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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN PHOSPHORYLATED IRE1ALPHA IN COMPLEX WITH A TYPE III KINASE INHIBITOR (GSK2850163A)
 
Authors :  N. O. Concha
Date :  24 Mar 15  (Deposition) - 11 Nov 15  (Release) - 11 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.46
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Active, Inhibitor, Complex, Ire1, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  N. O. Concha, A. Smallwood, W. Bonnette, R. Totoritis, G. Zhang, K. Federowicz, J. Yang, H. Qi, S. Chen, N. Campobasso, A. E. Choudhry, L. E. Shuster, K. A. Evans, J. Ralph, S. Sweitzer, D. A. Heerding, C. A. Buser, D. S. Su, M. P. Deyoung
Long-Range Inhibitor-Induced Conformational Regulation Of Human Ire1 Alpha Endoribonuclease Activity.
Mol. Pharmacol. V. 88 1011 2015
PubMed-ID: 26438213  |  Reference-DOI: 10.1124/MOL.115.100917

(-) Compounds

Molecule 1 - SERINE/THREONINE-PROTEIN KINASE/ENDORIBONUCLEASE IRE1
    ChainsA, B, C
    EC Number2.7.11.1, 3.1.26.-
    EngineeredYES
    Expression SystemSPODOPTERA FRUGIPERDA
    Expression System Cell LineSF9
    Expression System CommonFALL ARMYWORM
    Expression System Taxid7108
    FragmentUNP RESIDUES 562-966
    GeneERN1, IRE1
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymENDOPLASMIC RETICULUM-TO-NUCLEUS SIGNALING 1,INOSITOL- REQUIRING PROTEIN 1,HIRE1P,IRE1-ALPHA,IRE1A

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit ABC
Biological Unit 1 (1x)A  
Biological Unit 2 (1x) B 
Biological Unit 3 (1x)  C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
14K73Ligand/Ion(5R)-2-(3,4-DICHLOROBENZYL)-N-(4-METHYLBENZYL)-2,7-DIAZASPIRO[4.5]DECANE-7-CARBOXAMIDE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
14K71Ligand/Ion(5R)-2-(3,4-DICHLOROBENZYL)-N-(4-METHYLBENZYL)-2,7-DIAZASPIRO[4.5]DECANE-7-CARBOXAMIDE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
14K71Ligand/Ion(5R)-2-(3,4-DICHLOROBENZYL)-N-(4-METHYLBENZYL)-2,7-DIAZASPIRO[4.5]DECANE-7-CARBOXAMIDE
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
14K71Ligand/Ion(5R)-2-(3,4-DICHLOROBENZYL)-N-(4-METHYLBENZYL)-2,7-DIAZASPIRO[4.5]DECANE-7-CARBOXAMIDE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:581 , THR A:584 , LYS A:599 , CYS A:605 , ALA A:609 , GLU A:612 , VAL A:613 , ILE A:626 , LEU A:679 , ILE A:684 , VAL A:685 , HIS A:686 , ASP A:711binding site for residue 4K7 A 1001
2AC2SOFTWAREALA B:581 , THR B:584 , LYS B:599 , ALA B:609 , GLU B:612 , ILE B:626 , HIS B:686 , ARG B:687 , ASP B:711binding site for residue 4K7 B 1001
3AC3SOFTWAREALA C:581 , THR C:584 , LYS C:599 , ALA C:609 , GLU C:612 , VAL C:613 , ILE C:626 , ILE C:684 , VAL C:685 , HIS C:686 , ASP C:711binding site for residue 4K7 C 1001

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4YZ9)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Leu A:925 -Pro A:926
2Leu B:925 -Pro B:926
3Leu C:925 -Pro C:926

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4YZ9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4YZ9)

(-) Exons   (0, 0)

(no "Exon" information available for 4YZ9)

(-) 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:381
                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee...eeeeeeeeeeee...eeeeeeee..eeeeeeeehhhhhhhhhhhhhhhhh.........eeeeee....eeeee..eeeehhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh...........eeee.........eee.....................hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh..........hhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh.......hhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.hhhhhhhhhhhhhh.hhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yz9 A 562 SVVIVGKISFCPKDVLGHGAEGTIVYRGMFDNRDVAVKRILPECFSFADREVQLLRESDEHPNVIRYFCTEKDRQFQYIAIELCAATLQEYVEQKDFAHLGLEPITLLQQTTSGLAHLHSLNIVHRDLKPHNILISMPNAHGKIKAMISDFGLCGTEGWIAPEMLENPTYTVDIFSAGCVFYYVISEGSHPFGKSLQRQANILLGACSLDCLHPEKHEDVIARELIEKMIAMDPQKRPSAKHVLKHPFFWSLEKQLQFFQDVSDRIEKESLDGPIVKQLERGGRAVVKMDWRENITVPLQTDLRKFRTYKGGSVRDLLRAMRNKKHHYRELPAEVRETLGSLPDDFVCYFTSRFPHLLAHTYRAMELCSHERLFQPYYFHE 964
                                   571       581       591       601       611       621       631       641       651       661       671       681       691       701       711   ||  738    || 753       763       773       783       793       803       813       823       833       843       853       863       873       883       893       903       913       923       933       943       953       963 
                                                                                                                                                                                   715|       743|                                                                                                                                                                                                                       
                                                                                                                                                                                    733        749                                                                                                                                                                                                                       

Chain B from PDB  Type:PROTEIN  Length:375
                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee...eeeeeeeeeeee...eeeeeeee..eeeeeeeehhhhhhhhhhhhhhhhhh........eeeeee....eeeeee.eeeehhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh...........eeee.........eee...ee.....hhhhh....hhhhhhhhhhhhhhhhh..........hhhhhhhh...........hhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh.............hhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.hhhhhhhhhhhhhh....hhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yz9 B 563 VVIVGKISFCPKDVLGHGAEGTIVYRGMFDNRDVAVKRILPECFSFADREVQLLRESDEHPNVIRYFCTEKDRQFQYIAIELCAATLQEYVEQKDFAHLGLEPITLLQQTTSGLAHLHSLNIVHRDLKPHNILISMPNAHGKIKAMISDFGLCEGWIAPEMLSNPTYTVDIFSAGCVFYYVISEGSHPFGKSLQRQANILLGACSLDCLHPEKHEDVIARELIEKMIAMDPQKRPSAKHVLKHPFFWSLEKQLQFFQDVSDRIEKESLDGPIVKQLERGGRAVVKMDWRENITVPLQTDLFRTYKGGSVRDLLRAMRNKKHHYRELPAEVRETLGSLPDDFVCYFTSRFPHLLAHTYRAMELCSHERLFQPYYFH 963
                                   572       582       592       602       612       622       632       642       652       662       672       682       692       702       712  ||   741  ||   756       766       776       786       796       806       816       826       836       846       856       866       876       886|      898       908       918       928       938       948       958     
                                                                                                                                                                                  715|      744|                                                                                                                                     886|                                                                          
                                                                                                                                                                                   735       750                                                                                                                                      889                                                                          

Chain C from PDB  Type:PROTEIN  Length:378
                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eee..eeeeeeeeeeeehhheeeeeeee..eeeeeeeehhhhhhhhhhhhhhhhhh........eeeeee....eeeeee...eehhhhhhh......hhhhhhhhhhhhhhhhhhh.......hhh.eee..........eee...........hhhhhh...hhhhhhhhhhhhhhhhh..........hhhhhhhhh..........hhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh........hhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh.hhhhhhhhhhhhhh.hhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4yz9 C 562 SVVIVGKISFCPKDVLGHGAEGTIVYRGMFDNRDVAVKRILPECFSFADREVQLLRESDEHPNVIRYFCTEKDRQFQYIAIELCAATLQEYVEQFAHLGLEPITLLQQTTSGLAHLHSLNIVHRDLKPHNILISMPNAHGKIKAMISDFGLCTEGWIAPEMLSNPTYTVDIFSAGCVFYYVISEGSHPFGKSLQRQANILLGACSLDCLHPEKHEDVIARELIEKMIAMDPQKRPSAKHVLKHPFFWSLEKQLQFFQDVSDRIEKESLDGPIVKQLERGGRAVVKMDWRENITVPLQTDLRKFRTYKGGSVRDLLRAMRNKKHHYRELPAEVRETLGSLPDDFVCYFTSRFPHLLAHTYRAMELCSHERLFQPYYFHE 964
                                   571       581       591       601       611       621       631       641       651   ||  663       673       683       693       703       713 ||    741  ||   756       766       776       786       796       806       816       826       836       846       856       866       876       886       896       906       916       926       936       946       956        
                                                                                                                       655|                                                      715|       744|                                                                                                                                                                                                                      
                                                                                                                        658                                                       734        750                                                                                                                                                                                                                      

   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 4YZ9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4YZ9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4YZ9)

(-) Gene Ontology  (62, 62)

Asymmetric Unit(hide GO term definitions)

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    Leu A:925 - Pro A:926   [ RasMol ]  
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 Related Entries

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

UniProtKB/Swiss-Prot
        ERN1_HUMAN | O754602hz6 3p23 4u6r 4yzc 4yzd 4z7g 4z7h 5hgi

(-) Related Entries Specified in the PDB File

4yzc 4yzd