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(-) Description

Title :  CRYSTAL STRUCTURE OF W-W-W CLPX HEXAMER
 
Authors :  S. E. Glynn, A. R. Nager, B. S. Stinson, K. R. Schmitz, T. A. Baker, R. T. Sa
Date :  23 Nov 12  (Deposition) - 15 May 13  (Release) - 22 May 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  4.12
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Atpase, Hexamer, Asymmetric, 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
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PACYC
    Expression System Strain: BLR (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: B0438, CLPX, JW0428, LOPC
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12

 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
1AC1SOFTWAREPRO A:120 , THR A:121 , GLY A:122 , SER A:123 , GLY A:124 , LYS A:125 , THR A:126BINDING SITE FOR RESIDUE SO4 A 501
2AC2SOFTWAREPRO B:120 , THR B:121 , GLY B:122 , SER B:123 , GLY B:124 , LYS B:125 , THR B:126BINDING SITE FOR RESIDUE SO4 B 501
3AC3SOFTWAREPRO C:120 , THR C:121 , GLY C:122 , SER C:123 , GLY C:124 , LYS C:125 , THR C:126BINDING SITE FOR RESIDUE SO4 C 501
4AC4SOFTWAREGLY D:122 , SER D:123 , GLY D:124 , LYS D:125 , THR D:126 , TYR D:182BINDING SITE FOR RESIDUE SO4 D 501
5AC5SOFTWAREPRO E:120 , GLY E:122 , SER E:123 , GLY E:124 , LYS E:125 , THR E:126BINDING SITE FOR RESIDUE SO4 E 501
6AC6SOFTWAREPRO F:120 , GLY F:122 , SER F:123 , GLY F:124 , LYS F:125 , THR F:126BINDING SITE FOR RESIDUE SO4 F 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4I34)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4I34)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4I34)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4I34)

(-) Exons   (0, 0)

(no "Exon" information available for 4I34)

(-) 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:316
                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.ee..ee.....eeee.....hhhhhhhhhhhhh...eeeee........hhhhhhhhhhhhhhhh...hhhhhhh.eeeeehhhhh........hhhhhhhhhhhhhhhhh..........eeeeee...hhhhhhhhhhh..hhhhhhhh.hhhhhhhhh.hhhhhh...eeee....hhhhhhhhhhh...hhhhhhhhhhhh...eeeehhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.......eeeehhhhhh......eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i34 A  63 ALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKISRKSDNPRDVSGEGVQQALLKLIEGTFLQVDTSKILFICGGAFAGLDKVISHRVETASEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSEPLLIY 413
                                    72        82        92       102       112       122       132       142       152       162       172       182       192   ||  205       215  ||   241       251       261  ||   287       297       307       317       327       337       347       357       367       377       387       397       407      
                                                                                                                                                               196|               218|                          264|                                                                                                                                    
                                                                                                                                                                200                235                           281                                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:312
                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.ee..ee.....eeee.....hhhhhhhhhhhh....eeeee.hhh...hhhhh..hhhhhhhhhh...hhhhhhh.eeeee.hhhhh...hhhhhhhhhhhhhhhh..........eeee.....hhhhhhhhhhh....hhhhhhhh.hhhhhhhhh.hhhhhh...eeee....hhhhhhhhh.....hhhhhhhhhhhhhh.eeeehhhhhhhhhhhhhhh......hhhhhhhhhhhhhhh.......eeeehhhhhh......eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4i34 B  64 LPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKISRKDVSGEGVQQALLKLIEGTFLQVDTSKILFICGGAFAGLDKVISHRVETGSASEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSEPLLIY 413
                                    73        83        93       103       113       123       133       143       153       163       173       183       201       211      |237       247       257       281       291       301       311       321       331       341       351       361       371       381       391       401       411  
                                                                                                                                                          192|              218|                            266|                                                                                                                                    
                                                                                                                                                           201               235                             281                                                                                                                                    


Chain C from PDB  Type:PROTEIN  Length:303
                                                                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.ee..ee.....eeee.....hhhhhhhhhhhh....eeeee.....hhhhh..hhhhhhhhhh...hhhhhhh.eeeeehhhhh....hhhhhhhhhhhh.........eeeeee...hhhhhhhhhhh.hhhhhh...hhhhhhhhh.hhhhhh...eeee....hhhhhhhhhhh...hhhhhhhhhhhh...eeeehhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.......eeeehhhhhh......eee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i34 C  63 ALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKISRKEGVQQALLKLIEGTLQVDTSKILFICGGAFAGLDKVISHRVEASEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSEPLLIY 413
                                    72        82        92       102       112       122       132       142     ||154       164       174       184       206       216 ||    243       253       263|      290       300       310       320       330       340       350       360       370       380       390       400       410   
                                                                                                               148|                                      192|          218|                        263|                                                                                                                                    
                                                                                                                151                                       205           236                         281                                                                                                                                    


Chain D from PDB  Type:PROTEIN  Length:295
                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.ee..ee.....eeee.....hhhhhhhhhhhh....eeeee.....hhhhhhhhhhhhhh...hhhhhhh.eeeee......hhhhhhhhhhhhh......eeeeee...hhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.hhhhhh...eeee....hhhhhhhhhhh...hhhhhhhhhhhhhh.eeeehhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh.......eeeehhhhhh......eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i34 D  63 ALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKIGEGVQQALLKLIEGTDTSKILFICGGAFAGLDKVISHRVEASEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSEPLLIY 413
                                    72        82        92       102       112       122       132       142     ||157       167       177       187 ||    211      |241       251       261 ||    288       298       308       318       328       338       348       358       368       378       388       398       408     
                                                                                                               148|                                189|           218|                     263|                                                                                                                                    
                                                                                                                154                                 204            239                      281                                                                                                                                    


Chain E from PDB  Type:PROTEIN  Length:301
                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.ee..ee.....eeee.....hhhhhhhhhhhh....eeeee.hhh...hhhhhhhhhhhhhhh...hhhhhhh.eeeeehhhhh...hhhhhhhhhhhhhhhh......eeeeee...hhhhhhhh...hhhhhh...hhhhhhhhh.hhhhhh...eeee....hhhhhhhhh.....hhhhhhhhhhhh...eeeehhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh.......eeeehhhhh.......eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i34 E  64 LPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKISRDVSGEGVQQALLKLIEGTDTSKILFICGGAFAGLDKVISHRVASEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSEPLLIY 413
                                    73        83        93       103       113       123       133       143      |155       165       175       185     ||204       214   ||  244       254       282       292       302       312       322       332       342       352       362       372       382       392       402       412 
                                                                                                                150|                                   191|              218|                    262|                                                                                                                                    
                                                                                                                 153                                    201               239                     281                                                                                                                                    


Chain F from PDB  Type:PROTEIN  Length:306
                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.ee..ee.....eeee.....hhhhhhhhhhhh....eeeee.......hhhhh..hhhhhhhhhh...hhhhhhh.eeeeehhhhh...hhhhhhhhhhhhhhhhh......eeeeee...hhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.hhhhhh...eeee....hhhhhhhhh.....hhhhhhhhhhhh...eeeehhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh.......eeeehhhhhh......eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4i34 F  63 ALPTPHEIRNHLDDYVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDEIDKISRRDVSGEGVQQALLKLIEGTDTSKILFICGGAFAGLDKVISHRVEASEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSMEDVEKVVIDESVIDGQSEPLLIY 413
                                    72        82        92       102       112       122       132       142       152       162       172       182       200       210       240       250       260  ||   287       297       307       317       327       337       347       357       367       377       387       397       407      
                                                                                                                                                          191|               218|                     263|                                                                                                                                    
                                                                                                                                                           200                239                      281
   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 4I34)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4I34)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4I34)

(-) Gene Ontology  (18, 18)

Asymmetric/Biological Unit(hide GO term definitions)

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  4i34
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  CLPX_ECOLI | P0A6H1
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 Related Entries

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

UniProtKB/Swiss-Prot
        CLPX_ECOLI | P0A6H1: 1ovx 2ds5 2ds6 2ds7 2ds8 3hte 3hws 4i4l 4i5o 4i63 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
4i4l CRYSTAL STRUCTURE OF NUCLEOTIDE-BOUND W-W-W CLPX HEXAMER
4i5o CRYSTAL STRUCTURE OF W-W-R CLPX HEXAMER
4i63 CRYSTAL STRUCTURE OF E-R CLPX HEXAMER