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(-) Description

Title :  CRYSTAL STRUCTURE OF BMP-2-INDUCIBLE KINASE IN COMPLEX WITH AN INDAZOLE INHIBITOR
 
Authors :  R. M. Counago, F. J. Sorrell, T. Krojer, P. Savitsky, J. M. Elkins, A. Axt D. Drewry, C. Wells, C. Zhang, W. Zuercher, T. M. Willson, C. H. Arrowsm A. M. Edwards, C. Bountra, P. Arruda, O. Gileadi, Structural Genomic Consortium (Sgc)
Date :  10 Feb 16  (Deposition) - 09 Mar 16  (Release) - 09 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Transferase, Protein Kinase Domain, Structural Genomics, Structural Genomics Consortium, Sgc, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. M. Counago, F. J. Sorrell, T. Krojer, J. M. Elkins, O. Gileadi, T. M. Willson, C. H. Arrowsmith, A. M. Edwards, C. Bountra, P. Arruda
Crystal Structure Of Bmp-2-Inducible Kinase In Complex With An Indazole Inhibitor
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - BMP-2-INDUCIBLE PROTEIN KINASE
    Chains: A, B
    EC Number: 2.7.11.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Gene: BMP2K, BIKE, HRIHFB2017
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: BIKE

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1IDK2Ligand/IonN-[6-(3-{[(CYCLOPROPYLMETHYL)SULFONYL]AMINO}PHENYL)-1H-INDAZOL-3-YL]CYCLOPROPANECARBOXAMIDE
2PO42Ligand/IonPHOSPHATE ION
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1IDK1Ligand/IonN-[6-(3-{[(CYCLOPROPYLMETHYL)SULFONYL]AMINO}PHENYL)-1H-INDAZOL-3-YL]CYCLOPROPANECARBOXAMIDE
2PO41Ligand/IonPHOSPHATE ION
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1IDK1Ligand/IonN-[6-(3-{[(CYCLOPROPYLMETHYL)SULFONYL]AMINO}PHENYL)-1H-INDAZOL-3-YL]CYCLOPROPANECARBOXAMIDE
2PO41Ligand/IonPHOSPHATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:60 , SER A:63 , VAL A:65 , ALA A:77 , MET A:130 , GLU A:131 , TYR A:132 , CYS A:133 , ARG A:134 , GLY A:136 , GLN A:137 , GLU A:184 , ASN A:185 , CYS A:197 , ASP A:198 , HOH A:519binding site for residue IDK A 401
2AC2SOFTWAREALA A:321 , ASP A:322 , HOH A:526 , HIS B:49 , GLN B:50 , THR B:70binding site for residue PO4 A 402
3AC3SOFTWARELEU B:57 , ALA B:58 , GLU B:59 , SER B:63 , VAL B:65 , ALA B:77 , MET B:130 , GLU B:131 , TYR B:132 , CYS B:133 , ARG B:134 , GLY B:136 , GLN B:137 , GLU B:184 , ASN B:185 , LEU B:187 , CYS B:197 , ASP B:198binding site for residue IDK B 401
4AC4SOFTWAREHIS A:49 , GLN A:50 , THR A:70 , ALA B:321 , ASP B:322binding site for residue PO4 B 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5I3R)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gly A:61 -Phe A:62
2Gly B:61 -Phe B:62

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5I3R)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5I3R)

(-) Exons   (0, 0)

(no "Exon" information available for 5I3R)

(-) 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:302
                                                                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeeeeeeeeee...eeeeeeee....eeeeeeeee.hhhhhhhhhhhhhhhhhhh.......eeeeeeee.....eeeeeeee.....hhhhhhhh......hhhhhhhhhhhhhhhhhhhhh..........hhh.eee.....eee...........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh......hhhhhhhh..ee......hhhhhhhhhhhh........hhhhhhhhhhhhhh....................ee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5i3r A  42 RVFAVGRHQVTLEESLAEGGFSTVFLVRTHGGIRCALKRMYVNNMPDLNVCKREITIMKELSGHKNIVGYLDCAVNSISDNVWEVLILMEYCRAGQVVNQMNKKLQTGFTEPEVLQIFCDTCEAVARLHQCKTPIIHRDLKVENILLNDGGNYVLCDFGSATNKFLNPQKDGVNVVEEEIKKYTTLSYRAPEMINLYGGKPITTKADIWALGCLLYKLCFFTLPFGESQVAICDGNFTIPDNSRYSRNIHCLIRFMLEPDPEHRPDIFQVSYFAFKFAAADCPVSNINNSSIPSALPEPMTA 343
                                    51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341  


Chain B from PDB  Type:PROTEIN  Length:302
                                                                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeeeeeeeeee...eeeeeeee....eeeeeeeee.hhhhhhhhhhhhhhhhhhh.......eeeeeeee.....eeeeeeee.....hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh..........hhh.eee.....eee...........hhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhh......hhhhhhhh..ee......hhhhhhhhhhhh........hhhhhhhhhhhhhh....................ee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5i3r B  42 RVFAVGRHQVTLEESLAEGGFSTVFLVRTHGGIRCALKRMYVNNMPDLNVCKREITIMKELSGHKNIVGYLDCAVNSISDNVWEVLILMEYCRAGQVVNQMNKKLQTGFTEPEVLQIFCDTCEAVARLHQCKTPIIHRDLKVENILLNDGGNYVLCDFGSATNKFLNPQKDGVNVVEEEIKKYTTLSYRAPEMINLYGGKPITTKADIWALGCLLYKLCFFTLPFGESQVAICDGNFTIPDNSRYSRNIHCLIRFMLEPDPEHRPDIFQVSYFAFKFAAADCPVSNINNSSIPSALPEPMTA 343
                                    51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341
   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 5I3R)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5I3R)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5I3R)

(-) Gene Ontology  (13, 13)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        BMP2K_HUMAN | Q9NSY1: 4w9w 4w9x 5i3o 5ikw

(-) Related Entries Specified in the PDB File

4w9w CRYSTAL STRUCTURE OF BMP-2-INDUCIBLE KINASE IN COMPLEX WITH SMALL MOLECULE AZD-7762
4w9x CRYSTAL STRUCTURE OF BMP-2-INDUCIBLE KINASE IN COMPLEX WITH BARICITINIB
5i3o CRYSTAL STRUCTURE OF BMP-2-INDUCIBLE KINASE IN COMPLEX WITH AN INDAZOLE INHIBITOR