# List of top-scoring protein chains for T0373.t2k-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 4.13e-20 2fbhA 146 2.35e-19 2fbkA 181 4.01e-19 1z91A 147 8.89e-19 1jgsA 138 1.91e-18 a.4.5.28 66683 2fbiA 142 6.86e-18 2ethA 154 1.45e-17 1lnwA 147 3.46e-17 a.4.5.28 78104 1s3jA 155 8.17e-17 a.4.5.28 98437 1lj9A 144 9.64e-15 a.4.5.28 78035 2fxaA 207 4.91e-08 1hsjA 487 5.78e-06 4mbp a.4.5.28,c.94.1.1 61237,61238 1fx7A 230 9.30e-06 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 60088,60089,60090 1b1bA 140 1.26e-05 1bi0 a.4.5.24,a.76.1.1 16215,18421 1p4xA 250 3.71e-05 a.4.5.28,a.4.5.28 87784,87785 1ku9A 152 3.83e-05 a.4.5.36 77544 1ub9A 100 4.12e-05 a.4.5.28 99159 1c0wA 225 8.31e-05 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16211,18417,24455 2tdx 226 8.46e-05 1bi0 a.4.5.24,a.76.1.1 16201,18407 2dtr 226 8.57e-05 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16193,18399,24450 1g3tA 226 9.00e-05 a.4.5.24,a.76.1.1,b.34.1.2 65127,65128,65129 1f5tA 121 9.52e-05 1bi0 a.4.5.24,a.76.1.1 16203,18409 1fwzA 226 1.03e-04 a.4.5.24,a.76.1.1,b.34.1.2 60077,60078,60079 1g3yA 226 1.07e-04 a.4.5.24,a.76.1.1,b.34.1.2 65136,65137,65138 1p92A 226 2.00e-04 a.4.5.24,a.76.1.1,b.34.1.2 104085,104086,104087 1sfxA 109 2.11e-04 a.4.5.50 105505 1xcvA 139 2.13e-04 1on2A 142 3.74e-04 a.4.5.24,a.76.1.1 87103,87104 2ev0A 142 3.90e-04 1fzpB 123 4.45e-04 1fznD a.4.5.28 19008 2frhA 127 4.52e-04 2fnpA 124 5.87e-04 1r22A 122 7.12e-03 a.4.5.5 104777 2b0lA 102 7.41e-03 2cfxA 144 1.34e-02 1mkmA 249 1.62e-02 a.4.5.33,d.110.2.2 79242,79243 1ulyA 192 1.72e-02 1bw6A 56 2.74e-02 1bw6A a.4.1.7 16052 2dbbA 151 3.19e-02 1hlvA 131 5.08e-02 a.4.1.7,a.4.1.7 65854,65855 1r1tA 122 6.15e-02 a.4.5.5 104769 1je8A 82 1.13e-01 a.4.6.2 77108 2g7uA 257 1.42e-01 1z7uA 112 1.58e-01 1i1gA 141 1.77e-01 a.4.5.32,d.58.4.2 65982,65983 1o5lA 213 2.23e-01 b.82.3.2 92506 1ft9A 222 3.66e-01 1ft9A a.4.5.4,b.82.3.1 16107,28131 1o3sA 200 3.96e-01 a.4.5.4,b.82.3.2 86609,86610 1hw5A 210 4.90e-01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1dpuA 99 5.06e-01 1dpuA a.4.5.16 16150 1z1dA 103 5.28e-01 1o3tA 200 5.56e-01 a.4.5.4,b.82.3.2 86611,86612 1cgpA 205 6.37e-01 a.4.5.4,b.82.3.2 16096,28135 1i5zA 209 6.41e-01 a.4.5.4,b.82.3.2 83669,83670 1g6nA 210 6.51e-01 2cgpA a.4.5.4,b.82.3.2 16100,28139 1j75A 67 6.70e-01 a.4.5.19 62673 1i6xA 209 8.38e-01 a.4.5.4,b.82.3.2 83673,83674 1zljA 78 9.11e-01 1ge9A 184 9.71e-01 1dd5A d.67.3.1 60463 1zlkA 95 1.06e+00 1u2wA 122 1.12e+00 1ruoA 209 1.15e+00 2cgpA a.4.5.4,b.82.3.2 16105,28144 1utxA 66 1.26e+00 a.35.1.3 108034 1hw1A 239 1.33e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1a04A 215 1.34e+00 1a04A a.4.6.2,c.23.1.1 16234,31089 1e2xA 243 1.36e+00 1e2xA a.4.5.6,a.78.1.1 16113,18443 1r1uA 106 1.43e+00 a.4.5.5 104771 1xnpA 202 1.48e+00 1lccA 51 1.65e+00 1pru a.35.1.5 17110 1zx4A 192 1.81e+00 1lqc 56 1.84e+00 1pru a.35.1.5 17109 1cjgA 62 2.05e+00 1pru a.35.1.5 17112 2bjcA 62 2.09e+00 1l1mA 62 2.18e+00 a.35.1.5 73474 1okrA 123 2.73e+00 a.4.5.39 93269 1xn7A 78 3.02e+00 1sd6A 123 3.10e+00 a.4.5.39 98803 1ixcA 294 3.79e+00 a.4.5.37,c.94.1.1 83764,83765 1olpA 370 3.80e+00 a.124.1.1,b.12.1.3 93320,93321 1sd4A 126 3.80e+00 a.4.5.39 105428 1z05A 429 3.89e+00 2acjA 66 3.93e+00 1xjdA 345 3.97e+00 1j36A 607 4.34e+00 d.92.1.5 84054 1lw7A 365 4.49e+00 c.26.1.3,c.37.1.1 74295,74296 1qgpA 77 4.70e+00 1qbjA a.4.5.19 16158 1qbjA 81 4.93e+00 1qbjA a.4.5.19 16155 1v4rA 102 4.94e+00 2a6cA 83 5.58e+00 1dpgA 485 6.21e+00 1dpgA c.2.1.3,d.81.1.5 30074,39989 1ev7A 317 6.62e+00 1ev7B c.52.1.9 33315 1z6rA 406 7.28e+00 1pru 56 7.35e+00 1pru a.35.1.5 17104 2cohA 202 7.62e+00 2co5A 99 8.02e+00 1k78A 149 8.11e+00 a.4.1.5,a.4.1.5 68255,68256 1v9pA 584 8.21e+00 a.60.2.2,b.40.4.6,d.142.2.2 100544,100545,100546 1p6rA 82 8.36e+00 a.4.5.39 94187 1hu3A 260 8.40e+00 1hu3A a.118.1.14 19137 1g6uA 48 8.92e+00 1g6uA k.9.1.1 46425 2f2aC 100 1.03e+01 1zbdB 134 1.07e+01 1zbdB g.50.1.1 45359 2dpg 485 1.08e+01 1dpgA c.2.1.3,d.81.1.5 30076,39991 1h93A 485 1.09e+01 1dpgA c.2.1.3,d.81.1.5 60807,60808 6paxA 133 1.16e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1h9aA 485 1.21e+01 1dpgA c.2.1.3,d.81.1.5 60816,60817 1wdvA 152 1.24e+01 1e7yA 485 1.28e+01 1dpgA c.2.1.3,d.81.1.5 30077,39992 1r13A 148 1.38e+01 d.169.1.1,h.1.1.1 96782,96783 1yyvA 131 1.51e+01 1tw3A 360 1.54e+01 a.4.5.29,c.66.1.12 107373,107374 1e3dB 542 1.68e+01 1h2rL e.18.1.1 59189 1z67A 135 1.71e+01 1yqyA 523 1.79e+01 1i6pA 220 1.92e+01 1ddzA c.53.2.1 61848 1s8eA 333 1.97e+01 d.159.1.4 105368 2a8dA 229 1.99e+01 2crwA 149 2.01e+01 1jyeA 349 2.04e+01 c.93.1.1 67455 1efaA 333 2.07e+01 1tlfA a.35.1.5,c.93.1.1 17106,35691 1jyfA 349 2.10e+01 c.93.1.1 67456 1x6iA 91 2.12e+01 1ii7A 333 2.16e+01 1ii7A d.159.1.4 62415 2fl8A 602 2.26e+01 2cbuA 468 2.30e+01 1j7kA 334 2.30e+01 1hqcA a.4.5.11,c.37.1.20 62695,62696 1lbiA 360 2.31e+01 1tlfA c.93.1.1 35694 1in6A 334 2.33e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 2b5oA 402 2.45e+01 1in8A 334 2.48e+01 1hqcA a.4.5.11,c.37.1.20 62605,62606 1in7A 334 2.49e+01 1hqcA a.4.5.11,c.37.1.20 62603,62604 1in4A 334 2.49e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1ygmA 118 2.55e+01 1in5A 334 2.59e+01 1hqcA a.4.5.11,c.37.1.20 62599,62600 1xmaA 145 2.62e+01 1wucA 250 2.91e+01 2fpqA 444 3.00e+01 1utbB 315 3.04e+01 c.94.1.1 108031 1zybA 232 3.04e+01 1uthA 315 3.04e+01 c.94.1.1 108032 1puzA 82 3.06e+01 a.218.1.1 104320 1utbA 315 3.07e+01 c.94.1.1 108030 1uthB 315 3.11e+01 c.94.1.1 108033 2fcwA 109 3.14e+01 1q4rA 112 3.18e+01 d.58.4.4 95823 1t6sA 162 3.21e+01 1j7nA 776 3.33e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 2ftuA 118 3.34e+01 1pdnC 128 3.37e+01 6paxA a.4.1.5 16047 1oidA 532 3.52e+01 d.114.1.1,d.159.1.2 103952,103953 1pwuA 776 3.52e+01 d.92.1.14,d.92.1.14,d.166.1.1 95244,95245,95246 1vgjA 184 3.60e+01 1u6gC 1230 3.76e+01 2dc3A 193 3.82e+01 1lea 84 3.86e+01 1lea a.4.5.2 16085 2fswA 107 3.99e+01 1pg4A 652 4.05e+01 e.23.1.1 88067 1j5yA 187 4.06e+01 a.4.5.1,d.94.2.1 71592,71593 2bo3A 94 4.09e+01 1p7gA 222 4.31e+01 a.2.11.1,d.44.1.1 94223,94224 1ral 308 4.35e+01 1frb c.1.7.1 28698 1o7lA 262 4.38e+01 a.4.5.8,b.40.6.2,b.40.6.2 81147,81148,81149 1st6A 1069 4.39e+01 a.24.9.1,a.24.9.1,a.24.9.1,a.24.9.1,a.24.9.1,a.24.9.1,a.24.9.1,a.24.9.1 106000,106001,106002,106003,106004,106005,106006,106007 1b9mA 265 4.39e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1mveA 243 4.50e+01 b.29.1.2 85140 1lwiA 322 4.53e+01 1frb c.1.7.1 28696 1afsA 323 4.55e+01 1frb c.1.7.1 28694 1zm1A 241 4.57e+01 1sq8A 64 4.65e+01 a.35.1.2 105888 2fztA 79 4.86e+01 1gm9A 209 4.87e+01 d.153.1.2 65304 1gm7A 209 4.87e+01 d.153.1.2 65302 1k7dA 209 4.89e+01 d.153.1.2 90946 1xqoA 256 4.91e+01 1lnlA 408 5.02e+01 a.86.1.1,b.112.1.1 84635,84636 1zrzA 364 5.03e+01 1mzbA 136 5.11e+01 a.4.5.42 91497 1gk9A 260 5.14e+01 d.153.1.2 65246 2fug6 181 5.30e+01 1fi4A 416 5.30e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 1kecA 209 5.46e+01 d.153.1.2 90957 1hpuA 525 5.52e+01 d.114.1.1,d.159.1.2 70979,70980 2eshA 118 5.62e+01 1ush 550 5.66e+01 1ush d.114.1.1,d.159.1.2 40923,42079 1urvA 190 5.74e+01 2f2eA 146 5.81e+01 1wsuA 124 5.89e+01 1gw3 46 6.06e+01 1gw4 j.39.1.1 46298 1tbxA 99 6.13e+01 a.4.5.48 106748 1jtoA 148 6.15e+01 b.1.1.1 67274 1oi8A 532 6.16e+01 d.114.1.1,d.159.1.2 103942,103943 1pk8A 422 6.21e+01 c.30.1.5,d.142.1.3 94807,94808 1d3kA 329 6.34e+01 1nnt c.94.1.2 35889 1qzzA 374 6.46e+01 a.4.5.29,c.66.1.12 96719,96720 1hxqA 348 6.54e+01 1guqA d.13.1.2,d.13.1.2 37542,37543 1u6mA 199 6.59e+01 1x86B 196 6.59e+01 c.37.1.8 109506 1uf2C 421 6.67e+01 a.115.1.3,b.19.1.1 99291,99292 1c4pA 137 6.69e+01 1bmlC d.15.5.1 37725 1tz7A 505 6.76e+01 1wczA 268 6.81e+01 b.47.1.1 109229 1h54A 754 6.83e+01 a.102.1.4,b.30.5.3 60634,60635 1sgoA 139 7.07e+01 d.82.3.1 98857 2b5aA 77 7.17e+01 1bjaA 95 7.24e+01 1bjaA a.4.5.9 16122 1mjdA 113 7.31e+01 d.15.11.1 84977 1i1sA 96 7.32e+01 1bjaA a.4.5.9 16124 1jqfA 334 7.33e+01 c.94.1.2 67086 1iufA 144 7.34e+01 a.4.1.7,a.4.1.7 71439,71440 1oqhA 337 7.39e+01 c.94.1.2 87305 1qul 321 7.40e+01 1ixh c.94.1.1 35766 1dcqA 278 7.58e+01 1dcqA d.211.1.1,g.45.1.1 19178,45326 2ba0A 229 7.63e+01 1tj7A 457 7.68e+01 1zboA 210 7.84e+01 1jtpA 148 7.98e+01 b.1.1.1 67278 1ryoA 327 8.01e+01 c.94.1.2 98108 1a8e 329 8.02e+01 1cb6A c.94.1.2 35888 1n84A 331 8.06e+01 c.94.1.2 85389 2fu0A 160 8.09e+01 1n7xA 331 8.12e+01 c.94.1.2 85379 1bp5A 337 8.16e+01 1cb6A c.94.1.2 35892 1oqgA 337 8.20e+01 c.94.1.2 87304 1uxc 65 8.23e+01 1uxc a.35.1.5 17119 1ajkA 214 8.26e+01 1axkA b.29.1.2 24176 1i5pA 633 8.28e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1jhgA 101 8.29e+01 1jhgA a.4.12.1 19009 1qui 321 8.31e+01 1ixh c.94.1.1 35769 1ig8A 486 8.33e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1i7nA 309 8.35e+01 c.30.1.5,d.142.1.3 83681,83682 1ru4A 400 8.41e+01 b.80.1.9 97836 1ef7A 242 8.52e+01 1theB d.3.1.1 37087 1n7wA 331 8.57e+01 c.94.1.2 85378 1t3tA 1303 8.62e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 2ajeA 105 8.64e+01 1wfyA 104 8.67e+01 1usuB 170 8.74e+01 d.83.2.1 99886 1quk 321 8.74e+01 1ixh c.94.1.1 35765 1nslA 184 8.75e+01 d.108.1.1 86137 2gnrA 145 8.75e+01 2dbcA 135 8.81e+01 1deuA 277 8.95e+01 1theB d.3.1.1 37085