Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
(-)Biological Unit 2
(-)Biological Unit 3
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)
Image Biological Unit 3
Biological Unit 3  (Jmol Viewer)

(-) Description

Title :  FOCAL ADHESION KINASE CATALYTIC DOMAIN IN COMPLEX WITH N-{3-[(5-CYANO-2-PHENYL-1H-PYRROLO[2,3-B]PYRIDIN-4-YLAMINO)- METHYL]-PYRIDIN-2-YL}-N-METHYL-METHANESULFONAMIDE
 
Authors :  D. Musil, T. Heinrich
Date :  29 Aug 12  (Deposition) - 04 Sep 13  (Release) - 04 Sep 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A  (1x)
Biol. Unit 3:  B  (1x)
Keywords :  Protein Tyrosine Kinase, Atp Binding, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Heinrich, J. Seenisamy, L. Emmanuvel, S. S. Kulkarni, J. Bomke, F. Rohdich, H. Greiner, C. Esdar, M. Krier, U. Gradler, D. Musil
Fragment-Based Discovery Of New Highly Substituted 1H-Pyrrolo[2, 3-B]- And 3H-Imidazolo[4, 5-B]-Pyridines As Focal Adhesion Kinase Inhibitors.
J. Med. Chem. V. 56 1160 2013
PubMed-ID: 23294348  |  Reference-DOI: 10.1021/JM3016014

(-) Compounds

Molecule 1 - FOCAL ADHESION KINASE 1
    Chains: A, B
    EC Number: 2.7.10.2
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Taxid: 7111
    Fragment: KINASE DOMAIN, UNP RESIDUES 411-689
    Gene: PTK2, FAK, FAK1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: FADK 1, FOCAL ADHESION KINASE-RELATED NONKINASE, FRNK, PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT 71, PPP1R71, PROTEIN- TYROSINE KINASE 2, P125FAK, PP125FAK

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): AB
Biological Unit 2 (1x): A 
Biological Unit 3 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
110N2Ligand/IonN-(3-{[(5-CYANO-2-PHENYL-1H-PYRROLO[2,3-B]PYRIDIN-4-YL)AMINO]METHYL}PYRIDIN-2-YL)-N-METHYLMETHANESULFONAMIDE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
110N2Ligand/IonN-(3-{[(5-CYANO-2-PHENYL-1H-PYRROLO[2,3-B]PYRIDIN-4-YL)AMINO]METHYL}PYRIDIN-2-YL)-N-METHYLMETHANESULFONAMIDE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
110N1Ligand/IonN-(3-{[(5-CYANO-2-PHENYL-1H-PYRROLO[2,3-B]PYRIDIN-4-YL)AMINO]METHYL}PYRIDIN-2-YL)-N-METHYLMETHANESULFONAMIDE
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
110N1Ligand/IonN-(3-{[(5-CYANO-2-PHENYL-1H-PYRROLO[2,3-B]PYRIDIN-4-YL)AMINO]METHYL}PYRIDIN-2-YL)-N-METHYLMETHANESULFONAMIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:430 , ASN A:493 , GLU A:500 , LEU A:501 , CYS A:502 , THR A:503 , GLY A:505 , ARG A:550 , ASN A:551 , LEU A:553 , GLY A:563 , ASP A:564 , LEU A:567 , SER A:568 , HOH A:1012BINDING SITE FOR RESIDUE 10N A 701
2AC2SOFTWAREILE B:428 , GLU B:430 , GLU B:500 , LEU B:501 , CYS B:502 , THR B:503 , GLY B:505 , GLU B:506 , ARG B:550 , ASN B:551 , LEU B:553 , GLY B:563 , ASP B:564 , LEU B:567 , SER B:568BINDING SITE FOR RESIDUE 10N B 701

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:456 -A:459
2B:456 -B:459

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Asn A:493 -Pro A:494
2Asn B:493 -Pro B:494

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4GU6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4GU6)

(-) Exons   (0, 0)

(no "Exon" information available for 4GU6)

(-) Sequences/Alignments

Asymmetric 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:271
                                                                                                                                                                                                                                                                                                               
               SCOP domains d4gu6a_ A: Focal adhesion kinase 1 (fak)                                                                                                                                                                                                                                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhh.eeeeeeeeee..eeeeeeee.....eeeeeee.....hhhhhhhhhhhhhhhhh........eeeee.....eeeee.....hhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eeeee..eeee.hhhhhhhhhhhhhh.......hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gu6 A 414 DYEIQRERIELGRCIGEGQFGDVHQGIYMSNPALAVAIKTCKNCTSDSVREKFLQEALTMRQFDHPHIVKLIGVITENPVWIIMELCTLGELRSFLQVRKYSLDLASLILYAYQLSTALAYLESKRFVHRDIAARNVLVSSNDCVKLGDFGLSRYMEDSTYYKASKGKLPIKWMAPESINFRRFTSASDVWMFGVCMWEILMHGVKPFQGVKNNDVIGRIENGERLPMPPNCPPTLYSLMTKCWAYDPSRRPRFTELKAQLSTILEEEKAQ 686
                                   423       433       443|      455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685 
                                                       443|                                                                                                                                                                                                                                                
                                                        446                                                                                                                                                                                                                                                


Chain B from PDB  Type:PROTEIN  Length:258
                                                                                                                                                                                                                                                                                                  
               SCOP domains d4gu6b_ B: Focal adhesion kinase 1 (fak)                                                                                                                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhh.eeeeeeeeee..eeeeeeeeee..eeeeeeeeee.....hhhhhhhhhhhhhhhhh........eeeee.....eeeee.....hhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eeeee..eeee........hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4gu6 B 415 YEIQRERIELGRCIGEGQFGDVHQGIYMSPENPALAVAIKTCKNCTSDSVREKFLQEALTMRQFDHPHIVKLIGVITENPVWIIMELCTLGELRSFLQVRKYSLDLASLILYAYQLSTALAYLESKRFVHRDIAARNVLVSSNDCVKLGDFGLSRLPIKWMAPESINFRRFTSASDVWMFGVCMWEILMHGVKPFQGVKNNDVIGRIENGERLPMPPNCPPTLYSLMTKCWAYDPSRRPRFTELKAQLSTILEEEKAQ 686
                                   424       434       444       454       464       474       484       494       504       514       524       534       544       554       564    || 588       598       608       618       628       638       648       658       668       678        
                                                                                                                                                                                    569|                                                                                                      
                                                                                                                                                                                     584
   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, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4GU6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4GU6)

(-) Gene Ontology  (89, 89)

Asymmetric Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric 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
    10N  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Asn A:493 - Pro A:494   [ RasMol ]  
    Asn B:493 - Pro B:494   [ RasMol ]  
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]
    Biological Unit 3  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites PNG format | Biol. Unit 2 PNG format | Biol. Unit 3 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
  4gu6
    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
  FAK1_HUMAN | Q05397
    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)
  2.7.10.2
    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
  FAK1_HUMAN | Q05397
    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
        FAK1_HUMAN | Q05397: 1k04 1k05 1mp8 1ow6 1ow7 1ow8 2etm 2ijm 3b71 3bz3 3pxk 3s9o 4ebv 4ebw 4gu9 4i4e 4i4f 4k8a 4k9y 4kab 4kao 4ny0 4q9s

(-) Related Entries Specified in the PDB File

3pxk THE SAME PROTEIN IN COMPLEX WITH PYRROLO[2,3-D]THIAZOLE