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(-) Description

Title :  CRYSTAL STRUCTURE OF E. COLI CLPB
 
Authors :  J. Kopp, I. Sinning, B. Bukau, E. Kummer, A. Mogk
Date :  16 Dec 13  (Deposition) - 14 May 14  (Release) - 28 May 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Chaperone, Aaa+, Atpase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Carroni, E. Kummer, Y. Oguchi, P. Wendler, D. K. Clare, I. Sinning, J. Kopp, A. Mogk, B. Bukau, H. Saibil
Head-To-Tail Interactions Of The Coiled-Coil Domains Regulate Clpb Cooperation With Hsp70 In Protein Disaggregation
Elife V. 3 02481 2014
PubMed-ID: 24843029  |  Reference-DOI: 10.7554/ELIFE.02481

(-) Compounds

Molecule 1 - CHAPERONE PROTEIN CLPB
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI STR. K-12 SUBSTR. MC4100
    Expression System Plasmid: PDS56-CLPB-DN-E279A/E432A/E678A
    Expression System Taxid: 1403831
    Expression System Variant: DELTACLPB
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 143-857
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: HEAT SHOCK PROTEIN F84.1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 19)

Asymmetric/Biological Unit (2, 19)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MSE17Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:179 , VAL A:180 , ILE A:181 , ARG A:183 , PRO A:208 , GLY A:209 , VAL A:210 , GLY A:211 , LYS A:212 , THR A:213 , ALA A:214 , ILE A:349 , PRO A:387 , ASP A:388 , ILE A:391BINDING SITE FOR RESIDUE ADP A 901
2AC2SOFTWAREARG A:569 , VAL A:570 , ILE A:571 , THR A:607 , GLY A:608 , VAL A:609 , GLY A:610 , LYS A:611 , THR A:612 , GLU A:613 , ILE A:774 , GLN A:778 , ALA A:814 , ARG A:815BINDING SITE FOR RESIDUE ADP A 902

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu A:386 -Pro A:387

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CLPAB_1PS00870 Chaperonins clpA/B signature 1.CLPB_ECOLI294-306  1A:294-306
2CLPAB_2PS00871 Chaperonins clpA/B signature 2.CLPB_ECOLI631-649  1A:631-649

(-) Exons   (0, 0)

(no "Exon" information available for 4CIU)

(-) Sequences/Alignments

Asymmetric/Biological 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:657
 aligned with CLPB_ECOLI | P63284 from UniProtKB/Swiss-Prot  Length:857

    Alignment length:700
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    857 
                                   168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828       838       848        |-
           CLPB_ECOLI   159 QALKKYTIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGELHCVGATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLKERYELHHHVQITDPAIVAAATLSHRYIADRQLPDKAIDLIDEAASSIRMQIDSKPEELDRLDRRIIQLKLEQQALMKESDEASKKRLDMLNEELSDKERQYSELEEEWKAEKASLSGTQTIKAELEQAKIAIEQARRVGDLARMSELQYGKIPELEKQLEAATQLEGKTMRLLRNKVTDAEIAEVLARWTGIPVSRMMESEREKLLRMEQELHHRVIGQNEAVDAVSNAIRRSRAGLADPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDEAMVRIDMSEFMEKHSVSRLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNLGSDLIQERFGELDYAHMKELVLGVVSHNFRPEFINRIDEVVVFHPLGEQHIASIAQIQLKRLYKRLEERGYEIHISDEALKLLSENGYDPVYGARPLKRAIQQQIENPLAQQILSGELVPGKVIRLEVNEDRIVAVQ-   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhheeehhhhhhh........hhhhhhhhhhhhh......eeee.....hhhhhhhhhhhhhhhh..hhhhh..eeeeehhhhhh.-----hhhhhhhhhhhhhhhhhh..eeeeeehhhhhh.--------.....hhhhhhhh..eeeeeehhhhhhhhh---------.eeee....hhhhhhhhhhhhhhhhhhhhh.eehhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh----------..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eehhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh........eeeeee.....hhhhhhhhhhhhhhh....eeeee.hhh.hhhhhhhh...---------.hhhhhhhhhh...eeeeehhhhhhhhhhhhhhhhhhhheee.....eee....eeeeee..hhhhhhh..--....hhhhhhhhhhhhhhhhhhhhhh.eeee....hhhhhhhhhhhhhhhhhhhhhhh..eeeehhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh......eeeeeee..eeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------CLPAB_1      ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CLPAB_2            ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ciu A 159 QALKKYTIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDmGALVA-----GEFEERLKGVLNDLAKQEGNVILFIDALHTmVG--------DAGNmLKPALARGELHCVGATTLDEYRQYI---------FQKVFVAEPSVEDTIAILRGLKERYELHHHVQITDPAIVAAATLSHRYIADRQLPDKAIDLIDEAASSIRmQIDSKPEELDRLDRRIIQLKLEQQALm----------LDmLNEELSDKERQYSELEEEWKAEKASLSGTQTIKAELEQAKIAIEQARRVGDLARmSELQYGKIPELEKQLEAATQLEGKTmRLLRNKVTDAEIAEVLARWTGIPVSRmmESEREKLLRmEQELHHRVIGQNEAVDAVSNAIRRSRAGLADPNRPIGSFLFLGPTGVGKTELCKALANFmFDSDEAmVRIDmSEFmEKHSVSRLVGA---------GGYLTEAVRRRPYSVILLDAVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVImTSNLGSDLIQERF--LDYAHmKELVLGVVSHNFRPEFINRIDEVVVFHPLGEQHIASIAQIQLKRLYKRLEERGYEIHISDEALKLLSENGYDPVYGARPLKRAIQQQIENPLAQQILSGELVPGKVIRLEVNEDRIVAVQH 858
                                   168       178       188       198       208       218       228       238   |    |-    |  258       268       278    | |  -     | 298       308       318    |    -    |  338       348       358       368       378       388       398    |  408       418       428 |       -  | |  448       458       468       478       488       498       508       518     | 528       538       548  ||   558   |   568       578       588       598       608       618   |   628|    | 638       648|        -|      668       678       688       698       708       718       728|  |   738       748       758       768       778       788       798       808       818       828       838       848       858
                                                                                                             242-MSE7   253                           283-MSE    294   |                      323       333                                                                   403-MSE                    430-MSE    441 |                                                    498-MSE                   524-MSE                    551-MSE    562-MSE                                                     622-MSE  |    |   |        649       659                                                      716-MSE      729  |    |                                                                                                                         
                                                                                                                                                        285          298-MSE                                                                                                                                          443-MSE                                                                                                      552-MSE                                                                      629-MSE|   |                                                                                           732    |                                                                                                                         
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     634-MSE                                                                                                737-MSE                                                                                                                     
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         638-MSE
   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 4CIU)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (CLPB_ECOLI | P63284)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0042623    ATPase activity, coupled    Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction directly drives some other reaction, for example ion transport across a membrane.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0019538    protein metabolic process    The chemical reactions and pathways involving a specific protein, rather than of proteins in general. Includes protein modification.
    GO:0016485    protein processing    Any protein maturation process achieved by the cleavage of a peptide bond or bonds within a protein. Protein maturation is the process leading to the attainment of the full functional capacity of a protein.
    GO:0009408    response to heat    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a heat stimulus, a temperature stimulus above the optimal temperature for that organism.
    GO:0006986    response to unfolded protein    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an unfolded protein stimulus.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CLPB_ECOLI | P63284: 1jbk 1khy 4d2q 4d2u 4d2x

(-) Related Entries Specified in the PDB File

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