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(-) Description

Title :  STRUCTURE OF KEAP1 KELCH DOMAIN WITH(1S,2R)-2-[(1S)-1-[(1-OXO-2,3-DIHYDRO-1H-ISOINDOL-2-YL)METHYL]-1,2,3,4-TETRAHYDROISOQUINOLINE-2-CARBONYL]CYCLOHEXANE-1-CARBOXYLIC ACID
 
Authors :  M. A. Smith, S. Duclos, E. Beaumont, J. Kwong, M. Brooks, J. Barker, E. Jn F. Brookfield, J. P. Courade, O. Barker, T. Fryatt, C. Albrecht, S. Bro
Date :  03 Oct 13  (Deposition) - 19 Feb 14  (Release) - 23 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.55
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Replacement Soaking, Stress Sensor, Small Molecular Binding, Kelch Domain, Kelch Repeat Motif, Beta-Propeller, Nrf2, Protein-Small Molecule Complex, Cytosol, Transcription-Inhibitor Complex, Cytosol, (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 Taxid: 562
    Fragment: ELCH DOMAIN, UNP RESIDUES 321-611
    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, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
12FS3Ligand/Ion(1S,2R)-2-{[(1S)-1-[(1-OXO-1,3-DIHYDRO-2H-ISOINDOL-2-YL)METHYL]-3,4-DIHYDROISOQUINOLIN-2(1H)-YL]CARBONYL}CYCLOHEXANECARBOXYLIC ACID
2ACT2Ligand/IonACETATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:334 , SER A:363 , ASN A:382 , ASN A:414 , ARG A:415 , GLY A:509 , ALA A:556 , TYR A:572 , SER A:602BINDING SITE FOR RESIDUE 2FS A 701
2AC2SOFTWAREGLY B:364 , ASN B:414 , ARG B:415 , GLY B:509 , ALA B:556 , TYR B:572 , SER B:602 , ACT B:702BINDING SITE FOR RESIDUE 2FS B 701
3AC3SOFTWARETYR B:525 , GLN B:530 , SER B:555 , 2FS B:701BINDING SITE FOR RESIDUE ACT B 702
4AC4SOFTWARETYR C:334 , GLY C:364 , ASN C:414 , ARG C:415 , GLY C:509 , ALA C:556 , TYR C:572 , SER C:602 , ACT C:702BINDING SITE FOR RESIDUE 2FS C 701
5AC5SOFTWARETYR C:525 , GLN C:530 , SER C:555 , 2FS C:701BINDING SITE FOR RESIDUE ACT C 702

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:434 -C:434
2B:434 -B:434

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Asp A:385 -Gly A:386

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4N1B)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4N1B)

(-) Exons   (0, 0)

(no "Exon" information available for 4N1B)

(-) 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 ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee..........eeee......eee...........eeeee..eeeee..eee....eee...eeeee....eeeee..........eeeee..eeeee..ee..ee...eeeee....eeeee..........eeeee..eeeeeeee....eeeeeeeee....eeee...........eeeee..eeeee...........eeeee....eeeee..........eeee....eeee..........eeeeee....eeeeeee........eeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4n1b 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:284
                                                                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..........eeee......eeee..........eeeee..eeeeeeeeeee..eeeeeeeeeeee....ee.............eeeee..eeeee..ee..ee...eeee......eeee..........eeeee..eeeee...........eeeee....eeee...........eeeee..eeeee...........eeeee....eeeee..........eeee....eeee..........eeeeee....eeeeeee........eeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4n1b B 327 LIYTAGGYFRQSLSYLEAYNPSDGTWLDLADLQVPRSGLAGCVVGGLLYAVGGRNNSPDGNTDSSALDCYNPMTNQWSPCAPMSVPRNRIGVGVIDGHIYAVGGSHGCIHHNSVERYEPERDEWHLVAPMLTRRIGVGVAVLNRLLYAVGGFDGTNRLNSAECYYPERNEWRMITAMNTIRSGAGVCVLHNCIYAAGGYDGQDQLNSVERYDVETETWTFVAPMKHRRSALGITVHQGRIYVLGGYDGHTFLDSVECYDPDTDTWSEVTRMTSGRSGVGVAVTL 610
                                   336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596       606    


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...........eeee....eeee..eeee..eeee...eeeee....eeee...........eeeee..eeeee..ee..ee...eeeee....eeeee..........eeeee..eeeeeeee....eeeeeeeee....eeee...........eeee...eeeee...........eeeee....eeeee..........eeee....eeee..........eeeeee....eeeeeee........eeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4n1b 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  (0, 0)

(no "SCOP Domain" information available for 4N1B)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4N1B)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4N1B)

(-) Gene Ontology  (35, 35)

Asymmetric/Biological Unit(hide GO term definitions)

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    Asp A:385 - Gly A:386   [ RasMol ]  
 

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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 4l7d 4xmb 5dad 5daf 5f72 5git 5nlb 5x54

(-) Related Entries Specified in the PDB File

4l7b STRUCTURE OF KEAP1 KELCH DOMAIN WITH (1S,2R)-2-{[(1S)-1- [(1,3-DIOXO-1,3-DIHYDRO-2H-ISOINDOL-2-YL)METHYL]-3,4- DIHYDROISOQUINOLIN-2(1H)-YL]CARBONYL}CYCLOHEXANECARBOXYLIC ACID
4l7c STRUCTURE OF KEAP1 KELCH DOMAIN WITH 2-{[(1S)-2-{[(1R,2S)- 2-(1H-TETRAZOL-5-YL)CYCLOHEXYL]CARBONYL}-1,2,3,4- TETRAHYDROISOQUINOLIN-1-YL]METHYL}-1H-ISOINDOLE-1,3(2H)- DIONE
4l7d 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