
PFRMAT AL
TARGET T0088
AUTHOR 5477-6509-1337
REMARK
REMARK   Work performed by Kai-Ming Ho, James R. Morris, Cai-Zhuang Wang,
REMARK                   Drena Dobbs, Tzu-Liang Chan, Young-Ok Im,
REMARK                   Josh Koch, Neil Voss, Dion Harmon
REMARK
REMARK   Acknowledgments to Amy Andreotti and Josh Lapan
REMARK
REMARK   Work supported by Pioneer Hi-Bred, by a Carver Foundation grant
REMARK     from Iowa State University, and a Laboratory Directed 
REMARK     Research and Development grant from Ames Laboratory, U.S.D.O.E.
REMARK
REMARK
METHOD  This prediction is based upon structural recognition, based upon
METHOD  counting the number of hydrophobic contacts and on scoring the 
METHOD  energy with a modified Miyazawa-Jernigan matrix.  The structural
METHOD  threading used here included an iterated, exhaustive search for
METHOD  single insertion or deletion regions.  We have aligned the target
METHOD  with residues 241-391 of the file 1bk5, chain A.  The alignment
METHOD  includes two deletions from the target sequence, totalling 5
METHOD  residues, which improves the threading scores significantly.
METHOD
MODEL 1 
REMARK
REMARK    Homology model for               t0088e             t0088e
REMARK  program BUILD-AL by James R. Morris, Ames Lab    8/29/2000
REMARK
REMARK  Building a structure using the PDB file 1bk5.pdb.
REMARK  Target sequence taken from file t0088e.
REMARK  Using an offset of 152
REMARK
PARENT 1bk5_A
A  1    N  A241
V  2    L  A242
S  3    C  A243
F  4    R  A244
I  5    G  A245
G  6    K  A246
S  7    K  A247
T  8    P  A248
E  9    Q  A249
N  10    P  A250
D  11    D  A251
V  12    W  A252
G  13    S  A253
P  14    V  A254
S  15    V  A255
Q  16    S  A256
G  17    Q  A257
S  18    A  A258
Y  19    L  A259
S  20    P  A260
S  21    T  A261
T  22    L  A262
H  23    A  A263
A  24    K  A264
M  25    L  A265
D  26    I  A266
N  27    Y  A267
L  28    S  A268
P  29    M  A269
F  30    D  A270
V  31    T  A271
Y  32    E  A272
N  33    T  A273
T  34    L  A274
G  35    V  A275
Y  36    D  A276
N  37    A  A277
I  38    C  A278
G  39    W  A279
Y  40    A  A280
Q  41    I  A281
N  42    S  A282
A  43    Y  A283
N  44    L  A284
V  45    S  A285
W  46    D  A286
R  47    G  A287
I  48    P  A288
S  49    Q  A289
G  50    E  A290
G  51    A  A291
F  52    I  A292
C  53    Q  A293
V  54    A  A294
G  55    V  A295
L  56    I  A296
D  57    D  A297
G  58    V  A298
K  59    R  A299
V  60    I  A300
D  61    P  A301
L  62    K  A302
P  63    R  A303
V  64    L  A304
V  65    V  A305
G  66    E  A306
S  67    L  A307
L  68    L  A308
D  69    S  A309
G  70    H  A310
Q  71    E  A311
S  72    S  A312
I  73    T  A313
Y  74    L  A314
G  75    V  A315
L  76    Q  A316
T  77    T  A317
E  78    P  A318
E  79    A  A319
V  80    L  A320
G  81    R  A321
L  82    A  A322
L  83    V  A323
I  84    G  A324
W  85    N  A325
M  86    I  A326
G  87    V  A327
D  88    T  A328
T  89    G  A329
N  90    N  A330
Y  91    D  A331
S  92    L  A332
R  93    Q  A333
G  94    T  A334
T  95    Q  A335
A  96    V  A336
M  97    V  A337
S  98    I  A338
G  99    N  A339
N  100    A  A340
S  101    G  A341
W  102    V  A342
E  103    L  A343
N  104    P  A344
V  105    A  A345
F  106    L  A346
S  107    R  A347
G  108    L  A348
W  109    L  A349
C  110    L  A350
Y  114    S  A351
V  115    S  A352
S  116    P  A353
T  117    K  A354
Q  118    E  A355
G  119    N  A356
L  120    I  A357
S  121    K  A358
V  122    K  A359
H  123    E  A360
V  124    A  A361
R  125    C  A362
P  126    W  A363
V  127    T  A364
I  128    I  A365
L  129    S  A366
K  130    N  A367
R  131    I  A368
S  134    T  A369
A  135    A  A370
Q  136    G  A371
Y  137    N  A372
S  138    T  A373
V  139    E  A374
Q  140    Q  A375
K  141    I  A376
T  142    Q  A377
S  143    A  A378
I  144    V  A379
G  145    I  A380
S  146    D  A381
I  147    A  A382
R  148    N  A383
M  149    L  A384
R  150    I  A385
P  151    P  A386
Y  152    P  A387
N  153    L  A388
G  154    V  A389
S  155    K  A390
S  156    L  A391
TER
END


