
PFRMAT AL
TARGET T0096
AUTHOR 7023-8870-2129
METHOD Additional Information
METHOD Two domain protein: DNA binding and acyl-coenzyme A binding. 
METHOD The latter domain has a novel fold (no significant DALI hits). 
METHOD Site of acyl-CoA binding known from mutations, yet the 
METHOD structure determination concerns the apo form, so this 
METHOD could be an interesting ab-inito structure determination 
METHOD target for the last domain, but also a docking target to 
METHOD find the binding site (if you can predict the structure 
METHOD acurately, that is :-) ). 
METHOD The protein is a HOMODIMER, *both* in presence and absence 
METHOD of DNA. Binding of acyl-CoA presumably causes a conformational 
METHOD change, switching off DNA binding and thus transcriptional 
METHOD respression. 
METHOD For 8. below: weak homology to HTH DNA binding domains for 
METHOD the first 72 residues of the structure. No homology for 
METHOD C-terminal domain. 
METHOD
METHOD The N-terminal sequence was run against the NR and a 
METHOD profile was produced (-j 10 -h 1.0e-4). This profile
METHOD was run against the pdb and LexA repressor, 1lea, was
METHOD the top his wil 0.001 E-value. The alignment generated
METHOD in stamp was merged with a SMART/PFAM alignments, STAMP
METHOD alignments, secondary structure predictions and DSSP
METHOD assignments.
MODEL 1
PARENT 1lea
I  16    V  11
I  17    F  12
E  18    D  13
S  19    L  14
I  20    I  15
W  21    R  16
N  22    D  17
N  23    H  18
R  24    I  19
F  25    S  20
P  26    Q  21
P  27    T  22
G  28    G  23
T  29    M  24
I  30    P  25
P  32    P  26
A  33    T  27
E  34    R  28
R  35    A  29
E  36    E  30
L  37    I  31
S  38    A  32
E  39    Q  33
L  40    R  34
I  41    L  35
G  42    G  36
T  44    S  39
R  45    P  40
T  46    N  41
T  47    A  42
L  48    A  43
R  49    E  44
E  50    E  45
V  51    H  46
L  52    L  47
Q  53    K  48
R  54    A  49
L  55    L  50
A  56    A  51
R  57    R  52
D  58    K  53
G  59    G  54
W  60    V  55
L  61    I  56
T  62    E  57
I  63    I  58
Q  64    V  59
H  65    S  60
G  66    G  61
K  67    A  62
P  68    S  63
T  69    R  64
K  70    G  65
V  71    I  66
N  72    R  67
TER
END

