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(-) Description

Title :  CRYSTAL STRUCTURE OF A H7 INFLUENZA VIRUS HEMAGGLUTININ COMPLEXED WITH 6SLN
 
Authors :  H. Yang, L. M. Chen, P. J. Carney, R. O. Donis, J. Stevens
Date :  12 Mar 10  (Deposition) - 22 Sep 10  (Release) - 22 Dec 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Keywords :  Influenza Virus, Hemagglutinin, 6Sln, Envelope Protein, Fusion Protein, Host Cell Membrane, Host Membrane, Membrane, Transmembrane, Virion, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Yang, L. M. Chen, P. J. Carney, R. O. Donis, J. Stevens
Structures Of Receptor Complexes Of A North American H7N2 Influenza Hemagglutinin With A Loop Deletion In The Recepto Binding Site.
Plos Pathog. V. 6 E1001 2010
PubMed-ID: 20824086  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1001081

(-) Compounds

Molecule 1 - HEMAGGLUTININ
    Chains: A, C, E
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Taxid: 7111
    Fragment: HEMAGGLUTININ HA1
    Organism Scientific: INFLUENZA A VIRUS
    Organism Taxid: 490450
    Strain: A/NEW YORK/107/2003
 
Molecule 2 - HEMAGGLUTININ
    Chains: B, D, F
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Taxid: 7111
    Fragment: HEMAGGLUTININ HA2
    Gene: HA
    Organism Scientific: INFLUENZA A VIRUS
    Organism Taxid: 490450
    Strain: A/ENVIRONMENT/NEW YORK/30732-1/2005(H7N2)

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): AB    
Biological Unit 2 (1x):   CD  
Biological Unit 3 (1x):     EF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 16)

Asymmetric Unit (3, 16)
No.NameCountTypeFull Name
1GAL3Ligand/IonBETA-D-GALACTOSE
2NAG10Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SIA3Ligand/IonO-SIALIC ACID
Biological Unit 1 (3, 5)
No.NameCountTypeFull Name
1GAL1Ligand/IonBETA-D-GALACTOSE
2NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SIA1Ligand/IonO-SIALIC ACID
Biological Unit 2 (3, 6)
No.NameCountTypeFull Name
1GAL1Ligand/IonBETA-D-GALACTOSE
2NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SIA1Ligand/IonO-SIALIC ACID
Biological Unit 3 (3, 5)
No.NameCountTypeFull Name
1GAL1Ligand/IonBETA-D-GALACTOSE
2NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SIA1Ligand/IonO-SIALIC ACID

(-) Sites  (16, 16)

Asymmetric Unit (16, 16)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGAL A:2 , TYR A:98 , GLY A:134 , ALA A:135 , THR A:136 , SER A:137 , TRP A:153 , LEU A:155 , HIS A:183 , GLU A:190 , ARG A:220BINDING SITE FOR RESIDUE SIA A 1
02AC2SOFTWARESIA A:1 , ARG A:220BINDING SITE FOR RESIDUE GAL A 2
03AC3SOFTWAREASN A:38 , THR A:40BINDING SITE FOR RESIDUE NAG A 331
04AC4SOFTWAREARG A:300 , GLU B:72 , GLN B:75 , ASN B:79 , ASN B:82 , NAG B:184 , ARG E:114BINDING SITE FOR RESIDUE NAG B 183
05AC5SOFTWARENAG B:183BINDING SITE FOR RESIDUE NAG B 184
06AC6SOFTWAREGAL C:2 , TYR C:98 , ALA C:135 , THR C:136 , SER C:137 , TRP C:153 , HIS C:183 , GLU C:186 , GLU C:190 , ARG C:220BINDING SITE FOR RESIDUE SIA C 1
07AC7SOFTWARESIA C:1 , GLU C:190BINDING SITE FOR RESIDUE GAL C 2
08AC8SOFTWAREASN C:38 , ALA C:39 , THR C:40 , NAG C:332BINDING SITE FOR RESIDUE NAG C 331
09AC9SOFTWARENAG C:331BINDING SITE FOR RESIDUE NAG C 332
10BC1SOFTWAREARG A:114 , ASN D:79 , ASN D:82 , NAG D:184BINDING SITE FOR RESIDUE NAG D 183
11BC2SOFTWAREARG C:300 , GLU D:72 , NAG D:183BINDING SITE FOR RESIDUE NAG D 184
12BC3SOFTWAREGAL E:2 , TYR E:98 , ALA E:135 , THR E:136 , SER E:137 , HIS E:183 , GLU E:190 , ARG E:220BINDING SITE FOR RESIDUE SIA E 1
13BC4SOFTWARESIA E:1BINDING SITE FOR RESIDUE GAL E 2
14BC5SOFTWAREASN E:38 , ALA E:39BINDING SITE FOR RESIDUE NAG E 331
15BC6SOFTWAREARG C:114 , ARG E:300 , GLU F:72 , GLN F:75 , ASN F:79 , ASN F:82 , NAG F:184BINDING SITE FOR RESIDUE NAG F 183
16BC7SOFTWAREARG E:300 , GLU F:69 , NAG F:183BINDING SITE FOR RESIDUE NAG F 184

(-) SS Bonds  (18, 18)

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
7C:14 -D:137
8C:52 -C:277
9C:64 -C:76
10C:97 -C:139
11C:281 -C:305
12D:144 -D:148
13E:14 -F:137
14E:52 -E:277
15E:64 -E:76
16E:97 -E:139
17E:281 -E:305
18F:144 -F:148

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3M5I)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3M5I)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3M5I)

(-) Exons   (0, 0)

(no "Exon" information available for 3M5I)

(-) 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:309
 aligned with B7NY59_9INFA | B7NY59 from UniProtKB/TrEMBL  Length:548

    Alignment length:309
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313         
        B7NY59_9INFA     14 GDKICLGHHAVANGTKVNTLTERGIEVVNATETVETTNIKKICTQGKRPTDLGQCGLLGTLIGPPQCDQFLEFSSDLIIERREGTDICYPGRFTNEESLRQILRRSGGIGKESMGFTYSGIRTNGATSACTRSGSSFYAEMKWLLSNSDNAAFPQMTKAYRNPRNKPALIIWGVHHSESVSEQTKLYGSGNKLITVRSSKYQQSFTPSPGARRIDFHWLLLDPNDTVTFTFNGAFIAPDRASFFRGESLGVQSDAPLDSSCRGDCFHSGGTIVSSLPFQNINSRTVGKCPRYIKQKSLLLATGMRNVPE  322
               SCOP domains d3m5ia_ A: automated matches                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......eee.......eee..eee.ee......ee.....eee......hhhhhhhhhhhhhh.ee..eeee..............hhhhhhhhhh...eeeeee...........................eee............eeeeee......eeeeeeeee..hhhhhhhhhh.....eeee....eeee.......eeeeeeeee....eeeeee...eeee.eeeee....eeee....ee......eee..eee.....ee.....eeeee.ee......eee........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3m5i A   10 GDKICLGHHAVANGTKVNTLTERGIEVVNATETVETTNIKKICTQGKRPTDLGQCGLLGTLIGPPQCDQFLEFSSDLIIERREGTDICYPGRFTNEESLRQILRRSGGIGKESMGFTYSGIRTNGATSACTRSGSSFYAEMKWLLSNSDNAAFPQMTKAYRNPRNKPALIIWGVHHSESVSEQTKLYGSGNKLITVRSSKYQQSFTPNPGARRIDFHWLLLDPNDTVTFTFNGAFIAPDRTSFFRGESLGVQSDAPLDSSCRGDCFHSGGTIVSSLPFQNINSRTVGKCPRYVKQKSLLLATGMRNVPE  325
                                    19        29        39        49        59        69        79        89        99       109       119       129       139  ||   150      158B       168       178       188       198       208       218 ||    236       246       256    || 267      276A       286       296       306       316         
                                                                                                                                                              142|           158A|                                                           220|                             261|          276A                                                 
                                                                                                                                                               144            158B                                                            229                              263                                                               


Chain B from PDB  Type:PROTEIN  Length:175
 aligned with B7NYS1_9INFA | B7NYS1 from UniProtKB/TrEMBL  Length:552

    Alignment length:175
                                   341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501     
        B7NYS1_9INFA    332 GLFGAIAGFIENGWEGLINGWYGFRHQNAQGEGTAADYKSTQSAIDQITGKLNRLIGKTNQQFELIDNEFNEIEQQIGNVINWTRDAMTEIWSYNAELLVAMENQHTIDLADSEMSKLYERVKKQLRENAEEDGTGCFEIFHKCDDQCMESIRNNTYDHTQYRTESLQNRIQIDS  506
               SCOP domains d3m5ib_ B: Influenza hemagglutinin (stalk)                                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................eeeeeee..eeeeeehhhhhhhhhhhhhhhhhhhh....eee..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eee....eeee....hhhhhhhhhh...hhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3m5i B    1 GLFGAIAGFIENGWEGLINGWYGFRHQNAQGEGTAADYKSTQSAIDQITGKLNRLIGKTNQQFELIDNEFNEIEQQIGNVINWTRDAMTEIWSYNAELLVAMENQHTIDLADSEMSKLYERVKKQLRENAEEDGTGCFEIFHKCDDQCMESIRNNTYDHTQYRTESLQNRIQIDS  175
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170     


Chain C from PDB  Type:PROTEIN  Length:309
 aligned with B7NY59_9INFA | B7NY59 from UniProtKB/TrEMBL  Length:548

    Alignment length:309
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313         
        B7NY59_9INFA     14 GDKICLGHHAVANGTKVNTLTERGIEVVNATETVETTNIKKICTQGKRPTDLGQCGLLGTLIGPPQCDQFLEFSSDLIIERREGTDICYPGRFTNEESLRQILRRSGGIGKESMGFTYSGIRTNGATSACTRSGSSFYAEMKWLLSNSDNAAFPQMTKAYRNPRNKPALIIWGVHHSESVSEQTKLYGSGNKLITVRSSKYQQSFTPSPGARRIDFHWLLLDPNDTVTFTFNGAFIAPDRASFFRGESLGVQSDAPLDSSCRGDCFHSGGTIVSSLPFQNINSRTVGKCPRYIKQKSLLLATGMRNVPE  322
               SCOP domains d3m5ic_ C: automated matches                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......eeee....eeeee..eee.ee......ee.....eee......hhhhhhhhhhhhhh.....eeee..............hhhhhhhhhhh...eeeee.............eeeee...ee....eee............eeeeee......eeeeeeeee..hhhhhhhhh......eeeee..eeeee.......eeeeeeeee....eeeeee...eeee.eeeee....eeee....ee......eee..eee.....ee.....eeee..ee......eee........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3m5i C   10 GDKICLGHHAVANGTKVNTLTERGIEVVNATETVETTNIKKICTQGKRPTDLGQCGLLGTLIGPPQCDQFLEFSSDLIIERREGTDICYPGRFTNEESLRQILRRSGGIGKESMGFTYSGIRTNGATSACTRSGSSFYAEMKWLLSNSDNAAFPQMTKAYRNPRNKPALIIWGVHHSESVSEQTKLYGSGNKLITVRSSKYQQSFTPNPGARRIDFHWLLLDPNDTVTFTFNGAFIAPDRTSFFRGESLGVQSDAPLDSSCRGDCFHSGGTIVSSLPFQNINSRTVGKCPRYVKQKSLLLATGMRNVPE  325
                                    19        29        39        49        59        69        79        89        99       109       119       129       139  ||   150      158B       168       178       188       198       208       218 ||    236       246       256    || 267      276A       286       296       306       316         
                                                                                                                                                              142|           158A|                                                           220|                             261|          276A                                                 
                                                                                                                                                               144            158B                                                            229                              263                                                               


Chain D from PDB  Type:PROTEIN  Length:172
 aligned with B7NYS1_9INFA | B7NYS1 from UniProtKB/TrEMBL  Length:552

    Alignment length:172
                                   341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501  
        B7NYS1_9INFA    332 GLFGAIAGFIENGWEGLINGWYGFRHQNAQGEGTAADYKSTQSAIDQITGKLNRLIGKTNQQFELIDNEFNEIEQQIGNVINWTRDAMTEIWSYNAELLVAMENQHTIDLADSEMSKLYERVKKQLRENAEEDGTGCFEIFHKCDDQCMESIRNNTYDHTQYRTESLQNRIQ  503
               SCOP domains d3m5id_ D: Influenza hemagglutinin (stalk)                                                                                                                                   SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................eeeeee.....eeeehhhhhhhhhhhhhhhhhhhh.....ee..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eee....eeee....hhhhhhhhhh....hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3m5i D    1 GLFGAIAGFIENGWEGLINGWYGFRHQNAQGEGTAADYKSTQSAIDQITGKLNRLIGKTNQQFELIDNEFNEIEQQIGNVINWTRDAMTEIWSYNAELLVAMENQHTIDLADSEMSKLYERVKKQLRENAEEDGTGCFEIFHKCDDQCMESIRNNTYDHTQYRTESLQNRIQ  172
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170  


Chain E from PDB  Type:PROTEIN  Length:309
 aligned with B7NY59_9INFA | B7NY59 from UniProtKB/TrEMBL  Length:548

    Alignment length:309
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313         
        B7NY59_9INFA     14 GDKICLGHHAVANGTKVNTLTERGIEVVNATETVETTNIKKICTQGKRPTDLGQCGLLGTLIGPPQCDQFLEFSSDLIIERREGTDICYPGRFTNEESLRQILRRSGGIGKESMGFTYSGIRTNGATSACTRSGSSFYAEMKWLLSNSDNAAFPQMTKAYRNPRNKPALIIWGVHHSESVSEQTKLYGSGNKLITVRSSKYQQSFTPSPGARRIDFHWLLLDPNDTVTFTFNGAFIAPDRASFFRGESLGVQSDAPLDSSCRGDCFHSGGTIVSSLPFQNINSRTVGKCPRYIKQKSLLLATGMRNVPE  322
               SCOP domains d3m5ie_ E: automated matches                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---Hemagglutinin-3m5iE01 E:13-325                                                                                                                                                                                                                                                                                     Pfam domains (1)
           Pfam domains (2) ---Hemagglutinin-3m5iE02 E:13-325                                                                                                                                                                                                                                                                                     Pfam domains (2)
           Pfam domains (3) ---Hemagglutinin-3m5iE03 E:13-325                                                                                                                                                                                                                                                                                     Pfam domains (3)
         Sec.struct. author .eeeeeee......eeee....eeeee..eee.ee......ee.....eee......hhhhhhhhhhhhhh.ee..eeee..............hhhhhhhhhhh..eeeeee.......ee....eeeee...ee....eee.ee.........eeeeee......eeeeeeeee..hhhhhhhhh......eeeee..eeeee.......eeeeeeeee....eeeeee...eeee.eeeee....eeee....ee......eee..eee.....ee.....eeee..ee......eee........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3m5i E   10 GDKICLGHHAVANGTKVNTLTERGIEVVNATETVETTNIKKICTQGKRPTDLGQCGLLGTLIGPPQCDQFLEFSSDLIIERREGTDICYPGRFTNEESLRQILRRSGGIGKESMGFTYSGIRTNGATSACTRSGSSFYAEMKWLLSNSDNAAFPQMTKAYRNPRNKPALIIWGVHHSESVSEQTKLYGSGNKLITVRSSKYQQSFTPNPGARRIDFHWLLLDPNDTVTFTFNGAFIAPDRTSFFRGESLGVQSDAPLDSSCRGDCFHSGGTIVSSLPFQNINSRTVGKCPRYVKQKSLLLATGMRNVPE  325
                                    19        29        39        49        59        69        79        89        99       109       119       129       139  ||   150      158B       168       178       188       198       208       218 ||    236       246       256    || 267      276A       286       296       306       316         
                                                                                                                                                              142|           158A|                                                           220|                             261|          276A                                                 
                                                                                                                                                               144            158B                                                            229                              263                                                               


Chain F from PDB  Type:PROTEIN  Length:171
 aligned with B7NYS1_9INFA | B7NYS1 from UniProtKB/TrEMBL  Length:552

    Alignment length:171
                                   341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501 
        B7NYS1_9INFA    332 GLFGAIAGFIENGWEGLINGWYGFRHQNAQGEGTAADYKSTQSAIDQITGKLNRLIGKTNQQFELIDNEFNEIEQQIGNVINWTRDAMTEIWSYNAELLVAMENQHTIDLADSEMSKLYERVKKQLRENAEEDGTGCFEIFHKCDDQCMESIRNNTYDHTQYRTESLQNRI  502
               SCOP domains d3m5if_ F: Influenza hemagglutinin (stalk)                                                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) Hemagglutinin-3m5iF01 F:1-171                                                                                                                                               Pfam domains (1)
           Pfam domains (2) Hemagglutinin-3m5iF02 F:1-171                                                                                                                                               Pfam domains (2)
           Pfam domains (3) Hemagglutinin-3m5iF03 F:1-171                                                                                                                                               Pfam domains (3)
         Sec.struct. author .....................eeeeee......eeeehhhhhhhhhhhhhhhhhhh.....ee..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eee....eeee....hhhhhhhhhh....hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3m5i F    1 GLFGAIAGFIENGWEGLINGWYGFRHQNAQGEGTAADYKSTQSAIDQITGKLNRLIGKTNQQFELIDNEFNEIEQQIGNVINWTRDAMTEIWSYNAELLVAMENQHTIDLADSEMSKLYERVKKQLRENAEEDGTGCFEIFHKCDDQCMESIRNNTYDHTQYRTESLQNRI  171
                                    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)
    → 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 Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Coiled coil proteins (689)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3M5I)

(-) Pfam Domains  (2, 6)

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

(-) Gene Ontology  (17, 34)

Asymmetric Unit(hide GO term definitions)
Chain A,C,E   (B7NY59_9INFA | B7NY59)
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.

Chain B,D,F   (B7NYS1_9INFA | B7NYS1)
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.

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 Related Entries

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        B7NY59_9INFA | B7NY59: 3m5g 3m5h 3m5j
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(-) Related Entries Specified in the PDB File

3m5g CRYSTAL STRUCTURE OF A H7 INFLUENZA VIRUS HEMAGGLUTININ
3m5h CRYSTAL STRUCTURE OF A H7 INFLUENZA VIRUS HEMAGGLUTININ COMPLEXED WITH 3SLN
3m5j CRYSTAL STRUCTURE OF A H7 INFLUENZA VIRUS HEMAGGLUTININ COMPLEXED WITH LSTB