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(-) Description

Title :  A NEW CLASS OF PEPTIDOMIMETICS TARGETING THE POLO-BOX DOMAIN OF POLO-LIKE KINASE 1
 
Authors :  J. K. Bang, Y. H. Han, M. J. Ahn, K. S. Lee
Date :  23 Sep 14  (Deposition) - 03 Dec 14  (Release) - 11 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.71
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Polo-Like Kinase, Polo-Box Domain, Inhibitor, Peptide Derivative, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Ahn, Y. H. Han, J. E. Park, S. Kim, W. C. Lee, S. J. Lee, P. Gunasekaran, C. Cheong, S. Y. Shin, H. Y. Kim, E. K. Ryu, R. N. Murugan, N. H. Kim, J. K. Bang
A New Class Of Peptidomimetics Targeting The Polo-Box Domai Of Polo-Like Kinase 1.
J. Med. Chem. V. 58 294 2015
PubMed-ID: 25347203  |  Reference-DOI: 10.1021/JM501147G

(-) Compounds

Molecule 1 - SERINE/THREONINE-PROTEIN KINASE PLK1
    Chains: A
    EC Number: 2.7.11.21
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET28
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 371-603
    Gene: PLK1, PLK
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: POLO-LIKE KINASE 1,PLK-1,SERINE/THREONINE-PROTEIN KINASE 13, STPK13
 
Molecule 2 - C6H5(CH2)8-DERIVATIZED PEPTIDE INHIBITOR
    Chains: B
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    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  (4, 4)

Asymmetric/Biological Unit (4, 4)
No.NameCountTypeFull Name
156A1Mod. Amino Acid3-(8-PHENYLOCTYL)-L-HISTIDINE
2KAC1Mod. Amino Acid4-(BENZOYLAMINO)BUTANOIC ACID
3NH21Mod. Amino AcidAMINO GROUP
4TPO1Mod. Amino AcidPHOSPHOTHREONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:413 , TRP A:414 , VAL A:415 , ASP A:416 , TYR A:421 , SER A:450 , LEU A:451 , TYR A:462 , LEU A:463 , THR A:464 , TYR A:481 , TYR A:485 , LEU A:490 , LEU A:491 , ARG A:516 , HIS A:538 , LYS A:540BINDING SITE FOR CHAIN B OF C6H5(CH2)8 -DERIVATIZED PEPTIDE INHIBITOR

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4WHL)

(-) 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:216
                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhh........hhhhhhhhhhh....eeeeee.....eeeeee....eeeee....eeee.....eeeee.....eeeee....hhhhhhhhhhhhhhhhhhh.................eeeeee...eeeeee...eeeeee.....eeeee....eeeee.....eeeeehhhhhhhh.hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4whl A 371 DCHLSDMLQQLHSVNASKPSERGLVRQEEAEDPACIPIFWVSKWVDYSDKYGLGYQLCDNSVGVLFNDSTRLILYNDGDSLQYIERDGTESYLTVSSHPNSLMKKITLLKYFRNYMSEHLLKAGANITLARLPYLRTWFRTRSAIILHLSNGSVQINFFQDHTKLILCPLMAAVTYIDEKRDFRTYRLSLLEEYGCCKELASRLRYARTMVDKLLS 592
                                   380       390       400       410       420       430       440       450       460       470       480       490       506       516       526       536       546       556       566       576       586      
                                                                                                                                                         498|                                                                                       
                                                                                                                                                          505                                                                                       


Chain B from PDB  Type:PROTEIN  Length:5
                                     
               SCOP domains ----- SCOP domains
               CATH domains ----- CATH domains
               Pfam domains ----- Pfam domains
         Sec.struct. author ..... Sec.struct. author
                 SAPs(SNPs) ----- SAPs(SNPs)
                    PROSITE ----- PROSITE
                 Transcript ----- Transcript
                 4whl B   1 xxStx   5
                            || ||
                            1-KAC
                             2-56A
                               4-TPO
                                5-NH2
   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 4WHL)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (73, 73)

Asymmetric/Biological Unit(hide GO term definitions)

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  4whl
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  PLK1_HUMAN | P53350
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  2.7.11.21
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 Related Entries

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

UniProtKB/Swiss-Prot
        PLK1_HUMAN | P53350: 1q4k 1q4o 1umw 2ogq 2ojx 2ou7 2owb 2rku 2v5q 2yac 3bzi 3c5l 3fc2 3fvh 3hih 3hik 3kb7 3p2w 3p2z 3p34 3p35 3p36 3p37 3q1i 3rq7 3thb 4a4l 4a4o 4dfw 4e67 4e9c 4e9d 4h5x 4h71 4hab 4hco 4hy2 4j52 4j53 4lkl 4lkm 4o56 4o6w 4o9w 4rcp 4whh 4whk 4x9r 4x9v 4x9w 5j19 5ta6 5ta8

(-) Related Entries Specified in the PDB File

4whh 4whk