Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit
(-)Asym./Biol. Unit - sites
collapse expand < >
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)
Image Asym./Biol. Unit - sites
Asym./Biol. Unit - sites  (Jmol Viewer)

(-) Description

Title :  PKB ALPHA IN COMPLEX WITH AZD5363
 
Authors :  M. Addie, P. Ballard, G. Bird, D. Buttar, G. Currie, B. Davies, J. Debrec H. Dry, P. Dudley, R. Greenwood, G. Hatter, A. Jestel, P. D. Johnson, J. C. Lane, G. Lamont, A. Leach, R. W. A. Luke, D. Ogilvie, K. Page, M. Pass, S. Steinbacher, H. Steuber, S. Pearson, L. Ruston
Date :  30 Aug 12  (Deposition) - 27 Feb 13  (Release) - 27 Mar 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.49
Chains :  Asym./Biol. Unit :  A
Keywords :  Protein Kinase, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Addie, P. Ballard, D. Buttar, C. Crafter, G. Currie, B. R. Davies, J. Debreczeni, H. Dry, P. Dudley, R. Greenwood, P. D. Johnson, J. G. Kettle, C. Lane, G. Lamont, A. Leach, R. W. Luke, J. Morris, D. Ogilvie, K. Page, M. Pass, S. Pearson, L. Ruston
Discovery Of 4-Amino-N-[(1S)-1-(4-Chlorophenyl)-3-Hydroxypropyl]-1-(7H- Pyrrolo[2, 3-D]Pyrimidin-4-Yl)Piperidine-4-Carboxamide (Azd5363), An Orally Bioavailable, Potent Inhibitor Of Akt Kinases.
J. Med. Chem. V. 56 2059 2013
PubMed-ID: 23394218  |  Reference-DOI: 10.1021/JM301762V

(-) Compounds

Molecule 1 - RAC-ALPHA SERINE/THREONINE-PROTEIN KINASE
    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 (UNP RESIDUES 144-480)
    Gene: AKT1, PKB, RAC
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: PROTEIN KINASE B, PKB, PROTEIN KINASE B ALPHA, PKB ALPHA, PROTO-ONCOGENE C-AKT, RAC-PK-ALPHA

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric/Biological Unit (3, 6)
No.NameCountTypeFull Name
10XZ1Ligand/Ion4-AMINO-N-[(1S)-1-(4-CHLOROPHENYL)-3-HYDROXYPROPYL]-1-(7H-PYRROLO[2,3-D]PYRIMIDIN-4-YL)PIPERIDINE-4-CARBOXAMIDE
2GOL4Ligand/IonGLYCEROL
3TPO1Mod. Amino AcidPHOSPHOTHREONINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:157 , LYS A:158 , GLY A:159 , GLY A:162 , LYS A:163 , VAL A:164 , ALA A:177 , LYS A:179 , LEU A:181 , MET A:227 , GLU A:228 , ALA A:230 , GLU A:234 , GLU A:278 , MET A:281 , ASP A:292 , PHE A:438 , GOL A:505 , HOH A:642 , HOH A:726BINDING SITE FOR RESIDUE 0XZ A 501
2AC2SOFTWARELYS A:154 , ASP A:434 , THR A:435 , ARG A:436 , HOH A:732 , HOH A:939BINDING SITE FOR RESIDUE GOL A 502
3AC3SOFTWARELYS A:179 , ILE A:186 , GLU A:191 , THR A:195 , GLU A:198 , ASP A:292 , GLY A:294 , HOH A:854 , HOH A:855BINDING SITE FOR RESIDUE GOL A 503
4AC4SOFTWAREPHE A:309 , CYS A:310 , GLY A:311 , THR A:312 , PRO A:313 , LEU A:316 , HOH A:967BINDING SITE FOR RESIDUE GOL A 504
5AC5SOFTWAREGLY A:157 , LYS A:158 , GLU A:234 , PHE A:236 , PHE A:442 , 0XZ A:501 , HOH A:638 , HOH A:709 , HOH A:852BINDING SITE FOR RESIDUE GOL A 505

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4GV1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4GV1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4GV1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4GV1)

(-) Exons   (0, 0)

(no "Exon" information available for 4GV1)

(-) 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:330
                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains d4gv1a_ A: automated matches                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhh.eeeeeeeee...eeeeeeee.....eeeeeeeehhhhhhh.hhhhhhhhhhhhhhh.......eeeeee...eeeeee.....eehhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh......hhh.eee.....eee.....................hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh........hhhhhhhhhhhh..hhhhh......hhhhhhhhhhhh..hhhhhhh....................hhhhhh.......................eee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4gv1 A 143 SRVTMNEFEYLKLLGKGTFGKVILVKEKATGRYYAMKILKKEVIVAKDEVAHTLTENRVLQNSRHPFLTALKYSFQTHDRLCFVMEYANGGELFFHLSRERVFSEDRARFYGAEIVSALDYLHSEKNVVYRDLKLENLMLDKDGHIKITDFGLCKEGIKDGATMKtFCGTPEYLAPEVLEDNDYGRAVDWWGLGVVMYEMMCGRLPFYNQDHEKLFELILMEEIRFPRTLGPEAKSLLSGLLKKDPKQRLGGGSEDAKEIMQHRFFAGIVWQHVYEKKLSPPFKPQVTSETDTRYFDEEFTAQMITITPSMECVDSERRPHFPQFDYSAS 477
                                   152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302     | 312       322       332       342       352       362       372       382       392       402       412       422       432       442       457       467       477
                                                                                                                                                                                               308-TPO                                                                                                                                        451|                    
                                                                                                                                                                                                                                                                                                                                               457
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4GV1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4GV1)

(-) Gene Ontology  (161, 161)

Asymmetric/Biological Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric/Biological Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    0XZ  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    GOL  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    TPO  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 4gv1)
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format | Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  4gv1
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  AKT1_HUMAN | P31749
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  2.7.11.1
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  AKT1_HUMAN | P31749
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        AKT1_HUMAN | P31749: 1h10 1unp 1unq 1unr 2uvm 2uzr 2uzs 3cqu 3cqw 3mv5 3mvh 3o96 3ocb 3ow4 3qkk 3qkl 3qkm 4ejn 4ekk 4ekl 5kcv

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4GV1)