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(-) Description

Title :  CHALCONE ISOMERASE COMPLEXED WITH 4'-HYDROXYFLAVANONE
 
Authors :  J. M. Jez, J. P. Noel
Date :  18 Jun 01  (Deposition) - 12 Dec 01  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (2x)
Biol. Unit 4:  A,B  (1x)
Biol. Unit 5:  A  (2x)
Keywords :  Open-Faced Beta Sandwich, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. M. Jez, J. P. Noel
Reaction Mechanism Of Chalcone Isomerase. Ph Dependence, Diffusion Control, And Product Binding Differences.
J. Biol. Chem. V. 277 1361 2002
PubMed-ID: 11698411  |  Reference-DOI: 10.1074/JBC.M109224200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CHALCONE--FLAVONONE ISOMERASE 1
    Chains: A, B
    EC Number: 5.5.1.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PHIS8(MODIFIED PET28B)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: MEDICAGO SATIVA
    Organism Taxid: 3879
    Synonym: CHALCONE ISOMERASE 1

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (2x): AB
Biological Unit 4 (1x): AB
Biological Unit 5 (2x): A 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric Unit (2, 7)
No.NameCountTypeFull Name
1DFL2Ligand/Ion2-(4-HYDROXY-PHENYL)-CHROMAN-4-ONE
2SO45Ligand/IonSULFATE ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1DFL1Ligand/Ion2-(4-HYDROXY-PHENYL)-CHROMAN-4-ONE
2SO43Ligand/IonSULFATE ION
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1DFL1Ligand/Ion2-(4-HYDROXY-PHENYL)-CHROMAN-4-ONE
2SO42Ligand/IonSULFATE ION
Biological Unit 3 (2, 14)
No.NameCountTypeFull Name
1DFL4Ligand/Ion2-(4-HYDROXY-PHENYL)-CHROMAN-4-ONE
2SO410Ligand/IonSULFATE ION
Biological Unit 4 (2, 7)
No.NameCountTypeFull Name
1DFL2Ligand/Ion2-(4-HYDROXY-PHENYL)-CHROMAN-4-ONE
2SO45Ligand/IonSULFATE ION
Biological Unit 5 (2, 8)
No.NameCountTypeFull Name
1DFL2Ligand/Ion2-(4-HYDROXY-PHENYL)-CHROMAN-4-ONE
2SO46Ligand/IonSULFATE ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:78 , HOH A:727 , GLY B:125 , ASP B:126 , ALA B:127 , HOH B:629 , HOH B:694 , HOH B:725BINDING SITE FOR RESIDUE SO4 B 601
2AC2SOFTWAREGLY A:125 , ASP A:126 , ALA A:127 , GLU A:128 , HOH A:640 , HOH A:643 , HOH A:655 , LEU B:78BINDING SITE FOR RESIDUE SO4 A 602
3AC3SOFTWAREARG A:99BINDING SITE FOR RESIDUE SO4 A 603
4AC4SOFTWAREVAL A:197 , SER A:198 , DFL A:501 , HOH A:618BINDING SITE FOR RESIDUE SO4 A 604
5AC5SOFTWAREVAL B:197 , SER B:198 , DFL B:502BINDING SITE FOR RESIDUE SO4 B 605
6AC6SOFTWAREARG A:36 , GLU A:41 , PHE A:47 , THR A:48 , ILE A:50 , LEU A:101 , TYR A:106 , LYS A:109 , ASN A:113 , THR A:190 , SO4 A:604 , HOH A:654 , HOH A:712BINDING SITE FOR RESIDUE DFL A 501
7AC7SOFTWARETHR B:48 , ILE B:50 , GLU B:105 , TYR B:106 , ASN B:113 , THR B:190 , MET B:191 , SO4 B:605 , HOH B:711BINDING SITE FOR RESIDUE DFL B 502

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1JEP)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1JEP)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1JEP)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1JEP)

(-) Exons   (0, 0)

(no "Exon" information available for 1JEP)

(-) 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:212
 aligned with CFI1_MEDSA | P28012 from UniProtKB/Swiss-Prot  Length:222

    Alignment length:212
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213  
           CFI1_MEDSA     4 SITAITVENLEYPAVVTSPVTGKSYFLGGAGERGLTIEGNFIKFTAIGVYLEDIAVASLAAKWKGKSSEELLETLDFYRDIISGPFEKLIRGSKIRELSGPEYSRKVMENCVAHLKSVGTYGDAEAEAMQKFAEAFKPVNFPPGASVFYRQSPDGILGLSFSPDTSIPEKEAALIENKAVSSAVLETMIGEHAVSPDLKRCLAARLPALLNE 215
               SCOP domains d1jepa_ A: Chalcone isomerase                                                                                                                                                                                        SCOP domains
               CATH domains 1jepA02 A:4-57,A:87-191                               1jepA01 A:58-86,A:192-215    1jepA02 A:4-57,A:87-191  [code=3.50.70.10, no name defined]                                              1jepA01                  CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eee..eee..eee......eeeeeeeeeeeeee..eeeeeeeeeeeee.hhhhhhhhhhh..hhhhhhhhhhhhhhhhhh...eeeeeee...eehhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh..ee....eeeeeee...eeeeeee..........eeeehhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1jep A   4 SITAITVENLEYPAVVTSPVTGKSYFLGGAGERGLTIEGNFIKFTAIGVYLEDIAVASLAAKWKGKSSEELLETLDFYRDIISGPFEKLIRGSKIRELSGPEYSRKVMENCVAHLKSVGTYGDAEAEAMQKFAEAFKPVNFPPGASVFYRQSPDGILGLSFSPDTSIPEKEAALIENKAVSSAVLETMIGEHAVSPDLKRCLAARLPALLNE 215
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213  


Chain B from PDB  Type:PROTEIN  Length:212
 aligned with CFI1_MEDSA | P28012 from UniProtKB/Swiss-Prot  Length:222

    Alignment length:212
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213  
           CFI1_MEDSA     4 SITAITVENLEYPAVVTSPVTGKSYFLGGAGERGLTIEGNFIKFTAIGVYLEDIAVASLAAKWKGKSSEELLETLDFYRDIISGPFEKLIRGSKIRELSGPEYSRKVMENCVAHLKSVGTYGDAEAEAMQKFAEAFKPVNFPPGASVFYRQSPDGILGLSFSPDTSIPEKEAALIENKAVSSAVLETMIGEHAVSPDLKRCLAARLPALLNE 215
               SCOP domains d1jepb_ B: Chalcone isomerase                                                                                                                                                                                        SCOP domains
               CATH domains 1jepB02 B:4-57,B:87-191                               1jepB01 B:58-86,B:192-215    1jepB02 B:4-57,B:87-191  [code=3.50.70.10, no name defined]                                              1jepB01                  CATH domains
           Pfam domains (1) -----------Chalcone-1jepB01 B:15-212                                                                                                                                                                             --- Pfam domains (1)
           Pfam domains (2) -----------Chalcone-1jepB02 B:15-212                                                                                                                                                                             --- Pfam domains (2)
         Sec.struct. author ....eee..eee..eee......eeeeeeeeeeeeee..eeeeeeeeeeeee.hhhhhhhhhhh..hhhhhhhhhhhhhhhhhh...eeeeeee...eehhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh..ee....eeeeeee...eeeeeee..........eeeehhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1jep B   4 SITAITVENLEYPAVVTSPVTGKSYFLGGAGERGLTIEGNFIKFTAIGVYLEDIAVASLAAKWKGKSSEELLETLDFYRDIISGPFEKLIRGSKIRELSGPEYSRKVMENCVAHLKSVGTYGDAEAEAMQKFAEAFKPVNFPPGASVFYRQSPDGILGLSFSPDTSIPEKEAALIENKAVSSAVLETMIGEHAVSPDLKRCLAARLPALLNE 215
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213
   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, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (2, 4)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: no clan defined [family: Chalcone] (2)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (CFI1_MEDSA | P28012)
molecular function
    GO:0045430    chalcone isomerase activity    Catalysis of the reaction: a chalcone = a flavanone.
    GO:0016872    intramolecular lyase activity    The catalysis of certain rearrangements of a molecule to break or form a ring.
    GO:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
biological process
    GO:0009813    flavonoid biosynthetic process    The chemical reactions and pathways resulting in the formation of flavonoids, a group of phenolic derivatives containing a flavan skeleton.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CFI1_MEDSA | P28012: 1eyp 1eyq 1fm7 1fm8 1jx0 1jx1

(-) Related Entries Specified in the PDB File

1eyp CHALCONE ISOMERASE APOENZYME
1eyq CHALCONE ISOMERASE COMPLEXED WITH NARINGENIN