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(-) Description

Title :  DIOXANE CONTRIBUTES TO THE ALTERED CONFORMATION AND OLIGOMERIZATION STATE OF A DESIGNED ENGRAILED HOMEODOMAIN VARIANT
 
Authors :  G. K. Hom, J. K. Lassila, L. M. Thomas, S. L. Mayo
Date :  03 Dec 04  (Deposition) - 15 Mar 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Protein Design, Dioxane, Engrailed Homeodomain, De Novo Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. K. Hom, J. K. Lassila, L. M. Thomas, S. L. Mayo
Dioxane Contributes To The Altered Conformation And Oligomerization State Of A Designed Engrailed Homeodomain Variant.
Protein Sci. V. 14 1115 2005
PubMed-ID: 15741348  |  Reference-DOI: 10.1110/PS.041277305
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ENGRAILED HOMEODOMAIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET11A VARIANT
    Expression System Strain: BL21-DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 13)

Asymmetric/Biological Unit (3, 13)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2CD2Ligand/IonCADMIUM ION
3DIO10Ligand/Ion1,4-DIETHYLENE DIOXIDE

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:29 , GLU B:29 , GLU C:6 , GLU C:9BINDING SITE FOR RESIDUE CD A 171
02AC2SOFTWAREGLU B:21 , GLU C:29 , GLU D:29 , ACY D:191BINDING SITE FOR RESIDUE CD C 172
03AC3SOFTWARELEU A:12 , GLN C:3 , TRP C:4 , SER C:5 , VAL C:8 , GLU C:9 , DIO C:182BINDING SITE FOR RESIDUE DIO C 181
04AC4SOFTWAREPHE B:45 , TRP C:4 , GLU C:9 , LEU C:12 , DIO C:181 , DIO C:183BINDING SITE FOR RESIDUE DIO C 182
05AC5SOFTWAREPHE A:15 , ILE B:41 , HOH B:211 , LYS C:13 , DIO C:182 , HOH C:209BINDING SITE FOR RESIDUE DIO C 183
06AC6SOFTWARELEU B:27 , TYR B:30 , LEU B:34 , HIS C:19 , GLN C:20BINDING SITE FOR RESIDUE DIO B 184
07AC7SOFTWARETHR A:26 , LEU A:27 , TYR A:30 , THR B:26 , LEU B:27 , DIO C:186BINDING SITE FOR RESIDUE DIO B 185
08AC8SOFTWARETYR A:30 , DIO B:185 , THR C:26 , LEU C:27 , TYR C:30 , LEU D:27 , TYR D:30BINDING SITE FOR RESIDUE DIO C 186
09AC9SOFTWAREASN C:37 , ALA C:40 , ILE C:41 , LYS D:11 , GLU D:14 , PHE D:15BINDING SITE FOR RESIDUE DIO C 187
10BC1SOFTWARELYS C:11 , GLU C:14 , ASN D:37 , ALA D:40 , ILE D:41BINDING SITE FOR RESIDUE DIO D 188
11BC2SOFTWAREGLU A:9 , LEU A:12 , PHE D:45 , PHE D:48 , GLU D:49BINDING SITE FOR RESIDUE DIO D 189
12BC3SOFTWARELYS A:11 , GLU A:14 , ASN B:37 , ALA B:40 , ILE B:41BINDING SITE FOR RESIDUE DIO B 190
13BC4SOFTWAREARG B:17 , ARG B:18 , GLU B:21 , GLU C:29 , CD C:172 , GLU D:29 , LYS D:33BINDING SITE FOR RESIDUE ACY D 191

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1Y66)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Phe C:45 -Arg C:46

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1Y66)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1Y66)

(-) Exons   (0, 0)

(no "Exon" information available for 1Y66)

(-) 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:50
                                                                                 
               SCOP domains -------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------- Transcript
                  1y66 A  3 QWSEEVERKLKEFVRRHQEITQETLHEYAQKLGLNQQAIEQFFREFEQRK 52
                                    12        22        32        42        52


Chain B from PDB  Type:PROTEIN  Length:46
                                                                             
               SCOP domains ---------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------- PROSITE
                 Transcript ---------------------------------------------- Transcript
                  1y66 B  5 SEEVERKLKEFVRRHQEITQETLHEYAQKLGLNQQAIEQFFREFEQ 50
                                    14        24        34        44      


Chain C from PDB  Type:PROTEIN  Length:44
                                                                           
               SCOP domains -------------------------------------------- SCOP domains
               CATH domains -------------------------------------------- CATH domains
               Pfam domains -------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------- PROSITE
                 Transcript -------------------------------------------- Transcript
                  1y66 C  3 QWSEEVERKLKEFVRRHQEITQETLHEYAQKLGLNQQAIEQFFR 46
                                    12        22        32        42    


Chain D from PDB  Type:PROTEIN  Length:46
                                                                             
               SCOP domains ---------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------- PROSITE
                 Transcript ---------------------------------------------- Transcript
                  1y66 D  5 SEEVERKLKEFVRRHQEITQETLHEYAQKLGLNQQAIEQFFREFEQ 50
                                    14        24        34        44
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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 1Y66)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1Y66)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1Y66)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1Y66)

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  Cis Peptide Bonds
    Phe C:45 - Arg C:46   [ RasMol ]  
 

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  1y66
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 Related Entries

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