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(-) Description

Title :  5A RESOLUTION STRUCTURE OF PROTEASOME ASSEMBLY CHAPERONE HSM3 IN COMPLEX WITH A C-TERMINAL FRAGMENT OF RPT1
 
Authors :  S. Lovell, K. P. Battaile, R. Singh, J. Roelofs
Date :  19 Mar 13  (Deposition) - 10 Apr 13  (Release) - 10 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  5.00
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  A,C  (1x)
Biol. Unit 6:  B,D  (1x)
Biol. Unit 7:  A,B,C,D  (1x)
Biol. Unit 8:  A,B,C,D  (2x)
Keywords :  Hsm3, Chaperone, Proteasome, Protein Complex, Chaperone-Hydrolase Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Park, X. Li, H. M. Kim, C. R. Singh, G. Tian, M. A. Hoyt, S. Lovell, K. P. Battaile, M. Zolkiewski, P. Coffino, J. Roelofs, Y. Cheng, D. Finley
Reconfiguration Of The Proteasome During Chaperone-Mediated Assembly.
Nature V. 497 512 2013
PubMed-ID: 23644457  |  Reference-DOI: 10.1038/NATURE12123

(-) Compounds

Molecule 1 - DNA MISMATCH REPAIR PROTEIN HSM3
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PJR89
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: HSM3, YBR272C, YBR1740
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: ENHANCED SPONTANEOUS MUTABILITY PROTEIN 3
 
Molecule 2 - 26S PROTEASE REGULATORY SUBUNIT 7 HOMOLOG
    Chains: C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PJR89
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL FRAGMENT, UNP RESIDUES 379-467
    Gene: RPT1, CIM5, YTA3, YKL145W
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: PROTEIN CIM5, TAT-BINDING HOMOLOG 3

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D
Biological Unit 5 (1x): A C 
Biological Unit 6 (1x):  B D
Biological Unit 7 (1x): ABCD
Biological Unit 8 (2x): ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4JPO)

(-) Sites  (0, 0)

(no "Site" information available for 4JPO)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Gln A:135 -Pro A:136
2Asp A:312 -Glu A:313
3Ala A:434 -Ile A:435
4Gln B:135 -Pro B:136
5Asp B:312 -Glu B:313
6Tyr B:363 -Ser B:364
7Asp B:429 -Gly B:430
8Ser D:452 -Gly D:453

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4JPO)

(-) 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:452
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhh......hhhhhhhhhhhhhhhh..hhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh..........hhhhhhhhhhh.....hhhhhhhhhhhhhhhh.hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhh.hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh..hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhh.hhhhhhh.....hhhhhhh.hhhhhhhhhhhhh.hhhhhhhhhh.hhhhhhhhhh..........hhhhhhhhhhhhhhh.hhhhhh.hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jpo A  19 YVENLLTQLENELNEDNLPEDINTLLRKCSLNLVTVDVKPLLATIKRFLTSNVSYDSLNYDYLLDVVDKLVPMADFDDVLEVYSAEDLVKALRSEIDPLKVAACRVIENSQPKGLFATSNIIDILLDILFDEKVENDKLITAIEKALERLSTDELIRRRLFDNNLPYLVSVKGRMETVSFVRLIDFLTIEFQFISGPEFKDIIFCFTKEEILKSVEDILVFIELVNYYTKFLLEIRNQDKYWALRHVKKILPVFAQLFEDTENYPDVRAFSTNCLLQLFAEVSRIEEDEYSLFKTMDKDSLKIGSEAKLITEWLELINPQYLVKYHKDVVENYFHVSGYSIGMLRNLSADEECFNAIRNKFSAEIVLRLPYLEQMQVVETLTRYEYTSKFLLNEMPKVMGSLIGDGSAGAIIDLETVHYRNSALRNLLDKGEEKLSVWYEPLLREYSKAVNG 476
                                    28        38        48     || 64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474  
                                                              54|                                                                                                                                                                                                                                                                                                                                                                                                                               
                                                               61                                                                                                                                                                                                                                                                                                                                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:447
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhh.............hhhhhhhhh..hhhhhhhhhhhh.........hhhhhhhhhhhh......hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh..........hhhhhhhhhhh.....hhhhhhhhhhhhhhhh.hhhhhhhhh..hhhhhhhhhhhh..hhhhhhhhhhhhhhh.......hhhhhh.hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh..hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhh.hhhhhhh.....hhhhhhh.hhhhhhhhhhhhh.hhhhhhhhhh.hhhhhhhhhh.....hhhhhhhhhhhhhhhh.hhhhhh.hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jpo B  19 YVENLLTQLENELNEDNLPEDINTLLRKCSLNLVTVDVKPLLATIKRFLTSNVSYDSLNYDYLLDVVDKLVPMADFDDVLEVYSAEDLVKALRSEIDPLKVAACRVIENSQPKGLFATSNIIDILLDILFDEKVENDKLITAIEKALERLSTDELIRRRLFDNNLPYLVSVKGRMETVSFVRLIDFLTIEFQFISGPEFKDIIFCFTKEEILKSVEDILVFIELVNYYTKFLLEIRNQDKYWALRHVKKILPVFAQLFEDTENYPDVRAFSTNCLLQLFAEVSRIEEDEYSLFKTMDKDSLKIGSEAKLITEWLELINPQYLVKYHKDVVENYFHVSGYSIGMLRNLSADEECFNAIRNKFSAEIVLRLPYLEQMQVVETLTRYEYTSKFLLNEMPKVMGSLIGDGSADLETVHYRNSALRNLLDKGEEKLSVWYEPLLREYSKAVN 475
                                    28        38        48     || 64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       438       448       458       468       
                                                              54|                                                                                                                                                                                                                                                                                                                                                                                432|                                      
                                                               61                                                                                                                                                                                                                                                                                                                                                                                 437                                      


Chain C from PDB  Type:PROTEIN  Length:74
                                                                                                          
               SCOP domains -------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh......hhhhhhhhh...hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------- Transcript
                 4jpo C 382 LEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKVATEKDFLKAVDKVISGYK 455
                                   391       401       411       421       431       441       451    


Chain D from PDB  Type:PROTEIN  Length:74
                                                                                                          
               SCOP domains -------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh......hhhhhhhhh...hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------- Transcript
                 4jpo D 380 PDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKVATEKDFLKAVDKVISG 453
                                   389       399       409       419       429       439       449
   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 4JPO)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (25, 30)

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  Cis Peptide Bonds
    Ala A:434 - Ile A:435   [ RasMol ]  
    Asp A:312 - Glu A:313   [ RasMol ]  
    Asp B:312 - Glu B:313   [ RasMol ]  
    Asp B:429 - Gly B:430   [ RasMol ]  
    Gln A:135 - Pro A:136   [ RasMol ]  
    Gln B:135 - Pro B:136   [ RasMol ]  
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  4jpo
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  PRS7_YEAST | P33299
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 Related Entries

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

UniProtKB/Swiss-Prot
        HSM3_YEAST | P38348: 3vld 3vle 3vlf 4a3t 4a3v 4fp7
        PRS7_YEAST | P33299: 3jco 3jcp 3vlf 4a3v 4cr2 4cr3 4cr4 5a5b 5mp9 5mpa 5mpb 5mpc 5wvi 5wvk

(-) Related Entries Specified in the PDB File

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