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(-) Description

Title :  CRYSTAL STRUCTURE OF DAPK1 CATALYTIC DOMAIN IN COMPLEX WITH THE HINGE BINDING FRAGMENT PHTHALAZINE
 
Authors :  V. L. Grum-Tokars, S. M. Roy, G. Minasov, W. F. Anderson, D. M. Watterson
Date :  11 Mar 15  (Deposition) - 06 May 15  (Release) - 06 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A
Keywords :  Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. L. Grum-Tokars, G. Minasov, S. M. Roy, W. F. Anderson, D. M. Watterso
Crystal Structure Of Dapk1 Catalytic Domain In Complex With Hinge Binding Fragments
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DEATH-ASSOCIATED PROTEIN KINASE 1
    Chains: A
    EC Number: 2.7.11.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: PROTEIN KINASE DOMAIN (UNP RESIDUES 2-285)
    Gene: DAPK1, DAPK
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: DAP KINASE 1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 7)

Asymmetric/Biological Unit (4, 7)
No.NameCountTypeFull Name
14FT1Ligand/IonPHTHALAZINE
2ACT1Ligand/IonACETATE ION
3CL4Ligand/IonCHLORIDE ION
4SO41Ligand/IonSULFATE ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:63binding site for residue CL A 301
2AC2SOFTWARELYS A:42 , LEU A:93 , ASP A:161 , 4FT A:307 , HOH A:487binding site for residue CL A 302
3AC3SOFTWAREGLY A:22 , GLN A:23 , PHE A:24 , ALA A:25 , HOH A:614 , HOH A:620binding site for residue CL A 303
4AC4SOFTWAREASP A:14 , THR A:15 , PHE A:174binding site for residue CL A 304
5AC5SOFTWAREHIS A:80 , HIS A:131 , SER A:132 , ILE A:266 , GLN A:267 , HOH A:439 , HOH A:535binding site for residue ACT A 305
6AC6SOFTWARELYS A:86 , PHE A:236 , LYS A:249 , ARG A:253 , HOH A:470binding site for residue SO4 A 306
7AC7SOFTWAREALA A:40 , GLU A:94 , VAL A:96 , MET A:146 , CL A:302 , HOH A:464binding site for residue 4FT A 307

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4YO4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4YO4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4YO4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4YO4)

(-) Exons   (0, 0)

(no "Exon" information available for 4YO4)

(-) 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:280
                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhh.eeeeeeeee...eeeeeeee.....eeeeeeee...........hhhhhhhhhhhhhhh.......eeeeee...eeeeeee.....hhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee.........eee......ee............hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh....hhhhhh..hhhhhhhhhh....hhhhh.hhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yo4 A   2 TVFRQENVDDYYDTGEELGSGQFAVVKKCREKSTGLQYAAKFIKKRRTKSSRRGVSREDIEREVSILKEIQHPNVITLHEVYENKTDVILILELVAGGELFDFLAEKESLTEEEATEFLKQILNGVYYLHSLQIAHFDLKPENIMLLDRNVPKPRIKIIDFGLAHKIDFGNEFKNIFGTPEFVAPEIVNYEPLGLEADMWSIGVITYILLSGASPFLGDTKQETLANVSAVNYEFEDEYFSNTSALAKDFIRRLLVKDPKKRMTIQDSLQHPWIKPQFEK 295
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271     ||295
                                                                                                                                                                                                                                                                                                             277|   
                                                                                                                                                                                                                                                                                                              292
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  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 4YO4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4YO4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4YO4)

(-) Gene Ontology  (33, 33)

Asymmetric/Biological Unit(hide GO term definitions)

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  DAPK1_HUMAN | P53355
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 Related Entries

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

UniProtKB/Swiss-Prot
        DAPK1_HUMAN | P53355: 1ig1 1jkk 1jkl 1jks 1jkt 1p4f 1wvw 1wvx 1wvy 1yr5 2w4j 2w4k 2x0g 2xuu 2xzs 2y0a 2y4p 2y4v 2yak 3dfc 3dgk 3eh9 3eha 3f5g 3f5u 3gu4 3gu5 3gu6 3gu7 3gu8 3gub 3zxt 4b4l 4pf4 4tl0 4txc 4uv0 4ypd 5aut 5auu 5auv 5auw 5aux 5auy 5auz 5av0 5av1 5av2 5av3 5av4

(-) Related Entries Specified in the PDB File

4ypd