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(-) Description

Title :  WEST NILE VIRUS NON-STRUCTURAL PROTEIN 1 (NS1) FORM 2 CRYSTAL
 
Authors :  D. L. Akey, J. L. Smith
Date :  20 Dec 13  (Deposition) - 19 Feb 14  (Release) - 12 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.75
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 :  Flavivirus, Non-Structural Protein 1, Ns1, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. L. Akey, W. C. Brown, S. Dutta, J. Konwerski, J. Jose, T. J. Jurkiw, J. Delproposto, C. M. Ogata, G. Skiniotis, R. J. Kuhn, J. L. Smith
Flavivirus Ns1 Structures Reveal Surfaces For Associations With Membranes And The Immune System.
Science V. 343 881 2014
PubMed-ID: 24505133  |  Reference-DOI: 10.1126/SCIENCE.1247749

(-) Compounds

Molecule 1 - NS1
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Plasmid: PH-AC64-7
    Expression System Strain: HIGH FIVE
    Expression System Taxid: 7111
    Expression System Vector Type: BACULOVIRUS
    Gene: NS1
    Organism Common: WNV
    Organism Scientific: WEST NILE VIRUS
    Organism Taxid: 11082
    Strain: NY99

 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  (2, 9)

Asymmetric Unit (2, 9)
No.NameCountTypeFull Name
1NAG6Ligand/IonN-ACETYL-D-GLUCOSAMINE
2SO43Ligand/IonSULFATE ION
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
1NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
2SO41Ligand/IonSULFATE ION
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
2SO41Ligand/IonSULFATE ION
Biological Unit 3 (2, 3)
No.NameCountTypeFull Name
1NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
2SO41Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:85 , ASN A:130BINDING SITE FOR RESIDUE NAG A 401
2AC2SOFTWAREGLY A:235 , GLY B:235BINDING SITE FOR RESIDUE SO4 A 402
3AC3SOFTWAREASP B:85 , ASN B:130BINDING SITE FOR RESIDUE NAG B 401
4AC4SOFTWAREASP C:85 , ASN C:130BINDING SITE FOR RESIDUE NAG C 401
5AC5SOFTWAREASP C:234 , GLY C:235 , ASP D:234 , GLY D:235BINDING SITE FOR RESIDUE SO4 C 402
6AC6SOFTWAREASP D:85 , ASN D:130BINDING SITE FOR RESIDUE NAG D 401
7AC7SOFTWAREASP E:85 , ASN E:130BINDING SITE FOR RESIDUE NAG E 401
8AC8SOFTWAREASP F:85 , ASN F:130BINDING SITE FOR RESIDUE NAG F 401
9AC9SOFTWAREGLY E:233 , ASP E:234 , GLY E:235 , GLY F:233 , ASP F:234 , GLY F:235 , ILE F:236BINDING SITE FOR RESIDUE SO4 F 402

(-) SS Bonds  (36, 36)

Asymmetric Unit
No.Residues
1A:4 -A:15
2A:55 -A:143
3A:179 -A:223
4A:280 -A:329
5A:291 -A:312
6A:313 -A:316
7B:4 -B:15
8B:55 -B:143
9B:179 -B:223
10B:280 -B:329
11B:291 -B:312
12B:313 -B:316
13C:4 -C:15
14C:55 -C:143
15C:179 -C:223
16C:280 -C:329
17C:291 -C:312
18C:313 -C:316
19D:4 -D:15
20D:55 -D:143
21D:179 -D:223
22D:280 -D:329
23D:291 -D:312
24D:313 -D:316
25E:4 -E:15
26E:55 -E:143
27E:179 -E:223
28E:280 -E:329
29E:291 -E:312
30E:313 -E:316
31F:4 -F:15
32F:55 -F:143
33F:179 -F:223
34F:280 -F:329
35F:291 -F:312
36F:313 -F:316

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Leu A:318 -Pro A:319
2Leu B:318 -Pro B:319
3Leu C:318 -Pro C:319
4Leu D:318 -Pro D:319
5Leu E:318 -Pro E:319
6Leu F:318 -Pro F:319

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4O6C)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4O6C)

(-) Exons   (0, 0)

(no "Exon" information available for 4O6C)

(-) 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:338
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee....eeeeeeeeeee.........eeeee.hhhhhhhhhhhhhhh...ee...hhhhhhhhhhhhhhhhhhhhhh...eeeee.........................eeeee........hhh.ee...eeeeeee.....eeeeeee.............eeeee..eeeee...eeeeeee...eeeeeeee........hhhhh......hhhhh..hhhhh..................hhhhh.eeeee......eeee......................eeee.......eeeee..eeee....ee............... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o6c A   0 ADTGCAIDISRQELRCGSGVFIHNDVEAWMDRYKYYPETPQGLAKIIQKAHKEGVCGLRSVSRLEHQMWEAVKDELNTLLKENGVDLSVVVEKQEGMYKSAPKRLTATTEAPELANNTFVVDGPETKECPTQNRAWNSLEVEDFGFGLTSTRMFLKVRESNTTECDSKIIGTAVKNNLAIHSDLSYWIESRLNDTWKLERAVLGEVKSCTWPETHTLWGDGILESDLIIPVTLAGPRSNHNRRPGYKTQNQGPWDEGRVEIDFDYCPGTTVTLSESCGHRGPATRTTTESGKLITDWCCRSCTLPPLRYQTDSGCWYGMEIRPQRHDEKTLVQSQVNA 352
                                     9        19        29        39        49        59        69        79        89        99       109|      134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344        
                                                                                                                                       109|                                                                                                                                                                                                                                   
                                                                                                                                        125                                                                                                                                                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:338
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee....eeeeeeeeeee.........eeeee.hhhhhhhhhhhhhhh...ee...hhhhhhhhhhhhhhhhhhhhhh...eeeee.........................eeeee........hhh.ee...eeeeeee.....eeeeeee.............eeeee..eeeee...eeeeeee...eeeeeeee........hhhhh......hhhhh..hhhhh..................hhhhh.eeeee......eeee......................eeee.......eeeee..eeee...eee............... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o6c B   0 ADTGCAIDISRQELRCGSGVFIHNDVEAWMDRYKYYPETPQGLAKIIQKAHKEGVCGLRSVSRLEHQMWEAVKDELNTLLKENGVDLSVVVEKQEGMYKSAPKRLTATTEAPELANNTFVVDGPETKECPTQNRAWNSLEVEDFGFGLTSTRMFLKVRESNTTECDSKIIGTAVKNNLAIHSDLSYWIESRLNDTWKLERAVLGEVKSCTWPETHTLWGDGILESDLIIPVTLAGPRSNHNRRPGYKTQNQGPWDEGRVEIDFDYCPGTTVTLSESCGHRGPATRTTTESGKLITDWCCRSCTLPPLRYQTDSGCWYGMEIRPQRHDEKTLVQSQVNA 352
                                     9        19        29        39        49        59        69        79        89        99       109|      134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344        
                                                                                                                                       109|                                                                                                                                                                                                                                   
                                                                                                                                        125                                                                                                                                                                                                                                   


Chain C from PDB  Type:PROTEIN  Length:338
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee....eeeeeeeeeee.........eeeee.hhhhhhhhhhhhhhhh..eee..hhhhhhhhhhhhhhhhhhhhhh...eeeee.........................eeeee........hhh.eee..eeeeeee.....eeeeeee.............eeeee..eeeee...eeeeeee...eeeeeeee........hhhhh......hhhhh..hhhhh..................hhhhh.eeeee......eeee......................eeee.......eeeee..eeee...eee............... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o6c C   0 ADTGCAIDISRQELRCGSGVFIHNDVEAWMDRYKYYPETPQGLAKIIQKAHKEGVCGLRSVSRLEHQMWEAVKDELNTLLKENGVDLSVVVEKQEGMYKSAPKRLTATTEAPELANNTFVVDGPETKECPTQNRAWNSLEVEDFGFGLTSTRMFLKVRESNTTECDSKIIGTAVKNNLAIHSDLSYWIESRLNDTWKLERAVLGEVKSCTWPETHTLWGDGILESDLIIPVTLAGPRSNHNRRPGYKTQNQGPWDEGRVEIDFDYCPGTTVTLSESCGHRGPATRTTTESGKLITDWCCRSCTLPPLRYQTDSGCWYGMEIRPQRHDEKTLVQSQVNA 352
                                     9        19        29        39        49        59        69        79        89        99       109|      134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344        
                                                                                                                                       109|                                                                                                                                                                                                                                   
                                                                                                                                        125                                                                                                                                                                                                                                   


Chain D from PDB  Type:PROTEIN  Length:338
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee....eeeeeeeeeee.........eeeee.hhhhhhhhhhhhhhh...ee...hhhhhhhhhhhhhhhhhhhhhhh..eeeee.........................eeeee........hhh.ee...eeeeeee.....eeeeeee.............eeeee..eeeee...eeeeeee...eeeeeeee........hhhhh......hhhhh..hhhhh..................hhhhh.eeeee......eeee......................eeee.......eeeee..eeee...eee............... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o6c D   0 ADTGCAIDISRQELRCGSGVFIHNDVEAWMDRYKYYPETPQGLAKIIQKAHKEGVCGLRSVSRLEHQMWEAVKDELNTLLKENGVDLSVVVEKQEGMYKSAPKRLTATTEAPELANNTFVVDGPETKECPTQNRAWNSLEVEDFGFGLTSTRMFLKVRESNTTECDSKIIGTAVKNNLAIHSDLSYWIESRLNDTWKLERAVLGEVKSCTWPETHTLWGDGILESDLIIPVTLAGPRSNHNRRPGYKTQNQGPWDEGRVEIDFDYCPGTTVTLSESCGHRGPATRTTTESGKLITDWCCRSCTLPPLRYQTDSGCWYGMEIRPQRHDEKTLVQSQVNA 352
                                     9        19        29        39        49        59        69        79        89        99       109|      134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344        
                                                                                                                                       109|                                                                                                                                                                                                                                   
                                                                                                                                        125                                                                                                                                                                                                                                   


Chain E from PDB  Type:PROTEIN  Length:338
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee....eeeeeeeeeee.........eeeee.hhhhhhhhhhhhhhhh..ee...hhhhhhhhhhhhhhhhhhhhhh...eeeee.........................eeeee........hhh.ee...eeeeeee.....eeeeeee.............eeeee..eeeee...eeeeeee...eeeeeeee........hhhhh......hhhhh..hhhhh..................hhhhh.eeeee......eeee......................eeee.......eeeee..eeee...eee............... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o6c E   0 ADTGCAIDISRQELRCGSGVFIHNDVEAWMDRYKYYPETPQGLAKIIQKAHKEGVCGLRSVSRLEHQMWEAVKDELNTLLKENGVDLSVVVEKQEGMYKSAPKRLTATTEAPELANNTFVVDGPETKECPTQNRAWNSLEVEDFGFGLTSTRMFLKVRESNTTECDSKIIGTAVKNNLAIHSDLSYWIESRLNDTWKLERAVLGEVKSCTWPETHTLWGDGILESDLIIPVTLAGPRSNHNRRPGYKTQNQGPWDEGRVEIDFDYCPGTTVTLSESCGHRGPATRTTTESGKLITDWCCRSCTLPPLRYQTDSGCWYGMEIRPQRHDEKTLVQSQVNA 352
                                     9        19        29        39        49        59        69        79        89        99       109|      134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344        
                                                                                                                                       109|                                                                                                                                                                                                                                   
                                                                                                                                        125                                                                                                                                                                                                                                   


Chain F from PDB  Type:PROTEIN  Length:338
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee....eeeeeeeeeee.........eeeee.hhhhhhhhhhhhhhh...ee...hhhhhhhhhhhhhhhhhhhhhhh..eeeee.........................eeeee........hhh.ee...eeeeeee.....eeeeeee.............eeeee..eeeee...eeeeeee...eeeeeeee........hhhhh......hhhhh..hhhhh..................hhhhh.eeeee......eeee......................eeee.......eeeee..eeee....ee............... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o6c F   0 ADTGCAIDISRQELRCGSGVFIHNDVEAWMDRYKYYPETPQGLAKIIQKAHKEGVCGLRSVSRLEHQMWEAVKDELNTLLKENGVDLSVVVEKQEGMYKSAPKRLTATTEAPELANNTFVVDGPETKECPTQNRAWNSLEVEDFGFGLTSTRMFLKVRESNTTECDSKIIGTAVKNNLAIHSDLSYWIESRLNDTWKLERAVLGEVKSCTWPETHTLWGDGILESDLIIPVTLAGPRSNHNRRPGYKTQNQGPWDEGRVEIDFDYCPGTTVTLSESCGHRGPATRTTTESGKLITDWCCRSCTLPPLRYQTDSGCWYGMEIRPQRHDEKTLVQSQVNA 352
                                     9        19        29        39        49        59        69        79        89        99       109|      134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344        
                                                                                                                                       109|                                                                                                                                                                                                                                   
                                                                                                                                        125
   Legend:   → Mismatch (orange background)
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    → 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 4O6C)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4O6C)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4O6C)

(-) Gene Ontology  (45, 90)

Asymmetric Unit(hide GO term definitions)

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  4o6c
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  U3N977_WNV | U3N977
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 Related Entries

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

UniProtKB/Swiss-Prot
        Q9Q6P4_WNV | Q9Q6P4: 2of6 3ixx
        U3N977_WNV | U3N977: 4o6d 4oie 4oii
UniProtKB/TrEMBL
        Q9Q6P4_WNV | Q9Q6P4: 2oy0 3i50 3iyw 3j0b 3lkz 4o6d 4oie 4oii

(-) Related Entries Specified in the PDB File

4o6b 4o6d