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(-) Description

Title :  DENGUE VIRUS NON-STRUCTURAL PROTEIN NS1
 
Authors :  M. A. Edeling, D. H. Fremont, Center For Structural Genomics Of In Diseases (Csgid)
Date :  19 Jan 14  (Deposition) - 05 Mar 14  (Release) - 23 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.69
Chains :  Asym. Unit :  A,B,D,E
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  D,E  (1x)
Keywords :  Dengue Virus, Non-Structural Protein, Ns1, Flavivirus Viral Protein, Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Edeling, M. S. Diamond, D. H. Fremont
Structural Basis Of Flavivirus Ns1 Assembly And Antibody Recognition.
Proc. Natl. Acad. Sci. Usa V. 111 4285 2014
PubMed-ID: 24594604  |  Reference-DOI: 10.1073/PNAS.1322036111

(-) Compounds

Molecule 1 - NON-STRUCTURAL PROTEIN 1, NS1
    Chains: A, B, D, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21(A)+
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 947-1127
    Gene: NS1
    Organism Common: DENV-1
    Organism Scientific: DENGUE VIRUS 1
    Organism Taxid: 11059
    Strain: NAURU/WEST PAC/1974

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABDE
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   DE

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 34)

Asymmetric Unit (2, 34)
No.NameCountTypeFull Name
1MSE20Mod. Amino AcidSELENOMETHIONINE
2SO414Ligand/IonSULFATE ION
Biological Unit 1 (2, 18)
No.NameCountTypeFull Name
1MSE10Mod. Amino AcidSELENOMETHIONINE
2SO48Ligand/IonSULFATE ION
Biological Unit 2 (2, 16)
No.NameCountTypeFull Name
1MSE10Mod. Amino AcidSELENOMETHIONINE
2SO46Ligand/IonSULFATE ION

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETRP A:232 , ASN A:234 , LYS B:227 , ASN E:293BINDING SITE FOR RESIDUE SO4 A 401
02AC2SOFTWAREASN A:234 , GLY A:235 , HOH A:522 , HOH A:524 , ASN B:234 , GLY B:235BINDING SITE FOR RESIDUE SO4 A 402
03AC3SOFTWARELYS A:206 , TRP A:210 , HOH A:528 , HIS B:181 , PRO B:226 , SER B:228 , HIS B:229BINDING SITE FOR RESIDUE SO4 A 403
04AC4SOFTWAREHIS A:181 , SER A:228 , HIS A:229 , LYS B:206 , TRP B:210BINDING SITE FOR RESIDUE SO4 A 404
05AC5SOFTWAREASN A:293 , HOH A:530 , LYS D:227 , TRP E:232 , ASN E:234BINDING SITE FOR RESIDUE SO4 A 405
06AC6SOFTWAREILE A:308 , HIS A:309 , GLU A:310 , LYS A:339 , GLU A:340 , HOH A:513BINDING SITE FOR RESIDUE SO4 A 406
07AC7SOFTWAREILE B:308 , HIS B:309 , GLU B:310 , LYS B:339 , HOH B:528 , HOH B:532 , HIS D:290BINDING SITE FOR RESIDUE SO4 B 401
08AC8SOFTWARELYS A:227 , TRP B:232 , ASN B:234BINDING SITE FOR RESIDUE SO4 B 402
09AC9SOFTWAREASN D:234 , GLY D:235 , HOH D:518 , ASN E:234 , GLY E:235 , HOH E:508BINDING SITE FOR RESIDUE SO4 D 401
10BC1SOFTWARETRP D:232 , ASN D:234 , LYS E:227BINDING SITE FOR RESIDUE SO4 D 402
11BC2SOFTWAREHIS B:290 , ILE D:308 , HIS D:309 , GLU D:310 , LYS D:339 , GLU D:340 , HOH D:515BINDING SITE FOR RESIDUE SO4 D 403
12BC3SOFTWARELYS D:206 , TRP D:210 , HOH D:517 , HIS E:181 , SER E:228 , HIS E:229BINDING SITE FOR RESIDUE SO4 D 404
13BC4SOFTWAREHIS D:181 , SER D:228 , HIS D:229 , LYS E:206 , TRP E:210BINDING SITE FOR RESIDUE SO4 E 401
14BC5SOFTWARELYS E:306 , ILE E:308 , HIS E:309 , GLU E:310 , LYS E:339 , HOH E:506BINDING SITE FOR RESIDUE SO4 E 402

(-) SS Bonds  (16, 16)

Asymmetric Unit
No.Residues
1A:179 -A:223
2A:280 -A:329
3A:291 -A:312
4A:313 -A:316
5B:179 -B:223
6B:280 -B:329
7B:291 -B:312
8B:313 -B:316
9D:179 -D:223
10D:280 -D:329
11D:291 -D:312
12D:313 -D:316
13E:179 -E:223
14E:280 -E:329
15E:291 -E:312
16E:313 -E:316

(-) Cis Peptide Bonds  (4, 4)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4OIG)

(-) 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:175
                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeee..eeeee...eeeeeee...eeeeeeee........hhhhh......hhhhh..hhhhh...hhhhh..........hhhhh.eeeee......eeee..........ee..........eeee.......eeee....eee....ee............... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4oig A 178 VCDHRLmSAAIKDSKAVHADmGYWIESEKNETWKLARASFIEVKTCIWPKSHTLWSNGVLESEmIIPKIYGGPISQHNYRPGYFTQTAGPWHLGKLELDFDLCEGTTVVVDEHCGNRGPSLRTTTVTGKTIHEWCCRSCTLPPLRFKGEDGCWYGmEIRPVKEKEENLVKSmVSA 352
                                  |187       197|      207       217       227       237   |   247       257       267       277       287       297       307       317       327     | 337       347 |   
                                  |           198-MSE                                    241-MSE                                                                                     333-MSE         349-MSE
                                184-MSE                                                                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:175
                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhheeeee..eeeee...eeeeeee...eeeeeeee........hhhhh......hhhhh..hhhhh...hhhhh..........hhhhh.eeeee......eeee......................eeee.......eeee....eee...eee............... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4oig B 178 VCDHRLmSAAIKDSKAVHADmGYWIESEKNETWKLARASFIEVKTCIWPKSHTLWSNGVLESEmIIPKIYGGPISQHNYRPGYFTQTAGPWHLGKLELDFDLCEGTTVVVDEHCGNRGPSLRTTTVTGKTIHEWCCRSCTLPPLRFKGEDGCWYGmEIRPVKEKEENLVKSmVSA 352
                                  |187       197|      207       217       227       237   |   247       257       267       277       287       297       307       317       327     | 337       347 |   
                                184-MSE       198-MSE                                    241-MSE                                                                                     333-MSE         349-MSE


Chain D from PDB  Type:PROTEIN  Length:175
                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhheeeee..eeeee...eeeeeee...eeeeeeee........hhhhh......hhhhh..hhhhh...hhhhh..........hhhhh.eeeee......eeee..........ee..........eeee.......eeee....eee...eee............... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4oig D 178 VCDHRLmSAAIKDSKAVHADmGYWIESEKNETWKLARASFIEVKTCIWPKSHTLWSNGVLESEmIIPKIYGGPISQHNYRPGYFTQTAGPWHLGKLELDFDLCEGTTVVVDEHCGNRGPSLRTTTVTGKTIHEWCCRSCTLPPLRFKGEDGCWYGmEIRPVKEKEENLVKSmVSA 352
                                  |187       197|      207       217       227       237   |   247       257       267       277       287       297       307       317       327     | 337       347 |   
                                184-MSE       198-MSE                                    241-MSE                                                                                     333-MSE         349-MSE


Chain E from PDB  Type:PROTEIN  Length:175
                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhheeeee..eeeee...eeeeeee...eeeeeeee........hhhhh......hhhhh..hhhhh...hhhhh..........hhhhh.eeeee......eeee..........ee..........eeee.......eeee....eee...eee............... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4oig E 178 VCDHRLmSAAIKDSKAVHADmGYWIESEKNETWKLARASFIEVKTCIWPKSHTLWSNGVLESEmIIPKIYGGPISQHNYRPGYFTQTAGPWHLGKLELDFDLCEGTTVVVDEHCGNRGPSLRTTTVTGKTIHEWCCRSCTLPPLRFKGEDGCWYGmEIRPVKEKEENLVKSmVSA 352
                                  |187       197|      207       217       227       237   |   247       257       267       277       287       297       307       317       327     | 337       347 |   
                                184-MSE       198-MSE                                    241-MSE                                                                                     333-MSE         349-MSE
   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  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (64, 64)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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        POLG_DEN1W | P17763: 3l6p 3lkw 4al8 4ffz 4gsx 4gt0 4lcy 5vic

(-) Related Entries Specified in the PDB File

4oie
4oii RELATED ID: CSGID-IDP00269 RELATED DB: TARGETTRACK