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(-) Description

Title :  CRYSTAL STRUCTURE OF RUBELLA VIRUS CAPSID PROTEIN (RESIDUES 127-277)
 
Authors :  V. Mangala Prasad, A. Fokine, M. G. Rossmann
Date :  28 Sep 12  (Deposition) - 11 Dec 13  (Release) - 25 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.24
Chains :  Asym. Unit :  A,B,C,D,E
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (2x)
Biol. Unit 3:  C  (2x)
Biol. Unit 4:  D  (2x)
Biol. Unit 5:  E  (2x)
Keywords :  Partial Beta Barrel, Capsid Protein, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Mangala Prasad, S. D. Willows, A. Fokine, A. J. Battisti, S. Sun, P. Plevka, T. C. Hobman, M. G. Rossmann
Rubella Virus Capsid Protein Structure And Its Role In Viru Assembly And Infection.
Proc. Natl. Acad. Sci. Usa V. 110 20105 2013
PubMed-ID: 24282305  |  Reference-DOI: 10.1073/PNAS.1316681110

(-) Compounds

Molecule 1 - CAPSID PROTEIN
    Chains: A, B, C, D, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX-KG
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL DOMAIN
    Gene: CAPSID
    Organism Common: RUBV
    Organism Scientific: RUBELLA VIRUS
    Organism Taxid: 11043
    Strain: M33

 Structural Features

(-) Chains, Units

  12345
Asymmetric Unit : ABCDE
Biological Unit 1 (2x): A    
Biological Unit 2 (2x):  B   
Biological Unit 3 (2x):   C  
Biological Unit 4 (2x):    D 
Biological Unit 5 (2x):     E

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 8)

Asymmetric Unit (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (1, 4)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 4 (1, 4)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 5 (1, 2)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 4HBO)

(-) SS Bonds  (3, 3)

Asymmetric Unit
No.Residues
1B:27 -B:71
2D:27 -D:71
3E:27 -E:71

(-) Cis Peptide Bonds  (5, 5)

Asymmetric Unit
No.Residues
1Gly A:97 -Glu A:98
2Gly B:97 -Glu B:98
3Gly C:97 -Glu C:98
4Gly D:72 -Pro D:73
5Gly D:97 -Glu D:98

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4HBO)

(-) 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:79
                                                                                                               
               SCOP domains ------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...........eeeeee..........hhhhhh..........eeeee..eeeee...ee..ee...eee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------- Transcript
                 4hbo A  25 EACVTSWLWSEGEGAVFYRVDLHFTmYNPCGPEPPAHVVRAYNQPAGDVRGVWGKGERTYAEQDFRVGGTRWHRLLRmP 120
                                    34        44    ||  71        81        91       101       111       | 
                                                   49|                                                 119-MSE
                                                    67-MSE                                                 


Chain B from PDB  Type:PROTEIN  Length:76
                                                                                                            
               SCOP domains ---------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee......eeeee...........................eeee....eeeeeeeee..eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------- Transcript
                 4hbo B  26 ACVTSWLWSEGEGAVFYRVDLHFYNPCGPEPPAHVVRAYNQPAGDVRGVWGKGERTYAEQDFRVGGTRWHRLLRmP 120
                                    35        45  ||    74        84        94       104       114    | 
                                                 48|                                                119-MSE
                                                  68                                                    


Chain C from PDB  Type:PROTEIN  Length:82
                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.ee......eeeeeee.............hhhhhhhhhh......eeee....eeee........ee..eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------- Transcript
                 4hbo C  25 EACVTSWLWSEGEGAVFYRVDLHFTNLLmYNPCGPEPPAHVVRAYNQPAGDVRGVWGKGERTYAEQDFRVGGTRWHRLLRmP 120
                                    34        44      ||68        78        88        98       108       118| 
                                                     51||                                                 119-MSE
                                                      66|                                                     
                                                       67-MSE                                                 


Chain D from PDB  Type:PROTEIN  Length:81
                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee......eeeeeee................hhhhhhh........ee......eeeeeeee..eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------- Transcript
                 4hbo D  26 ACVTSWLWSEGEGAVFYRVDLHFTNLLmYNPCGPEPPAHVVRAYNQPAGDVRGVWGKGERTYAEQDFRVGGTRWHRLLRmP 120
                                    35        45     |||69        79        89        99       109       119 
                                                    51||                                                 119-MSE
                                                     66|                                                     
                                                      67-MSE                                                 


Chain E from PDB  Type:PROTEIN  Length:81
                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee.......eeeeeeeee..........hhhhhhhhh..........ee..eeeeeeeeee..eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------- Transcript
                 4hbo E  24 TEACVTSWLWSEGEGAVFYRVDLHFTNLYNPCGPEPPAHVVRAYNQPAGDVRGVWGKGERTYAEQDFRVGGTRWHRLLRmP 120
                                    33        43       |69        79        89        99       109       119 
                                                      51|                                                119-MSE
                                                       68
   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 4HBO)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (22, 24)

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  Cis Peptide Bonds
    Gly A:97 - Glu A:98   [ RasMol ]  
    Gly B:97 - Glu B:98   [ RasMol ]  
    Gly C:97 - Glu C:98   [ RasMol ]  
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 Related Entries

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

UniProtKB/Swiss-Prot
        POLS_RUBVM | P08563: 4adg 4adi 4adj 4b3v 4har 4hbe 5khc
        Q8QL55_RUBV | Q8QL55: 4har 4hbe

(-) Related Entries Specified in the PDB File

4har 4hbe