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(-) Description

Title :  ITK KINASE DOMAIN WITH COMPOUND 1 (N-[1-(3-CYANOBENZYL)-1H-PYRAZOL-4-YL]-2H-INDAZOLE-3-CARBOXAMIDE)
 
Authors :  C. Eigenbrot, S. Shia
Date :  26 Feb 14  (Deposition) - 04 Jun 14  (Release) - 04 Jun 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.58
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Protein Kinase, Phospho-Transfer, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. M. Pastor, J. D. Burch, S. Magnuson, D. F. Ortwine, Y. Chen, K. De La Torre, X. Ding, C. Eigenbrot, A. Johnson, M. Liimatta, Y. Liu S. Shia, X. Wang, L. C. Wu, Z. Pei
Discovery And Optimization Of Indazoles As Potent And Selective Interleukin-2 Inducible T Cell Kinase (Itk) Inhibitors.
Bioorg. Med. Chem. Lett. V. 24 2448 2014
PubMed-ID: 24767842  |  Reference-DOI: 10.1016/J.BMCL.2014.04.023

(-) Compounds

Molecule 1 - TYROSINE-PROTEIN KINASE ITK/TSK
    Chains: A, B
    EC Number: 2.7.10.2
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Taxid: 7108
    Fragment: KINASE DOMAIN
    Gene: ITK, EMT, LYK
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: INTERLEUKIN-2-INDUCIBLE T-CELL KINASE, IL-2-INDUCIBLE T-CELL KINASE, KINASE EMT, T-CELL-SPECIFIC KINASE, TYROSINE-PROTEIN KINASE LYK

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
12VT2Ligand/IonN-[1-(3-CYANOBENZYL)-1H-PYRAZOL-4-YL]-2H-INDAZOLE-3-CARBOXAMIDE
2SO42Ligand/IonSULFATE ION
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
12VT1Ligand/IonN-[1-(3-CYANOBENZYL)-1H-PYRAZOL-4-YL]-2H-INDAZOLE-3-CARBOXAMIDE
2SO42Ligand/IonSULFATE ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
12VT1Ligand/IonN-[1-(3-CYANOBENZYL)-1H-PYRAZOL-4-YL]-2H-INDAZOLE-3-CARBOXAMIDE
2SO4-1Ligand/IonSULFATE ION
Biological Unit 3 (2, 4)
No.NameCountTypeFull Name
12VT2Ligand/IonN-[1-(3-CYANOBENZYL)-1H-PYRAZOL-4-YL]-2H-INDAZOLE-3-CARBOXAMIDE
2SO42Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:365 , GLN A:428 , PRO A:430 , SO4 A:702BINDING SITE FOR RESIDUE SO4 A 701
2AC2SOFTWAREPHE A:365 , SO4 A:701BINDING SITE FOR RESIDUE SO4 A 702
3AC3SOFTWAREILE A:369 , LYS A:387 , ALA A:389 , PHE A:435 , GLU A:436 , PHE A:437 , MET A:438 , GLU A:439 , GLY A:441 , LEU A:489BINDING SITE FOR RESIDUE 2VT A 703
4AC4SOFTWAREGLN B:367 , ILE B:369 , LYS B:387 , ALA B:389 , PHE B:435 , GLU B:436 , PHE B:437 , MET B:438 , GLU B:439 , GLY B:441 , LEU B:489BINDING SITE FOR RESIDUE 2VT B 701

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4PP9)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ala A:429 -Pro A:430
2Ala B:429 -Pro B:430

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4PP9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4PP9)

(-) Exons   (0, 0)

(no "Exon" information available for 4PP9)

(-) 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:246
                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhh.eeeeeeeee...eeeeeeee...eeeeeeee.....hhhhhhhhhhhhh.........eeeee......eeeee....eehhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.hhh.eee....hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhh.........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4pp9 A 356 SVIDPSELTFVQEIGSGQFGLVHLGYWLNKDKVAIKTIREGAMSEEDFIEEAEVMMKLSHPKLVQLYGVCLEQAPICLVFEFMEHGCLSDYLRTQRGLFAAETLLGMCLDVCEGMAYLEEACVIHRDLAARNCLVGENQVIKVSDFGPVKWASPEVFSFSRYSSKSDVWSFGVLMWEVFSEGKIPYENRSNSEVVEDISTGFRLYKPRLASTHVYQIMNHCWKERPEDRPAFSRLLRQLAEIAESG 619
                                   365       375       385       395       405       415       425       435       445       455       465       475       485       495      |523       533       543       553       563       573       583       593       603       613      
                                                                                                                                                                            502|                                                                                                  
                                                                                                                                                                             521                                                                                                  


Chain B from PDB  Type:PROTEIN  Length:247
                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhh.eeeeeeeee...eeeeeeee...eeeeeeee.....hhhhhhhhhhhhh.........eeeee......eeeee....eehhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.hhh.eee.....hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pp9 B 356 SVIDPSELTFVQEIGSGQFGLVHLGYWLNKDKVAIKTIREGAMSEEDFIEEAEVMMKLSHPKLVQLYGVCLEQAPICLVFEFMEHGCLSDYLRTQRGLFAAETLLGMCLDVCEGMAYLEEACVIHRDLAARNCLVGENQVIKVSDFGMPVKWASPEVFSFSRYSSKSDVWSFGVLMWEVFSEGKIPYENRSNSEVVEDISTGFRLYKPRLASTHVYQIMNHCWKERPEDRPAFSRLLRQLAEIAESG 619
                                   365       375       385       395       405       415       425       435       445       455       465       475       485       495       522       532       542       552       562       572       582       592       602       612       
                                                                                                                                                                             503|                                                                                                  
                                                                                                                                                                              521
   Legend:   → Mismatch (orange background)
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  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 4PP9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4PP9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4PP9)

(-) Gene Ontology  (33, 33)

Asymmetric Unit(hide GO term definitions)

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    Ala A:429 - Pro A:430   [ RasMol ]  
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  4pp9
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  ITK_HUMAN | Q08881
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  2.7.10.2
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 Related Entries

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

UniProtKB/Swiss-Prot
        ITK_HUMAN | Q08881: 1sm2 1snu 1snx 2e6i 2lmj 2yuq 3miy 3mj1 3mj2 3qgw 3qgy 3t9t 3v5j 3v5l 3v8t 3v8w 4hct 4hcu 4hcv 4kio 4l7s 4m0y 4m0z 4m12 4m13 4m14 4m15 4mf0 4mf1 4ppa 4ppb 4ppc 4pqn 4qd6 4rfm

(-) Related Entries Specified in the PDB File

4ppa 4ppb 4ppc