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(-) Description

Title :  DISCOVERY OF NOVEL 7-AZAINDOLES AS PDK1 INHIBITORS
 
Authors :  M. Wucherer-Plietker, C. Esdar, T. Knoechel, P. Hillertz, T. Heinrich H. P. Buchstaller, H. Greiner, D. Dorsch, M. Calderini, D. Bruge, T. J. J. Mueller, U. Graedler
Date :  18 Jan 16  (Deposition) - 08 Jun 16  (Release) - 15 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.01
Chains :  Asym./Biol. Unit :  A
Keywords :  Pdk1 Inhibitor, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Wucherer-Plietker, E. Merkul, T. J. Muller, C. Esdar, T. Knochel, T. Heinrich, H. P. Buchstaller, H. Greiner, D. Dorsch, D. Finsinger, M. Calderini, D. Bruge, U. Gradler
Discovery Of Novel 7-Azaindoles As Pdk1 Inhibitors.
Bioorg. Med. Chem. Lett. V. 26 3073 2016
PubMed-ID: 27217002  |  Reference-DOI: 10.1016/J.BMCL.2016.05.005

(-) Compounds

Molecule 1 - 3-PHOSPHOINOSITIDE-DEPENDENT PROTEIN KINASE 1
    Chains: A
    EC Number: 2.7.11.1
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Common: FALL ARMYWORM
    Expression System Taxid: 7108
    Fragment: KINASE DOMAIN, RESIDUES 51-359
    Gene: PDPK1, PDK1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: HPDK1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
162O1Ligand/Ion6-METHOXY-2-(1H-PYRAZOL-5-YL)-1H-BENZIMIDAZOLE
2SEP1Mod. Amino AcidPHOSPHOSERINE
3SO42Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:106 , PRO A:140 , HIS A:351binding site for residue SO4 A 401
2AC2SOFTWARELYS A:76 , ARG A:131 , THR A:148 , PHE A:149 , GLN A:150binding site for residue SO4 A 402
3AC3SOFTWAREALA A:109 , SER A:160 , TYR A:161 , ALA A:162 , LYS A:163 , GLY A:165 , LEU A:212binding site for residue 62O A 403

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5HNG)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5HNG)

(-) 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:281
                                                                                                                                                                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhh.eeeeeeeee...eeeeeeee.....eeeeeeeehhhhhhh.hhhhhhhhhhhhhhh.......eeeeee...eeeeeee.....hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.ee........eee.....eee......ee.......hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh........hhhhhhhhhh....hhhhh..hhhhhhhhhhhhhhhhh..hhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hng A  71 PPQPRKKRPEDFKFGKILGEGSFSTVVLARELATSREYAIKILEKRHIIKENKVPYVTRERDVMSRLDHPFFVKLYFTFQDDEKLYFGLSYAKNGELLKYIRKIGSFDETCTRFYTAEIVSALEYLHGKGIIHRDLKPENILLNEDMHIQITDFGTAKVLSPsFVGTAQYVSPELLTEKSACKSSDLWALGCIIYQLVAGLPPFRAGNEYLIFQKIIKLEYDFPEKFFPKARDLVEKLLVLDATKRLGCEEMEGYGPLKAHPFFESVTWENLHQQTPPKLT 359
                                    80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230 ||    248       258       268       278       288       298       308       318       328       338       348       358 
                                                                                                                                                                                           232|                                                                                                                      
                                                                                                                                                                                            241-SEP
   Legend:   → Mismatch (orange background)
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  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 5HNG)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (56, 56)

Asymmetric/Biological Unit(hide GO term definitions)

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  5hng
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  PDPK1_HUMAN | O15530
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  2.7.11.1
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 Related Entries

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

UniProtKB/Swiss-Prot
        PDPK1_HUMAN | O15530: 1h1w 1oky 1okz 1uu3 1uu7 1uu8 1uu9 1uvr 1w1d 1w1g 1w1h 1z5m 2biy 2pe0 2pe1 2pe2 2r7b 2vki 2xch 2xck 3h9o 3hrc 3hrf 3ion 3iop 3nax 3nay 3nun 3nus 3nuu 3nuy 3orx 3orz 3otu 3pwy 3qc4 3qcq 3qcs 3qcx 3qcy 3qd0 3qd3 3qd4 3rcj 3rwp 3rwq 3sc1 4a06 4a07 4aw0 4aw1 4ct1 4ct2 4rqk 4rqv 4rrv 4xx9 5ack 5hkm 5ho7 5ho8 5lvl 5lvm 5lvn 5lvo 5lvp 5mrd

(-) Related Entries Specified in the PDB File

5hkm