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(-) Description

Title :  CRYSTAL STRUCTURE OF INFLUENZA B POLYMERASE BOUND TO THE VRNA PROMOTER (FLUB1 FORM)
 
Authors :  S. Reich, D. Guilligay, A. Pflug, S. Cusack
Date :  26 Oct 14  (Deposition) - 19 Nov 14  (Release) - 24 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.40
Chains :  Asym./Biol. Unit :  A,B,C,R,V
Keywords :  Transferase-Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Reich, D. Guilligay, A. Pflug, H. Malet, I. Berger, T. Crepin, D. Hart, T. Lunardi, M. Nanao, R. W. Ruigrok, S. Cusack
Structural Insight Into Cap-Snatching And Rna Synthesis By Influenza Polymerase.
Nature V. 516 361 2014
PubMed-ID: 25409151  |  Reference-DOI: 10.1038/NATURE14009

(-) Compounds

Molecule 1 - INFLUENZA B VRNA PROMOTER 3' END
    Chains: R
    Engineered: YES
    Organism Scientific: INFLUENZA B VIRUS
    Organism Taxid: 11520
    Synthetic: YES
 
Molecule 2 - INFLUENZA B VRNA PROMOTER 5' END
    Chains: V
    Engineered: YES
    Organism Scientific: INFLUENZA B VIRUS
    Organism Taxid: 11520
    Synthetic: YES
 
Molecule 3 - PA
    Chains: A
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Cell Line: HIGHFIVE
    Expression System Common: CABBAGE LOOPER
    Expression System Plasmid: PKL-PBAC
    Expression System Taxid: 7111
    Expression System Vector Type: PLASMID
    Gene: PA
    Organism Scientific: INFLUENZA B VIRUS
    Organism Taxid: 289331
    Other Details: N-TERMINAL EXTENSION: HIS-TAG AND LINKER C-TERMINAL EXTENSION: LINKER AND TEV SITE
    Strain: B/MEMPHIS/13/03
 
Molecule 4 - RNA-DIRECTED RNA POLYMERASE CATALYTIC SUBUNIT
    Chains: B
    EC Number: 2.7.7.48
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Cell Line: HIGHFIVE
    Expression System Common: CABBAGE LOOPER
    Expression System Plasmid: PKL-PBAC
    Expression System Taxid: 7111
    Expression System Vector Type: PLASMID
    Gene: PB1
    Mutation: YES
    Organism Scientific: INFLUENZA B VIRUS
    Organism Taxid: 289331
    Other Details: N-TERMINAL EXTENSION: LINKER C-TERMINAL EXTENSION: LINKER AND TEV SITE
    Strain: B/MEMPHIS/13/03
 
Molecule 5 - PB2
    Chains: C
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Cell Line: HIGHFIVE
    Expression System Common: CABBAGE LOOPER
    Expression System Plasmid: PKL-PBAC
    Expression System Taxid: 7111
    Expression System Vector Type: PLASMID
    Gene: PB2
    Organism Scientific: INFLUENZA B VIRUS
    Organism Taxid: 289331
    Other Details: N-TERMINAL EXTENSION: LINKER C-TERMINAL EXTENSION: STREP-TAG AND TEV SITE
    Strain: B/MEMPHIS/13/03

 Structural Features

(-) Chains, Units

  12345
Asymmetric/Biological Unit : ABCRV

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4WSA)

(-) Sites  (0, 0)

(no "Site" information available for 4WSA)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4WSA)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu B:271 -Pro B:272

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4WSA)

(-) 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:716
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.eee.....eee.......eee....hhhhhhhhhhhhhhhhh.........eee....eeeeeee...hhhhhhhhhhhhhh...eeeee.....eee.........hhhhhhhhhhhhhhhhhhh.hhhhhhh............hhhhhhhhhh.......hhhhhhhhhhhh...hhhhhhhhhh........ee.hhhhh...hhhhhh...................eeee......hhhhhhhhhhhhhhhhhh.....eee.....hhhhhhhhhhhhhhhhhh.........hhhhhhhhh.....ee.hhhhhhhh................hhhhhhhhhhhh....ee...........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeeeeeee....eeeeeeeeeee..........eeeeeeeeee......hhhhh...eeeeeeeee....eeeeeeeeeeeeeehhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.......eeeeeee..eeeeeehhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh....ee.hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wsa A   0 SMDTFITRNFQTTIIQKAKNTMAEFSEDPELQPAMLFNICVHLEVCYVISDMNFLDEEGKAYTAQNLRPQYEVIEGMPRTIAWMVQRSLAQEHGIETPKYLADLFDYKTKRFIEVGITKGLADDYFWKKKEKLGNSMELMIFSYNQDYSLSNESSLDEEGKGRVLSRLTELQAELSLKNLWQVLIGEEDVEKGIDFKLGQTISRLRDISVPAGFSNFEGMRSYIDNIDPKGAIERNLARMSPLVSVTPKKLTWEDLRPIGPHIYNHELPEVPYNAFLLMSDELGLANMTEGKSKKPKTLAKECLEKYSTLRDQTDPILIMKSEKANENFLWKLWRDCVNTISNEEMSNELQKTNYAKWATGDGLTYQKIMKEVAIDDETMCQEEPKIPNKCRVAAWVQTEMNLLSTLTSKRALDLPEIGPDVAPVEHVGSERRKYFVNEINYCKASTVMMKYVLFHTSLLNESNASMGKYKVIPITNRVVNEKGESFDMLYGLAVKGQSHLRGDTDVVTVVTFEFSSTDPRVDSGKWPKYTVFRIGSLFVSGREKSVYLYCRVNGTNKIQMKWGMEARRCLLQSMQQMEAIVEQESSIQGYDMTKACFKGDRVNSPKTFSIGTQEGKLVKGSFGKALRVIFTKCLMHYVFGNAQLEGFSAESRRLLLLIQALKDRKGPWVFDLEGMYSGIEECISNNPWVIQSAYWFNEWLGFEKEGSKVLESVDE 722
                                     9        19        29        39        49        59   ||   76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646       656       666       676       686       696       706       716      
                                                                                          63|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
                                                                                           71                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:733
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee...hhhhhh....hhhhhh............hhhhhhhhhhhhhhh....eeee......eeee................hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.hhhhhhh.eeee....eeeehhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh...eeeeeeeeeeeeeee......eeeeeeeeeeeeeeehhhhhhhhheeeeee...........eeee.hhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh......eeeeee....hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.eee...eeeeee....eeeeee.hhhhh.hhhhhhhhhhhhhhhhhhhh....eee.........hhhhhhhhhhhhhh........eeeeeeee..eeeeeeee.hhhhhhhhhhhhhhhhhhh.........eeee..eeee..eeee.....hhhhhhhhhh....hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhh.hhhhhhhhhh.....hhhhh..hhhhhhhhhhhhhhhhhhh.............................hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wsa B   1 MNINPYFLFIDVPIQAAISTTFPYTGVPPYSHGTGTGYTIDTVIRTHEYSNKGKQYISDVTGCTMVDPTNGPLPEDNEPSAYAQLDCVLEALDRMDEEHPGLFQAASQNAMETLMVTTVDKLTQGRQTFDWTVCRNQPAATALNTTITSFRLNDLNGADKGGLIPFCQDIIDSLDRPEMTFFSVKNIKKKLPAKNRKGFLIKRIPMKVKDKITKVEYIKRALSLNTMTKDAERGKLKRRAIATAGIQIRGFVLVVENLAKNICENLEQSGLPVGGNEKKAKLSNAVAKMLSNCPPGGISMTVTGDNTKWNECLNPRIFLAMTERITRDSPIWFRDFCSIAPVLFSNKIARLGKGFMITSKTKRLKAQIPCPDLFSIPLERYNEETRAKLKKLKPFFNEEGTASLSPGMMMGMFNMLSTVLGVAALGIKNIGNKEYLWDGLQSSDDFALFVNAKDEETCMEGINDFYRTCKLLGINMSKKKSYCNETGMFEFTSMFYRDGFVSNFAMELPSFGVAGVNESADMAIGMTIIKNNMINNGMGPATAQTAIQLFIADYRYTYKCHRGDSKVEGKRMKIIKELWENTKGRDGLLVADGGPNIYNLRNLHIPEIVLKYNLMDPEYKGRLLHPQNPFVGHLSIKMDYDAVSGTHSWRTKRNRSILNTDQRNMILEEQCYAKCCNLFEACFNSASYRKPVGQHSMLEAMAHRLRMDARLDYESGRMSKDDFEKAMAHLGEI 749
                                    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       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630     ||656       666       676       686       696       706       716       726       736       746   
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     636|                                                                                                
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      653                                                                                                


Chain C from PDB  Type:PROTEIN  Length:730
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh.........hhhhhhhhhh.....ee...hhhhhh...ee..ee.eeeee......eee.hhhhhhhhhhh......hhhhhhhhhhhhhhhhhh.eeeeeee.....eeeeee........hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhheee..eehhhhhhhh....hhhhhhhhhhh.....eeee..eeeeeee...eeeeeeeee...eeeeeeeee..eeeeeee..eeeeeeee..eeeeeee...hhhhhhhhhhhhhhhh.hhhhhh................hhhhhhhhhhhhhhhhhhhhhheee......ee..........eee..eeee....eee.....eee....eeehhhhh..........eee.........hhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhh..hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh...............eee.......eee.......eeee....eeee..eeee.....hhhhh..hhhhhh....eeee..hhhhh...hhhhhhhh....eeeee.....eeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wsa C   1 MTLAKIELLKQLLRDNEAKTVLKQTTVDQYNIIRKFNTSRIEKNPSLRMKWAMCSNFPLALTKGDMANRIPLEYKGIQLKTNAEDIGTKGQMCSIAAVTWWNTYGPIGDTEGFERVYESFFLRKMRLDNATWGRITFGPVERVRKRVLLNPLTKEMPPDEASNVIMEILFPKEAGIPRESTWIHRELIKEKREKLKGTMITPIVLAYMLERELVARRRFLPVAGATSAEFIEMLHCLQGENWRQIYHPGGNKLTESRSQSMIVACRKIIRRSIVASNPLELAVEIANKTVIDTEPLKSCLAAIDGGDVACDIIRAALGLKIRQRQRFGRLELKRISGRGFKNDEEILIGNGTIQKIGIWDGEEEFHVRCGECRGILKKSKMKLEKLLINSAKKEDMRDLIILCMVFSQDTRMFQGVRGEINFLNRAGQLLSPMYQLQRYFLNRSNDLFDQWGYEESPKASELHGINESMNASDYTLKGVVVTRNVKVSITKNLSLIKRTGEVIMGANDVSELESQAQLMITYDTPKMWEMGTTKELVQNTYQWVLKNLVTLKAQFLLGKEDMFQWDAFEAFESIIPQKMAGQYSGFARAVLKQMRDQEVMKTDQFIKLLPFCFSPPKLRSNGEPYQFLKLVLKGGGENFIEVRKGSPLFSYNPQTEVLTICGRMMSLKGKIEDEERNRSMGNAVLAGFLVSGKYDPDLGDFKTIEELEKLKPGEKANILLYQGKPVKVVK 740
                                    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       350       360       370       380       390       400       410       420       430       440       450       460       470       480    || 500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710       720       730       740
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              485|                                                                                                                                                                                                                                                    
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               496                                                                                                                                                                                                                                                    


Chain R from PDB  Type:RNA  Length:14
                                              
                 4wsa R   1 UAUACCUCUGCUUC  14
                                    10    


Chain V from PDB  Type:RNA  Length:14
                                              
                 4wsa V   1 AGUAGUAACAAGAG  14
                                    10
   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  (0, 0)

(no "SCOP Domain" information available for 4WSA)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (14, 20)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Leu B:271 - Pro B:272   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/TrEMBL
        Q5V8X3_9INFB | Q5V8X3: 4wrt 5epi 5fml 5fmz 5m3j 5msg
        Q5V8Y6_9INFB | Q5V8Y6: 4wrt 5epi 5fmz 5m3j 5msg
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(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4WSA)