# List of top-scoring protein chains for T0373.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 2a61A 145 2.73e-14 1jgsA 138 3.05e-14 a.4.5.28 66683 2fbhA 146 4.31e-14 1z91A 147 6.40e-14 2fbiA 142 1.69e-13 1lnwA 147 2.03e-13 a.4.5.28 78104 1lj9A 144 5.14e-13 a.4.5.28 78035 2ethA 154 7.56e-13 1s3jA 155 4.63e-12 a.4.5.28 98437 2fxaA 207 3.14e-10 1hsjA 487 2.37e-06 4mbp a.4.5.28,c.94.1.1 61237,61238 1ku9A 152 9.15e-06 a.4.5.36 77544 1p4xA 250 3.83e-05 a.4.5.28,a.4.5.28 87784,87785 2fnpA 124 4.38e-05 1on2A 142 6.42e-05 a.4.5.24,a.76.1.1 87103,87104 2ev0A 142 6.96e-05 2frhA 127 8.08e-05 1fzpB 123 8.46e-05 1fznD a.4.5.28 19008 1ub9A 100 1.08e-04 a.4.5.28 99159 1mkmA 249 8.29e-04 a.4.5.33,d.110.2.2 79242,79243 1sfxA 109 1.36e-03 a.4.5.50 105505 1b1bA 140 1.87e-03 1bi0 a.4.5.24,a.76.1.1 16215,18421 1fx7A 230 1.94e-03 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 60088,60089,60090 1f5tA 121 5.44e-03 1bi0 a.4.5.24,a.76.1.1 16203,18409 2tdx 226 6.04e-03 1bi0 a.4.5.24,a.76.1.1 16201,18407 1g3tA 226 6.66e-03 a.4.5.24,a.76.1.1,b.34.1.2 65127,65128,65129 1okrA 123 6.74e-03 a.4.5.39 93269 1c0wA 225 6.83e-03 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16211,18417,24455 2dtr 226 7.00e-03 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16193,18399,24450 2cfxA 144 7.59e-03 1fwzA 226 7.60e-03 a.4.5.24,a.76.1.1,b.34.1.2 60077,60078,60079 1g3yA 226 8.09e-03 a.4.5.24,a.76.1.1,b.34.1.2 65136,65137,65138 1sd6A 123 8.48e-03 a.4.5.39 98803 1xcvA 139 1.01e-02 1p92A 226 1.25e-02 a.4.5.24,a.76.1.1,b.34.1.2 104085,104086,104087 2b0lA 102 2.46e-02 1i1gA 141 2.82e-02 a.4.5.32,d.58.4.2 65982,65983 2co5A 99 3.70e-02 1r22A 122 4.08e-02 a.4.5.5 104777 1xmaA 145 4.25e-02 1z7uA 112 4.36e-02 2dbbA 151 4.90e-02 1dpuA 99 5.03e-02 1dpuA a.4.5.16 16150 1z1dA 103 5.04e-02 1sd4A 126 5.23e-02 a.4.5.39 105428 1yyvA 131 6.57e-02 1ft9A 222 7.06e-02 1ft9A a.4.5.4,b.82.3.1 16107,28131 1r1tA 122 7.46e-02 a.4.5.5 104769 1ulyA 192 7.78e-02 1xnpA 202 8.28e-02 2f2eA 146 9.24e-02 1j75A 67 1.10e-01 a.4.5.19 62673 1hw5A 210 1.24e-01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1o3sA 200 1.25e-01 a.4.5.4,b.82.3.2 86609,86610 1tbxA 99 1.43e-01 a.4.5.48 106748 1i6xA 209 1.67e-01 a.4.5.4,b.82.3.2 83673,83674 1i5zA 209 1.70e-01 a.4.5.4,b.82.3.2 83669,83670 1g6nA 210 1.71e-01 2cgpA a.4.5.4,b.82.3.2 16100,28139 1o3tA 200 1.72e-01 a.4.5.4,b.82.3.2 86611,86612 1cgpA 205 1.79e-01 a.4.5.4,b.82.3.2 16096,28135 2fswA 107 2.06e-01 1q1hA 110 2.14e-01 a.4.5.41 95580 1u2wA 122 2.27e-01 1o5lA 213 2.52e-01 b.82.3.2 92506 1ruoA 209 2.71e-01 2cgpA a.4.5.4,b.82.3.2 16105,28144 1r1uA 106 2.86e-01 a.4.5.5 104771 1bw6A 56 4.14e-01 1bw6A a.4.1.7 16052 2g7uA 257 4.40e-01 2acjA 66 4.46e-01 1qgpA 77 5.09e-01 1qbjA a.4.5.19 16158 1qbjA 81 5.76e-01 1qbjA a.4.5.19 16155 1xn7A 78 5.86e-01 1zybA 232 6.97e-01 1wdvA 152 7.55e-01 1hlvA 131 7.61e-01 a.4.1.7,a.4.1.7 65854,65855 1zljA 78 7.80e-01 1ri7A 171 7.97e-01 a.4.5.32,d.58.4.2 97504,97505 1je8A 82 8.40e-01 a.4.6.2 77108 1zlkA 95 9.17e-01 1ixcA 294 1.50e+00 a.4.5.37,c.94.1.1 83764,83765 1i1sA 96 1.75e+00 1bjaA a.4.5.9 16124 1bjaA 95 1.78e+00 1bjaA a.4.5.9 16122 1yg2A 179 2.02e+00 1t6sA 162 2.41e+00 1k78A 149 2.69e+00 a.4.1.5,a.4.1.5 68255,68256 2cg4A 152 2.73e+00 2eshA 118 2.73e+00 1p6rA 82 2.76e+00 a.4.5.39 94187 6paxA 133 3.13e+00 6paxA a.4.1.5,a.4.1.5 64758,64759 1wi9A 72 3.41e+00 1mzbA 136 3.75e+00 a.4.5.42 91497 1v4rA 102 3.87e+00 1lccA 51 3.98e+00 1pru a.35.1.5 17110 1z05A 429 4.06e+00 1al3 324 4.23e+00 1al3 c.94.1.1 35835 1sgoA 139 4.32e+00 d.82.3.1 98857 1lqc 56 4.40e+00 1pru a.35.1.5 17109 1s7oA 113 4.85e+00 a.4.13.3 105354 1l1mA 62 4.87e+00 a.35.1.5 73474 2givA 295 4.91e+00 1cjgA 62 4.96e+00 1pru a.35.1.5 17112 2fu4A 83 4.99e+00 1y0uA 96 5.07e+00 1e2xA 243 5.36e+00 1e2xA a.4.5.6,a.78.1.1 16113,18443 1yqyA 523 5.47e+00 2bjcA 62 5.62e+00 1hw1A 239 5.77e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1pdnC 128 5.83e+00 6paxA a.4.1.5 16047 1wucA 250 6.07e+00 1tw3A 360 7.54e+00 a.4.5.29,c.66.1.12 107373,107374 1pwuA 776 7.64e+00 d.92.1.14,d.92.1.14,d.166.1.1 95244,95245,95246 1j7nA 776 7.74e+00 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1j5yA 187 8.05e+00 a.4.5.1,d.94.2.1 71592,71593 1q2lA 939 8.19e+00 1wsuA 124 8.65e+00 1zcoA 262 9.16e+00 1ldkB 366 9.18e+00 a.4.5.34,e.40.1.1 73852,73853 1utxA 66 9.51e+00 a.35.1.3 108034 2bx9A 53 1.02e+01 1lvaA 258 1.05e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 2bgcA 238 1.06e+01 2beoA 236 1.09e+01 1omiA 248 1.12e+01 b.82.3.3,a.4.5.4 87079,87080 1nnwA 252 1.18e+01 d.159.1.5 80674 1r71A 178 1.20e+01 a.4.14.1 104823 1y56B 382 1.26e+01 1lea 84 1.26e+01 1lea a.4.5.2 16085 1ge9A 184 1.26e+01 1dd5A d.67.3.1 60463 1c8bA 371 1.26e+01 1c8bA c.56.1.2 59082 2bgsA 344 1.34e+01 1lqtA 456 1.45e+01 c.3.1.1,c.4.1.1 74198,74199 1j7kA 334 1.51e+01 1hqcA a.4.5.11,c.37.1.20 62695,62696 1in6A 334 1.51e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1r7jA 95 1.55e+01 a.4.5.49 104836 1jhfA 202 1.56e+01 a.4.5.2,b.87.1.1 63057,63058 1in4A 334 1.56e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1in5A 334 1.56e+01 1hqcA a.4.5.11,c.37.1.20 62599,62600 1in8A 334 1.57e+01 1hqcA a.4.5.11,c.37.1.20 62605,62606 1iyxA 432 1.57e+01 c.1.11.1,d.54.1.1 83815,83816 1z6rA 406 1.57e+01 1in7A 334 1.57e+01 1hqcA a.4.5.11,c.37.1.20 62603,62604 1jhhA 202 1.58e+01 a.4.5.2,b.87.1.1 63060,63061 1qzzA 374 1.68e+01 a.4.5.29,c.66.1.12 96719,96720 1p4wA 99 1.74e+01 a.4.6.2 87783 2a2jA 246 1.75e+01 1ylfA 149 1.90e+01 1zncA 266 1.91e+01 2cba b.74.1.1 27955 1ev7A 317 1.92e+01 1ev7B c.52.1.9 33315 1xsvA 113 1.93e+01 2b5aA 77 2.02e+01 1rr7A 129 2.02e+01 a.4.1.14 105075 1b0nA 111 2.08e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 2cu6A 103 2.09e+01 2csbA 519 2.14e+01 1zx4A 192 2.15e+01 1ul1X 379 2.21e+01 1v88A 130 2.25e+01 b.55.1.1 108423 1s1iQ 100 2.27e+01 i.1.1.1 105191 1zakA 222 2.45e+01 1zin c.37.1.1,g.41.2.1 31913,45202 1jhgA 101 2.47e+01 1jhgA a.4.12.1 19009 1pdvA 197 2.56e+01 c.23.16.2 88036 1xdpA 687 2.61e+01 1ldjA 760 2.72e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1uhnA 189 2.80e+01 a.39.1.5 99399 1a04A 215 2.81e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1puoA 170 2.84e+01 a.101.1.1,a.101.1.1 95134,95135 1g91A 77 2.84e+01 1b3aA d.9.1.1 60389 2hcc 66 2.85e+01 1b3aA d.9.1.1 37457 1sfuA 75 2.85e+01 a.4.5.19 105503 1j42A 189 2.86e+01 c.23.16.2 90837 1lwuC 323 2.87e+01 d.171.1.1,h.1.8.1 74312,74313 1u6gA 776 2.87e+01 1pe0A 197 2.95e+01 c.23.16.2 88045 1y0yA 353 2.97e+01 1p5fA 189 3.01e+01 c.23.16.2 94142 1xfoA 357 3.02e+01 1b24A 188 3.09e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 2gaiA 633 3.24e+01 1efaA 333 3.33e+01 1tlfA a.35.1.5,c.93.1.1 17106,35691 1jyfA 349 3.41e+01 c.93.1.1 67456 1jyeA 349 3.44e+01 c.93.1.1 67455 1svdA 473 3.55e+01 2bj4A 252 3.56e+01 1lbiA 360 3.57e+01 1tlfA c.93.1.1 35694 1cdq 77 3.58e+01 1cds g.7.1.3 44459 1p99A 295 3.63e+01 c.94.1.1 94384 2cohA 202 3.63e+01 1yc5A 246 3.64e+01 1mt0A 241 3.66e+01 c.37.1.12 85096 1xefA 241 3.66e+01 1pru 56 3.70e+01 1pru a.35.1.5 17104 1tcf 159 3.81e+01 1ncx a.39.1.5 17250 1ka2A 499 3.82e+01 d.92.1.5 77305 1res 43 3.84e+01 1ret a.4.1.2 16023 1i7dA 659 3.84e+01 1d6mA e.10.1.1 61886 1d6mA 653 3.84e+01 1d6mA e.10.1.1 43248 1pcgA 244 3.87e+01 a.123.1.1 94432 1i6uA 130 3.93e+01 d.140.1.1 61850 2b1vA 257 3.93e+01 2ayrA 248 3.94e+01 1x7rA 245 3.94e+01 1liyA 528 3.94e+01 b.58.1.1,c.1.12.1,c.49.1.1 78006,78007,78008 1liuA 528 3.95e+01 b.58.1.1,c.1.12.1,c.49.1.1 77970,77971,77972 1lixA 528 3.95e+01 b.58.1.1,c.1.12.1,c.49.1.1 77994,77995,77996 1liwA 528 3.96e+01 b.58.1.1,c.1.12.1,c.49.1.1 77982,77983,77984 1xqcA 254 3.96e+01 1a52A 258 3.97e+01 3erdA a.123.1.1 19296 1gwrA 245 3.97e+01 a.123.1.1 76368 1gwqA 248 3.97e+01 a.123.1.1 76366 1erg 70 3.97e+01 1cds g.7.1.3 44462 1g50A 247 3.99e+01 a.123.1.1 65149 1qkuA 250 4.00e+01 3erdA a.123.1.1 19306 1xpcA 248 4.02e+01 1errA 253 4.03e+01 3erdA a.123.1.1 19298 1g5gA 481 4.05e+01 f.12.1.1,h.3.2.1 65155,65156 3ertA 261 4.05e+01 3erdA a.123.1.1 19292 2gwrA 238 4.12e+01 1e19A 314 4.17e+01 1b7bA c.73.1.1 34967 1fehA 574 4.20e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1l2iA 261 4.27e+01 a.123.1.1 73503 1n73C 330 4.44e+01 d.171.1.1,h.1.8.1 80217,80218 1hqcA 324 4.45e+01 1hqcA a.4.5.11,c.37.1.20 16127,32424 1ixsB 318 4.61e+01 a.4.5.11,c.37.1.20 76933,76934 1gbs 185 4.64e+01 153l d.2.1.5 36986 1ixrC 312 4.67e+01 a.4.5.11,c.37.1.20 76930,76931 1n6uA 212 4.67e+01 b.1.2.1,b.1.2.1 85363,85364 1trrA 107 4.94e+01 1jhgA a.4.12.1 19017 1squA 155 4.95e+01 d.252.1.1 98971 1g82A 160 4.95e+01 1bfg b.42.1.1 60337 2a1iA 146 4.96e+01 1xqoA 256 5.01e+01 1b9mA 265 5.03e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1rcsA 105 5.10e+01 1jhgA a.4.12.1 19025 1xkoA 159 5.10e+01 1o7lA 262 5.17e+01 a.4.5.8,b.40.6.2,b.40.6.2 81147,81148,81149 2wrpR 107 5.20e+01 1jhgA a.4.12.1 19010 3wrp 108 5.25e+01 1jhgA a.4.12.1 19015 2ftcI 118 5.28e+01 1g6uA 48 5.28e+01 1g6uA k.9.1.1 46425 1ihkA 174 5.35e+01 1bfg b.42.1.1 62384 1troA 108 5.44e+01 1jhgA a.4.12.1 19011 1jllB 388 5.48e+01 c.23.4.1,d.142.1.4 66853,66854 1z5zA 271 5.54e+01 2f4iA 197 5.66e+01 1utyA 187 5.68e+01 b.147.1.1 108036 2g7gA 213 5.69e+01 1cqjB 385 5.71e+01 2scuB c.23.4.1,d.142.1.4 31143,41564 2scuB 388 5.72e+01 2scuB c.23.4.1,d.142.1.4 31141,41562 1dl5A 317 5.73e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1p3y1 194 5.76e+01 1gs5A 258 5.78e+01 c.73.1.2 70395 1nc2B 221 5.89e+01 b.1.1.1,b.1.1.2 91783,91784 1l5sA 847 5.92e+01 c.87.1.4 77716 1xoiA 846 5.92e+01 1fc0A 846 5.92e+01 1a8i c.87.1.4 35473 1tjcA 108 5.96e+01 1uirA 314 6.00e+01 c.66.1.17 99429 1u0mA 382 6.05e+01 c.95.1.2,c.95.1.2 107557,107558 1le8A 53 6.09e+01 a.4.1.1 73867 2a6cA 83 6.10e+01 1ipc 217 6.12e+01 1xb4A 202 6.18e+01 1cbf 285 6.22e+01 1cbf c.90.1.1 35587 1hx1B 114 6.25e+01 1hx1B a.7.7.1 61350 1jvr 137 6.30e+01 1jvr a.61.1.2 18132 1uthA 315 6.49e+01 c.94.1.1 108032 1utbB 315 6.50e+01 c.94.1.1 108031 1uthB 315 6.51e+01 c.94.1.1 108033 1utbA 315 6.55e+01 c.94.1.1 108030 1vie 62 6.66e+01 1vie b.34.4.1 24592 1iab 200 6.89e+01 1iae d.92.1.8 40312 1l8bA 190 7.13e+01 d.86.1.1 73683 1wkwA 191 7.20e+01 1c75A 71 7.22e+01 451c a.3.1.1 15796 1yrnA 61 7.25e+01 1akhA a.4.1.1 15981 1puzA 82 7.47e+01 a.218.1.1 104320 2a2cA 478 7.57e+01 1akhA 61 7.69e+01 1akhA a.4.1.1 15980 1w4xA 542 7.74e+01 c.3.1.5,c.3.1.5 109171,109172 1hfgA 71 7.78e+01 1b3aA d.9.1.1 37409 1kyzA 365 7.83e+01 a.4.5.29,c.66.1.12 73312,73313 1zk8A 183 7.96e+01 1vm0A 130 8.01e+01 d.68.6.2 108873 1iuyA 92 8.11e+01 a.4.5.34 90705 1viuA 203 8.16e+01 d.113.1.1 100771 2bhvA 246 8.16e+01 1mowA 260 8.31e+01 d.95.2.1,d.95.2.1 79360,79361 1gkuB 1054 8.62e+01 c.37.1.16,c.37.1.16,e.10.1.1 65257,65258,65259 1gl9B 1054 8.64e+01 c.37.1.16,c.37.1.16,e.10.1.1 65291,65292,65293 1fp2A 352 8.66e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 2lfb 100 8.66e+01 1lfb a.4.1.1 15990 1q4rA 112 8.80e+01 d.58.4.4 95823 153l 185 8.99e+01 153l d.2.1.5 36984 1onkA 254 9.00e+01 d.165.1.1 93359