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(-) Description

Title :  SEQUENCE DETERMINANTS OF THE TOPOLOGY OF THE LAC REPRESSOR TETRAMERIC COILED COIL
 
Authors :  J. Liu, M. Lu
Date :  27 Aug 07  (Deposition) - 17 Jun 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B,C,D  (1x)
Biol. Unit 2:  E,F,G,H  (1x)
Keywords :  Coiled Coils, Anti-Parallel Tetramer, Protein Design, De Novo Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Liu, Q. Zheng, Y. Deng, Q. Li, N. R. Kallenbach, M. Lu
Conformational Specificity Of The Lac Repressor Coiled-Coil Tetramerization Domain.
Biochemistry V. 46 14951 2007
PubMed-ID: 18052214  |  Reference-DOI: 10.1021/BI701930D
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GCN4 LEUCINE ZIPPER
    Chains: A, B, C, D, E, F, G, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PAE4
    Expression System Strain: BL21
    Expression System Vector Type: T7 EXPRESSION VECTOR
    Gene: GCN4, AAS3, ARG9
    Organism Common: YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): ABCD    
Biological Unit 2 (1x):     EFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric Unit (3, 9)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2CIT4Ligand/IonCITRIC ACID
3ZN2Ligand/IonZINC ION
Biological Unit 1 (2, 5)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2CIT2Ligand/IonCITRIC ACID
3ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2CIT2Ligand/IonCITRIC ACID
3ZN-1Ligand/IonZINC ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS C:19 , GLU C:23 , HOH G:44BINDING SITE FOR RESIDUE ZN C 35
2AC2SOFTWAREHIS D:19 , GLU D:23 , HOH G:37BINDING SITE FOR RESIDUE ZN D 35
3AC3SOFTWARESER D:15 , TYR D:18 , HIS D:19 , HOH D:40 , ALA E:14 , SER E:15 , TYR E:18BINDING SITE FOR RESIDUE ACT D 36
4AC4SOFTWARESER C:15 , HIS C:19 , HOH C:40 , ALA G:14 , SER G:15 , TYR G:18BINDING SITE FOR RESIDUE ACT C 36
5AC5SOFTWAREARG D:26BINDING SITE FOR RESIDUE ACT D 37
6AC6SOFTWAREHIS C:19 , ASN C:22 , GLU C:23 , HOH C:44 , HOH C:50 , HOH C:52 , LYS D:9 , HOH E:38 , SER G:15 , HIS G:19 , HOH G:44BINDING SITE FOR RESIDUE CIT C 37
7AC7SOFTWARELYS C:9 , HIS D:19 , ASN D:22 , GLU D:23 , HOH D:45 , HOH D:58 , SER E:15 , HIS E:19 , HOH G:37BINDING SITE FOR RESIDUE CIT D 38
8AC8SOFTWAREGLU D:12 , LYS D:16 , HOH D:50 , ASN E:22 , ARG E:26 , TYR G:18 , HIS G:19 , ASN G:22 , ARG G:26 , HOH G:39 , HOH G:44 , HOH G:45BINDING SITE FOR RESIDUE CIT G 35
9AC9SOFTWAREGLU C:12 , LYS C:16 , HOH C:49 , TYR E:18 , HIS E:19 , ASN E:22 , ARG E:26 , ASN G:22 , ARG G:26 , HOH G:37 , HOH G:41 , HOH G:42BINDING SITE FOR RESIDUE CIT G 36

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2R2V)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2R2V)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2R2V)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2R2V)

(-) Exons   (0, 0)

(no "Exon" information available for 2R2V)

(-) 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:33
                                                                
               SCOP domains d2r2va_ A: GCN4                   SCOP domains
               CATH domains --------------------------------- CATH domains
               Pfam domains --------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------- PROSITE
                 Transcript --------------------------------- Transcript
                  2r2v A  2 KLKQVADKLEEVASKLYHNANELARVAKLLGER 34
                                    11        21        31   


Chain B from PDB  Type:PROTEIN  Length:33
                                                                
               SCOP domains d2r2vb_ B: GCN4                   SCOP domains
               CATH domains --------------------------------- CATH domains
               Pfam domains --------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------- PROSITE
                 Transcript --------------------------------- Transcript
                  2r2v B  1 MKLKQVADKLEEVASKLYHNANELARVAKLLGE 33
                                    10        20        30   


Chain C from PDB  Type:PROTEIN  Length:33
                                                                
               SCOP domains d2r2vc_ C: GCN4                   SCOP domains
               CATH domains --------------------------------- CATH domains
               Pfam domains --------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------- PROSITE
                 Transcript --------------------------------- Transcript
                  2r2v C  1 MKLKQVADKLEEVASKLYHNANELARVAKLLGE 33
                                    10        20        30   


Chain D from PDB  Type:PROTEIN  Length:33
                                                                
               SCOP domains d2r2vd_ D: GCN4                   SCOP domains
               CATH domains --------------------------------- CATH domains
               Pfam domains --------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------- PROSITE
                 Transcript --------------------------------- Transcript
                  2r2v D  2 KLKQVADKLEEVASKLYHNANELARVAKLLGER 34
                                    11        21        31   


Chain E from PDB  Type:PROTEIN  Length:31
                                                              
               SCOP domains d2r2ve_ E: GCN4                 SCOP domains
               CATH domains ------------------------------- CATH domains
               Pfam domains ------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------- PROSITE
                 Transcript ------------------------------- Transcript
                  2r2v E  1 MKLKQVADKLEEVASKLYHNANELARVAKLL 31
                                    10        20        30 


Chain F from PDB  Type:PROTEIN  Length:32
                                                               
               SCOP domains d2r2vf_ F: GCN4                  SCOP domains
               CATH domains -------------------------------- CATH domains
               Pfam domains -------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------- PROSITE
                 Transcript -------------------------------- Transcript
                  2r2v F  3 LKQVADKLEEVASKLYHNANELARVAKLLGER 34
                                    12        22        32  


Chain G from PDB  Type:PROTEIN  Length:33
                                                                
               SCOP domains d2r2vg_ G: GCN4                   SCOP domains
               CATH domains --------------------------------- CATH domains
               Pfam domains --------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------- PROSITE
                 Transcript --------------------------------- Transcript
                  2r2v G  1 MKLKQVADKLEEVASKLYHNANELARVAKLLGE 33
                                    10        20        30   


Chain H from PDB  Type:PROTEIN  Length:31
                                                              
               SCOP domains d2r2vh_ H: GCN4                 SCOP domains
               CATH domains ------------------------------- CATH domains
               Pfam domains ------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------- PROSITE
                 Transcript ------------------------------- Transcript
                  2r2v H  3 LKQVADKLEEVASKLYHNANELARVAKLLGE 33
                                    12        22        32
   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, 8)

Asymmetric Unit
(-)
Class: Coiled coil proteins (689)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2R2V)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2R2V)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2R2V)

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2zta WILD-TYPE PROTEIN