PFRMAT AL
TARGET T0320 FAD1, Saccharomyces cerevisiae, 306 res
AUTHOR SAM-T99
REMARK Subject: T0320(database hits)
REMARK MIME-Version: 1.0
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REMARK 
REMARK The following are search results using the SAM-T99 method
REMARK for a sequence query against a database. If there
REMARK are no hits associated with this output, then your
REMARK score cutoff was too conservative.
REMARK 
REMARK Citation:  
REMARK   K. Karplus, C. Barrett, and R. Hughey,
REMARK   Hidden Markov Models for Detecting Remote Protein Homologies,
REMARK   Bioinformatics, 1998, vol. 14, no. 10, pp. 846-856. 
REMARK   http://www.cse.ucsc.edu/research/compbio/HMM-apps
REMARK --------------------------------------------------------
REMARK 
REMARK For questions or problems, please see the SAM-T99 FAQ at
REMARK 
REMARK http://www.cse.ucsc.edu/research/compbio/HMM-apps/sam-t99-faq.html
REMARK 
REMARK or email us at sam-info@cse.ucsc.edu
REMARK 
REMARK 
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REMARK Content-type: text/plain; charset=us-ascii; name='t99-results-1149693960-27176.t99dbhits.txt'
REMARK Content-Disposition: attachment; filename="t99-results-1149693960-27176.t99dbhits.txt"
REMARK 
REMARK The E-value is an estimate of approximately  how many
REMARK sequences would score this well by chance in the database
REMARK searched.  For SAM-T99, E-values less than about 0.01 are
REMARK roughly equivalent, as sequences that score that well have
REMARK most likely already been included in the SAM-T99 multiple
REMARK alignment.
REMARK 
REMARK Database: PDB (updated Thu Jun  1 01:13:10 2006)
REMARK Score method: average
REMARK 
REMARK Summary of Database Hits:
REMARK                   Average               Target               Template     
REMARK SeqID       Reverse     EValue    Reverse     EValue    Reverse     EValue  SeqLabel
REMARK 1zunA        -108.2  8.494e-43     -108.2   8.46e-43  ---------  ---------  :mol:protein length:325  Sulfate adenylyltransferas
REMARK 
REMARK 1sur         -92.53  5.345e-36     -122.1   7.35e-49     -62.91   3.91e-23  :mol:protein length:215  PAPS REDUCTASE            
REMARK 
REMARK 1gpmA        -22.77  1.052e-05     -22.77   1.06e-05  ---------  ---------  :mol:protein length:525  GMP SYNTHETASE            
REMARK 
REMARK 1gpmB        -22.77  1.052e-05     -22.77   1.06e-05  ---------  ---------  :mol:protein length:525  GMP SYNTHETASE            
REMARK 
REMARK 1gpmC        -22.77  1.052e-05     -22.77   1.06e-05  ---------  ---------  :mol:protein length:525  GMP SYNTHETASE            
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REMARK Content-type: text/plain; charset=us-ascii; name='t99-results-1149693960-27176.t99pairwise.casp.al'
REMARK Content-Disposition: attachment; filename="t99-results-1149693960-27176.t99pairwise.casp.al"
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REMARK 
METHOD This pairwise alignment was produced using the SAM-T99 method
METHOD 
METHOD  ------------- Citations (SAM, SAM-T99, HMMs) -----------------
METHOD R. Hughey, A. Krogh, Hidden Markov models for sequence analysis:
METHOD   Extension and analysis of the basic method, CABIOS 12:95-107, 1996.
METHOD K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting
METHOD   remote protein homologies, Bioinformatics 14(10):846-856, 1999.
METHOD A. Krogh et al., Hidden Markov models in computational biology:
METHOD   Applications to protein modeling, JMB 235:1501-1531, Feb 1994.
METHOD -------------
MODEL 1
PARENT 1zunA
H 19    L -6
I 20    V -5
D 21    P -4
Q 22    R -3
K 23    G -2
S 24    S -1
Q 25    H 0
I 26    M 1
I 27    V 2
A 28    D 3
S 29    K 4
T 30    L 5
Q 31    T 6
E 32    H 7
A 33    L 8
I 34    K 9
R 35    Q 10
L 36    L 11
T 37    E 12
R 38    A 13
K 39    E 14
Y 40    S 15
L 41    I 16
L 42    H 17
S 43    I 18
E 44    I 19
I 45    R 20
F 46    E 21
V 47    V 22
R 48    A 23
W 49    A 24
S 50    E 25
P 51    F 26
G 54    D 27
E 55    N 28
I 56    P 29
S 57    V 30
F 58    M 31
S 59    L 32
Y 60    Y 33
N 61    S 34
G 62    I 35
G 63    G 36
K 64    K 37
D 65    D 38
C 66    S 39
Q 67    A 40
V 68    V 41
L 69    M 42
L 70    L 43
L 71    H 44
L 72    L 45
Y 73    A 46
L 74    R 47
S 75    K 48
C 76    A 49
L 77    F 50
W 78    F 51
F 97    P 52
P 98    G 53
M 99    K 54
Q 100    L 55
R 101    P 56
L 102    F 57
P 103    P 58
T 104    V 59
V 105    M 60
F 106    H 61
I 107    V 62
D 108    D 63
Q 109    T 64
E 110    R 65
E 111    W 66
T 112    K 67
F 113    F 68
P 114    Q 69
T 115    E 70
L 116    M 71
E 117    Y 72
N 118    R 73
F 119    F 74
V 120    R 75
L 121    D 76
E 122    Q 77
T 123    M 78
S 124    V 79
E 125    E 80
R 126    E 81
Y 127    M 82
C 128    G 83
L 129    L 84
S 130    D 85
L 131    L 86
Y 132    I 87
E 133    T 88
S 134    H 89
Q 135    I 90
R 136    N 91
A 145    S 106
D 146    A 107
A 147    K 108
F 148    H 109
R 149    T 110
D 150    D 111
F 151    I 112
I 152    M 113
K 153    K 114
I 154    T 115
Y 155    E 116
P 156    G 117
E 157    L 118
T 158    K 119
E 159    Q 120
A 160    A 129
I 161    A 130
V 162    F 131
I 163    G 132
G 164    G 133
I 165    A 134
R 166    R 135
H 167    R 136
T 168    D 137
D 169    E 138
P 170    E 139
F 171    K 140
G 172    S 141
E 173    R 142
A 174    K 144
L 175    E 145
K 176    R 146
P 177    V 147
I 178    Y 148
Q 179    S 149
R 180    F 150
T 181    R 151
D 182    D 152
S 183    S 153
N 184    K 154
W 185    H 155
P 186    G 177
D 187    E 178
F 188    S 179
M 189    I 180
R 190    R 181
L 191    V 182
Q 192    F 183
P 193    P 184
L 194    L 185
L 195    S 186
H 196    N 187
W 197    W 188
D 198    T 189
L 199    E 190
T 200    L 191
N 201    D 192
I 202    I 193
W 203    W 194
S 204    Q 195
F 205    Y 196
L 206    I 197
L 207    Y 198
Y 208    L 199
S 209    E 200
N 210    G 201
E 211    I 202
P 212    P 203
I 213    I 204
C 214    V 205
G 215    P 206
L 216    L 207
Y 217    Y 208
G 218    F 209
K 219    A 210
TER
END