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(-) Description

Title :  CRYSTAL STRUCTURE OF THE DNAK C-TERMINUS WITH THE SUBSTRATE PEPTIDE NRLLLTG
 
Authors :  J. I. Leu, P. Zhang, M. E. Murphy, R. Marmorstein, D. L. George
Date :  21 Aug 14  (Deposition) - 10 Sep 14  (Release) - 03 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.97
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Helical Bundle, Beta Sheets, Chaperone, Substrate Binding, Membrane (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. I. Leu, P. Zhang, M. E. Murphy, R. Marmorstein, D. L. George
Structural Basis For The Inhibition Of Hsp70 And Dnak Chaperones By Small-Molecule Targeting Of A C-Terminal Allosteric Pocket.
Acs Chem. Biol. V. 9 2508 2014
PubMed-ID: 25148104  |  Reference-DOI: 10.1021/CB500236Y

(-) Compounds

Molecule 1 - CHAPERONE PROTEIN DNAK
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: C-TERMINUS OF DNAK
    Gene: DNAK, GROP, GRPF, SEG, B0014, JW0013
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
    Synonym: HSP70, HEAT SHOCK 70 KDA PROTEIN, HEAT SHOCK PROTEIN 70
 
Molecule 2
    Chains: B
    Engineered: YES
    Organism Scientific: SYNTHETIC
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric/Biological Unit (2, 7)
No.NameCountTypeFull Name
1PO44Ligand/IonPHOSPHATE ION
2SO43Ligand/IonSULFATE ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:384 , LYS A:452 , SER A:453 , HOH A:850 , HOH A:935BINDING SITE FOR RESIDUE SO4 A 701
2AC2SOFTWAREHIS A:485 , LYS A:498 , ILE A:499 , THR A:500 , HOH A:936 , HOH A:950BINDING SITE FOR RESIDUE SO4 A 702
3AC3SOFTWARETHR A:420 , HIS A:422 , HOH A:883 , HOH A:890 , HOH A:891 , HOH A:894 , HOH A:911BINDING SITE FOR RESIDUE SO4 A 703
4AC4SOFTWAREASP A:580 , LYS A:581 , ALA A:582 , HOH A:918BINDING SITE FOR RESIDUE PO4 A 704
5AC5SOFTWAREGLY A:387 , ARG A:388 , LYS A:452 , HOH A:920BINDING SITE FOR RESIDUE PO4 A 705
6AC6SOFTWAREPHE A:457 , ASN A:458 , HOH A:885BINDING SITE FOR RESIDUE PO4 A 706
7AC7SOFTWAREARG A:467 , HIS A:541 , HIS A:544BINDING SITE FOR RESIDUE PO4 A 707

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4R5I)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ile A:418 -Pro A:419
2Gly A:506 -Leu A:507

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4R5I)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4R5I)

(-) Exons   (0, 0)

(no "Exon" information available for 4R5I)

(-) 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:222
                                                                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...............eeeee...eeeeee.......eeeeeeeee.......eeeeeee....hhhhheeeeeeee............eeeeeee.....eeeeeee.....eeeeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4r5i A 384 HIEGRVLLLDVTPLSLGIETMGGVMTTLIAKNTTIPTKHSQVFSTAEDNQSAVTIHVLQGERKRAADNKSLGQFNLDGINPAPRGMPQIEVTFDIDADGILHVSAKDKNSGKEQKITIKASSGLNEDEIQKMVRDAEANAEADRKFEELVQTRNQGDHLLHSTRKQVEEAGDKLPADDKTAIESALTALETALKGEDKAAIEAKMQELAQVSQKLMEIAQQQ 605
                                   393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603  


Chain B from PDB  Type:PROTEIN  Length:6
                                      
               SCOP domains ------ SCOP domains
               CATH domains ------ CATH domains
               Pfam domains ------ Pfam domains
         Sec.struct. author .eee.. Sec.struct. author
                 SAPs(SNPs) ------ SAPs(SNPs)
                    PROSITE ------ PROSITE
                 Transcript ------ Transcript
                 4r5i B   1 NRLLLT   6
   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 4R5I)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4R5I)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4R5I)

(-) Gene Ontology  (21, 21)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gly A:506 - Leu A:507   [ RasMol ]  
    Ile A:418 - Pro A:419   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        DNAK_ECOLI | P0A6Y8: 1bpr 1dg4 1dkg 1dkx 1dky 1dkz 1q5l 2bpr 2kho 3dpo 3dpp 3dpq 3qnj 4b9q 4e81 4ezn 4ezo 4ezp 4ezq 4ezr 4ezs 4ezt 4ezu 4ezv 4ezw 4ezx 4ezy 4ezz 4f00 4f01 4hy9 4hyb 4jn4 4jne 4jnf 4jwc 4jwd 4jwe 4jwi 4r5g 4r5j 4r5k 4r5l

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4R5I)