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(-) Description

Title :  CRYSTAL STRUCTURE OF MURINE NF-KAPPAB INDUCING KINASE (NIK) BOUND TO ARYL PYRROLE FRAGMENT 17
 
Authors :  M. A. Smith, P. A. Mcewan, S. G. Hymowitz
Date :  08 Sep 16  (Deposition) - 11 Jan 17  (Release) - 08 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.63
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Protein Serine/Threonine Kinase, Nf-Kappab, Map3K14, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. M. Castanedo, N. Blaquiere, M. Beresini, B. Bravo, H. Brightbill, J. Chen, H. F. Cui, C. Eigenbrot, C. Everett, J. Feng, R. Godemann, E. Gogol, S. Hymowitz, A. Johnson, N. Kayagaki, P. B. Kohli, K. Knuppel J. Kraemer, S. Kruger, P. Loke, P. Mcewan, C. Montalbetti, D. A. Roberts, M. Smith, S. Steinbacher, S. Sujatha-Bhaskar, R. Takahashi, X. Wang, L. C. Wu, Y. Zhang, S. T. Staben
Structure-Based Design Of Tricyclic Nf-Kappa B Inducing Kinase (Nik) Inhibitors That Have High Selectivity Over Phosphoinositide-3-Kinase (Pi3K).
J. Med. Chem. V. 60 627 2017
PubMed-ID: 28005357  |  Reference-DOI: 10.1021/ACS.JMEDCHEM.6B01363

(-) Compounds

Molecule 1 - MITOGEN-ACTIVATED PROTEIN KINASE KINASE KINASE 14
    Chains: A, B
    EC Number: 2.7.11.25
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell Line: SF9
    Expression System Common: FALL ARMYWORM
    Expression System Taxid: 7108
    Gene: MAP3K14, NIK
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: NF-KAPPA-BETA-INDUCING KINASE,SERINE/THREONINE-PROTEIN KINASE NIK

 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, 13)

Asymmetric Unit (2, 13)
No.NameCountTypeFull Name
176Y2Ligand/Ion1-[(2-CHLOROPHENYL)METHYL]PYRROLE-2-CARBOXAMIDE
2SO411Ligand/IonSULFATE ION
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
176Y1Ligand/Ion1-[(2-CHLOROPHENYL)METHYL]PYRROLE-2-CARBOXAMIDE
2SO45Ligand/IonSULFATE ION
Biological Unit 2 (2, 7)
No.NameCountTypeFull Name
176Y1Ligand/Ion1-[(2-CHLOROPHENYL)METHYL]PYRROLE-2-CARBOXAMIDE
2SO46Ligand/IonSULFATE ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:637 , LYS A:638 , GLU A:639binding site for residue SO4 A 701
02AC2SOFTWAREHIS A:404 , VAL A:408 , ARG A:410 , ARG A:418 , 76Y A:706binding site for residue SO4 A 702
03AC3SOFTWARECYS A:446 , VAL A:455 , PRO A:456 , MET A:471 , CYS A:535 , ASP A:536 , PHE A:537binding site for residue SO4 A 703
04AC4SOFTWARETHR A:385 , GLU A:386 , LYS B:484binding site for residue SO4 A 704
05AC5SOFTWAREARG A:650 , ARG A:651binding site for residue SO4 A 705
06AC6SOFTWAREARG A:410 , VAL A:416 , ARG A:418 , MET A:471 , GLU A:472 , LEU A:473 , LEU A:474 , LEU A:524 , SO4 A:702binding site for residue 76Y A 706
07AC7SOFTWAREARG B:637 , LYS B:638 , GLU B:639 , HIS B:642binding site for residue SO4 B 701
08AC8SOFTWARECYS B:446 , VAL B:455 , MET B:471 , CYS B:535 , ASP B:536 , PHE B:537binding site for residue SO4 B 702
09AC9SOFTWARELYS A:519 , HIS A:596 , GLY B:350 , GLN B:351binding site for residue SO4 B 703
10AD1SOFTWAREGLY A:350 , GLN A:351 , HOH A:820 , LYS B:519 , THR B:561 , HIS B:596binding site for residue SO4 B 704
11AD2SOFTWAREARG B:410 , ARG B:418binding site for residue SO4 B 705
12AD3SOFTWARELYS A:484 , THR B:385 , GLU B:386 , LYS B:387 , HOH B:820binding site for residue SO4 B 706
13AD4SOFTWAREARG B:410 , VAL B:416 , MET B:471 , GLU B:472 , LEU B:473 , LEU B:474 , GLU B:475 , LEU B:524binding site for residue 76Y B 707

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5T8Q)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gln A:405 -Pro A:406
2Gln B:405 -Pro B:406

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5T8Q)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5T8Q)

(-) Exons   (0, 0)

(no "Exon" information available for 5T8Q)

(-) 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:323
                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh..eee.hhhhhhhhhhh...eeeee.................eee............eeeeee.....eeeeeeee.hhhhhhhhhhhh.........eeeeeee..eeeeee......hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee......eee......ee.............hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh..........hhhhhhhhh..hhhhh....hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t8q A 334 PVEEYLVHALQGSVSSGQAHSLASLAKTWSDNEGVLLTEKLKPVDYEYREEVHWMTHQPRVGRGSFGEVHRMKDKQTGFQCAVKKVRLEVFRVEELVACAGLSSPRIVPLYGAVREGPWVNIFMELLEGGSLGQLIKQMGCLPEDRALYYLGQALEGLEYLHTRRILHGDVKADNVLLSSDGSRAALCDFGHALCLQPSLLTGDYIPGTETHMAPEVVMGKPCDAKVDIWSSCCMMLHMLNGCHPWTQYFRGPLCLKIASEPPPIREIPPSCAPLTAQAIQEGLRKEPVHRASAMELRRKVGKALQEVGGLKSPWKGEYKEPR 675
                                   343       353       363|      387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       552       562       572       582       592       602       612       622       632       642       652       662       672   
                                                       363|                                                                                                                                                                    545|                                                                                                                            
                                                        378                                                                                                                                                                     551                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:328
                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh..eee.hhhhhhhhhhh...eeeee.................eee............eeeeee.....eeeeeeee.hhhhhhhhhh...........eeeeeee..eeeeee.....eehhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee......eee......ee.......ee.........hhhhhhhhhhhh.ee.hhhhhhhhhhhhhhhhhh..........hhhhhhhhh.hhhhhh....hhhhhhhhhhhh........hhhhhhhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t8q B 334 PVEEYLVHALQGSVSSGQAHSLASLAKTWSDNEGVLLTEKLKPVDYEYREEVHWMTHQPRVGRGSFGEVHRMKDKQTGFQCAVKKVRLEVFRVEELVACAGLSSPRIVPLYGAVREGPWVNIFMELLEGGSLGQLIKQMGCLPEDRALYYLGQALEGLEYLHTRRILHGDVKADNVLLSSDGSRAALCDFGHALCLQPDGLGKSLLTGDYIPGTETHMAPEVVMGKPCDAKVDIWSSCCMMLHMLNGCHPWTQYFRGPLCLKIASEPPPIREIPPSCAPLTAQAIQEGLRKEPVHRASAMELRRKVGKALQEVGGLKSPWKGEYKEPR 675
                                   343       353       363|      387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667        
                                                       363|                                                                                                                                                                                                                                                                                                         
                                                        378
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 5T8Q)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5T8Q)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5T8Q)

(-) Gene Ontology  (19, 19)

Asymmetric Unit(hide GO term definitions)

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        M3K14_MOUSE | Q9WUL6: 4g3c 4g3e 4g3f 4g3g 5t8o 5t8p

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