# List of top-scoring protein chains for T0337.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 1ri7A 171 1.13e-24 a.4.5.32,d.58.4.2 97504,97505 1i1gA 141 1.04e-21 a.4.5.32,d.58.4.2 65982,65983 2cg4A 152 8.15e-21 2cfxA 144 2.09e-19 1sfxA 109 1.31e-04 a.4.5.50 105505 2csbA 519 4.17e-04 1s3jA 155 1.30e-03 a.4.5.28 98437 1ulyA 192 2.20e-03 2a61A 145 2.90e-03 1mkmA 249 3.24e-03 a.4.5.33,d.110.2.2 79242,79243 1xnpA 202 8.39e-03 2fbhA 146 1.80e-02 2fbiA 142 3.04e-02 1lj9A 144 3.11e-02 a.4.5.28 78035 2b0lA 102 3.17e-02 2g7uA 257 3.54e-02 1ub9A 100 3.79e-02 a.4.5.28 99159 1z91A 147 7.69e-02 1je8A 82 7.89e-02 a.4.6.2 77108 1q1hA 110 8.45e-02 a.4.5.41 95580 1o3sA 200 8.62e-02 a.4.5.4,b.82.3.2 86609,86610 1i6xA 209 9.26e-02 a.4.5.4,b.82.3.2 83673,83674 1r22A 122 9.28e-02 a.4.5.5 104777 1hw5A 210 1.06e-01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1lvaA 258 1.09e-01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1i5zA 209 1.11e-01 a.4.5.4,b.82.3.2 83669,83670 1g6nA 210 1.11e-01 2cgpA a.4.5.4,b.82.3.2 16100,28139 1o3tA 200 1.12e-01 a.4.5.4,b.82.3.2 86611,86612 1cgpA 205 1.19e-01 a.4.5.4,b.82.3.2 16096,28135 1wsuA 124 2.31e-01 1lnwA 147 2.72e-01 a.4.5.28 78104 1b1bA 140 3.02e-01 1bi0 a.4.5.24,a.76.1.1 16215,18421 1ku9A 152 3.63e-01 a.4.5.36 77544 1ruoA 209 3.82e-01 2cgpA a.4.5.4,b.82.3.2 16105,28144 1bia 321 3.93e-01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1zh7A 243 4.72e-01 1gtdA 85 4.91e-01 d.284.1.1 76344 1fx7A 230 5.53e-01 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 60088,60089,60090 1r1tA 122 5.60e-01 a.4.5.5 104769 1zljA 78 8.23e-01 1xd7A 145 8.87e-01 a.4.5.55 109566 1a04A 215 9.26e-01 1a04A a.4.6.2,c.23.1.1 16234,31089 1zlkA 95 9.99e-01 1u2wA 122 1.05e+00 1ft9A 222 1.18e+00 1ft9A a.4.5.4,b.82.3.1 16107,28131 1pk5A 248 1.40e+00 a.123.1.1 88139 1bw6A 56 1.56e+00 1bw6A a.4.1.7 16052 2ethA 154 1.60e+00 1s7oA 113 1.75e+00 a.4.13.3 105354 1f5tA 121 1.86e+00 1bi0 a.4.5.24,a.76.1.1 16203,18409 1lea 84 2.02e+00 1lea a.4.5.2 16085 1xcvA 139 2.05e+00 1utuA 108 2.13e+00 1uz3A 102 2.29e+00 1in5A 334 2.35e+00 1hqcA a.4.5.11,c.37.1.20 62599,62600 1in7A 334 2.67e+00 1hqcA a.4.5.11,c.37.1.20 62603,62604 1jhfA 202 2.69e+00 a.4.5.2,b.87.1.1 63057,63058 2fmmE 133 2.77e+00 1zduA 245 2.99e+00 1yokA 256 3.05e+00 1yucA 255 3.08e+00 3crd 100 3.11e+00 3crd a.77.1.3 18429 3pmgA 561 3.17e+00 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1in6A 334 3.55e+00 1hqcA a.4.5.11,c.37.1.20 62601,62602 1in4A 334 3.55e+00 1hqcA a.4.5.11,c.37.1.20 62597,62598 1j7kA 334 3.57e+00 1hqcA a.4.5.11,c.37.1.20 62695,62696 2bj7A 138 4.01e+00 1fseA 74 4.28e+00 1fseA a.4.6.2 60000 1hlvA 131 4.35e+00 a.4.1.7,a.4.1.7 65854,65855 2fuzA 377 4.51e+00 1g2hA 61 4.90e+00 1g2hA a.4.1.12 60224 1j5yA 187 5.01e+00 a.4.5.1,d.94.2.1 71592,71593 1hw1A 239 5.27e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1e2xA 243 5.30e+00 1e2xA a.4.5.6,a.78.1.1 16113,18443 1p92A 226 5.41e+00 a.4.5.24,a.76.1.1,b.34.1.2 104085,104086,104087 2dtr 226 5.42e+00 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16193,18399,24450 1c0wA 225 5.45e+00 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16211,18417,24455 1h6zA 913 5.45e+00 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1utbA 315 5.47e+00 c.94.1.1 108030 1uthA 315 5.50e+00 c.94.1.1 108032 1t5iA 172 5.51e+00 c.37.1.19 106450 1g3yA 226 5.54e+00 a.4.5.24,a.76.1.1,b.34.1.2 65136,65137,65138 1uthB 315 5.66e+00 c.94.1.1 108033 2feaA 236 5.73e+00 1x89A 178 5.74e+00 1l6mA 180 5.75e+00 b.60.1.1 84531 2tdx 226 5.77e+00 1bi0 a.4.5.24,a.76.1.1 16201,18407 1utbB 315 5.78e+00 c.94.1.1 108031 1g3tA 226 5.96e+00 a.4.5.24,a.76.1.1,b.34.1.2 65127,65128,65129 1aisB 200 6.32e+00 1aisB a.74.1.2,a.74.1.2 18384,18385 1d3uB 201 6.34e+00 1aisB a.74.1.2,a.74.1.2 18386,18387 1qbjA 81 6.37e+00 1qbjA a.4.5.19 16155 1in8A 334 6.48e+00 1hqcA a.4.5.11,c.37.1.20 62605,62606 1yyvA 131 6.55e+00 1fwzA 226 6.66e+00 a.4.5.24,a.76.1.1,b.34.1.2 60077,60078,60079 2acjA 66 6.72e+00 1o5lA 213 7.14e+00 b.82.3.2 92506 2fxaA 207 8.06e+00 1dfvA 177 8.08e+00 1nglA b.60.1.1 27144 1nglA 179 8.15e+00 1nglA b.60.1.1 27146 1mrzA 293 8.43e+00 b.43.5.1,c.26.1.3 91452,91453 1jhhA 202 9.54e+00 a.4.5.2,b.87.1.1 63060,63061 1ve1A 304 9.59e+00 1r5jA 337 1.01e+01 c.77.1.5 97097 1cy9A 264 1.02e+01 1ecl e.10.1.1 43236 2cohA 202 1.14e+01 1xiqA 157 1.16e+01 1ybzA 91 1.18e+01 1q90M 39 1.26e+01 f.23.25.1 96246 1qgpA 77 1.33e+01 1qbjA a.4.5.19 16158 2f8mA 244 1.33e+01 1mk3A 178 1.36e+01 f.1.4.1 84978 1g13A 162 1.40e+01 1g13A b.95.1.1 60194 1j75A 67 1.42e+01 a.4.5.19 62673 1xtkA 390 1.44e+01 1xtiA 391 1.47e+01 1xn7A 78 1.50e+01 1whsA 255 1.52e+01 1ivyA c.69.1.5 34649 1whtA 256 1.52e+01 1ivyA c.69.1.5 34646 1bcsA 263 1.52e+01 1ivyA c.69.1.5 34647 3sc2A 259 1.57e+01 1ivyA c.69.1.5 34648 1y1pA 342 1.61e+01 1xi9A 406 1.62e+01 1xtjA 386 1.63e+01 2esvE 240 1.77e+01 1va9A 122 1.79e+01 1o0lA 188 1.79e+01 f.1.4.1 86534 1cs4C 394 1.89e+01 1cipA a.66.1.1,c.37.1.8 18205,32088 1v05A 96 1.90e+01 2ag4A 164 1.90e+01 2ag9A 164 1.90e+01 1pdnC 128 1.90e+01 6paxA a.4.1.5 16047 1cjtC 402 1.93e+01 1cipA a.66.1.1,c.37.1.8 18206,32089 1azsC 402 1.93e+01 1cipA a.66.1.1,c.37.1.8 18203,32086 1dwuA 213 1.95e+01 1cjsA e.24.1.1 43355 1culC 380 1.96e+01 1cipA a.66.1.1,c.37.1.8 18204,32087 1utxA 66 2.17e+01 a.35.1.3 108034 1ngnA 155 2.27e+01 a.96.1.2 85697 1yv5A 374 2.27e+01 1zw5A 355 2.28e+01 2f94F 350 2.29e+01 1wi9A 72 2.40e+01 1okrA 123 2.45e+01 a.4.5.39 93269 1g1xB 88 2.54e+01 1a32 a.16.1.2 16393 1fkaO 89 2.59e+01 i.1.1.3 45858 1k78A 149 2.60e+01 a.4.1.5,a.4.1.5 68255,68256 1xu1A 138 2.71e+01 1u5xA 140 2.73e+01 1lqyA 184 2.86e+01 d.167.1.1 74212 2gaiA 633 2.87e+01 2ev0A 142 2.88e+01 1sd6A 123 2.96e+01 a.4.5.39 98803 1jgsA 138 3.04e+01 a.4.5.28 66683 1vmoA 163 3.29e+01 1vmoA b.77.1.1 27974 2fswA 107 3.39e+01 2fv1A 377 3.43e+01 2ahoB 266 3.48e+01 1uarA 285 3.53e+01 c.46.1.2,c.46.1.2 107762,107763 1efpA 307 3.61e+01 1efvA c.26.2.3,c.31.1.2 31635,31729 2f4iA 197 3.67e+01 1xsvA 113 3.69e+01 1jj2M 186 3.78e+01 1ffkK c.55.4.1 63098 1vqoN 187 3.79e+01 1uwwA 191 3.82e+01 b.18.1.23 108079 1n2aA 201 3.86e+01 a.45.1.1,c.47.1.5 91553,91554 1hus 155 3.89e+01 1rss a.75.1.1 18391 6paxA 133 3.90e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1xmaA 145 3.90e+01 1u8bA 133 3.92e+01 1s6lA 212 3.94e+01 2c9wA 169 4.05e+01 1zgwA 139 4.05e+01 1f0lA 535 4.07e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1b0nA 111 4.08e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1dwkA 156 4.16e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1ixcA 294 4.24e+01 a.4.5.37,c.94.1.1 83764,83765 1sd4A 126 4.25e+01 a.4.5.39 105428 1rr7A 129 4.34e+01 a.4.1.14 105075 1wpkA 146 4.40e+01 1e6iA 121 4.43e+01 1b91A a.29.2.1 16969 1vbuA 328 4.46e+01 1n0sA 184 4.61e+01 b.60.1.1 91526 1sq8A 64 4.65e+01 a.35.1.2 105888 2f06A 144 4.74e+01 1or7A 194 4.75e+01 a.4.13.2,a.177.1.1 87332,87333 1pbgA 468 4.85e+01 1e70M c.1.8.4 28946 2pbg 468 4.92e+01 1e70M c.1.8.4 28948 1hx8A 299 4.92e+01 1hg5A a.7.8.2,a.118.9.3 90362,90363 1bbpA 173 5.01e+01 1bbpA b.60.1.1 27147 1t0vA 184 5.05e+01 2bszA 278 5.09e+01 1p6rA 82 5.16e+01 a.4.5.39 94187 1xvyA 309 5.21e+01 1cy2A 599 5.34e+01 1ecl e.10.1.1 43241 1qqsA 174 5.42e+01 1nglA b.60.1.1 27143 1r1uA 106 5.59e+01 a.4.5.5 104771 1zybA 232 5.64e+01 4pbgA 468 5.70e+01 1e70M c.1.8.4 28949 1cyu 98 5.73e+01 1stfI d.17.1.2 38004 1du6A 64 5.78e+01 1akhA a.4.1.1 16002 1on2A 142 5.83e+01 a.4.5.24,a.76.1.1 87103,87104 1y37A 304 6.02e+01 1y0uA 96 6.08e+01 1sqsA 242 6.15e+01 c.23.5.5 98968 1qqjA 419 6.17e+01 1qcnA b.34.8.1,d.177.1.1 59034,59035 1zubA 114 6.18e+01 1qcoA 423 6.21e+01 1qcnA b.34.8.1,d.177.1.1 59021,59022 2prd 174 6.24e+01 2prd b.40.5.1 25435 1lhpA 312 6.27e+01 c.72.1.5 77960 1mgtA 174 6.30e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1hyoA 421 6.32e+01 1qcnA b.34.8.1,d.177.1.1 59001,59002 1ylfA 149 6.39e+01 1ecl 597 6.44e+01 1ecl e.10.1.1 43238 2cb3A 175 6.50e+01 1v2xA 194 6.55e+01 c.116.1.1 100274 1iw8A 231 6.58e+01 a.111.1.1 76866 1pufB 73 6.61e+01 a.4.1.1 95132 1dosA 358 6.64e+01 1dosA c.1.10.2 29175 1mxmA 254 6.74e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1gt0D 80 6.76e+01 a.21.1.1 76337 2cmd 312 6.85e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1pme 380 6.85e+01 1hcl d.144.1.7 41653 2bbhA 269 6.89e+01 1b8iB 63 6.91e+01 1akhA a.4.1.1 16011 1nb5I 98 6.94e+01 d.17.1.2 80381 1hryA 76 6.97e+01 1hryA a.21.1.1 16429 1b72B 87 7.00e+01 1akhA a.4.1.1 16001 1d2tA 231 7.01e+01 1d2tA a.111.1.1 19052 2cssA 121 7.02e+01 1s69A 124 7.24e+01 a.1.1.1 105305 1ib6A 312 7.25e+01 c.2.1.5,d.162.1.1 62146,62147 1v4xB 146 7.26e+01 a.1.1.2 108364 1rtxA 123 7.27e+01 a.1.1.1 97827 1wa3A 205 7.33e+01 1gynA 358 7.36e+01 c.1.10.2 83385 2a6cA 83 7.39e+01 1xmkA 79 7.43e+01 2ajpA 326 7.44e+01 1o4xB 88 7.50e+01 a.21.1.1 92472 1vlwA 217 7.50e+01 c.1.10.1 108868 1j46A 85 7.56e+01 a.21.1.1 66372 1wzyA 368 7.57e+01 1j47A 85 7.62e+01 a.21.1.1 66373 1hf8A 289 7.72e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 2d62A 375 7.72e+01 3erk 364 7.96e+01 1hcl d.144.1.7 41654 2erk 365 7.98e+01 1hcl d.144.1.7 41655 1r63 63 8.06e+01 1r69 a.35.1.2 17035 1tvoA 368 8.13e+01 1gol 364 8.16e+01 1hcl d.144.1.7 41658 1r69 69 8.22e+01 1r69 a.35.1.2 17028 1z7uA 112 8.26e+01 1lccA 51 8.43e+01 1pru a.35.1.5 17110 2r63 63 8.46e+01 1r69 a.35.1.2 17036 1nbaA 264 8.60e+01 1nbaA c.33.1.3 31753 1x1rA 178 8.70e+01 1fvjA 189 8.72e+01 1fvkA c.47.1.13 90349 1jf4A 147 8.84e+01 a.1.1.2 71643 1x5kA 124 8.89e+01 1vjuA 309 8.95e+01 d.248.1.1 100835