# List of top-scoring protein chains for t04-100-30-str2-scores 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.soe.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 1gycA 499 1.09e-01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 2q1fA 1022 1.46e-01 1zkoA 136 1.94e-01 1a65A 504 2.55e-01 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 1hfuA 503 3.01e-01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 2hrgA 496 3.69e-01 2evbA 74 3.98e-01 2qt6A 498 5.62e-01 2be1A 339 6.65e-01 1wp5A 323 6.88e-01 b.68.10.1 114780 1vjjA 692 8.38e-01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1vdzA 588 1.03e+00 1y8oB 128 1.09e+00 b.84.1.1 122759 2i8dA 123 1.09e+00 1htp 131 1.15e+00 1htp 1m1hA 248 1.22e+00 b.114.1.1,d.58.42.1 78415,78416 1bkb 136 1.24e+00 1bkb 1bkbA 136 1.24e+00 b.34.5.2,b.40.4.5 24609,25341 1hpcA 131 1.30e+00 1htp b.84.1.1 28221 1suuA 312 1.33e+00 b.68.10.1 99006 2biwA 490 1.34e+00 1bteA 97 1.37e+00 1bteA g.7.1.3 44463 1v10A 521 1.47e+00 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1hxn 219 1.48e+00 1hxn 1hxnA 219 1.48e+00 b.66.1.1 27529 1brwA 433 1.71e+00 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 3bjsA 428 1.88e+00 1vmeA 410 2.20e+00 c.23.5.1,d.157.1.3 108893,108894 1cb8A 678 2.48e+00 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1l1nA 183 2.64e+00 b.47.1.4 73476 1ws0A 156 2.65e+00 2vl0A 321 3.00e+00 2e63A 170 3.10e+00 2h62A 114 3.12e+00 g.17.1.2 136177 2in5A 207 3.35e+00 1nr0A 611 3.63e+00 b.69.4.1,b.69.4.1 86078,86079 1yu3A 381 4.21e+00 b.163.1.1,d.169.1.8 124031,124032 1yu4A 381 4.39e+00 b.163.1.1,d.169.1.8 124033,124034 2hgsA 474 4.52e+00 2hgsA c.30.1.4,d.142.1.6 31722,75997 1yu2A 381 4.55e+00 b.163.1.1,d.169.1.8 124029,124030 1zvtA 256 4.57e+00 1oo0A 147 4.57e+00 d.232.1.1 87182 1yu1A 381 4.63e+00 b.163.1.1,d.169.1.8 124027,124028 1yu0A 381 4.63e+00 b.163.1.1,d.169.1.8 124025,124026 2a74A 643 5.36e+00 1bdo 80 5.50e+00 1bdo 1bdoA 80 5.50e+00 b.84.1.1 28214 1crzA 403 5.52e+00 1crzA b.68.4.1,c.51.2.1 27629,33211 1cqqA 180 5.57e+00 1cqqA b.47.1.4 26422 1shyB 551 5.63e+00 b.69.12.1,g.16.2.1 105565,105566 1vrbA 342 5.74e+00 b.82.2.11 120450 1hh1A 143 6.33e+00 1gefA c.52.1.18 61036 1x1oA 286 6.37e+00 2dlbA 80 6.40e+00 2gcuA 245 6.83e+00 1seiA 130 6.86e+00 1seiA d.140.1.1 41463 1vrmA 325 7.01e+00 d.96.2.1 120472 2h5uA 499 7.22e+00 1zi0A 307 7.23e+00 1v25A 541 7.24e+00 e.23.1.1 108275 2b4uA 335 7.94e+00 1qpoA 284 8.02e+00 1qpoA c.1.17.1,d.41.2.1 29561,38597 1gpr 162 8.10e+00 1gpr 1gprA 162 8.10e+00 b.84.3.1 28267 1n26A 325 8.15e+00 b.1.1.4,b.1.2.1,b.1.2.1 79850,79851,79852 2v6vA 156 8.20e+00 1rl2A 137 9.15e+00 1rl2A b.34.5.3,b.40.4.5 24610,25342 1k8mA 93 9.57e+00 b.84.1.1 68314 2ej8A 160 9.93e+00 1pgs 314 9.95e+00 1pgs 1pgsA 314 9.95e+00 b.121.1.1,b.121.1.1 23653,23654 1z6bA 154 9.96e+00 d.38.1.6 124510 1genA 218 1.02e+01 b.66.1.1 27536 1v6iA 232 1.04e+01 b.29.1.1 100383 2hyxA 352 1.04e+01 2b4pA 334 1.09e+01 2eenA 183 1.11e+01 1erjA 393 1.13e+01 1erjA b.69.4.1 27660 1lxiA 139 1.14e+01 g.17.1.2 84735 2vroA 532 1.16e+01 1t5hX 504 1.18e+01 e.23.1.1 106449 2fvgA 340 1.19e+01 b.49.3.1,c.56.5.4 134201,134202 2hvqA 335 1.20e+01 2dsjA 423 1.22e+01 2q86A 229 1.24e+01 1im3D 95 1.26e+01 1im3D b.1.18.5 62568 3b9fI 395 1.47e+01 1y6hA 177 1.55e+01 d.167.1.1 116505 1vqoA 240 1.56e+01 b.34.5.3,b.40.4.5 120361,120362 2uzxB 727 1.64e+01 2fuqA 747 1.65e+01 1zhxA 438 1.65e+01 d.338.1.1 125112 2arrA 382 1.66e+01 1ghj 79 1.66e+01 1ghj 1li1A 229 1.68e+01 d.169.1.6,d.169.1.6 73898,73899 2hqsA 415 1.76e+01 b.68.4.1,c.51.2.1 136662,136663 3c6kA 381 1.79e+01 1u24A 337 1.79e+01 c.45.1.4 112968 1z47A 355 1.80e+01 2qh9A 184 1.81e+01 1xrkA 124 1.82e+01 d.32.1.2 115881 3c8cA 240 1.84e+01 2cxxA 190 1.86e+01 c.37.1.8 131013 1r75A 141 1.87e+01 b.134.1.1 97189 1vyqA 173 1.87e+01 b.85.4.1 120548 2dt4A 143 1.91e+01 2a15A 139 1.91e+01 d.17.4.3 125973 1qsoA 149 1.91e+01 1qsmA d.108.1.1 40812 1s68A 249 1.92e+01 d.142.2.4 98591 2i7cA 283 1.96e+01 2h14A 317 2.02e+01 2qfmA 364 2.03e+01 1hvyA 288 2.08e+01 1bkpA d.117.1.1 41049 1v0aA 178 2.23e+01 b.18.1.30 119815 2ii1A 301 2.30e+01 1kq3A 376 2.30e+01 e.22.1.2 68790 1lt5D 103 2.32e+01 3chbD b.40.2.1 24875 1fjgK 129 2.34e+01 1fjfK c.55.4.1 33733 1ypvA 313 2.34e+01 2gnqA 336 2.36e+01 1wnaA 131 2.36e+01 d.319.1.1 121091 2qm1A 326 2.37e+01 1ntvA 152 2.38e+01 b.55.1.2 86168 1u7iA 136 2.44e+01 d.32.1.7 107724 2elaA 175 2.52e+01 2nxcA 254 2.53e+01 c.66.1.39 138739 1y9lA 115 2.57e+01 1hrhA 136 2.63e+01 1rthA c.55.3.1 33577 1ub0A 258 2.64e+01 c.72.1.2 88394 2v24A 208 2.65e+01 1t61A 229 2.69e+01 d.169.1.6,d.169.1.6 106529,106530 1euvA 221 2.71e+01 1euvA d.3.1.7 37133 1uurA 473 2.74e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1itcA 516 2.77e+01 b.3.1.1,c.1.8.1 83705,83706 1a7tA 232 2.78e+01 1a7tA d.157.1.1 42041 2hrvA 142 2.78e+01 2hrvA b.47.1.4 26429 1pg4A 652 2.80e+01 e.23.1.1 88067 1nkqA 259 2.80e+01 d.177.1.1 103862 3c5vA 316 2.82e+01 1pyfA 312 2.83e+01 c.1.7.1 95334 2agcA 162 2.84e+01 2gclA 261 2.85e+01 b.55.1.10 134991 2hqlA 110 2.85e+01 2pmlX 348 2.87e+01 2ol2A 395 2.88e+01 1djrD 103 2.92e+01 3chbD b.40.2.1 24865 2oitA 434 2.94e+01 1sgoA 139 2.97e+01 d.82.3.1 98857 1upiA 225 3.00e+01 b.82.1.1 99757 2gw4B 162 3.07e+01 1at0 145 3.13e+01 1at0 1at0A 145 3.13e+01 b.86.1.1 28374 3bxoA 239 3.14e+01 2b06A 155 3.17e+01 d.113.1.1 127624 2f41A 121 3.18e+01 d.38.1.5 132904 1l3aA 228 3.23e+01 d.18.1.2 73531 2ogrA 229 3.27e+01 1xksA 450 3.29e+01 b.69.14.1 115422 1vemA 516 3.31e+01 b.3.1.1,c.1.8.1 120021,120022 1xssA 225 3.33e+01 2ptfA 233 3.38e+01 1aozA 552 3.39e+01 1aozA b.6.1.3,b.6.1.3,b.6.1.3 23124,23125,23126 1lktA 104 3.43e+01 1lktA b.90.1.1 28398 3bk5A 237 3.48e+01 1w61A 414 3.49e+01 2ostA 151 3.53e+01 2ervA 150 3.53e+01 2in0A 139 3.56e+01 2jraA 67 3.58e+01 2yvuA 186 3.61e+01 1h8uA 117 3.62e+01 1h8uA d.169.1.1 60793 1jl2A 156 3.64e+01 c.55.3.1 66822 1hleA 345 3.76e+01 1ovaA e.1.1.1 42618 2iv2X 715 3.80e+01 b.52.2.2,c.81.1.1 137714,137715 2z2nA 299 3.81e+01 2yw2A 424 3.81e+01 1jnyA 435 3.83e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2iiaA 131 3.85e+01 1lshA 1056 3.87e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1wmdA 434 3.89e+01 b.18.1.20,c.41.1.1 109408,109409 2ie2A 222 3.90e+01 2j73A 103 3.91e+01 2j97A 109 3.91e+01 2i5vO 251 3.92e+01 1larA 575 3.93e+01 1larA c.45.1.2,c.45.1.2 32693,32694 2ojhA 297 4.00e+01 2aujD 309 4.00e+01 2gc1A 188 4.03e+01 b.82.1.7 134928 3b77A 193 4.06e+01 2gbaA 105 4.09e+01 1j5yA 187 4.12e+01 a.4.5.1,d.94.2.1 71592,71593 1dfcA 493 4.14e+01 1dfcA b.42.5.1,b.42.5.1,b.42.5.1,b.42.5.1 25616,25617,25618,25619 1z3qA 200 4.19e+01 2bnuA 203 4.25e+01 1qftA 175 4.25e+01 1qftA b.60.1.1 27151 2awaA 390 4.27e+01 2qv8A 159 4.28e+01 1azwA 313 4.29e+01 1qtrA c.69.1.7 34658 1sv6A 269 4.33e+01 d.177.1.1 106043 2qk0A 74 4.35e+01 1h8gA 95 4.39e+01 b.109.1.1 65735 2gqpA 236 4.40e+01 d.122.1.1 135513 1tiiD 99 4.42e+01 1tiiD b.40.2.1 24965 1jyhA 157 4.44e+01 d.60.1.3 71956 2b0vA 153 4.44e+01 d.113.1.1 127650 2ichA 335 4.45e+01 1jb0D 138 4.47e+01 1jb0D d.187.1.1 62823 1t6lA 290 4.50e+01 d.131.1.2,d.131.1.2 106574,106575 1ti6B 274 4.50e+01 b.3.5.1,d.58.1.5 106976,106977 3bjkA 153 4.51e+01 2bf6A 449 4.52e+01 8fabB 224 4.53e+01 1igtB b.1.1.1,b.1.1.2 19773,20883 2glxA 332 4.55e+01 2gw3A 225 4.56e+01 2hh8A 149 4.58e+01 1jmcA 246 4.58e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1y8tA 324 4.59e+01 b.36.1.4,b.47.1.1 122763,122764 2cx1A 187 4.64e+01 b.122.1.1,d.17.6.4 130967,130968 2oc6A 124 4.70e+01 2d5lA 706 4.74e+01 2a1kA 233 4.74e+01 2p8bA 369 4.74e+01 1vprA 374 4.75e+01 b.60.1.7 120066 2z3zA 706 4.75e+01 2ov0A 105 4.78e+01 2dnjA 260 4.80e+01 3dni d.151.1.1 41790 1bxaA 105 4.80e+01 1aac b.6.1.1 22839 1aac 105 4.84e+01 1aac 1sawA 225 4.86e+01 d.177.1.1 112050 1r5mA 425 4.87e+01 1j1iA 296 4.87e+01 c.69.1.10 83977 2onfA 140 4.88e+01 3pvaA 335 4.90e+01 3pvaA d.153.1.3 41854 1qy5A 269 4.96e+01 d.122.1.1 96573 1qhqA 140 4.98e+01 1qhqA b.6.1.1 63326 2im9A 333 4.99e+01 d.3.1.13 137508 1nnwA 252 5.00e+01 d.159.1.5 80674 1gttA 429 5.08e+01 d.177.1.1,d.177.1.1 70529,70530 2dfuA 264 5.13e+01 2ghsA 326 5.13e+01 b.68.6.1 135209 1xnkA 196 5.14e+01 b.29.1.11 122195 2z14A 133 5.19e+01 2idqA 105 5.27e+01 1vk1A 242 5.27e+01 d.268.1.2 108634 1lrzA 426 5.28e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1b78A 193 5.28e+01 1b78A c.51.4.1 33221 1lm6A 215 5.28e+01 d.167.1.1 84628 1qxrA 189 5.29e+01 b.82.1.7 96552 2ho9A 167 5.30e+01 2oxgB 124 5.31e+01 2dddA 225 5.33e+01 1udxA 416 5.35e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 2uubQ 105 5.38e+01 b.40.4.5 139948 2nv4A 147 5.40e+01 2yugA 155 5.41e+01 2qngA 199 5.45e+01 2h4pA 394 5.46e+01 1yfnA 118 5.47e+01 b.136.1.1 123080 1xkwA 665 5.49e+01 2hmhA 152 5.52e+01 1ekfA 365 5.52e+01 1ekfA e.17.1.1 59445 1h1aA 191 5.55e+01 b.29.1.11 83450 1mveA 243 5.55e+01 b.29.1.2 85140 1ya5T 90 5.58e+01 2dclA 127 5.58e+01 1rsgA 516 5.61e+01 2h4uA 145 5.62e+01 d.38.1.5 136082 2iwkA 642 5.65e+01 1xvsA 126 5.67e+01 b.1.23.1 116095 2a22A 215 5.74e+01 d.159.1.7 126025 1em2A 229 5.75e+01 1em2A d.129.3.2 41321 2nooA 502 5.75e+01 1o50A 157 5.76e+01 d.37.1.1,d.37.1.1 92478,92479 3c5mA 396 5.78e+01 1zs7A 190 5.81e+01 b.122.1.1,d.17.6.4 125593,125594 2dpkA 152 5.81e+01 b.1.27.1 131616 2bh0A 208 5.82e+01 2gllA 171 5.85e+01 2ix2B 245 5.85e+01 2fp8A 322 5.87e+01 1bylA 125 5.90e+01 1bylA d.32.1.2 38495 1tkkA 366 5.91e+01 c.1.11.2,d.54.1.1 107089,107090 3bevB 99 5.91e+01 2bnqD 203 5.92e+01 2v7bA 529 5.93e+01 1k32A 1045 5.97e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1wdjA 187 6.02e+01 c.52.1.27 114536 1ctt 294 6.04e+01 1ctt 1cttA 294 6.04e+01 c.97.1.1,c.97.1.1 36022,36023 1fwxA 595 6.06e+01 b.6.1.4,b.69.3.1 60069,60070 1ix9A 205 6.08e+01 a.2.11.1,d.44.1.1 76899,76900 2a1hA 365 6.09e+01 e.17.1.1 125997 3b5lB 198 6.15e+01 1xfpA 142 6.16e+01 b.1.1.1 109587 2iwxA 214 6.17e+01 d.122.1.1 137758 1xfoA 357 6.21e+01 b.49.3.1,c.56.5.4 115265,115266 1f8eA 388 6.26e+01 2qwc b.68.1.1 59694 1jrrA 382 6.26e+01 e.1.1.1 63256 2rn2 155 6.31e+01 2rn2 2e7aA 157 6.34e+01 2yzhA 171 6.35e+01 1wluA 136 6.36e+01 d.38.1.5 121015 1tmxA 293 6.41e+01 2pvaA 345 6.45e+01 3pvaA d.153.1.3 41850 1o12A 376 6.46e+01 b.92.1.5,c.1.9.10 80758,80759 1qb5D 99 6.47e+01 b.40.2.1 88357 1feuA 206 6.47e+01 1feuA b.53.1.1 59801 2f4qA 346 6.48e+01 1fzvA 132 6.50e+01 1vpfA g.17.1.1 60159 2q9oA 559 6.59e+01 2q0oA 236 6.63e+01 2f0xA 148 6.63e+01 d.38.1.5 132673 1x3mA 415 6.63e+01 c.55.1.2,c.55.1.2 121664,121665 1dg6A 191 6.66e+01 1d4vB b.22.1.1 23883 1sfdA 105 6.67e+01 b.6.1.1 105480 2aanA 139 6.67e+01 2eigA 234 6.68e+01 2ih8A 559 6.72e+01 b.6.1.3,b.6.1.3,b.6.1.3 137407,137408,137409 2uubK 129 6.83e+01 c.55.4.1 139942 1osyA 115 6.83e+01 b.1.21.1 93502 1mi8A 158 6.88e+01 b.86.1.2 91279 1wzlA 585 6.91e+01 b.1.18.2,b.71.1.1,c.1.8.1 121513,121514,121515 2i06A 309 6.93e+01 2ivwA 113 6.98e+01 1k1xA 659 6.99e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1mdbA 539 7.02e+01 e.23.1.1 79008 1bkrA 109 7.06e+01 1bkrA a.40.1.1 17394 1ec7A 446 7.08e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1ef8A 261 7.11e+01 1ef8A c.14.1.3 30921 2bkyX 89 7.16e+01 d.68.6.1 128717 1o7zA 77 7.18e+01 d.9.1.1 86660 2cwpA 112 7.22e+01 1nnsA 326 7.22e+01 c.88.1.1 85910 1tf4A 605 7.25e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 2bgcA 238 7.28e+01 a.4.5.4,b.82.3.3 128458,128459 2qt3A 403 7.30e+01 1j5pA 253 7.32e+01 d.81.1.3,c.2.1.3 71577,83092 2ch4A 320 7.36e+01 b.40.7.1,d.122.1.3 130447,130448 1vp2A 208 7.47e+01 c.51.4.1 113933 1nwbA 124 7.50e+01 b.124.1.1 86296 1t44G 147 7.58e+01 d.109.1.1 106395 2e4qA 109 7.66e+01 1ejxA 100 7.66e+01 d.8.1.1 83182 2breA 219 7.72e+01 d.122.1.1 128994 1fm4A 159 7.73e+01 1bv1 d.129.3.1 76186 1qwyA 291 7.74e+01 b.84.3.2 96509 2cdpA 160 7.74e+01 1zoyA 622 7.74e+01 1fjgQ 105 7.76e+01 1fjfQ b.40.4.5 25352 1nm1G 125 7.76e+01 d.109.1.1 80653 2c2aA 258 7.78e+01 a.30.2.1,d.122.1.3 129662,129663 1o5lA 213 7.83e+01 b.82.3.2 92506 2aukA 190 7.84e+01 1i0hA 205 7.84e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 2hqhA 93 7.85e+01 1q8rA 120 7.86e+01 d.79.6.1 96225 1x3eA 165 7.87e+01 3dni 260 7.88e+01 3dni 1zelA 298 7.89e+01 1ud9A 245 7.91e+01 d.131.1.2,d.131.1.2 107768,107769 1iz5A 249 7.96e+01 d.131.1.2,d.131.1.2 83834,83835