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(-) Description

Title :  YEAST HSP82 IN COMPLEX WITH THE NOVEL HSP90 INHIBITOR RADAMIDE
 
Authors :  R. M. Immormino, D. T. Gewirth
Date :  06 Feb 06  (Deposition) - 06 Feb 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Hsp82, Hsp90, Grp94, Htpg, Chaperone, Ligand, Radicicol, Geldanamycin, Radester (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  R. M. Immormino, L. E. Metzger, P. N. Reardon, D. E. Dollins, B. S. Blagg D. T. Gewirth
Different Poses For Ligand And Chaperone In Inhibitor-Bound Hsp90 And Grp94: Implications For Paralog-Specific Drug Design.
J. Mol. Biol. V. 388 1033 2009
PubMed-ID: 19361515  |  Reference-DOI: 10.1016/J.JMB.2009.03.071

(-) Compounds

Molecule 1 - ATP-DEPENDENT MOLECULAR CHAPERONE HSP82
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPPET 15-B
    Expression System StrainBL21(DE3)PLYSS
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentN-TERMINAL DOMAIN, RESIDUES (1-220)
    GeneHSP82, HSP90
    Organism CommonBAKER'S YEAST
    Organism ScientificSACCHAROMYCES CEREVISIAE
    Organism Taxid4932
    SynonymHEAT SHOCK PROTEIN HSP90 HEAT-INDUCIBLE ISOFORM, 82 KDA HEAT SHOCK PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1GOL5Ligand/IonGLYCEROL
2RDA1Ligand/IonMETHYL 3-CHLORO-2-{3-[(2,5-DIHYDROXY-4-METHOXYPHENYL)AMINO]-3-OXOPROPYL}-4,6-DIHYDROXYBENZOATE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:37 , ALA A:41 , LYS A:44 , ASP A:79 , ILE A:82 , MET A:84 , ASN A:91 , ASN A:92 , LYS A:98 , PHE A:124 , THR A:171 , LEU A:173 , HOH A:1094 , HOH A:1095 , HOH A:1180 , HOH A:1220 , HOH A:1221 , HOH A:1230 , HOH A:1245BINDING SITE FOR RESIDUE RDA A 1001
2AC2SOFTWARELYS A:73 , ASP A:132 , LEU A:177 , LYS A:178 , ASP A:179 , HOH A:1135BINDING SITE FOR RESIDUE GOL A 301
3AC3SOFTWARELYS A:54 , GLN A:55 , THR A:58 , ASN A:141 , HOH A:1103 , HOH A:1259BINDING SITE FOR RESIDUE GOL A 302
4AC4SOFTWARESER A:25 , GLU A:183 , ARG A:189 , HOH A:1032 , HOH A:1033 , HOH A:1190 , HOH A:1218 , HOH A:1219BINDING SITE FOR RESIDUE GOL A 303
5AC5SOFTWAREGLU A:149 , ASN A:151 , SER A:155 , PHE A:156 , THR A:157 , HOH A:1051 , HOH A:1184BINDING SITE FOR RESIDUE GOL A 304
6AC6SOFTWARELYS A:69 , GLN A:72 , ARG A:174 , HOH A:1077 , HOH A:1174BINDING SITE FOR RESIDUE GOL A 305

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2FXS)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2FXS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2FXS)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HSP90PS00298 Heat shock hsp90 proteins family signature.HSP82_YEAST24-33  1A:24-33

(-) Exons   (1, 1)

Asymmetric/Biological Unit (1, 1)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YPL240C1YPL240C.1XVI:98625-964962130HSP82_YEAST1-7097091A:2-214213

(-) 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:213
 aligned with HSP82_YEAST | P02829 from UniProtKB/Swiss-Prot  Length:709

    Alignment length:213
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211   
          HSP82_YEAST     2 ASETFEFQAEITQLMSLIINTVYSNKEIFLRELISNASDALDKIRYKSLSDPKQLETEPDLFIRITPKPEQKVLEIRDSGIGMTKAELINNLGTIAKSGTKAFMEALSAGADVSMIGQFGVGFYSLFLVADRVQVISKSNDDEQYIWESNAGGSFTVTLDEVNERIGRGTILRLFLKDDQLEYLEEKRIKEVIKRHSEFVAYPIQLVVTKEVE 214
               SCOP domains d2fxsa_ A: HSP90                                                                                                                                                                                                      SCOP domains
               CATH domains 2fxsA00 A:2-214  [code=3.30.565.10, no name defined]                                                                                                                                                                  CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeeehhh.eeeeee.....hhhhhhhhh......hhhhhhhhhhh..hhhhhhhhhhhhhhhhh.eeeeeeeee......eeeee....eeeeee.........eeeeeeee.hhhhhhhhhhhhhhhhhhhh......eee....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------HSP90     ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: A:2-214 UniProt: 1-709 [INCOMPLETE]                                                                                                                                                                    Transcript 1
                 2fxs A   2 ASETFEFQAEITQLMSLIINTVYSNKEIFLRELISNASDALDKIRYKSLSDPKQLETEPDLFIRITPKPEQKVLEIRDSGIGMTKAELINNLGTIAKSGTKAFMEALSAGADVSMIGQFGVGFYSLFLVADRVQVISKSNDDEQYIWESNAGGSFTVTLDEVNERIGRGTILRLFLKDDQLEYLEEKRIKEVIKRHSEFVAYPIQLVVTKEVE 214
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211   

   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  (1, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2FXS)

(-) Gene Ontology  (17, 17)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (HSP82_YEAST | P02829)
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).
    GO:0051082    unfolded protein binding    Interacting selectively and non-covalently with an unfolded protein.
biological process
    GO:0006458    'de novo' protein folding    The process of assisting in the folding of a nascent peptide chain into its correct tertiary structure.
    GO:0000492    box C/D snoRNP assembly    The aggregation, arrangement and bonding together of proteins and a box C/D snoRNA to form a box C/D small nucleolar ribonucleoprotein (snoRNP) complex.
    GO:0032212    positive regulation of telomere maintenance via telomerase    Any process that activates or increases the frequency, rate or extent of the addition of telomeric repeats by telomerase.
    GO:0043248    proteasome assembly    The aggregation, arrangement and bonding together of a mature, active proteasome complex.
    GO:0006457    protein folding    The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
    GO:0042026    protein refolding    The process carried out by a cell that restores the biological activity of an unfolded or misfolded protein, using helper proteins such as chaperones.
    GO:0006626    protein targeting to mitochondrion    The process of directing proteins towards and into the mitochondrion, usually mediated by mitochondrial proteins that recognize signals contained within the imported protein.
    GO:0032204    regulation of telomere maintenance    Any process that modulates the frequency, rate or extent of a process that affects and monitors the activity of telomeric proteins and the length of telomeric DNA.
    GO:0006970    response to osmotic stress    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 stimulus indicating an increase or decrease in the concentration of solutes outside the organism or cell.
    GO:0006950    response to stress    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 disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

UniProtKB/Swiss-Prot
        HSP82_YEAST | P028291a4h 1ah6 1ah8 1am1 1amw 1bgq 1hk7 1us7 1usu 1usv 1zw9 1zwh 2akp 2brc 2bre 2cg9 2cge 2cgf 2iws 2iwu 2iwx 2lsv 2vw5 2vwc 2wep 2weq 2wer 2xd6 2xx2 2xx4 2xx5 2yga 2yge 2ygf 3c0e 3c11 3fp2 4as9 4asa 4asb 4asf 4asg 4ce1 4ce2 4ce3 5mgx

(-) Related Entries Specified in the PDB File

1a4h STRUCTURE OF THE N-TERMINAL DOMAIN OF THE YEAST HSP90 CHAPERONE IN COMPLEX WITH GELDANAMYCIN
1bgq RADICICOL BOUND TO THE ATP BINDING SITE OF THE N-TERMINAL DOMAIN OF THE YEAST HSP90 CHAPERONE
1qy8 CRYSTAL STRUCTURE OF THE N-DOMAIN OF THE ER HSP90 CHAPERONE GRP94 IN COMPLEX WITH RADICICOL
1u0z N-DOMAIN OF GRP94 LACKING THE CHARGED DOMAIN IN COMPLEX WITH RADICICOL
1zwh YEAST HSP82 IN COMPLEX WITH THE NOVEL HSP90 INHIBITOR RADESTER AMINE
2exl GRP94 N-TERMINAL DOMAIN BOUND TO GELDANAMYCIN
2fyp