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(-) Description

Title :  CRYSTAL STRUCTURE OF MITOCHONDRIAL HSP90 (TRAP1) NTD-MIDDLE DOMAIN DIMER WITH AMPPNP
 
Authors :  J. R. Partridge, L. A. Lavery, D. A. Agard
Date :  22 Jan 13  (Deposition) - 22 Jan 14  (Release) - 27 Aug 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  A  (4x)
Keywords :  Chaperone, Atpase, Atp Binding, Mitochondria (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. A. Lavery, J. R. Partridge, T. A. Ramelot, D. Elnatan, M. A. Kennedy, D. A. Agard
Structural Asymmetry In The Closed State Of Mitochondrial Hsp90 (Trap1) Supports A Two-Step Atp Hydrolysis Mechanism.
Mol. Cell V. 53 330 2014
PubMed-ID: 24462206  |  Reference-DOI: 10.1016/J.MOLCEL.2013.12.023

(-) Compounds

Molecule 1 - TNF RECEPTOR-ASSOCIATED PROTEIN 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET151/D-TOPO
    Expression System Strain: BL21(DE3)-RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 73-719
    Gene: TRAP1
    Mutation: YES
    Organism Common: LEOPARD DANIO,ZEBRA DANIO,ZEBRA FISH
    Organism Scientific: DANIO RERIO
    Organism Taxid: 7955
    Synonym: TRAP1 PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A
Biological Unit 2 (4x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric Unit (3, 3)
No.NameCountTypeFull Name
1ANP1Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2MG1Ligand/IonMAGNESIUM ION
3PO41Ligand/IonPHOSPHATE ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1ANP2Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2MG-1Ligand/IonMAGNESIUM ION
3PO42Ligand/IonPHOSPHATE ION
Biological Unit 2 (2, 8)
No.NameCountTypeFull Name
1ANP4Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2MG-1Ligand/IonMAGNESIUM ION
3PO44Ligand/IonPHOSPHATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:130 , ASN A:134 , ALA A:138 , ASP A:173 , MET A:178 , ASN A:186 , SER A:193 , GLY A:194 , GLY A:214 , GLN A:215 , PHE A:216 , GLY A:217 , VAL A:218 , GLY A:219 , PHE A:220 , THR A:266 , ARG A:417 , MG A:803 , HOH A:901 , HOH A:906 , HOH A:914 , HOH A:919 , HOH A:920 , HOH A:921 , HOH A:993 , HOH A:1010 , HOH A:1122BINDING SITE FOR RESIDUE ANP A 801
2AC2SOFTWARELYS A:166 , ARG A:436 , ARG A:439 , HOH A:1167 , HOH A:1184 , HOH A:1192 , HOH A:1216BINDING SITE FOR RESIDUE PO4 A 802
3AC3SOFTWAREASN A:134 , ANP A:801 , HOH A:906 , HOH A:1122BINDING SITE FOR RESIDUE MG A 803

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:516 -A:542

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Ile A:147 -Thr A:148
2Ala A:350 -Pro A:351
3Thr A:392 -Asp A:393
4Gln A:545 -Phe A:546

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4IVG)

(-) 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:477
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......................hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh........eeeeee....eeeeee.....hhhhhhhhhhh....hhhhhhhhh..hhhhhhhh.....hhhhhhhhheeeeeeeee.......eeeeee.....eeeeee.....eeeeeeee.hhhhhhhhhhhhhhhhhhhh......eee..ee.....hhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeeee.....eeeeeeee....hhhhhhh.eeeeee..eeee.......hhhhh..eeeee...............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh....ee.........hhhhhhhhh.....eeeeee..hhhhhhhhhhhhhhhhh...eeee...hhhhhhhhhhee..eeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ivg A  85 TLHNIITDTENVQGSFSKHEFQAETKKLLDIVARSLYSEKEVFIRELISNGSDALEKLRHRMITTAPMEIHLQTDSVKGTFTIQDTGVGMNKEDLVSNLGTIARSGSKAFLDALQNQAEASSSIIGQFGVGFYSAFMVADKVEVYSQSAEADAPGYKWSSDGSGVFEVAEASGVRQGTKIVLHLKDDCKEFSSEDRVKEVVTKYSNFVSFPIFLNGRRLNTLQALWMMEPKDISEWQHEEFYRYVAQAYDKPRYTLHYRADAPLNIRSIFYVPEMKPSMFDVSRSSVALYSRKILIQTKATDILPKWLRFLRGVVDSEDIPLNLSRELLQESALIRKLRDVLQQRVIRFLLDQSKKDPEKYARFFEDYGLFMREGIVTTGEQSVKEDIAKLLRFESSALPAGQQTSLMEYSSRMKAGTRNIYYLCAPNRHLAEHSPYFEAMKQKDMEVLFCFEQFDELTLLHLREFDRKKLISAATD 568
                                    94       104       114       124       134       144   ||  158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368   ||  381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       
                                                                                         148|                                                                                                                                                                                                                        372|                                                                                                                                                                                                
                                                                                          153                                                                                                                                                                                                                         376
   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)
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  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 4IVG)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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        A8WFV1_DANRE | A8WFV1: 4ipe 4iyn 4j0b

(-) Related Entries Specified in the PDB File

4ipe FULL LENGTH VERSION OF TRAP1 CRYSTALLIZED WITH AMPPNP