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(-) Description

Title :  STRUCTURE OF KEAP1 KELCH DOMAIN WITH (1S,2R)-2-{[(1S)-5-METHYL-1-[(1-OXO-1,3-DIHYDRO-2H-ISOINDOL-2-YL)METHYL]-3,4-DIHYDROISOQUINOLIN-2(1H)-YL]CARBONYL}CYCLOHEXANECARBOXYLIC ACID
 
Authors :  E. Jnoff, F. Brookfield, C. Albrecht, J. J. Barker, O. Barker, E. Beaumo S. Bromidge, M. Brooks, T. Ceska, J. P. Courade, T. Crabbe, S. Duclos, T E. Jigorel, J. Kwong, Z. Sands, M. A. Smith
Date :  13 Jun 13  (Deposition) - 19 Feb 14  (Release) - 23 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Stress Sensor, Kelch Domain, Kelch Repeat Motif, Beta-Propeller, Nrf2, Protein-Small Molecule Complex, Transcription-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Jnoff, C. Albrecht, J. J. Barker, O. Barker, E. Beaumont, S. Bromidge, F. Brookfield, M. Brooks, C. Bubert, T. Ceska, V. Corden, G. Dawson, S. Duclos, T. Fryatt, C. Genicot, E. Jigorel, J. Kwong, R. Maghames, I. Mushi, R. Pike, Z. A. Sands, M. A. Smith, C. C. Stimson, J. P. Courade
Binding Mode And Structure-Activity Relationships Around Direct Inhibitors Of The Nrf2-Keap1 Complex.
Chemmedchem V. 9 699 2014
PubMed-ID: 24504667  |  Reference-DOI: 10.1002/CMDC.201300525

(-) Compounds

Molecule 1 - KELCH-LIKE ECH-ASSOCIATED PROTEIN 1
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: KELCH DOMAIN, UNP RESIDUES 321-609
    Gene: KEAP1, INRF2, KIAA0132, KLHL19
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CYTOSOLIC INHIBITOR OF NRF2, INRF2, KELCH-LIKE PROTEIN 19

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 13)

Asymmetric/Biological Unit (2, 13)
No.NameCountTypeFull Name
11VX3Ligand/Ion(1S,2R)-2-{[(1S)-5-METHYL-1-[(1-OXO-1,3-DIHYDRO-2H-ISOINDOL-2-YL)METHYL]-3,4-DIHYDROISOQUINOLIN-2(1H)-YL]CARBONYL}CYCLOHEXANECARBOXYLIC ACID
2ACT10Ligand/IonACETATE ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:334 , ASN A:414 , ARG A:415 , GLY A:509 , ALA A:556 , SER A:602 , ACT A:702 , HOH A:802 , HOH A:879BINDING SITE FOR RESIDUE 1VX A 701
02AC2SOFTWARETYR A:525 , GLN A:530 , SER A:555 , 1VX A:701 , HOH A:878 , HOH A:914BINDING SITE FOR RESIDUE ACT A 702
03AC3SOFTWARELEU A:471 , TYR A:491 , PRO A:492 , GLU A:493 , ARG A:494 , HOH A:890BINDING SITE FOR RESIDUE ACT A 703
04AC4SOFTWARETYR B:334 , ARG B:380 , ASN B:382 , ASN B:414 , ARG B:415 , GLY B:509 , ALA B:556 , TYR B:572 , SER B:602 , ACT B:703 , HOH B:802 , HOH B:823BINDING SITE FOR RESIDUE 1VX B 701
05AC5SOFTWAREARG B:415 , PHE B:478 , ARG B:483 , SER B:508 , HOH B:835BINDING SITE FOR RESIDUE ACT B 702
06AC6SOFTWARETYR B:525 , GLN B:530 , SER B:555 , TYR B:572 , 1VX B:701BINDING SITE FOR RESIDUE ACT B 703
07AC7SOFTWAREASP B:526 , ASP C:479 , THR C:481 , HOH C:902BINDING SITE FOR RESIDUE ACT B 704
08AC8SOFTWARETYR C:334 , ASN C:382 , ASN C:414 , ARG C:415 , GLY C:509 , ALA C:556 , PHE C:577 , SER C:602 , HOH C:803BINDING SITE FOR RESIDUE 1VX C 701
09AC9SOFTWAREARG C:415 , ARG C:483 , SER C:508 , HOH C:883 , HOH C:909BINDING SITE FOR RESIDUE ACT C 702
10BC1SOFTWARETYR C:525 , GLN C:530 , SER C:555 , TYR C:572 , HOH C:909BINDING SITE FOR RESIDUE ACT C 703
11BC2SOFTWAREASN C:401 , TYR C:491 , PRO C:492 , GLU C:493 , ARG C:494 , HOH C:901BINDING SITE FOR RESIDUE ACT C 704
12BC3SOFTWARETYR C:329 , GLY C:372 , PRO C:398 , THR C:609 , HOH C:881BINDING SITE FOR RESIDUE ACT C 705
13BC4SOFTWAREGLY A:480 , CYS C:434 , ILE C:435 , HIS C:436 , ARG C:459BINDING SITE FOR RESIDUE ACT C 706

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:434 -C:434

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Ser A:383 -Pro A:384
2Pro A:384 -Asp A:385
3Asp A:385 -Gly A:386

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4L7D)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4L7D)

(-) Exons   (0, 0)

(no "Exon" information available for 4L7D)

(-) Sequences/Alignments

Asymmetric/Biological 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:286
                                                                                                                                                                                                                                                                                                                              
               SCOP domains d4l7da_ A: automated matches                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee..........eeeee....eeee...........eeeee..eeeee..eee....eee...eeeee....eeee...........eeeee..eeeee..ee..ee...eeeee....eeeee..........eeeee..eeeeeeee....eeeeeeeee....eeee...........eeeee..eeeee...........eeeee....eeeee..........eeee....eeeeeee....eeeeeeeee....eeeeeee........eeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l7d A 326 RLIYTAGGYFRQSLSYLEAYNPSDGTWLDLADLQVPRSGLAGCVVGGLLYAVGGRNNSPDGNTDSSALDCYNPMTNQWSPCAPMSVPRNRIGVGVIDGHIYAVGGSHGCIHHNSVERYEPERDEWHLVAPMLTRRIGVGVAVLNRLLYAVGGFDGTNRLNSAECYYPERNEWRMITAMNTIRSGAGVCVLHNCIYAAGGYDGQDQLNSVERYDVETETWTFVAPMKHRRSALGITVHQGRIYVLGGYDGHTFLDSVECYDPDTDTWSEVTRMTSGRSGVGVAVTLE 611
                                   335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605      


Chain B from PDB  Type:PROTEIN  Length:285
                                                                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee..........eeeee....eeee...........eeee....eeee..eeee..eeee...eeeee....eeee...........eeeee..eeeee..ee..ee...eeeee....eeee...........eeeee..eeeeeeee....eeeeeeeee....eeee...........eeee...eeeee...........eeeee....eeee...........eeee....eeeeeee....eeeeeeeee....eeeeeee.............. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l7d B 326 RLIYTAGGYFRQSLSYLEAYNPSDGTWLDLADLQVPRSGLAGCVVGGLLYAVGGRNNSPDGNTDSSALDCYNPMTNQWSPCAPMSVPRNRIGVGVIDGHIYAVGGSHGCIHHNSVERYEPERDEWHLVAPMLTRRIGVGVAVLNRLLYAVGGFDGTNRLNSAECYYPERNEWRMITAMNTIRSGAGVCVLHNCIYAAGGYDGQDQLNSVERYDVETETWTFVAPMKHRRSALGITVHQGRIYVLGGYDGHTFLDSVECYDPDTDTWSEVTRMTSGRSGVGVAVTL 610
                                   335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605     


Chain C from PDB  Type:PROTEIN  Length:287
                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..........eeeee....eeee...........eeeee..eeeee..eeee..eeee...eeeee....eeee...........eeeee..eeeee..ee..ee...eeeee....eeee...........eeeee..eeeeeeee....eeeeeeeee....eeee...........eeeee..eeeee...........eeeee....eeeee..........eeee....eeeeeee....eeeeeeeee....eeeeeee........eeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l7d C 325 GRLIYTAGGYFRQSLSYLEAYNPSDGTWLDLADLQVPRSGLAGCVVGGLLYAVGGRNNSPDGNTDSSALDCYNPMTNQWSPCAPMSVPRNRIGVGVIDGHIYAVGGSHGCIHHNSVERYEPERDEWHLVAPMLTRRIGVGVAVLNRLLYAVGGFDGTNRLNSAECYYPERNEWRMITAMNTIRSGAGVCVLHNCIYAAGGYDGQDQLNSVERYDVETETWTFVAPMKHRRSALGITVHQGRIYVLGGYDGHTFLDSVECYDPDTDTWSEVTRMTSGRSGVGVAVTLE 611
                                   334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594       604
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4L7D)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4L7D)

(-) Gene Ontology  (35, 35)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asp A:385 - Gly A:386   [ RasMol ]  
    Pro A:384 - Asp A:385   [ RasMol ]  
    Ser A:383 - Pro A:384   [ RasMol ]  
 

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  4l7d
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 Related Entries

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

UniProtKB/Swiss-Prot
        KEAP1_HUMAN | Q14145: 1u6d 1zgk 2flu 3vng 3vnh 3zgc 3zgd 4cxi 4cxj 4cxt 4ifj 4ifl 4ifn 4in4 4iqk 4l7b 4l7c 4n1b 4xmb 5dad 5daf 5f72 5git 5nlb 5x54

(-) Related Entries Specified in the PDB File

4l7b 4l7c 4n1b