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(-) Description

Title :  CRYSTAL STRUCTURE OF CHOLINE KINASE ALPHA-1 BOUND BY [4-[(4-METHYL-1, 4-DIAZEPAN-1-YL)METHYL]PHENYL]METHANAMINE (COMPOUND 11)
 
Authors :  T. Zhou, X. Zhu, D. C. Dalgarno
Date :  12 Nov 15  (Deposition) - 06 Jan 16  (Release) - 10 Feb 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Kinase, Inhibitor, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. G. Zech, A. Kohlmann, T. Zhou, F. Li, R. M. Squillace, L. E. Parillon, M. T. Greenfield, D. P. Miller, J. Qi, R. M. Thomas, Y. Wang, Y. Xu, J. J. Miret, W. C. Shakespeare, X. Zhu, D. C. Dalgarno
Novel Small Molecule Inhibitors Of Choline Kinase Identifie By Fragment-Based Drug Discovery.
J. Med. Chem. V. 59 671 2016
PubMed-ID: 26700752  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.5B01552

(-) Compounds

Molecule 1 - CHOLINE KINASE ALPHA
    Chains: A, B
    EC Number: 2.7.1.32, 2.7.1.82
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 75-457
    Gene: CHKA, CHK, CKI
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CK,CHETK-ALPHA,ETHANOLAMINE KINASE,EK

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
15R82Ligand/Ion[4-[(4-METHYL-1,4-DIAZEPAN-1-YL)METHYL]PHENYL]METHANAMINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:306 , GLN A:308 , TYR A:354 , TRP A:420 , PHE A:435 , TYR A:440binding site for residue 5R8 A 501
2AC2SOFTWAREASP B:306 , GLN B:308 , TYR B:333 , TYR B:354 , TRP B:420 , TRP B:423 , ILE B:433 , TYR B:437 , TYR B:440binding site for residue 5R8 B 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5EQE)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Tyr A:359 -Pro A:360
2Tyr B:359 -Pro B:360

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5EQE)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5EQE)

(-) Exons   (0, 0)

(no "Exon" information available for 5EQE)

(-) 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:353
                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhhhhheeeeee.....eeeeee.............eeeeee.....hhhhhhhhhhhhh.....eeeee..eeeee...eee.hhhhh.hhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeee....hhh.eeee..........eee......eeeehhhhhhhhhhh..ee.........ee.hhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5eqe A  80 DEQPEPRTRRRAYLWCKEFLPGAWRGLREDEFHISVIRGGLSNMLFQCSLPDTTATLGDEPRKVLLRLYGAIMVLESVMFAILAERSLGPKLYGIFPQGRLEQFIPSRRLDTEELSLPDISAEIAEKMATFHGMKMPFNKEPKWLFGTMEKYLKEVLRIKFTEESRIKKLHKLLSYNLPLELENLRSLLESTPSPVVFCHNDCQEGNILLLEGRENSEKQKLMLIDFEYSSYNYRGFDIGNHFCEWMYDYSYEKYPFFRANIRKYPTKKQQLHFISSYLPAFQNDFENLSTEEKSIIKEEMLLEVNRFALASHFLWGLWSIVQAKISSIEFGYMDYAQARFDAYFHQKRKLGV 457
                                    89        99       109       119       129       139       149 ||    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   
                                                                                                 151|                                                                                                                                                                                                                                                                                        
                                                                                                  177                                                                                                                                                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:344
                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh.......eeeeee.....eeeeee.............eeeeee...hhhhhhhhhhhhh.....eeeee..eeeee...eee.hhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhh.....hhhhhhhhhhhhh.hhhhhhhhhhhhhhh....eeee....hhh.eeee..........eee......eeeehhhhhhhhhhh..ee.........ee.hhhh.hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5eqe B  87 TRRRAYLWCKEFLPGAWRGLREDEFHISVIRGGLSNMLFQCSLPDTTATLGDEPRKVLLRLYGMVLESVMFAILAERSLGPKLYGIFPQGRLEQFIPSRRLDTEELSLPDISAEIAEKMATFHGMKMPFNKEPKWLFGTMEKYLKEVLRIKFTEESRIKKLHKLLSYNLPLELENLRSLLESTPSPVVFCHNDCQEGNILLLEGRENSEKQKLMLIDFEYSSYNYRGFDIGNHFCEWMYDYSYEKYPFFRANIRKYPTKKQQLHFISSYLPAFQNDFENLSTEEKSIIKEEMLLEVNRFALASHFLWGLWSIVQAKISSIEFGYMDYAQARFDAYFHQKRKLGV 457
                                    96       106       116       126       136       146  ||   183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453    
                                                                                        149|                                                                                                                                                                                                                                                                                        
                                                                                         177
   Legend:   → Mismatch (orange background)
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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 5EQE)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5EQE)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5EQE)

(-) Gene Ontology  (25, 25)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        CHKA_HUMAN | P35790: 2cko 2ckp 2ckq 2i7q 3f2r 3g15 3zm9 4br3 4cg8 4cg9 4cga 4da5 5afv 5eqp 5eqy 5ftg 5fut

(-) Related Entries Specified in the PDB File

5eqp 5eqy