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(-) Description

Title :  STRUCTURE OF HEMAGGLUTININ WITH F95Y MUTATION OF INFLUENZA VIRUS B/LEE/40
 
Authors :  F. Ni, I. N. Mbawuike, E. Kondrashkina, Q. Wang
Date :  26 Nov 13  (Deposition) - 12 Mar 14  (Release) - 12 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.53
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Ha, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  F. Ni, I. Nnadi Mbawuike, E. Kondrashkina, Q. Wang
The Roles Of Hemagglutinin Phe-95 In Receptor Binding And Pathogenicity Of Influenza B Virus.
Virology V. -451 71 2014
PubMed-ID: 24503069  |  Reference-DOI: 10.1016/J.VIROL.2013.11.038

(-) Compounds

Molecule 1 - HEMAGGLUTININ HA1 CHAIN
    ChainsA, C, E
    EngineeredYES
    Expression SystemHOMO SAPIENS
    Expression System Cell LineCV-1
    Expression System PlasmidPRB21
    Expression System Taxid9606
    Expression System Vector TypeVACCINIA VIRUS
    GeneHA
    MutationYES
    Organism ScientificINFLUENZA B VIRUS
    Organism Taxid107412
    StrainB/LEE/40
 
Molecule 2 - HEMAGGLUTININ HA2 CHAIN
    ChainsB, D, F
    EngineeredYES
    Expression SystemHOMO SAPIENS
    Expression System Cell LineCV-1
    Expression System Taxid9606
    GeneHA
    Organism ScientificINFLUENZA B VIRUS
    Organism Taxid107412
    StrainB/LEE/1940

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 33)

Asymmetric/Biological Unit (2, 33)
No.NameCountTypeFull Name
1BMA1Ligand/IonBETA-D-MANNOSE
2NAG32Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (19, 19)

Asymmetric Unit (19, 19)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:12 , PRO A:13 , VAL A:15 , ASN A:25 , TYR A:336BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 25 RESIDUES 401 TO 402
02AC2SOFTWAREASN A:145 , THR A:147 , GLY A:149 , ASN A:150 , HOH A:615 , HOH A:639BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 145 RESIDUES 403 TO 404
03AC3SOFTWAREASN A:232BINDING SITE FOR MONO-SACCHARIDE NAG A 405 BOUND TO ASN A 232
04AC4SOFTWAREGLU A:291 , ASN A:303 , HOH A:597BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 303 RESIDUES 406 TO 407
05AC5SOFTWAREILE A:30 , ASN A:332 , TRP B:21BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 332 RESIDUES 408 TO 409
06AC6SOFTWAREASN B:145BINDING SITE FOR MONO-SACCHARIDE NAG B 201 BOUND TO ASN B 145
07AC7SOFTWARESER C:12 , PRO C:13 , VAL C:15 , ASN C:25BINDING SITE FOR CHAIN C OF SUGAR BOUND TO ASN C 25 RESIDUES 401 TO 402
08AC8SOFTWARESER C:122 , ASN C:123 , ASN C:126 , GLU C:128 , THR C:129 , ASN C:145 , VAL C:146 , THR C:147 , GLY C:149 , ASN C:150 , HOH C:584 , HOH C:602BINDING SITE FOR CHAIN C OF SUGAR BOUND TO ASN C 145 RESIDUES 403 TO 405
09AC9SOFTWAREASN C:232BINDING SITE FOR MONO-SACCHARIDE NAG C 406 BOUND TO ASN C 232
10BC1SOFTWAREGLU C:291 , ASN C:303BINDING SITE FOR CHAIN C OF SUGAR BOUND TO ASN C 303 RESIDUES 407 TO 408
11BC2SOFTWAREILE C:30 , ASN C:332 , HOH C:527 , HOH C:564 , TRP D:21 , ILE D:45BINDING SITE FOR CHAIN C OF SUGAR BOUND TO ASN C 332 RESIDUES 409 TO 410
12BC3SOFTWAREASN D:145 , THR D:147BINDING SITE FOR MONO-SACCHARIDE NAG D 201 BOUND TO ASN D 145
13BC4SOFTWARESER E:12 , PRO E:13 , VAL E:15 , ASN E:25 , TYR E:336 , HOH E:571BINDING SITE FOR CHAIN E OF SUGAR BOUND TO ASN E 25 RESIDUES 401 TO 402
14BC5SOFTWAREASN E:59 , ARG E:69 , HOH E:629 , HOH E:638BINDING SITE FOR MONO-SACCHARIDE NAG E 403 BOUND TO ASN E 59
15BC6SOFTWAREGLU A:182 , ASN E:145 , THR E:147 , GLY E:149 , ASN E:150BINDING SITE FOR CHAIN E OF SUGAR BOUND TO ASN E 145 RESIDUES 404 TO 405
16BC7SOFTWAREPHE E:230 , ASN E:232 , HOH E:642BINDING SITE FOR CHAIN E OF SUGAR BOUND TO ASN E 232 RESIDUES 406 TO 407
17BC8SOFTWAREGLU E:291 , GLY E:301 , ASN E:303 , HOH E:574BINDING SITE FOR CHAIN E OF SUGAR BOUND TO ASN E 303 RESIDUES 408 TO 409
18BC9SOFTWAREILE E:30 , ASN E:332 , HOH E:525 , HOH E:598 , HOH E:648 , TRP F:21BINDING SITE FOR CHAIN E OF SUGAR BOUND TO ASN E 332 RESIDUES 410 TO 411
19CC1SOFTWAREASN F:145 , THR F:147BINDING SITE FOR MONO-SACCHARIDE NAG F 201 BOUND TO ASN F 145

(-) SS Bonds  (21, 21)

Asymmetric/Biological Unit
No.Residues
1A:4 -B:137
2A:54 -A:57
3A:60 -A:72
4A:94 -A:143
5A:180 -A:274
6A:294 -A:320
7B:144 -B:148
8C:4 -D:137
9C:54 -C:57
10C:60 -C:72
11C:94 -C:143
12C:180 -C:274
13C:294 -C:320
14D:144 -D:148
15E:4 -F:137
16E:54 -E:57
17E:60 -E:72
18E:94 -E:143
19E:180 -E:274
20E:294 -E:320
21F:144 -F:148

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Leu A:286 -Pro A:287
2Leu C:286 -Pro C:287
3Leu E:286 -Pro E:287

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4NRJ)

(-) 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:341
                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4nrja_ A: Hemagglutinin                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee......eeee.....eeee..eee.ee........ee....ee..........hhhhhhhh............eeee.............hhhhhhhhhhhhhhh...eeee...............eee..eeeee.....ee....eeeeee..........eeeee........eeeeeeeeee.hhhhhhhhhh.....eeeeee..eeeeee...................eeeeeeeee.....eeeee...eeee...eeee...eeee.......ee.eee...eee.....ee......eee...ee.....eee.......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nrj A   1 DRICTGITSSNSPHVVKTATQGEVNVTGVIPLTTTPTRSHFANLKGTQTRGKLCPNCFNCTDLDVALGRPKCMGNIPSAKVSILHEVKPVTSGCYPIMHDRTKIRQLPNLLRGYENIRLSTSNVINTETAPGGPYKVGTSGSCPNVTNGNGFFNTMAWVIPKDNNKIAINPVTVEVPYICSEGEDQITVWGFHSDDKTQMERLYGDSNPQKFTSSANGVTTHYVSQIGGFPNQTEDEGLKQSGRIVVDYMVQKPGKTGTIVYQRGILLPQKVWCASGRSKVIKGSLPLIGEADCLHEKYGGLNKSKPYYTGEHAKAIGNCPIWVKTPLKLANGTKYRPPAK 341
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340 

Chain B from PDB  Type:PROTEIN  Length:170
                                                                                                                                                                                                          
               SCOP domains d4nrjb_ B: Influenza hemagglutinin (stalk)                                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhh.............eeeeeee..eeeeeehhhhhhhhhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...ee....eee.....hhhhhhhhhh...hhhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nrj B   1 GFFGAIAGFLEGGWEGMIAGWHGYTSHGAHGVAVAADLKSTQEAINKITKNLNSLSELEVKNLQRLSGAMNELHDEILELDEKVDDLRADTISSQIELAVLLSNEGIINSEDEHLLALERKLKKMLGPSAVEIGNGCFETKHKCNQTCLDRIAAGTFNAGDFSLPTFDSL 170
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170

Chain C from PDB  Type:PROTEIN  Length:342
                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains d4nrjc_ C: Hemagglutinin                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee......eeee.....eeee..eee.ee........ee....ee..........hhhhhhhh............eeee.............hhhhhhhhhhhhhhh...eeee...............eee..eeeee.....ee....eeeeee..........eeeee........eeeeeeeeee.hhhhhhhhhh.....eeeeee..eeeeee...................eeeeeeeee.....eeeee...eeee...eeee...eeee.......ee.eee...eee.....ee......eee...ee.....eee........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4nrj C   1 DRICTGITSSNSPHVVKTATQGEVNVTGVIPLTTTPTRSHFANLKGTQTRGKLCPNCFNCTDLDVALGRPKCMGNIPSAKVSILHEVKPVTSGCYPIMHDRTKIRQLPNLLRGYENIRLSTSNVINTETAPGGPYKVGTSGSCPNVTNGNGFFNTMAWVIPKDNNKIAINPVTVEVPYICSEGEDQITVWGFHSDDKTQMERLYGDSNPQKFTSSANGVTTHYVSQIGGFPNQTEDEGLKQSGRIVVDYMVQKPGKTGTIVYQRGILLPQKVWCASGRSKVIKGSLPLIGEADCLHEKYGGLNKSKPYYTGEHAKAIGNCPIWVKTPLKLANGTKYRPPAKL 342
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340  

Chain D from PDB  Type:PROTEIN  Length:169
                                                                                                                                                                                                         
               SCOP domains d4nrjd_ D: Influenza hemagglutinin (stalk)                                                                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhh.............eeeeeee..eeeeeehhhhhhhhhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...ee....eee.....hhhhhhhhhh...hhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nrj D   1 GFFGAIAGFLEGGWEGMIAGWHGYTSHGAHGVAVAADLKSTQEAINKITKNLNSLSELEVKNLQRLSGAMNELHDEILELDEKVDDLRADTISSQIELAVLLSNEGIINSEDEHLLALERKLKKMLGPSAVEIGNGCFETKHKCNQTCLDRIAAGTFNAGDFSLPTFDS 169
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160         

Chain E from PDB  Type:PROTEIN  Length:341
                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4nrje_ E: Hemagglutinin                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee......eeee.....eeee..eee.ee........ee....ee..........hhhhhhhh............eeee.............hhhhhhhhhhhhhhh...eeee...............eee..eeeee.....ee....eeeeee..........eeeee........eeeeeeeeee.hhhhhhhhhh.....eeeeee..eeeeee...................eeeeeeeee.....eeeee...eeee...eeee...eeee.......ee.eee...eee.....ee......eee...ee.....eee.......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nrj E   1 DRICTGITSSNSPHVVKTATQGEVNVTGVIPLTTTPTRSHFANLKGTQTRGKLCPNCFNCTDLDVALGRPKCMGNIPSAKVSILHEVKPVTSGCYPIMHDRTKIRQLPNLLRGYENIRLSTSNVINTETAPGGPYKVGTSGSCPNVTNGNGFFNTMAWVIPKDNNKIAINPVTVEVPYICSEGEDQITVWGFHSDDKTQMERLYGDSNPQKFTSSANGVTTHYVSQIGGFPNQTEDEGLKQSGRIVVDYMVQKPGKTGTIVYQRGILLPQKVWCASGRSKVIKGSLPLIGEADCLHEKYGGLNKSKPYYTGEHAKAIGNCPIWVKTPLKLANGTKYRPPAK 341
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340 

Chain F from PDB  Type:PROTEIN  Length:168
                                                                                                                                                                                                        
               SCOP domains d4nrjf_ F: Influenza hemagglutinin (stalk)                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhh.............eeeeeee..eeeeeehhhhhhhhhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...ee....eee.....hhhhhhhhhh...hhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4nrj F   1 GFFGAIAGFLEGGWEGMIAGWHGYTSHGAHGVAVAADLKSTQEAINKITKNLNSLSELEVKNLQRLSGAMNELHDEILELDEKVDDLRADTISSQIELAVLLSNEGIINSEDEHLLALERKLKKMLGPSAVEIGNGCFETKHKCNQTCLDRIAAGTFNAGDFSLPTFD 168
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160        

   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (2, 6)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        HEMA_INBLE | P034601tx1 2ffo 4nrk 4nrl

(-) Related Entries Specified in the PDB File

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