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(-) Description

Title :  CRYSTAL STRUCTURE OF E-R CLPX HEXAMER
 
Authors :  S. E. Glynn, A. R. Nager, B. S. Stinson, K. R. Schmitz, T. A. Baker, R. T. Sa
Date :  29 Nov 12  (Deposition) - 15 May 13  (Release) - 22 May 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  5.71
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Atpase, Hexamer, Motor Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  B. M. Stinson, A. R. Nager, S. E. Glynn, K. R. Schmitz, T. A. Baker, R. T. Sauer
Nucleotide Binding And Conformational Switching In The Hexameric Ring Of A Aaa+ Machine.
Cell(Cambridge, Mass. ) V. 153 628 2013
PubMed-ID: 23622246  |  Reference-DOI: 10.1016/J.CELL.2013.03.029

(-) Compounds

Molecule 1 - ATP-DEPENDENT CLP PROTEASE ATP-BINDING SUBUNIT CLPX
    ChainsA, B, C, D, E, F
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPACYC
    Expression System StrainBLR (DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    GeneB0438, CLPX, JW0428, LOPC
    Organism ScientificESCHERICHIA COLI
    Organism Taxid83333
    StrainK12

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric/Biological Unit (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:122 , SER A:123 , GLY A:124 , LYS A:125 , THR A:126BINDING SITE FOR RESIDUE SO4 A 500
2AC2SOFTWAREGLY B:122 , SER B:123 , GLY B:124 , LYS B:125 , THR B:126BINDING SITE FOR RESIDUE SO4 B 500
3AC3SOFTWAREGLY C:122 , SER C:123 , GLY C:124 , LYS C:125 , THR C:126BINDING SITE FOR RESIDUE SO4 C 500
4AC4SOFTWAREGLY D:122 , SER D:123 , GLY D:124 , LYS D:125 , THR D:126BINDING SITE FOR RESIDUE SO4 D 500
5AC5SOFTWAREGLY E:122 , SER E:123 , GLY E:124 , LYS E:125 , THR E:126BINDING SITE FOR RESIDUE SO4 E 500
6AC6SOFTWAREGLY F:122 , SER F:123 , GLY F:124 , LYS F:125 , THR F:126BINDING SITE FOR RESIDUE SO4 F 500

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4I63)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4I63)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4I63)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4I63)

(-) Exons   (0, 0)

(no "Exon" information available for 4I63)

(-) 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:311
                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh.........eeee.....hhhhhhhhhhhhh...eeeeehhhhhhhhhhhhhhhhhhhhhh...hhhhhhhheeeeehhhhh........hhhhhhhhhhhhhhhhh..........eeeeee...hhhhhhhhhhh....hhhhhhh.hhhhhhhhh.hhhhhh...eeee....hhhhhhhhhhh...hhhhhhhhhhhh...eeeehhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.......eeeehhhhhh......eee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i63 A  63 ALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSLGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKISRKSDNPRDVSGEGVQQALLKLIEGTFLQVDTSKILFICGGAFAGLDKVISHRVETGSSEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSEPLLIY 413
                                    72        82        92       102  ||   116       126       136       146  ||   158       168       178       188       201       211      |237       247       257       282       292       302       312       322       332       342       352       362       372       382       392       402       412 
                                                                    105|                                    149|                                         196|               218|                            266|                                                                                                                                   
                                                                     110                                     152                                          200                235                             282                                                                                                                                   

Chain B from PDB  Type:PROTEIN  Length:307
                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh.........eeee.....hhhhhhhhhhhhh...eeeeehhhhh..hhhhhhhhhhhhhhhh..hhhhhhhheeeeehhhhh....hhhhhhhhhhhhhhhhh..........eeeeee...hhhhhhhhhhh....hhhhhh..hhhhhhhhh.hhhhhh...eeee....hhhhhhhhhhh...hhhhhhhhhhhh...eeeehhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.......eeeehhhhhh......eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i63 B  63 ALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSLGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKISRKRDVSGEGVQQALLKLIEGTFLQVDTSKILFICGGAFAGLDKVISHRVETGSSEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSEPLLIY 413
                                    72        82        92       102  ||   116       126       136       146  ||   158       168       178       188   ||  205       215  ||   241       251       261    || 286       296       306       316       326       336       346       356       366       376       386       396       406       
                                                                    105|                                    149|                                     192|               218|                            266|                                                                                                                                   
                                                                     110                                     152                                      200                235                             282                                                                                                                                   

Chain C from PDB  Type:PROTEIN  Length:298
                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh........eeee.....hhhhhhhhhhhhhh..eeeee.............hhhhhhhhhhh...hhhhhhh.eeeeehhhhhh..hhhhhhhhhhhhhh.....hhhhheeeeee...hhhhhhhhhh.hhhhhhh.hhhhhhhhh.hhhhhh...eeee....hhhhhhhhhhh...hhhhhhhhhhhhh..eeeehhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh.......eeeehhhhhh......eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i63 C  64 LPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKISRVSGEGVQQALLKLIEGTLQVDTSKILFICGGAFAGLDKVISHRVSEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSEPLLIY 413
                                    73        83        93       103||     119       129       139       149       159       169       179       189 ||    209       236       246       256     ||285       295       305       315       325       335       345       355       365       375       385       395       405        
                                                                  104|                                                                             191|             218|                       262|                                                                                                                                   
                                                                   111                                                                              202              236                        282                                                                                                                                   

Chain D from PDB  Type:PROTEIN  Length:310
                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh..........eeee.....hhhhhhhhhhhhh...eeeeehhhhh..hhhhhhhhhhhhhhh...hhhhhhhheeeeehhhhh........hhhhhhhhhhhhhhhhh..........eeeeee...hhhhhhhhhhh....hhhhhh..hhhhhhhhh.hhhhhh...eeee....hhhhhhhhhhh...hhhhhhhhhhhh...eeeehhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.......eeeehhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i63 D  63 ALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKISRKSDNPRDVSGEGVQQALLKLIEGTFLQVDTSKILFICGGAFAGLDKVISHRVETGSSEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSEPLL 411
                                    72        82        92       102  ||   115       125       135       145   ||  157       167       177       187       200       210       236       246       256       266|      291       301       311       321       331       341       351       361       371       381       391       401       411
                                                                    105|                                     149|                                         196|               218|                            266|                                                                                                                                 
                                                                     109                                      152                                          200                235                             282                                                                                                                                 

Chain E from PDB  Type:PROTEIN  Length:315
                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh..........eeee.....hhhhhhhhhhhhh...eeeeehhhhh..hhhhhhhhhhhhhhhh..hhhhhhhheeeeehhhhh........hhhhhhhhhhhhhhhhh..........eeeeee...hhhhhhhhhhh......hhhhhhhh.hhhhhhhhh.hhhhhh...eeee....hhhhhhhhhhh...hhhhhhhhhhhh...eeeehhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.......eeeehhhhhh......eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i63 E  63 ALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKISRKSDNPRDVSGEGVQQALLKLIEGTFLQVDTSKILFICGGAFAGLDKVISHRVETGSDKASEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSEPLLIY 413
                                    72        82        92       102  ||   115       125       135       145   ||  157       167       177       187       200       210       236       246       256       266|      288       298       308       318       328       338       348       358       368       378       388       398       408     
                                                                    105|                                     149|                                         196|               218|                            266|                                                                                                                                      
                                                                     109                                      152                                          200                235                             279                                                                                                                                      

Chain F from PDB  Type:PROTEIN  Length:305
                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh........eeee.....hhhhhhhhhhhhhh..eeeee.............hhhhhhhhhhh...hhhhhhh.eeeeehhhhh..........hhhhhhhhhhhhhh.....hhhhheeeeee...hhhhhhhhhh.hhhhhhh.hhhhhhhhh.hhhhhh...eeee....hhhhhhhhhhh...hhhhhhhhhhhhh..eeeehhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.......eeeehhhhhh......eee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i63 F  64 LPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKISRNPSITRDVSGEGVQQALLKLIEGTLQVDTSKILFICGGAFAGLDKVISHRVSEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSEPLLIY 413
                                    73        83        93       103||     119       129       139       149       159       169       179       189 ||    202       212     ||239       249       259  ||   288       298       308       318       328       338       348       358       368       378       388       398       408     
                                                                  104|                                                                             191|                    218|                       262|                                                                                                                                   
                                                                   111                                                                              195                     236                        282                                                                                                                                   

   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 4I63)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4I63)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4I63)

(-) Gene Ontology  (18, 18)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        CLPX_ECOLI | P0A6H11ovx 2ds5 2ds6 2ds7 2ds8 3hte 3hws 4i34 4i4l 4i5o 4i81 4i9k

(-) Related Entries Specified in the PDB File

3hte CRYSTAL STRUCTURE OF NUCLEOTIDE-FREE HEXAMERIC CLPX
3hws CRYSTAL STRUCTURE OF NUCLEOTIDE-BOUND HEXAMERIC CLPX
4i34 CRYSTAL STRUCTURE OF W-W-W CLPX HEXAMER
4i4l CRYSTAL STRUCTURE OF NUCLEOTIDE-BOUND W-W-W CLPX HEXAMER
4i5o CRYSTAL STRUCTURE OF W-W-R CLPX HEXAMER