTSSWPNHETTRGVTAACPYAGASSFYRNLLWLVKKEXSYPKLSKSYVNNKGKEVLVLWGVHHPPTSTDQQSLYQNADAYVSVGSSKYDRRFTPEIAARPKVRGQAGRMNYYWTLLEPGDTITFEATGNLVAPRYAFALNRGSESGIITSDAPVHDCDTKCQTPHGAINSSLPFQNIHPVTIGECPKYVKSTKLRMVTGLRNIPSIQSR  344
               SCOP domains d1rvtj_ J: Hemagglutinin                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains 1rvtJ01 J:5-46,J:277-327                 1rvtJ02 J:47-276  [code=3.90.209.20, no name defined]                                                                                                                                                                                   1rvtJ01 J:5-46,J:277-327                               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.......ee.......ee...eee.ee......eee......eeee..hhhhhhhhhhhhhhhh.......eee...............hhhhhhhhhh.eeeeeee...hhhhhh.........eeeeee..eee....eee..........eeeeee......eeeeeeeee..hhhhhhhhhh.....eeee....eeee...............eeeeeeeee....eeeeee...eeee..eeeeee.....eee....eeeee..eee..eee.....ee......ee...ee......eee.......---.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1rvt J    5 DTLCIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDSHNGKLCRLGGIAPLQLGKCNIAGWLLGNPECDLLLTVSSWSYIVETSNSDNGTCYPGDFIDYEELREQLSSVSSFEKFEIFPKTSSWPNHETTRGVTAACPYAGASSFYRNLLWLVKKGNSYPKLSKSYVNNKGKEVLVLWGVHHPPTSTDQQSLYQNADAYVSVGSSKYDRRFTPEIAARPKVRGQAGRMNYYWTLLEPGDTITFEATGNLVAPRYAFALNRGSGSGIITSDAPVHDCDTKCQTPHGAINSSLPFQNIHPVTIGECPKYVKSTKLRMATGLRNIP---AR  327
                                    14        24        34       |45    |   54        64        74        84        94       104       114       124      133A       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323 |   | 
                                                                42|   49A                                                                                 133A                                                                                                                                                                                             325 326 
                                                                 44                                                                                                                                                                                                                                                                                                


Chain K from PDB  Type:PROTEIN  Length:160
 aligned with Q82500_9INFA | Q82500 from UniProtKB/TrEMBL  Length:566

    Alignment length:160
                                   354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504
        Q82500_9INFA    345 GLFGAIAGFIEGGWTGLIDGWYGYHHQNGQGSGYAADQKSTQNAIDGITNKVNSVIEKMNTQFTVVGKEFNNLERRIKNLNKKVDDGFLDVWTYNAELLVLLENERTLDFHDSNVKNLYEKARSQLRNNAKEIGNGCFEFYHKCDDACMESVRNGTYDYP  504
               SCOP domains d1rvtk_ K: Influenza hemagglutinin (stalk)                                                                                                                       SCOP domains
               CATH domains 1rvtK00 K:501-660  [code=3.90.20.10, no name defined]                                                                                                            CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................eee..ee..ee..eehhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee..eeee....hhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1rvt K  501 GLFGAIAGFIEGGWTGLIDGWYGYHHQNEQGSGYAADQKSTQNAIDGITNKVNSVIEKMNTQFTAVGKEFNNLERRIKNLNKKVDDGFLDVWTYNAELLVLLENERTLDFHDSNVKNLYEKARSQLRNNAKEIGNGCFEFYHKCDDACMESVRNGTYDYP  660
                                   510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660


Chain L from PDB  Type:PROTEIN  Length:324
 aligned with Q82500_9INFA | Q82500 from UniProtKB/TrEMBL  Length:566

    Alignment length:327
                                    27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       
        Q82500_9INFA     18 DTLCIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDSHNGKLCRLGGIAPLQLGKCNIAGWLLGNPECDLLLTVSSWSYIVETSNSDNGTCYPGDFIDYEELREQLSSVSSFEKFEIFPKTSSWPNHETTRGVTAACPYAGASSFYRNLLWLVKKEXSYPKLSKSYVNNKGKEVLVLWGVHHPPTSTDQQSLYQNADAYVSVGSSKYDRRFTPEIAARPKVRGQAGRMNYYWTLLEPGDTITFEATGNLVAPRYAFALNRGSESGIITSDAPVHDCDTKCQTPHGAINSSLPFQNIHPVTIGECPKYVKSTKLRMVTGLRNIPSIQSR  344
               SCOP domains d1rvtl_ L: Hemagglutinin                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains 1rvtL01 L:5-46,L:277-327                 1rvtL02 L:47-276  [code=3.90.209.20, no name defined]                                                                                                                                                                                   1rvtL01 L:5-46,L:277-327                               CATH domains
           Pfam domains (1) --Hemagglutinin-1rvtL01 L:7-325                                                                                                                                                                                                                                                                                                      -- Pfam domains (1)
           Pfam domains (2) --Hemagglutinin-1rvtL02 L:7-325                                                                                                                                                                                                                                                                                                      -- Pfam domains (2)
           Pfam domains (3) --Hemagglutinin-1rvtL03 L:7-325                                                                                                                                                                                                                                                                                                      -- Pfam domains (3)
         Sec.struct. author .eeeeee.......ee.......ee...eee.ee......eeee.....ee....hhhhhhhhhhhhhhhh.......eee...............hhhhhhhhhh.eeeeeee..................eeeeee..eee....eee..........eeeeee......eeeeeeeee..hhhhhhhhhh.....eeee....eeee...............eeeeeeeee....eeeeee...eeee..eeeeee.....eee....eeeeee.ee....ee.....ee......ee...ee......eee.......---.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1rvt L    5 DTLCIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDSHNGKLCRLGGIAPLQLGKCNIAGWLLGNPECDLLLTVSSWSYIVETSNSDNGTCYPGDFIDYEELREQLSSVSSFEKFEIFPKTSSWPNHETTRGVTAACPYAGASSFYRNLLWLVKKGNSYPKLSKSYVNNKGKEVLVLWGVHHPPTSTDQQSLYQNADAYVSVGSSKYDRRFTPEIAARPKVRGQAGRMNYYWTLLEPGDTITFEATGNLVAPRYAFALNRGSGSGIITSDAPVHDCDTKCQTPHGAINSSLPFQNIHPVTIGECPKYVKSTKLRMATGLRNIP---AR  327
                                    14        24        34       |45    |   54        64        74        84        94       104       114       124      133A       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323 |   | 
                                                                42|   49A                                                                                 133A                                                                                                                                                                                             325 326 
                                                                 44                                                                                                                                                                                                                                                                                                


Chain M from PDB  Type:PROTEIN  Length:160
 aligned with Q82500_9INFA | Q82500 from UniProtKB/TrEMBL  Length:566

    Alignment length:160
                                   354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504
        Q82500_9INFA    345 GLFGAIAGFIEGGWTGLIDGWYGYHHQNGQGSGYAADQKSTQNAIDGITNKVNSVIEKMNTQFTVVGKEFNNLERRIKNLNKKVDDGFLDVWTYNAELLVLLENERTLDFHDSNVKNLYEKARSQLRNNAKEIGNGCFEFYHKCDDACMESVRNGTYDYP  504
               SCOP domains d1rvtm_ M: Influenza hemagglutinin (stalk)                                                                                                                       SCOP domains
               CATH domains 1rvtM00 M:501-660  [code=3.90.20.10, no name defined]                                                                                                            CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................eee..ee..ee..eehhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee..eeee....hhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1rvt M  501 GLFGAIAGFIEGGWTGLIDGWYGYHHQNEQGSGYAADQKSTQNAIDGITNKVNSVIEKMNTQFTAVGKEFNNLERRIKNLNKKVDDGFLDVWTYNAELLVLLENERTLDFHDSNVKNLYEKARSQLRNNAKEIGNGCFEFYHKCDDACMESVRNGTYDYP  660
                                   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  (3, 9)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Hemagglutinin] (58)

(-) Gene Ontology  (17, 17)

Asymmetric/Biological Unit(hide GO term definitions)
Chain H,I,J,K,L,M   (Q82500_9INFA | Q82500)
molecular function
    GO:0046789    host cell surface receptor binding    Interacting selectively and non-covalently with a receptor on the host cell surface.
biological process
    GO:0075512    clathrin-dependent endocytosis of virus by host cell    Any clathrin-mediated endocytosis that is involved in the uptake of a virus into a host cell. Begins by invagination of a specific region of the host cell plasma membrane around the bound virus to form a clathrin-coated pit, which then pinches off to form a clathrin-coated endocytic vesicle containing the virus.
    GO:0075509    endocytosis involved in viral entry into host cell    Any endocytosis that is involved in the uptake of a virus into a host cell.
    GO:0039654    fusion of virus membrane with host endosome membrane    Fusion of a virus membrane with a host endosome membrane. Occurs after internalization of the virus through the endosomal pathway, and results in release of the virus contents into the cell.
    GO:0019064    fusion of virus membrane with host plasma membrane    Fusion of a viral membrane with the host cell membrane during viral entry. Results in release of the virion contents into the cytoplasm.
    GO:0039663    membrane fusion involved in viral entry into host cell    Merging of the virion membrane and a host membrane (host plasma membrane or host organelle membrane) that is involved in the uptake of a virus into a host cell.
    GO:0019065    receptor-mediated endocytosis of virus by host cell    Any receptor-mediated endocytosis that is involved in the uptake of a virus into a host cell; successive instances of virus endocytosis result in the accumulation of virus particles within the cell.
    GO:0046718    viral entry into host cell    The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
    GO:0019062    virion attachment to host cell    The process by which a virion protein binds to molecules on the host cellular surface or host cell surface projection.
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:0019031    viral envelope    The lipid bilayer of a virion that surrounds the protein capsid. May also contain glycoproteins.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.
    GO:0055036    virion membrane    The lipid bilayer surrounding a virion.

 Visualization

(-) Interactive Views

Asymmetric/Biological Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    BGC  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    GAL  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    NAG  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    NDG  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SIA  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
    BC1  [ RasMol ]  +environment [ RasMol ]
    BC2  [ RasMol ]  +environment [ RasMol ]
    BC3  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1rvt)
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format | Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  1rvt
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  Q82500_9INFA | Q82500
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  Q82500_9INFA | Q82500
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        Q82500_9INFA | Q82500: 1ruy
UniProtKB/TrEMBL
        Q82500_9INFA | Q82500: 1rv0

(-) Related Entries Specified in the PDB File

1ru7 1934 H1 HEMAGGLUTININ
1ruy 1930 H1 HEMAGGLUTININ
1ruz 1918 H1 HEMAGGLUTININ
1rv0 1930 H1 HEMAGGLUTININ IN COMPLEX WITH LSTA
1rvx 1934 H1 HEMAGGLUTININ IN COMPLEX WITH LSTA
1rvz 1934 H1 HEMAGGLUTININ IN COMPLEX WITH LSTC