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(-) Description

Title :  OTU PROTEASE OF CRIMEAN CONGO HEMORRHAGIC FEVER VIRUS BOUND TO UBIQUITIN VARIANT CC.4
 
Authors :  B. Khare, B. L. Mark
Date :  14 Mar 17  (Deposition) - 10 May 17  (Release) - 07 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Ovarian Tumor Domain Protease, Deubiquitinase, Ubiquitin Variant, Hydrolase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. Zhang, B. A. Bailey-Elkin, R. C. M. Knaap, B. Khare, T. J. Dalebout, G. G. Johnson, P. B. Van Kasteren, N. J. Mcleish, J. Gu, W. He, M. Kikkert, B. L. Mark, S. S. Sidhu
Potent And Selective Inhibition Of Pathogenic Viruses By Engineered Ubiquitin Variants.
Plos Pathog. V. 13 06372 2017
PubMed-ID: 28542609  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1006372

(-) Compounds

Molecule 1 - RNA-DIRECTED RNA POLYMERASE L
    Chains: A, C
    EC Number: 3.4.19.12, 2.7.7.48
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Organism Common: CCHFV
    Organism Scientific: CRIMEAN-CONGO HEMORRHAGIC FEVER VIRUS (STRAIN NIGERIA/IBAR10200/1970)
    Organism Taxid: 652961
    Strain: NIGERIA/IBAR10200/1970
    Synonym: PROTEIN L,LARGE STRUCTURAL PROTEIN,REPLICASE,TRANSCRIPTASE
 
Molecule 2 - UBIQUITIN VARIANT CC.4
    Chains: B, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric Unit (3, 9)
No.NameCountTypeFull Name
1CSX2Mod. Amino AcidS-OXY CYSTEINE
2EDO4Ligand/Ion1,2-ETHANEDIOL
3NA3Ligand/IonSODIUM ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1CSX1Mod. Amino AcidS-OXY CYSTEINE
2EDO3Ligand/Ion1,2-ETHANEDIOL
3NA-1Ligand/IonSODIUM ION
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1CSX1Mod. Amino AcidS-OXY CYSTEINE
2EDO1Ligand/Ion1,2-ETHANEDIOL
3NA-1Ligand/IonSODIUM ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:92 , MET A:93 , GLU A:98 , TRP A:99 , SER A:101 , GLU A:104 , ARG B:72binding site for residue EDO A 201
2AC2SOFTWAREGLY A:-2 , GLY A:0 , MET A:1 , PHE D:4binding site for residue NA A 202
3AC3SOFTWAREHOH A:308 , LYS B:27 , LEU B:50 , ASP B:52binding site for residue EDO B 101
4AC4SOFTWAREASN B:60 , GLN B:62 , HOH B:222 , ALA C:79 , LEU C:84binding site for residue EDO B 102
5AC5SOFTWAREARG A:63 , TYR C:60 , ARG C:63binding site for residue NA C 201
6AC6SOFTWAREARG C:92 , MET C:93 , GLU C:98 , TRP C:99 , SER C:101 , GLU C:104 , ARG D:72binding site for residue EDO C 202
7AC7SOFTWAREGLY C:-2 , GLY C:0 , MET C:1 , PHE C:161binding site for residue NA C 203

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5V5G)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5V5G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5V5G)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5V5G)

(-) Exons   (0, 0)

(no "Exon" information available for 5V5G)

(-) 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:165
                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhh...eeee..eeee....hhhhheeee......hhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh......hhhhhhhhhhhhh..eeeeee.....eeeeeee........eeeeee...eeeeeee.hhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5v5g A  -2 GPGMDFLRSLDWTQVIAGQYVSNPRFNISDYFEIVRQPGDGNcFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEARLVGLSLEDYLKRMLSDNEWGSTLEASMLAKEMGITIIIWTVAASDEVEAGIKFGDGDVFTAVNLLHSGQTHFDALRILPQFE 162
                                     7        17        27        37  |     47        57        67        77        87        97       107       117       127       137       147       157     
                                                                     40-CSX                                                                                                                      


Chain B from PDB  Type:PROTEIN  Length:80
                                                                                                                
               SCOP domains -------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee....eeeeee....hhhhhhhhhhhhhh.hhh.eeeee..ee......hhhhh.....eeeeee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------- Transcript
                 5v5g B  -2 DDKMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKLSLLYLVWRLGVPW  77
                                     7        17        27        37        47        57        67        77


Chain C from PDB  Type:PROTEIN  Length:165
                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhh...eeee..eeee...eehhhheeee......hhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh.....hhhhhhhhhhhh...eeeeee....eeeeeeee........eeeeee...eeeeeee.hhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5v5g C  -2 GPGMDFLRSLDWTQVIAGQYVSNPRFNISDYFEIVRQPGDGNcFYHSIAELTMPNKTDHSYHYIKRLTESAARKYYQEEPEARLVGLSLEDYLKRMLSDNEWGSTLEASMLAKEMGITIIIWTVAASDEVEAGIKFGDGDVFTAVNLLHSGQTHFDALRILPQFE 162
                                     7        17        27        37  |     47        57        67        77        87        97       107       117       127       137       147       157     
                                                                     40-CSX                                                                                                                      


Chain D from PDB  Type:PROTEIN  Length:80
                                                                                                                
               SCOP domains -------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....eeeeee....hhhhhhhhhhhhhh.hhh.eeeee..ee................eeeeee....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------- Transcript
                 5v5g D  -1 DKMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKLSLLYLVWRLGVPWV  78
                                     8        18        28        38        48        58        68        78
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 5V5G)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5V5G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5V5G)

(-) Gene Ontology  (17, 17)

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 Related Entries

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

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        L_CCHFI | Q6TQR6: 3phu 3phw 3phx 3znh 5v5h 5v5i

(-) Related Entries Specified in the PDB File

5v5h 5v5i