# List of top-scoring protein chains for T0337.t04-w0.5 hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1ri7A 171 3.29e-29 a.4.5.32,d.58.4.2 97504,97505 2cg4A 152 2.76e-25 1i1gA 141 1.70e-24 a.4.5.32,d.58.4.2 65982,65983 2cfxA 144 1.72e-22 1sfxA 109 2.11e-05 a.4.5.50 105505 2a61A 145 4.76e-04 2csbA 519 4.87e-04 1ulyA 192 5.78e-04 1s3jA 155 9.40e-04 a.4.5.28 98437 1xnpA 202 1.70e-03 1mkmA 249 2.76e-03 a.4.5.33,d.110.2.2 79242,79243 2fbhA 146 4.01e-03 2g7uA 257 1.18e-02 2fbiA 142 1.22e-02 1je8A 82 1.45e-02 a.4.6.2 77108 1ub9A 100 2.70e-02 a.4.5.28 99159 1lvaA 258 2.82e-02 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1q1hA 110 3.46e-02 a.4.5.41 95580 1r22A 122 3.67e-02 a.4.5.5 104777 2b0lA 102 3.90e-02 1z91A 147 4.52e-02 1o3sA 200 5.12e-02 a.4.5.4,b.82.3.2 86609,86610 1wsuA 124 6.19e-02 1lj9A 144 6.61e-02 a.4.5.28 78035 1hw5A 210 6.99e-02 2cgpA a.4.5.4,b.82.3.2 16098,28137 1i6xA 209 7.01e-02 a.4.5.4,b.82.3.2 83673,83674 1i5zA 209 7.53e-02 a.4.5.4,b.82.3.2 83669,83670 1g6nA 210 7.55e-02 2cgpA a.4.5.4,b.82.3.2 16100,28139 1o3tA 200 7.55e-02 a.4.5.4,b.82.3.2 86611,86612 1cgpA 205 7.93e-02 a.4.5.4,b.82.3.2 16096,28135 1b1bA 140 1.32e-01 1bi0 a.4.5.24,a.76.1.1 16215,18421 1ku9A 152 1.54e-01 a.4.5.36 77544 1jhfA 202 1.61e-01 a.4.5.2,b.87.1.1 63057,63058 1a04A 215 1.93e-01 1a04A a.4.6.2,c.23.1.1 16234,31089 1zljA 78 2.30e-01 1o5lA 213 2.33e-01 b.82.3.2 92506 1r1tA 122 2.34e-01 a.4.5.5 104769 1lnwA 147 2.42e-01 a.4.5.28 78104 1zlkA 95 2.71e-01 1fx7A 230 2.85e-01 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 60088,60089,60090 1ruoA 209 3.26e-01 2cgpA a.4.5.4,b.82.3.2 16105,28144 1zh7A 243 3.28e-01 1utbA 315 3.40e-01 c.94.1.1 108030 1uthA 315 3.40e-01 c.94.1.1 108032 1utbB 315 3.50e-01 c.94.1.1 108031 1uthB 315 3.59e-01 c.94.1.1 108033 1bia 321 4.76e-01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1lea 84 6.48e-01 1lea a.4.5.2 16085 1ft9A 222 6.52e-01 1ft9A a.4.5.4,b.82.3.1 16107,28131 1xd7A 145 6.90e-01 a.4.5.55 109566 1jhhA 202 7.88e-01 a.4.5.2,b.87.1.1 63060,63061 1x89A 178 8.16e-01 1l6mA 180 8.17e-01 b.60.1.1 84531 2bj7A 138 8.64e-01 1cy9A 264 9.40e-01 1ecl e.10.1.1 43236 1pk5A 248 9.52e-01 a.123.1.1 88139 1f5tA 121 1.06e+00 1bi0 a.4.5.24,a.76.1.1 16203,18409 1j5yA 187 1.11e+00 a.4.5.1,d.94.2.1 71592,71593 1xcvA 139 1.15e+00 1u2wA 122 1.29e+00 2fuzA 377 1.79e+00 1in5A 334 1.93e+00 1hqcA a.4.5.11,c.37.1.20 62599,62600 1bw6A 56 1.93e+00 1bw6A a.4.1.7 16052 1in7A 334 2.00e+00 1hqcA a.4.5.11,c.37.1.20 62603,62604 1in6A 334 2.16e+00 1hqcA a.4.5.11,c.37.1.20 62601,62602 1in4A 334 2.16e+00 1hqcA a.4.5.11,c.37.1.20 62597,62598 1j7kA 334 2.16e+00 1hqcA a.4.5.11,c.37.1.20 62695,62696 1dfvA 177 2.22e+00 1nglA b.60.1.1 27144 1nglA 179 2.25e+00 1nglA b.60.1.1 27146 2feaA 236 2.25e+00 1fseA 74 2.25e+00 1fseA a.4.6.2 60000 1zduA 245 2.30e+00 1yokA 256 2.35e+00 1yucA 255 2.36e+00 1utuA 108 2.39e+00 1uz3A 102 2.40e+00 2ev0A 142 2.45e+00 1in8A 334 2.64e+00 1hqcA a.4.5.11,c.37.1.20 62605,62606 1gtdA 85 2.76e+00 d.284.1.1 76344 3crd 100 3.14e+00 3crd a.77.1.3 18429 1s7oA 113 3.16e+00 a.4.13.3 105354 2fmmE 133 3.20e+00 2acjA 66 3.51e+00 2ahoB 266 3.74e+00 2ethA 154 3.83e+00 1qbjA 81 4.18e+00 1qbjA a.4.5.19 16155 1hlvA 131 4.28e+00 a.4.1.7,a.4.1.7 65854,65855 1g2hA 61 4.32e+00 1g2hA a.4.1.12 60224 1p3jA 217 4.40e+00 c.37.1.1,g.41.2.1 94022,94023 2bbhA 269 4.66e+00 2dtr 226 5.07e+00 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16193,18399,24450 1hw1A 239 5.13e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1e2xA 243 5.14e+00 1e2xA a.4.5.6,a.78.1.1 16113,18443 1g3yA 226 5.14e+00 a.4.5.24,a.76.1.1,b.34.1.2 65136,65137,65138 1p92A 226 5.18e+00 a.4.5.24,a.76.1.1,b.34.1.2 104085,104086,104087 2tdx 226 5.20e+00 1bi0 a.4.5.24,a.76.1.1 16201,18407 1lqyA 184 5.32e+00 d.167.1.1 74212 1g3tA 226 5.77e+00 a.4.5.24,a.76.1.1,b.34.1.2 65127,65128,65129 1c0wA 225 6.02e+00 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16211,18417,24455 1yyvA 131 6.27e+00 1mk3A 178 6.45e+00 f.1.4.1 84978 1j75A 67 6.53e+00 a.4.5.19 62673 1v05A 96 6.89e+00 1ve1A 304 7.17e+00 1fwzA 226 7.29e+00 a.4.5.24,a.76.1.1,b.34.1.2 60077,60078,60079 1cy2A 599 7.33e+00 1ecl e.10.1.1 43241 1on2A 142 7.36e+00 a.4.5.24,a.76.1.1 87103,87104 1va9A 122 7.44e+00 2bbjA 354 7.46e+00 1yv5A 374 7.64e+00 1qgpA 77 7.66e+00 1qbjA a.4.5.19 16158 1zw5A 355 7.84e+00 1aisB 200 7.86e+00 1aisB a.74.1.2,a.74.1.2 18384,18385 1d3uB 201 7.90e+00 1aisB a.74.1.2,a.74.1.2 18386,18387 2f94F 350 7.94e+00 1p6rA 82 8.05e+00 a.4.5.39 94187 6paxA 133 8.14e+00 6paxA a.4.1.5,a.4.1.5 64758,64759 1whsA 255 8.34e+00 1ivyA c.69.1.5 34649 1whtA 256 8.36e+00 1ivyA c.69.1.5 34646 1h6zA 913 8.47e+00 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1k78A 149 8.52e+00 a.4.1.5,a.4.1.5 68255,68256 1bcsA 263 8.69e+00 1ivyA c.69.1.5 34647 1o0lA 188 8.71e+00 f.1.4.1 86534 1pdnC 128 8.94e+00 6paxA a.4.1.5 16047 1pbgA 468 9.15e+00 1e70M c.1.8.4 28946 1ecl 597 9.28e+00 1ecl e.10.1.1 43238 2pbg 468 9.35e+00 1e70M c.1.8.4 28948 3sc2A 259 9.37e+00 1ivyA c.69.1.5 34648 2af4C 333 9.75e+00 2fxaA 207 9.86e+00 1y0uA 96 1.02e+01 1xi9A 406 1.14e+01 1jgsA 138 1.21e+01 a.4.5.28 66683 2fv1A 377 1.24e+01 1hqcA 324 1.27e+01 1hqcA a.4.5.11,c.37.1.20 16127,32424 4pbgA 468 1.30e+01 1e70M c.1.8.4 28949 1b0nA 111 1.36e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1jroA 462 1.37e+01 a.56.1.1,d.15.4.2,d.87.2.1,d.145.1.3 67137,67138,67139,67140 1qqsA 174 1.42e+01 1nglA b.60.1.1 27143 1ixsB 318 1.43e+01 a.4.5.11,c.37.1.20 76933,76934 1ixrC 312 1.55e+01 a.4.5.11,c.37.1.20 76930,76931 1mxmA 254 1.55e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1p4xA 250 1.57e+01 a.4.5.28,a.4.5.28 87784,87785 2ajpA 326 1.67e+01 1xmkA 79 1.69e+01 2fswA 107 1.77e+01 1uwwA 191 1.77e+01 b.18.1.23 108079 1iw8A 231 1.77e+01 a.111.1.1 76866 1j0rA 122 1.78e+01 a.4.5.7 90745 1ylfA 149 1.79e+01 1vk1A 242 1.83e+01 d.268.1.2 108634 1efpA 307 1.84e+01 1efvA c.26.2.3,c.31.1.2 31635,31729 1n2aA 201 1.86e+01 a.45.1.1,c.47.1.5 91553,91554 1bm9A 122 1.88e+01 1bm9A a.4.5.7 16116 1okrA 123 1.94e+01 a.4.5.39 93269 1d2tA 231 1.94e+01 1d2tA a.111.1.1 19052 1t5iA 172 1.99e+01 c.37.1.19 106450 1wi9A 72 2.00e+01 2cohA 202 2.01e+01 2f8mA 244 2.08e+01 1g1xB 88 2.12e+01 1a32 a.16.1.2 16393 1q90M 39 2.12e+01 f.23.25.1 96246 1fkaO 89 2.17e+01 i.1.1.3 45858 1uarA 285 2.31e+01 c.46.1.2,c.46.1.2 107762,107763 1sqsA 242 2.34e+01 c.23.5.5 98968 3pmgA 561 2.35e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1sd6A 123 2.36e+01 a.4.5.39 98803 1lhpA 312 2.41e+01 c.72.1.5 77960 1s6lA 212 2.42e+01 1o58A 303 2.45e+01 c.79.1.1 92491 1v6sA 390 2.45e+01 c.86.1.1 100424 1fvjA 189 2.52e+01 1fvkA c.47.1.13 90349 1wfjA 136 2.55e+01 1wyuA 438 2.62e+01 1sd4A 126 2.62e+01 a.4.5.39 105428 5nul 138 2.63e+01 5nul c.23.5.1 31191 1eg5A 384 2.65e+01 1ecxA c.67.1.3 34429 2gaiA 633 2.65e+01 1un2A 197 2.69e+01 c.47.1.13 99645 1y1pA 342 2.77e+01 3nll 138 2.99e+01 5nul c.23.5.1 31206 1d6mA 653 3.02e+01 1d6mA e.10.1.1 43248 2c9wA 169 3.41e+01 1nr3A 122 3.45e+01 d.236.1.1 86092 1i7dA 659 3.53e+01 1d6mA e.10.1.1 61886 1zybA 232 3.62e+01 2f06A 144 3.70e+01 1b0aA 288 3.72e+01 1a4iA c.2.1.7,c.58.1.2 30286,33934 1utxA 66 3.73e+01 a.35.1.3 108034 1sj6A 101 3.75e+01 1vjuA 309 3.96e+01 d.248.1.1 100835 2be4A 272 3.99e+01 1o07A 358 4.07e+01 e.3.1.1 92390 1abrA 251 4.09e+01 1mrj d.165.1.1 42196 1n0sA 184 4.10e+01 b.60.1.1 91526 1ybzA 91 4.11e+01 1g5cA 170 4.19e+01 1g5cA c.53.2.1 60264 1cue 197 4.23e+01 1cex c.69.1.30 31322 1dwkA 156 4.30e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 2d7dA 661 4.36e+01 1t0vA 184 4.37e+01 2a6cA 83 4.39e+01 1mw9X 592 4.40e+01 e.10.1.1 91480 1axdA 209 4.46e+01 1gnwA a.45.1.1,c.47.1.5 17730,33024 1slm 255 4.49e+01 1hfc a.20.1.2,d.92.1.11 59042,59043 1v9pA 584 4.55e+01 a.60.2.2,b.40.4.6,d.142.2.2 100544,100545,100546 1sq8A 64 4.59e+01 a.35.1.2 105888 1byeA 213 4.64e+01 1gnwA a.45.1.1,c.47.1.5 17732,33026 2ax3A 502 4.72e+01 1qibA 161 4.77e+01 1ck7A d.92.1.11 40359 1mhdA 132 4.90e+01 1mhdA d.164.1.1 42175 1f9nA 149 4.92e+01 a.4.5.3,d.74.2.1 64990,64991 1ozjA 144 5.11e+01 d.164.1.1 93846 1volA 204 5.13e+01 1tfb a.74.1.2,a.74.1.2 18370,18371 1dgsA 667 5.17e+01 1dgsA a.60.2.2,b.40.4.6,d.142.2.2 17963,25365,41581 1tadA 324 5.17e+01 1cipA a.66.1.1,c.37.1.8 18194,32077 1s69A 124 5.19e+01 a.1.1.1 105305 2bnmA 198 5.20e+01 1dj3A 442 5.21e+01 1adeA c.37.1.10 32239 1rr7A 129 5.24e+01 a.4.1.14 105075 1rtxA 123 5.27e+01 a.1.1.1 97827 1mrzA 293 5.31e+01 b.43.5.1,c.26.1.3 91452,91453 2bszA 278 5.37e+01 1xo1A 291 5.51e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 4nll 138 5.58e+01 5nul c.23.5.1 31203 1tlk 154 5.66e+01 1tlk b.1.1.4 21707 1g13A 162 5.68e+01 1g13A b.95.1.1 60194 1exnA 290 5.78e+01 1exnA a.60.7.1,c.120.1.2 18088,33358 1ut8A 291 5.78e+01 a.60.7.1,c.120.1.2 99908,99909 1zkoA 136 5.83e+01 1xn7A 78 5.86e+01 2cmd 312 5.90e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1ib6A 312 5.90e+01 c.2.1.5,d.162.1.1 62146,62147 1fvx 138 5.92e+01 5nul c.23.5.1 31204 1r29A 127 5.95e+01 d.42.1.1 96856 1c9bA 207 5.96e+01 1tfb a.74.1.2,a.74.1.2 18372,18373 1u8bA 133 5.96e+01 2afuA 329 5.97e+01 1tfb 208 5.98e+01 1tfb a.74.1.2,a.74.1.2 18382,18383 1shyB 551 6.14e+01 b.69.12.1,g.16.2.1 105565,105566 2afsA 329 6.15e+01 1zgwA 139 6.20e+01 1zq1C 633 6.32e+01 5nll 138 6.34e+01 5nul c.23.5.1 31198 2afwA 329 6.36e+01 1fvkA 189 6.67e+01 1fvkA c.47.1.13 90351 2prd 174 6.69e+01 2prd b.40.5.1 25435 1pme 380 6.70e+01 1hcl d.144.1.7 41653 2fdx 138 6.71e+01 5nul c.23.5.1 31192 1x3uA 79 6.71e+01 1qzzA 374 6.73e+01 a.4.5.29,c.66.1.12 96719,96720 1zx4A 192 6.75e+01 1bq7A 189 6.76e+01 1fvkA c.47.1.13 90331 1wpkA 146 6.88e+01 1j3mA 129 6.88e+01 d.129.7.1 103836 1xsvA 113 6.90e+01 1qrqA 325 6.99e+01 1qrqA c.1.7.1 28667 1v4rA 102 7.03e+01 1klnA 605 7.10e+01 1xwl c.55.3.5,e.8.1.1 33693,42986 1d8yA 605 7.11e+01 1xwl c.55.3.5,e.8.1.1 33684,42977 1kfd 605 7.18e+01 1xwl c.55.3.5,e.8.1.1 33694,42987 2kfnA 605 7.18e+01 1xwl c.55.3.5,e.8.1.1 33682,42975 2ag9A 164 7.27e+01 1xu1A 138 7.28e+01 1u5xA 140 7.35e+01 1exbA 332 7.39e+01 1qrqA c.1.7.1 28666 2a79A 333 7.42e+01 2ag4A 164 7.47e+01 1lvwA 295 7.57e+01 c.68.1.6 84723 2cb3A 175 7.63e+01 1vp5A 298 7.81e+01 1cyu 98 7.85e+01 1stfI d.17.1.2 38004 1wzyA 368 7.92e+01 1kacB 124 7.92e+01 1neu b.1.1.1 19707 2sga 181 7.93e+01 1qq4A b.47.1.1 25808 1acvA 189 7.93e+01 1fvkA c.47.1.13 90328 1e6iA 121 7.96e+01 1b91A a.29.2.1 16969 1p0yA 444 7.96e+01 a.166.1.1,b.85.7.3 87654,87655 1cuj 214 7.98e+01 1cex c.69.1.30 31294 1ac1A 189 8.00e+01 1fvkA c.47.1.13 90326 1rsfA 126 8.00e+01 b.1.1.1 97809 1usn 165 8.00e+01 1hfc d.92.1.11 40372 1b8yA 167 8.13e+01 1hfc d.92.1.11 40377 1cizA 168 8.19e+01 1hfc d.92.1.11 40371 1vbuA 328 8.25e+01 2bn4A 682 8.32e+01 1bbpA 173 8.34e+01 1bbpA b.60.1.1 27147 2fewA 148 8.39e+01 1ixcA 294 8.39e+01 a.4.5.37,c.94.1.1 83764,83765 1tvoA 368 8.41e+01 2h21A 440 8.49e+01 1hy7A 173 8.65e+01 d.92.1.11 65957 1jewR 120 8.73e+01 i.6.1.1 66618 1umsA 174 8.76e+01 1hfc d.92.1.11 40368 1ngnA 155 8.79e+01 a.96.1.2 85697 2bhvA 246 8.80e+01 2f4iA 197 8.87e+01 1xmaA 145 8.90e+01