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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 :  3.40
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (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
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET24
    Expression System Strain: BL21(DE3)RIL CODONPLUS
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 544-852
    Gene: CLPB, TTHA1487
    Mutation: YES
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 300852
    Strain: HB8 / ATCC 27634 / DSM 579

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 24)

Asymmetric Unit (2, 24)
No.NameCountTypeFull Name
1ADP3Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MSE21Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MSE7Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 8)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MSE7Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (2, 8)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MSE7Mod. Amino AcidSELENOMETHIONINE

(-) 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:603BINDING 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 , ALA B:805BINDING SITE FOR RESIDUE ADP B 901
3AC3SOFTWAREARG C:559 , VAL C:561 , THR C:597 , GLY C:598 , VAL C:599 , GLY C:600 , LYS C:601 , THR C:602 , GLU C:603 , ILE C:765BINDING SITE FOR RESIDUE ADP C 901

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4FCV)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4FCV)

(-) 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:311
                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh........eeeeee.....hhhhhhhhhhhhhhh....eeeee.hhh..hhhhhhhhh...........hhhhhhhhhh..eeeeeehhhhhhhhhhhhhhhhhhhheee.....eee...eeeeeee..hhhhhhhhhh.....hhhhhhhhhhhhhhh..hhhhhh.eeee....hhhhhhhhhhhhhhhhhhhhhh...eeeehhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh......eeeeee....eeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fcv A 542 mLGEREKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAmIRIDmTEYmEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQmLDDGRLTDSHGRTVDFRNTVIImTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQmSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILAGEVKEGDRVQVDVGPAGLVFAVPARV 852
                            |      551       561       571       581       591       601       611       621  |   |631       641       651       661       671       681 |     691       701    |  711       721       731       741       751       761       771       781       791       801       811       821       831       841       851 
                            |                                                                          619-MSE|   |                                                    683-MSE                706-MSE                                                         770-MSE                                                                              
                          542-MSE                                                                           624-MSE                                                                                                                                                                                                                                
                                                                                                                628-MSE                                                                                                                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:311
                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh........eeeeee.....hhhhhhhhhhhhhhh....eeeee.hhh...hhhhhhhh...........hhhhhhhhhh..eeeeeehhhhhhhhhhhhhhhhhhhheee.....eee...eeeeeee..hhhhhhhhhh.....hhhhhhhhhhhhhhh..hhhhhh.eeee....hhhhhhhhhhhhhhhhhhhhhh...eeeehhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh......eeeee......eee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fcv B 542 mLGEREKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAmIRIDmTEYmEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQmLDDGRLTDSHGRTVDFRNTVIImTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQmSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILAGEVKEGDRVQVDVGPAGLVFAVPARV 852
                            |      551       561       571       581       591       601       611       621  |   |631       641       651       661       671       681 |     691       701    |  711       721       731       741       751       761       771       781       791       801       811       821       831       841       851 
                          542-MSE                                                                      619-MSE|   |                                                    683-MSE                706-MSE                                                         770-MSE                                                                              
                                                                                                            624-MSE                                                                                                                                                                                                                                
                                                                                                                628-MSE                                                                                                                                                                                                                            


Chain C from PDB  Type:PROTEIN  Length:311
                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh........eeeeee.....hhhhhhhhhhhhhhh....eeeee.hhh...hhhhhhhh...........hhhhhhhhhh..eeeeeehhhhhhhhhhhhhhhhhhhheee.....eee...eeeeeee..hhhhhhhhhh.....hhhhhhhhhhhhhhh..hhhhhh.eeee....hhhhhhhhhhhhhhhhhhhhhh...eeeehhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh......eeeeee....eeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4fcv C 542 mLGEREKLLRLEEELHKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAmIRIDmTEYmEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQmLDDGRLTDSHGRTVDFRNTVIImTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQmSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKILAGEVKEGDRVQVDVGPAGLVFAVPARV 852
                            |      551       561       571       581       591       601       611       621  |   |631       641       651       661       671       681 |     691       701    |  711       721       731       741       751       761       771       781       791       801       811       821       831       841       851 
                          542-MSE                                                                      619-MSE|   |                                                    683-MSE                706-MSE                                                         770-MSE                                                                              
                                                                                                            624-MSE                                                                                                                                                                                                                                
                                                                                                                628-MSE
   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 4FCV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

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  CLPB_THET8 | Q9RA63
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 Related Entries

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

UniProtKB/Swiss-Prot
        CLPB_THET8 | Q9RA63: 1qvr 4fct 4fcw 4fd2 4hse 4lj4 4lj5 4lj6 4lj7 4lj8 4lj9 4lja

(-) Related Entries Specified in the PDB File

4fct 4fcw 4fd2