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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN PHOSPHORYLATED IRE1ALPHA IN COMPLEX WITH ADP-MG
 
Authors :  N. O. Concha
Date :  24 Mar 15  (Deposition) - 11 Nov 15  (Release) - 11 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.10
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Active, Adp, Complex, Ire1, Transferase (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  (2, 5)

Asymmetric Unit (2, 5)
No.NameCountTypeFull Name
1ADP3Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MG2Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:693 , ASP A:711 , ADP A:1002binding site for residue MG A 1001
2AC2SOFTWAREHIS A:579 , GLY A:580 , THR A:584 , ALA A:597 , LYS A:599 , ILE A:642 , GLU A:643 , CYS A:645 , THR A:648 , LYS A:690 , HIS A:692 , ASN A:693 , LEU A:695 , ASP A:711 , MG A:1001 , HOH A:1106binding site for residue ADP A 1002
3AC3SOFTWAREHIS B:692 , ASN B:693 , ASP B:711 , ADP B:1002binding site for residue MG B 1001
4AC4SOFTWAREGLY B:580 , THR B:584 , VAL B:586 , ALA B:597 , LYS B:599 , ILE B:642 , GLU B:643 , CYS B:645 , THR B:648 , LYS B:690 , HIS B:692 , ASN B:693 , LEU B:695 , ASP B:711 , MG B:1001binding site for residue ADP B 1002
5AC5SOFTWAREGLY C:578 , HIS C:579 , GLY C:580 , VAL C:586 , ALA C:597 , LYS C:599 , ILE C:642 , GLU C:643 , CYS C:645 , THR C:648 , LYS C:690 , HIS C:692 , ASP C:711binding site for residue ADP C 1001

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (19, 19)

Asymmetric Unit
No.Residues
1Gly A:567 -Lys A:568
2Glu A:850 -Lys A:851
3Gly A:866 -Arg A:867
4Gly A:923 -Ser A:924
5Leu A:925 -Pro A:926
6Gly B:567 -Lys B:568
7Ala B:659 -His B:660
8Glu B:850 -Lys B:851
9Leu B:854 -Asp B:855
10Gly B:866 -Arg B:867
11Gly B:923 -Ser B:924
12Leu B:925 -Pro B:926
13Gly C:567 -Lys C:568
14Asn C:750 -Pro C:751
15Glu C:850 -Lys C:851
16Leu C:854 -Asp C:855
17Gly C:866 -Arg C:867
18Gly C:923 -Ser C:924
19Leu C:925 -Pro C:926

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4YZD)

(-) 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:383
                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee..eeeeeeeeeee.....eeeeee....eeeeeee....eeehhhhhhhhhh.........eeeeee....eeeeee.eeeehhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.......hhh.eeee.........eee....eee..........hhhhhh..hhhhhhhhhhhhhhhhh..........hhhhhhhhh..........hhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh.............hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.hhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yzd A 563 VVIVGKISFCPKDVLGHGAEGTIVYRGMFDNRDVAVKRILPECFSFADREVQLLRESDEHPNVIRYFCTEKDRQFQYIAIELCAATLQEYVEQKDFAHLGLEPITLLQQTTSGLAHLHSLNIVHRDLKPHNILISMPNAHGKIKAMISDFGLCKKLVPGTEGWIAPEMLSPTYTVDIFSAGCVFYYVISEGSHPFGKSLQRQANILLGACSLDCLHPEKHEDVIARELIEKMIAMDPQKRPSAKHVLKHPFFWSLEKQLQFFQDVSDRIEKESLDGPIVKQLERGGRAVVKMDWRENITVPLQTDLRKFTYKGGSVRDLLRAMRNKKHHYRELPAEVRETLGSLPDDFVCYFTSRFPHLLAHTYRAMELCSHERLFQPYYFHE 964
                                   572       582       592       602       612       622       632       642       652       662       672       682       692       702       712     ||734       744|      760       770       780       790       800       810       820       830       840       850       860       870       880       891       901       911       921       931       941       951       961   
                                                                                                                                                                                     718|          744|                                                                                                                                       889|                                                                         
                                                                                                                                                                                      731           751                                                                                                                                        891                                                                         

Chain B from PDB  Type:PROTEIN  Length:385
                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee..eee......ee.....eeeeee....eeeeeee....eeehhhhhhhhhh.........eeeeee....eeeeee.eeeehhhhhhhh.......hhhhhhhhhhhhhhhhhhh...........eeee.........eee....eee..........hhhhhh.....hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh..........hhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh......hhhhh.hhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.hhhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yzd B 563 VVIVGKISFCPKDVLGHGAEGTIVYRGMFDNRDVAVKRILPECFSFADREVQLLRESDEHPNVIRYFCTEKDRQFQYIAIELCAATLQEYVEQKDFAHLGLEPITLLQQTTSGLAHLHSLNIVHRDLKPHNILISMPNAHGKIKAMISDFGLCKKLVPGTEGWIAPEMLSEDNPTYTVDIFSAGCVFYYVISEGSHPFGKSLQRQANILLGACSLDCLHPEKHEDVIARELIEKMIAMDPQKRPSAKHVLKHPFFWSLEKQLQFFQDVSDRIEKESLDGPIVKQLERGGRAVVKMDWRENITVPLQTDLRKFTYKGGSVRDLLRAMRNKKHHYRELPAEVRETLGSLPDDFVCYFTSRFPHLLAHTYRAMELCSHERLFQPYYFH 963
                                   572       582       592       602       612       622       632       642       652       662       672       682       692       702       712     ||734       744 ||    757       767       777       787       797       807       817       827       837       847       857       867       877       887 ||    898       908       918       928       938       948       958     
                                                                                                                                                                                     718|            746|                                                                                                                                        889|                                                                        
                                                                                                                                                                                      731             750                                                                                                                                         891                                                                        

Chain C from PDB  Type:PROTEIN  Length:379
                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee..eeeeeeeeeee.....eeeeee....eeeeeee....eeehhhhhhhhhh.........eeeeee....eeeeee.eeeehhhhhhh....hhhhhhhhhhhhhhhhhhh.......hhh.eeee.........eee....eee..........hhhhhh...hhhhhhhhhhhhhhhhhh.........hhhhhhhhh..........hhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhh.hhhhh.hhhhh.hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.hhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yzd C 563 VVIVGKISFCPKDVLGHGAEGTIVYRGMFDNRDVAVKRILPECFSFADREVQLLRESDEHPNVIRYFCTEKDRQFQYIAIELCAATLQEYVEQHLGLEPITLLQQTTSGLAHLHSLNIVHRDLKPHNILISMPNAHGKIKAMISDFGLCKKLVPGTEGWIAPEMLSNPTYTVDIFSAGCVFYYVISEGSHPFGKSLQRQANILLGACSLDCLHPEKHEDVIARELIEKMIAMDPQKRPSAKHVLKHPFFWSLEKQLQFFQDVSDRIEKESLDGPIVKQLERGGRAVVKMDWRENITVPLQTDLRKFYKGGSVRDLLRAMRNKKHHYRELPAEVRETLGSLPDDFVCYFTSRFPHLLAHTYRAMELCSHERLFQPYYFHE 964
                                   572       582       592       602       612       622       632       642       652  ||   666       676       686       696       706       716 ||    738     ||753       763       773       783       793       803       813       823       833       843       853       863       873       883     ||895       905       915       925       935       945       955         
                                                                                                                      655|                                                       718|          744|                                                                                                                                        889|                                                                        
                                                                                                                       660                                                        731           750                                                                                                                                         892                                                                        

   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 4YZD)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (62, 62)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
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    Gly A:567 - Lys A:568   [ RasMol ]  
    Gly A:866 - Arg A:867   [ RasMol ]  
    Gly A:923 - Ser A:924   [ RasMol ]  
    Gly B:567 - Lys B:568   [ RasMol ]  
    Gly B:866 - Arg B:867   [ RasMol ]  
    Gly B:923 - Ser B:924   [ RasMol ]  
    Gly C:567 - Lys C:568   [ RasMol ]  
    Gly C:866 - Arg C:867   [ RasMol ]  
    Gly C:923 - Ser C:924   [ RasMol ]  
    Leu A:925 - Pro A:926   [ RasMol ]  
    Leu B:854 - Asp B:855   [ RasMol ]  
    Leu B:925 - Pro B: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 4yz9 4yzc 4z7g 4z7h 5hgi

(-) Related Entries Specified in the PDB File

4yz9 4yzc