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(-) Description

Title :  TRIM5 B-BOX2 AND COILED-COIL CHIMERA
 
Authors :  J. M. Wagner, G. Doss, O. Pornillos
Date :  08 Dec 15  (Deposition) - 15 Jun 16  (Release) - 15 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.29
Chains :  Asym. Unit :  E,F,H,L
Biol. Unit 1:  E  (1x)
Biol. Unit 2:  F  (1x)
Biol. Unit 3:  H  (1x)
Biol. Unit 4:  L  (1x)
Keywords :  Tripartite Motif, Hiv, Viral Restriction, Trim, E3 Ligase, Self- Assembly, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. M. Wagner, M. D. Roganowicz, K. Skorupka, S. L. Alam, D. E. Christensen, G. L. Doss, Y. Wan, G. A. Frank, B. K. Ganser-Pornillos, W. I. Sundquist, O. Pornillos
Mechanism Of B-Box 2 Domain-Mediated Higher-Order Assembly Of The Retroviral Restriction Factor Trim5 Alpha.
Elife V. 5 2016
PubMed-ID: 27253059  |  Reference-DOI: 10.7554/ELIFE.16309

(-) Compounds

Molecule 1 - TRIPARTITE MOTIF-CONTAINING PROTEIN 5,SERINE--TRNA LIGASE, TRIPARTITE MOTIF-CONTAINING PROTEIN 5
    Chains: E, F, H, L
    EC Number: 6.3.2.-, 6.1.1.11
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET30A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: TRIM5, SERS, TT_C0520
    Organism Common: RHESUS MACAQUE
    Organism Scientific: MACACA MULATTA, THERMUS THERMOPHILUS (STRAIN HB27 / ATCC BAA-163 / DSM 7039)
    Organism Taxid: 9544, 262724
    Strain: HB27 / ATCC BAA-163 / DSM 7039
    Synonym: TRIM5ALPHA,SERYL-TRNA SYNTHETASE,SERRS

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : EFHL
Biological Unit 1 (1x): E   
Biological Unit 2 (1x):  F  
Biological Unit 3 (1x):   H 
Biological Unit 4 (1x):    L

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 8)
No.NameCountTypeFull Name
1ZN8Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS E:108 , ASP E:111 , HIS E:125 , HIS E:128binding site for residue ZN E 701
2AC2SOFTWARECYS E:97 , HIS E:100 , CYS E:116 , CYS E:119binding site for residue ZN E 702
3AC3SOFTWARECYS F:108 , ASP F:111 , HIS F:125 , HIS F:128binding site for residue ZN F 701
4AC4SOFTWARECYS F:97 , HIS F:100 , CYS F:116 , CYS F:119binding site for residue ZN F 702
5AC5SOFTWARECYS H:108 , ASP H:111 , HIS H:125 , HIS H:128binding site for residue ZN H 701
6AC6SOFTWARECYS H:97 , HIS H:100 , CYS H:116 , CYS H:119binding site for residue ZN H 702
7AC7SOFTWARECYS L:108 , ASP L:111 , HIS L:125 , HIS L:128binding site for residue ZN L 701
8AC8SOFTWARECYS L:97 , HIS L:100 , CYS L:116 , CYS L:119binding site for residue ZN L 702

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5F7T)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5F7T)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5F7T)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5F7T)

(-) Exons   (0, 0)

(no "Exon" information available for 5F7T)

(-) 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 E from PDB  Type:PROTEIN  Length:134
                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eee....eeehhhhhhhhhhh...eeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5f7t E  95 DHCARHGEKLLLFCQEDSKVICWLCERSQEHRGHHTFLMEEVAQEYHVKLQTALEMLRQKQQEAETERNQVAKRVPKAPPEEKEALIARGKALGEQTQYMRELISELEHRLQGSMMDLLQGVDGIIKRIENMTL 228
                                   104       114       124       134       144       154       164       174       184       194       204       214       224    


Chain F from PDB  Type:PROTEIN  Length:132
                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eee....eeehhhhhhhhhhh...eeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5f7t F  95 DHCARHGEKLLLFCQEDSKVICWLCERSQEHRGHHTFLMEEVAQEYHVKLQTALEMLRQKQQEAETERNQVAKRVPKAPPEEKEALIARGKALGEQTQYMRELISELEHRLQGSMMDLLQGVDGIIKRIENM 226
                                   104       114       124       134       144       154       164       174       184       194       204       214       224  


Chain H from PDB  Type:PROTEIN  Length:133
                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eee....eeehhhhhhhhhhh...eeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5f7t H  95 DHCARHGEKLLLFCQEDSKVICWLCERSQEHRGHHTFLMEEVAQEYHVKLQTALEMLRQKQQEAETERNQVAKRVPKAPPEEKEALIARGKALGEQTQYMRELISELEHRLQGSMMDLLQGVDGIIKRIENMT 227
                                   104       114       124       134       144       154       164       174       184       194       204       214       224   


Chain L from PDB  Type:PROTEIN  Length:133
                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eee.....eehhhhhhhhhhh...eeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5f7t L  95 DHCARHGEKLLLFCQEDSKVICWLCERSQEHRGHHTFLMEEVAQEYHVKLQTALEMLRQKQQEAETERNQVAKRVPKAPPEEKEALIARGKALGEQTQYMRELISELEHRLQGSMMDLLQGVDGIIKRIENMT 227
                                   104       114       124       134       144       154       164       174       184       194       204       214       224
   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 5F7T)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5F7T)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5F7T)

(-) Gene Ontology  (43, 45)

Asymmetric Unit(hide GO term definitions)

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  5f7t
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  TRIM5_MACMU | Q0PF16
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 Related Entries

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

UniProtKB/Swiss-Prot
        SYS_THET2 | P34945: 1ser 1ses 1set 1sry 3err 5eiu 5iea
        TRIM5_MACMU | Q0PF16: 2lm3 3uv9 4b3n 4tkp 5eiu 5iea 5k3q

(-) Related Entries Specified in the PDB File

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