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(-) Description

Title :  PHARMACOPHORE-BASED VIRTUAL SCREENING TO DISCOVER NEW ACTIVE COMPOUNDS FOR HUMAN CHOLINE KINASE ALPHA1.
 
Authors :  L. Serran-Aguilera, R. Nuti, L. C. Lopez-Cara, M. A. Gallo Mezo, A. Mac A. Entrena, R. Hurtado-Guerrero
Date :  26 Jan 15  (Deposition) - 18 Mar 15  (Release) - 17 Aug 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transferase, Virtual Screening, Pharmacophore (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Serran-Aguilera, R. Nuti, L. C. Lopez-Cara, M. A. Gallo Mezo, A. Macchiarulo, A. Entrena, R. Hurtado-Guerrero
Pharmacophore-Based Virtual Screening To Discover New Active Compounds For Human Choline Kinase Alpha1
Mol Inform V. 34 458 2015
PubMed-ID: 27490389  |  Reference-DOI: 10.1002/MINF.201400140

(-) 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 Plasmid: PMALC2X
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: STAR
    Fragment: RESIDUES 80-457
    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  (2, 9)

Asymmetric/Biological Unit (2, 9)
No.NameCountTypeFull Name
1EDO6Ligand/Ion1,2-ETHANEDIOL
2JH53Ligand/Ion1-BENZYL-4-(BENZYLAMINO)-1H-1,2,4-TRIAZOL-4-IUM

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:209 , SER A:211BINDING SITE FOR RESIDUE EDO A1458
2AC2SOFTWAREARG A:190 , LYS A:239 , MET A:240 , PRO A:241 , LEU B:196 , TYR B:197BINDING SITE FOR RESIDUE EDO A1459
3AC3SOFTWARELYS A:264 , LYS A:429BINDING SITE FOR RESIDUE EDO A1460
4AC4SOFTWAREILE A:401 , GLU A:404 , MET A:405 , GLU A:408 , HOH A:2112BINDING SITE FOR RESIDUE EDO A1461
5AC5SOFTWARETYR A:92 , LYS A:96 , LEU A:106 , GLU A:403 , GLU A:404 , HOH A:2007BINDING SITE FOR RESIDUE EDO A1462
6AC6SOFTWARETYR B:352 , ILE B:366 , ALA B:443 , ALA B:447BINDING SITE FOR RESIDUE EDO B1458
7AC7SOFTWAREASP A:306 , GLN A:308 , TYR A:333 , TYR A:354 , TRP A:420 , TRP A:423 , PHE A:435 , TYR A:440 , HOH A:2131BINDING SITE FOR RESIDUE JH5 A1463
8AC8SOFTWAREARG B:117 , ASN B:122 , GLY B:310 , ASN B:311 , ASP B:330 , GLU B:332BINDING SITE FOR RESIDUE JH5 B1459
9AC9SOFTWAREASP B:306 , GLN B:308 , TYR B:333 , GLU B:349 , TYR B:354 , TRP B:420 , TRP B:423 , PHE B:435 , TYR B:440BINDING SITE FOR RESIDUE JH5 B1460

(-) SS Bonds  (0, 0)

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

(-) 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 5AFV)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5AFV)

(-) 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:354
                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhhheeeeee.....eeeeee.............eeeeee...hhhhhhhhhhhhhhhh.....eeeee..eeeee...eee.hhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh.hhhhhhhhhhhhhhh....eeee....hhh.eeee..........eee......eeeehhhhhhhhhhh..ee.........ee.hhhh.hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5afv A  80 DEQPEPRTRRRAYLWCKEFLPGAWRGLREDEFHISVIRGGLSNMLFQCSLPDTTATLGDEPRKVLLRLYGAEAMVLESVMFAILAERSLGPKLYGIFPQGRLEQFIPSRRLDTEELSLPDISAEIAEKMATFHGMKMPFNKEPKWLFGTMEKYLKEVLRIKFTEESRIKKLHKLLSYNLPLELENLRSLLESTPSPVVFCHNDCQEGNILLLEGRENSEKQKLMLIDFEYSSYNYRGFDIGNHFCEWMYDYSYEKYPFFRANIRKYPTKKQQLHFISSYLPAFQNDFENLSTEEKSIIKEEMLLEVNRFALASHFLWGLWSIVQAKISSIEFGYMDYAQARFDAYFHQKRKLGV 457
                                    89        99       109       119       129       139       149||     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    
                                                                                                150|                                                                                                                                                                                                                                                                                          
                                                                                                 175                                                                                                                                                                                                                                                                                          


Chain B from PDB  Type:PROTEIN  Length:354
                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhh..hhhhheeeeee.....eeeeee.............eeeeee...hhhhhhhhhhhhhhhh.....eeeee..eeeee...eee.hhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh.hhhhhhhhhhhhhhh....eeee....hhh.eeee..........eee......eeeehhhhhhhhhhh..ee.........ee.hhhh.hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5afv B  80 DEQPEPRTRRRAYLWCKEFLPGAWRGLREDEFHISVIRGGLSNMLFQCSLPDTTATLGDEPRKVLLRLYGAEAMVLESVMFAILAERSLGPKLYGIFPQGRLEQFIPSRRLDTEELSLPDISAEIAEKMATFHGMKMPFNKEPKWLFGTMEKYLKEVLRIKFTEESRIKKLHKLLSYNLPLELENLRSLLESTPSPVVFCHNDCQEGNILLLEGRENSEKQKLMLIDFEYSSYNYRGFDIGNHFCEWMYDYSYEKYPFFRANIRKYPTKKQQLHFISSYLPAFQNDFENLSTEEKSIIKEEMLLEVNRFALASHFLWGLWSIVQAKISSIEFGYMDYAQARFDAYFHQKRKLGV 457
                                    89        99       109       119       129       139       149||     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    
                                                                                                150|                                                                                                                                                                                                                                                                                          
                                                                                                 175
   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 5AFV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (25, 25)

Asymmetric/Biological Unit(hide GO term definitions)

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    Tyr A:359 - Pro A:360   [ RasMol ]  
    Tyr B:359 - Pro B:360   [ RasMol ]  
 

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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 5eqe 5eqp 5eqy 5ftg 5fut

(-) Related Entries Specified in the PDB File

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