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(-) Description

Title :  CRYSTAL STRUCTURE OF PB9: THE DIT OF BACTERIOPHAGE T5.
 
Authors :  A. Flayhan, F. M. D. Vellieux, E. Girard, O. Maury, P. Boulanger, C. Brey
Date :  14 Mar 13  (Deposition) - 06 Nov 13  (Release) - 12 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Viral Protein, Distal Tail Protein, E. Coli Infecting T5 Bacteriophage, Siphoviridae Family (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Flayhan, F. M. Vellieux, R. Lurz, O. Maury, C. Contreras-Martel, E. Girard, P. Boulanger, C. Breyton
Crystal Structure Of Pb9, The Distal Tail Protein Of Bacteriophage T5: A Conserved Structural Motif Among All Siphophages.
J. Virol. V. 88 820 2014
PubMed-ID: 24155371  |  Reference-DOI: 10.1128/JVI.02135-13

(-) Compounds

Molecule 1 - BACTERIOPHAGE T5 DISTAL TAIL PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PLIM13
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: T5.139, T5P135
    Organism Scientific: ENTEROBACTERIA PHAGE T5
    Organism Taxid: 10726
    Synonym: TAIL PROTEIN PB9

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4JMQ)

(-) Sites  (0, 0)

(no "Site" information available for 4JMQ)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4JMQ)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Tyr A:153 -Pro A:154
2Tyr B:153 -Pro B:154
3Pro C:27 -Met C:28
4Tyr C:153 -Pro C:154
5Tyr C:208 -Phe C:209
6Tyr D:153 -Pro D:154

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4JMQ)

(-) 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:190
                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........hhhhh..eeeeeee......eeeeeee....hhhhhhhhhhhhhhhhhhh..eeee.hhhh...eee.hhhh.........eeeee....eee......eeee.....eeeeeeeeee..eeeeeee............ee....eeeeee.hhhhh.............eeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jmq A   1 MRLPDPYTNPEYPGLGFESVNLVDNDPISAQYWGINISYPELFPDEYAFLDSRLLEYKRTGDYLDVLLPQYEAFRVRGDTKSVTIPAGQKGSQIILNTNGTLTGQPKAGDLFKLSTHPKVYKITNFSSSGNVWNISLYPDLFITTTGSEKPVFNGILFRTKLMNGDSFGSTLNNNGTYSGISLSLRESLE 205
                                    10        20      ||45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205
                                                     27|                                                                                                                                                                  
                                                      43                                                                                                                                                                  


Chain B from PDB  Type:PROTEIN  Length:189
                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........hhhhh..eeeeeee.....eeeeeee....hhhhhhhhhhhhhhhhhhh..eeee.hhhh....ee..............eeeee....ee.......eeee.....eeeeeeeeee..eeeeeee............ee....eeeeee.hhhhh.............eeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jmq B   1 MRLPDPYTNPEYPGLGFESVNLVDNDISAQYWGINISYPELFPDEYAFLDSRLLEYKRTGDYLDVLLPQYEAFRVRGDTKSVTIPAGQKGSQIILNTNGTLTGQPKAGDLFKLSTHPKVYKITNFSSSGNVWNISLYPDLFITTTGSEKPVFNGILFRTKLMNGDSFGSTLNNNGTYSGISLSLRESLE 205
                                    10        20     || 46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196         
                                                    26|                                                                                                                                                                  
                                                     43                                                                                                                                                                  


Chain C from PDB  Type:PROTEIN  Length:201
                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........hhhhh..eeeeeee.....eeeeeee....hhhhhhhhhhhhhhhhhhh..eeee.hhhh...ee...............eeeee.....ee......eeee.....eeeeeeeeee..eeeeeee............ee....eeeeee...................eeeeee............... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jmq C   1 MRLPDPYTNPEYPGLGFESVNLVDNDPMAQYWGINISYPELFPDEYAFLDSRLLEYKRTGDYLDVLLPQYEAFRVRGDTKSVTIPAGQKGSQIILNTNGTLTGQPKAGDLFKLSTHPKVYKITNFSSSGNVWNISLYPDLFITTTGSEKPVFNGILFRTKLMNGDSFGSTLNNNGTYSGISLSLRESLENLYFQGHHHHHH 217
                                    10        20       |46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216 
                                                      28|                                                                                                                                                                            
                                                       45                                                                                                                                                                            


Chain D from PDB  Type:PROTEIN  Length:189
                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........hhhhh..eeeeeee.....eeeeeee....hhhhhhhhhhhhhhhhhhh..eeee.hhhh....................eeeee.............eeee.....eeeeeeeeee..eeeeeee............ee....eeeeee...................eeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jmq D   1 MRLPDPYTNPEYPGLGFESVNLVDNDISAQYWGINISYPELFPDEYAFLDSRLLEYKRTGDYLDVLLPQYEAFRVRGDTKSVTIPAGQKGSQIILNTNGTLTGQPKAGDLFKLSTHPKVYKITNFSSSGNVWNISLYPDLFITTTGSEKPVFNGILFRTKLMNGDSFGSTLNNNGTYSGISLSLRESLE 205
                                    10        20     || 46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196         
                                                    26|                                                                                                                                                                  
                                                     43
   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 4JMQ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

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  Cis Peptide Bonds
    Pro C:27 - Met C:28   [ RasMol ]  
    Tyr A:153 - Pro A:154   [ RasMol ]  
    Tyr B:153 - Pro B:154   [ RasMol ]  
    Tyr C:153 - Pro C:154   [ RasMol ]  
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