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(-) Description

Title :  CRYSTAL STRUCTURE OF MYC3(5-242) FRAGMENT IN COMPLEX WITH JAZ9(218-239) PEPTIDE
 
Authors :  J. Ke, F. Zhang, J. S. Brunzelle, H. E. Xu, K. Melcher, S. Y. He
Date :  20 Mar 15  (Deposition) - 05 Aug 15  (Release) - 23 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,C  (1x)
Biol. Unit 2:  B,D  (1x)
Keywords :  Helix-Sheet-Helix Sandwich Fold, Jasmonate Signaling, Myc Transcription Factor, Myc-Jaz Complex, Transcription Regulator (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Zhang, J. Yao, J. Ke, L. Zhang, V. Q. Lam, X. F. Xin, X. E. Zhou, J. Chen, J. Brunzelle, P. R. Griffin, M. Zhou, H. E. Xu, K. Melcher, S. Y. He
Structural Basis Of Jaz Repression Of Myc Transcription Factors In Jasmonate Signalling.
Nature V. 525 269 2015
PubMed-ID: 26258305  |  Reference-DOI: 10.1038/NATURE14661

(-) Compounds

Molecule 1 - TRANSCRIPTION FACTOR MYC3
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PSUMO
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: N-TERMINAL DOMAIN (UNP RESIDUES 5-242)
    Gene: MYC3, ATR2, BHLH5, EN36, AT5G46760, MZA15.18
    Organism Common: MOUSE-EAR CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: BASIC HELIX-LOOP-HELIX PROTEIN 5,BHLH 5,PROTEIN ALTERED TRYPTOPHAN REGULATION 2,TRANSCRIPTION FACTOR ATR2,TRANSCRIPTION FACTOR EN 36,BHLH TRANSCRIPTION FACTOR BHLH005
 
Molecule 2 - PROTEIN TIFY 7
    Chains: C, D
    Engineered: YES
    Fragment: UNP RESIDUES 194-215
    Organism Common: MOUSE-EAR CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: JASMONATE ZIM DOMAIN-CONTAINING PROTEIN 9
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A C 
Biological Unit 2 (1x):  B D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4YWC)

(-) Sites  (0, 0)

(no "Site" information available for 4YWC)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (5, 5)

Asymmetric Unit
No.Residues
1Ala A:19 -Ala A:20
2Ser A:130 -Gly A:131
3Asn A:236 -Phe A:237
4Ala B:20 -Ala B:21
5Asn B:236 -Phe B:237

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4YWC)

(-) 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:179
                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhh......eeeeeeeeee........eeeeeeeeeee....hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhh.ee..hhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhhhh...eeeeeee..eeeeeee......hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ywc A  18 SAAAPQFNEDTLQQRLQALIESAGENWTYAIFWQISHDFDSSTGDNTVILGWGDGYYKGENTAEQEHRKRVIRELNSLISGNDEEVTDTEWFFLVSMTQSFVNGVGLPGESFLNSRVIWLSGSGALTGSGCERAGQGQIYGLKTMVCIATQNGVVELGSSEVISQSSDLMHKVNNLFNF 237
                               ||   50        60        70        80        90       100|      120       130||     148       158       168       178       188       198       208       218       228         
                              21|                                                    100|                 131|                                                                                                 
                               45                                                     111                  140                                                                                                 


Chain B from PDB  Type:PROTEIN  Length:179
                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhh......eeeeeeeeeee......eeeeeeeeeeee.....hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhh.ee..hhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhhhh...eeeeeee..eeeeeee......hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ywc B  18 SAAAQFNEDTLQQRLQALIESAGENWTYAIFWQISHDFDSSTGDNTVILGWGDGYYKGEENTAEQEHRKRVIRELNSLISGNDEEVTDTEWFFLVSMTQSFVNGVGLPGESFLNSRVIWLSGSGALTGSGCERAGQGQIYGLKTMVCIATQNGVVELGSSEVISQSSDLMHKVNNLFNF 237
                               ||   51        61        71        81        91       101|      120       130||     148       158       168       178       188       198       208       218       228         
                              21|                                                    101|                 131|                                                                                                 
                               46                                                     111                  140                                                                                                 


Chain C from PDB  Type:PROTEIN  Length:22
                                                      
               SCOP domains ---------------------- SCOP domains
               CATH domains ---------------------- CATH domains
               Pfam domains ---------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------- SAPs(SNPs)
                    PROSITE ---------------------- PROSITE
                 Transcript ---------------------- Transcript
                 4ywc C 218 SVPQARKASLARFLEKRKERLM 239
                                   227       237  


Chain D from PDB  Type:PROTEIN  Length:22
                                                      
               SCOP domains ---------------------- SCOP domains
               CATH domains ---------------------- CATH domains
               Pfam domains ---------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------- SAPs(SNPs)
                    PROSITE ---------------------- PROSITE
                 Transcript ---------------------- Transcript
                 4ywc D 218 SVPQARKASLARFLEKRKERLM 239
                                   227       237
   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 4YWC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (17, 23)

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  Cis Peptide Bonds
    Ala A:19 - Ala A:20   [ RasMol ]  
    Ala B:20 - Ala B:21   [ RasMol ]  
    Asn A:236 - Phe A:237   [ RasMol ]  
    Asn B:236 - Phe B:237   [ RasMol ]  
    Ser A:130 - Gly A:131   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/Swiss-Prot
        MYC3_ARATH | Q9FIP9: 4rqw 4rru 4rs9 4yz6 5t0f 5t0q
        TIF7_ARATH | Q8W4J8: 4rs9

(-) Related Entries Specified in the PDB File

4rqw 4rru 4rs9