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(-) Description

Title :  CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF CLPB
 
Authors :  A. B. Biter, S. Lee, N. Sung, F. T. F. Tsai
Date :  25 May 12  (Deposition) - 18 Jul 12  (Release) - 22 Aug 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  D  (1x)
Keywords :  Aaa Domain, Chaperone (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. B. Biter, S. Lee, N. Sung, F. T. Tsai
Structural Basis For Intersubunit Signaling In A Protein Disaggregating Machine.
Proc. Natl. Acad. Sci. Usa V. 109 12515 2012
PubMed-ID: 22802670  |  Reference-DOI: 10.1073/PNAS.1207040109

(-) Compounds

Molecule 1 - CHAPERONE PROTEIN CLPB
    ChainsA, B, D
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET24
    Expression System StrainBL21(DE3)RIL CODONPLUS
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentUNP RESIDUES 545-852
    GeneCLPB, TTHA1487
    MutationYES
    Organism ScientificTHERMUS THERMOPHILUS
    Organism Taxid300852
    StrainHB8 / ATCC 27634 / DSM 579

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit ABD
Biological Unit 1 (1x)A  
Biological Unit 2 (1x) B 
Biological Unit 3 (1x)  D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1ADP3Ligand/IonADENOSINE-5'-DIPHOSPHATE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:559 , VAL A:560 , VAL A:561 , THR A:597 , GLY A:598 , VAL A:599 , GLY A:600 , LYS A:601 , THR A:602 , GLU A:603 , GLN A:769 , ALA A:805 , ARG A:806BINDING SITE FOR RESIDUE ADP A 901
2AC2SOFTWAREARG B:559 , VAL B:561 , THR B:597 , GLY B:598 , VAL B:599 , GLY B:600 , LYS B:601 , THR B:602 , GLU B:603 , ILE B:765 , GLN B:769 , ALA B:805BINDING SITE FOR RESIDUE ADP B 901
3AC3SOFTWAREARG D:559 , VAL D:560 , VAL D:561 , THR D:597 , GLY D:598 , VAL D:599 , GLY D:600 , THR D:602 , GLU D:603 , ILE D:765 , GLN D:769 , ARG D:806BINDING SITE FOR RESIDUE ADP D 901

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4FD2)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Pro A:640 -Pro A:641
2Pro B:640 -Pro B:641
3Pro D:640 -Pro D:641

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4FD2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4FD2)

(-) Exons   (0, 0)

(no "Exon" information available for 4FD2)

(-) 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:308
                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh..........eeeeee.....hhhhhhhhhhhhhhh....eeeee.....hhhhhhhhh............hhhhhhhhhh...eeeeehhhhhhhhhhhhhhhhhhh.eee.....eee....eeeee...hhhhhhhhhh......hhhhhhhhhhh...hhhhhh...eeee....hhhhhhhhhhhhhhhhhhhhhh...eee.hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh.......eeeee......eee..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fd2 A 545 EREKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILAGEVKEGDRVQVDVGPAGLVFAVPARV 852
                                   554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844        

Chain B from PDB  Type:PROTEIN  Length:308
                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh.......eeeeee.....hhhhhhhhhhhhhhh....eeeee.hhh....hhhhhh............hhhhhhhhhh...eeeeehhhhhhhhhhhhhhhhhhh.eee.....eee....eeeee...hhhhhhhhh......hhhhhhhhhhhh...hhhhhh...eeee......hhhhhhhhhhhhhhhhhhhh...eee.hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh.......eeeee......eee..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fd2 B 545 EREKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILAGEVKEGDRVQVDVGPAGLVFAVPARV 852
                                   554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844        

Chain D from PDB  Type:PROTEIN  Length:308
                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh....hhhhhhhhhhhhhhhh..........eeeeee.....hhhhhhhhhhhhhhh....eeeee.hhh.hhhhhhhhh............hhhhhhhhhh...eeeeehhhhhhhhhhhhhhhhhhh.eee.....eee....eeeee...hhhhh..........hhhhhhhhhhhh...hhhhhh...eeee......hhhhhhhhhhhhhhhhhhhh...eee.hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh.......eeeee......eee..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fd2 D 545 EREKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILAGEVKEGDRVQVDVGPAGLVFAVPARV 852
                                   554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844        

   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 4FD2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4FD2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4FD2)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        CLPB_THET8 | Q9RA631qvr 4fct 4fcv 4fcw 4hse 4lj4 4lj5 4lj6 4lj7 4lj8 4lj9 4lja

(-) Related Entries Specified in the PDB File

4fct 4fcv 4fcw