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(-) Description

Title :  STRUCTURE OF NS2B-NS3 PROTEASE FROM ZIKA VIRUS CAUGHT AFTER SELF-CLEAVAGE
 
Authors :  W. W. Phoo, Y. Li
Date :  27 Jun 16  (Deposition) - 26 Oct 16  (Release) - 07 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.84
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B,E,F  (1x)
Biol. Unit 2:  C,D,G,H  (1x)
Keywords :  Zika Virus Protease, Antiviral Drug Discovery, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. W. Phoo, Y. Li, Z. Zhang, M. Y. Lee, Y. R. Loh, Y. B. Tan, E. Y. Ng, J. Lescar, C. Kang, D. Luo
Structure Of The Ns2B-Ns3 Protease From Zika Virus After Self-Cleavage.
Nat Commun V. 7 13410 2016
PubMed-ID: 27845325  |  Reference-DOI: 10.1038/NCOMMS13410

(-) Compounds

Molecule 1 - SERINE PROTEASE SUBUNIT NS2B
    Chains: A, C, E, G
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 1411-1462,UNP RESIDUES 1492-1496
    Organism Common: ZIKV
    Organism Scientific: ZIKA VIRUS (STRAIN MR 766)
    Organism Taxid: 64320
    Strain: MR 766
 
Molecule 2 - SERINE PROTEASE NS3
    Chains: B, D, F, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 1497-1673
    Organism Common: ZIKV
    Organism Scientific: ZIKA VIRUS (STRAIN MR 766)
    Organism Taxid: 64320
    Strain: MR 766

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): AB  EF  
Biological Unit 2 (1x):   CD  GH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG B:105 , ALA B:106 , HOH E:219 , ALA F:106binding site for residue CL B 2001
2AC2SOFTWAREHOH C:213 , ARG D:105 , ALA D:106 , ALA H:106binding site for residue CL D 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5GJ4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5GJ4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5GJ4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5GJ4)

(-) Exons   (0, 0)

(no "Exon" information available for 5GJ4)

(-) 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:43
                                                                           
               SCOP domains ------------------------------------------- SCOP domains
               CATH domains ------------------------------------------- CATH domains
               Pfam domains ------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee........ee.....eeeeee.....eee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------- PROSITE
                 Transcript ------------------------------------------- Transcript
                 5gj4 A  49 VDMYIERAGDITWEKDAEVTGNSPRLDVALDESGDFSLVTGKR 130
                                    58        68        78       127   
                                                                 87|   
                                                                 127   


Chain B from PDB  Type:PROTEIN  Length:153
                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee....eeeeeeeeee..eeeehhhhhh............eeeee....eeee...............eeeee.......eeeee..eeeee..eeeeee...........eee.....eeee...eee.....eeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gj4 B  19 TDGVYRVMTRRLLGSTQVGVGVMQEGVFHTMWHVTKGAALRSGEGRLDPYWGDVKQDLVSYCGPWKLDAAWDGLSEVQLLAVPPGERAKNIQTLPGIFKTKDGDIGAVALDYPAGTSGSPILDKCGRVIGLYGNGVVIKNGSYVSAITQGKRE 171
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168   


Chain C from PDB  Type:PROTEIN  Length:43
                                                                           
               SCOP domains ------------------------------------------- SCOP domains
               CATH domains ------------------------------------------- CATH domains
               Pfam domains ------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee........ee.....eeeeee.....eee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------- PROSITE
                 Transcript ------------------------------------------- Transcript
                 5gj4 C  49 VDMYIERAGDITWEKDAEVTGNSPRLDVALDESGDFSLVTGKR 130
                                    58        68        78       127   
                                                                 87|   
                                                                 127   


Chain D from PDB  Type:PROTEIN  Length:152
                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee....eeeeeeeeee..eeeehhhhhh............eeeee....eeee...............eeeee.......eeeee..eeeee..eeeeee...........eee.....eeee...eee.....eeee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gj4 D  19 TDGVYRVMTRRLLGSTQVGVGVMQEGVFHTMWHVTKGAALRSGEGRLDPYWGDVKQDLVSYCGPWKLDAAWDGLSEVQLLAVPPGERAKNIQTLPGIFKTKDGDIGAVALDYPAGTSGSPILDKCGRVIGLYGNGVVIKNGSYVSAITQGKR 170
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168  


Chain E from PDB  Type:PROTEIN  Length:43
                                                                           
               SCOP domains ------------------------------------------- SCOP domains
               CATH domains ------------------------------------------- CATH domains
               Pfam domains ------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee........ee.....eeeeee.....eee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------- PROSITE
                 Transcript ------------------------------------------- Transcript
                 5gj4 E  49 VDMYIERAGDITWEKDAEVTGNSPRLDVALDESGDFSLVTGKR 130
                                    58        68        78       127   
                                                                 87|   
                                                                 127   


Chain F from PDB  Type:PROTEIN  Length:152
                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeee..eeeeeeeeeee..eeeehhhhhh............eeeee....eeee...............eeeee.......eeeee..eeeee..eeeeee...........eee.....eeee...eee.....eeee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gj4 F  19 TDGVYRVMTRRLLGSTQVGVGVMQEGVFHTMWHVTKGAALRSGEGRLDPYWGDVKQDLVSYCGPWKLDAAWDGLSEVQLLAVPPGERAKNIQTLPGIFKTKDGDIGAVALDYPAGTSGSPILDKCGRVIGLYGNGVVIKNGSYVSAITQGKR 170
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168  


Chain G from PDB  Type:PROTEIN  Length:43
                                                                           
               SCOP domains ------------------------------------------- SCOP domains
               CATH domains ------------------------------------------- CATH domains
               Pfam domains ------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee........ee.....eeeeee.....eee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------- PROSITE
                 Transcript ------------------------------------------- Transcript
                 5gj4 G  49 VDMYIERAGDITWEKDAEVTGNSPRLDVALDESGDFSLVTGKR 130
                                    58        68        78       127   
                                                                 87|   
                                                                 127   


Chain H from PDB  Type:PROTEIN  Length:153
                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeee..eeeeeeeeeee..eeeehhhhhh............eeeee....eeee...............eeeee.......eeeee..eeeee..eeeeee...........eee.....eeee...eee.....eeee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gj4 H  19 TDGVYRVMTRRLLGSTQVGVGVMQEGVFHTMWHVTKGAALRSGEGRLDPYWGDVKQDLVSYCGPWKLDAAWDGLSEVQLLAVPPGERAKNIQTLPGIFKTKDGDIGAVALDYPAGTSGSPILDKCGRVIGLYGNGVVIKNGSYVSAITQGKRE 171
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168
   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 5GJ4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5GJ4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5GJ4)

(-) Gene Ontology  (58, 58)

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        POLG_ZIKV | Q32ZE1: 5gpi 5jps 5jrz 5k6k 5t1v 5tfr 5tmh 5u04 5u0b 5u0c

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