# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1qb0A 211 8.50e-14 1c25 c.46.1.1 32699 1ymkA 175 9.27e-14 c.46.1.1 123699 1c25 161 1.05e-13 1c25 2oucA 142 2.09e-13 2a2kA 175 2.29e-13 1hzmA 154 7.99e-13 c.46.1.1 65975 1e0cA 271 3.55e-09 1e0cA c.46.1.2,c.46.1.2 32717,32718 1uarA 285 5.96e-09 c.46.1.2,c.46.1.2 107762,107763 1gmxA 108 8.68e-09 c.46.1.3 65355 1yt8A 539 4.86e-08 c.46.1.2,c.46.1.2,c.46.1.2,c.46.1.2 123996,123997,123998,123999 2hhgA 139 5.12e-08 1rhs 296 6.28e-08 1rhs 1rhsA 296 6.28e-08 c.46.1.2,c.46.1.2 32703,32704 1whbA 157 9.48e-08 c.46.1.4 114639 2j6pA 152 2.23e-07 2gwfA 157 2.61e-07 c.46.1.4 135802 2eg4A 230 4.84e-07 1t3kA 152 8.09e-07 c.46.1.1 106357 1okgA 373 1.97e-05 c.46.1.2,c.46.1.2,d.26.1.3 93250,93251,93252 2fsxA 148 2.16e-04 1wv9A 94 2.72e-04 2yvtA 260 2.84e-01 2pa5A 314 5.35e-01 1b1yA 500 1.24e+00 1byb c.1.8.1 28796 1n1tA 641 1.29e+00 b.29.1.15,b.68.1.1 79821,79822 2f71A 298 1.99e+00 c.45.1.2 133070 2i75A 320 2.03e+00 1vs1A 276 2.05e+00 1wq3A 322 2.49e+00 2cm2A 304 2.83e+00 c.45.1.2 130610 2i1yA 301 2.89e+00 1ns5A 155 3.46e+00 c.116.1.3 80705 1g7fA 298 3.57e+00 1pty c.45.1.2 60330 1e6mA 128 3.58e+00 3chy c.23.1.1 31039 3cs3A 277 3.67e+00 3chy 128 3.76e+00 3chy 1x31B 404 3.95e+00 2ooqA 286 4.04e+00 1vhrA 184 4.04e+00 1vhrA c.45.1.1 32651 1o6dA 163 4.18e+00 c.116.1.3 92567 1jbeA 128 4.35e+00 3chy c.23.1.1 62845 2f4dA 184 4.99e+00 1pa1A 310 5.00e+00 c.45.1.2 94404 2p6xA 309 5.08e+00 1v61A 132 5.13e+00 b.55.1.1 108389 1npyA 271 5.26e+00 c.2.1.7,c.58.1.5 85995,85996 2j8kA 201 6.38e+00 b.80.8.1 138141 2exxA 306 6.43e+00 1byb 495 6.65e+00 1byb 2e0tA 151 6.89e+00 1m1nB 522 7.03e+00 c.92.2.3 78418 1v3hA 495 7.07e+00 c.1.8.1 108303 2q40A 367 7.50e+00 e.50.1.1 139814 2qbvA 90 7.50e+00 1ygmA 118 7.50e+00 1wuuA 399 7.70e+00 d.14.1.5,d.58.26.7 114900,114901 1wdpA 495 8.41e+00 c.1.8.1 120907 1jlnA 297 8.48e+00 1pty c.45.1.2 63172 1vi4A 174 8.48e+00 c.8.7.1 100731 1jilA 420 8.62e+00 c.26.1.1 66745 2b3oA 532 8.73e+00 2vklA 90 9.02e+00 1u8tA 129 9.12e+00 c.23.1.1 113192 1ab6A 125 9.17e+00 3chy c.23.1.1 31054 2c1cA 312 9.30e+00 c.56.5.1 129630 1nmuB 104 9.88e+00 d.79.3.1 80666 1mz5A 638 1.00e+01 b.29.1.15,b.68.1.1 79679,79680 2qsfA 533 1.01e+01 2pthA 193 1.10e+01 c.56.3.1 33793 4ts1A 319 1.11e+01 2ts1 c.26.1.1 31565 2pth 193 1.16e+01 2pth 1ab5A 125 1.18e+01 3chy c.23.1.1 31056 1alvA 173 1.19e+01 1alvA a.39.1.8 17370 1xfiA 367 1.24e+01 e.50.1.1 109584 1aj5A 173 1.25e+01 1alvA a.39.1.8 17367 2shpA 525 1.27e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 2hmcA 344 1.31e+01 1vkrA 125 1.32e+01 c.44.2.1 108689 2gagB 405 1.34e+01 1dqyA 283 1.34e+01 1dqyA c.69.1.3 34640 2fh7A 595 1.36e+01 1zc0A 309 1.46e+01 1p15A 253 1.55e+01 c.45.1.2 93894 1larA 575 1.57e+01 1larA c.45.1.2,c.45.1.2 32693,32694 2ppeA 343 1.57e+01 2pxxA 215 1.57e+01 1np8A 159 1.57e+01 a.39.1.8 92022 1nvtA 287 1.60e+01 c.2.1.7,c.58.1.5 86270,86271 1dqzA 280 1.67e+01 1dqyA c.69.1.3 34638 1kfuS 184 1.73e+01 a.39.1.8 68574 1zxoA 291 1.79e+01 c.55.1.5,c.55.1.5 125784,125785 2bzlA 325 1.85e+01 1qpzA 340 1.85e+01 1qpzA a.35.1.5,c.93.1.1 17097,35673 2bijA 305 1.92e+01 2q1sA 377 1.94e+01 2hc1A 291 1.94e+01 1g3mA 294 1.96e+01 c.37.1.5 83268 1zvtA 256 2.02e+01 1yn9A 169 2.06e+01 2eklA 313 2.10e+01 2ts1 419 2.11e+01 2ts1 2hcrA 326 2.13e+01 3brqA 296 2.15e+01 1sxjE 354 2.18e+01 a.80.1.1,c.37.1.20 106089,106090 1jpnA 296 2.21e+01 a.24.13.1,c.37.1.10 67039,67040 2o20A 332 2.28e+01 1wchA 315 2.31e+01 c.45.1.2 114508 1dbqA 289 2.33e+01 1qpzA c.93.1.1 35666 1p42A 270 2.35e+01 d.14.1.7,d.14.1.7 87754,87755 2cvjA 180 2.36e+01 2go3A 267 2.41e+01 d.14.1.7,d.14.1.7 135422,135423 2pidA 356 2.46e+01 1a3qA 285 2.51e+01 1a3qA b.1.18.1,b.2.5.3 21932,22447 1f6fA 199 2.52e+01 1f6fA a.26.1.1 16839 1vmeA 410 2.57e+01 c.23.5.1,d.157.1.3 108893,108894 2oc3A 303 2.62e+01 2f46A 156 2.62e+01 1pty 321 2.62e+01 1pty 1jztA 246 2.64e+01 c.104.1.1 63319 1vpwA 340 2.64e+01 1qpzA a.35.1.5,c.93.1.1 17087,35680 1jl3A 139 2.65e+01 c.44.1.1 66826 2ywlA 180 2.68e+01 1o4yA 288 2.69e+01 b.29.1.2 92473 1as6A 343 2.76e+01 1nif b.6.1.3,b.6.1.3 23090,23091 1ls1A 295 2.83e+01 a.24.13.1,c.37.1.10 78170,78171 1v8bA 479 2.83e+01 c.2.1.4,c.23.12.3 113564,113565 1ebuA 358 2.85e+01 1ebuA c.2.1.3,d.81.1.2 30035,39950 2fr1A 486 2.86e+01 c.2.1.2,c.2.1.2 133961,133962 1pbv 195 2.90e+01 1pbv 1pbvA 195 2.90e+01 a.118.3.1 19179 1ng1 294 3.02e+01 1ng1 2d7nA 93 3.06e+01 b.1.18.10 131322 1t71A 281 3.07e+01 d.159.1.9 112283 1agqA 135 3.09e+01 1agqA g.17.1.2 44789 3cnwA 148 3.10e+01 2nszA 129 3.13e+01 a.118.1.14 138560 1xb4A 202 3.14e+01 a.4.5.54,a.4.5.54 121832,121833 1yfoA 302 3.18e+01 2shpA c.45.1.2 32681 1xtyA 120 3.19e+01 2a9fA 398 3.24e+01 2hjnA 236 3.25e+01 2h30A 164 3.29e+01 1xuuA 349 3.33e+01 b.85.1.1,c.1.10.6 116067,116068 1zgzA 122 3.38e+01 c.23.1.1 125065 1id1A 153 3.45e+01 1id1A c.2.1.9 62286 1ao0A 459 3.50e+01 1ecfB c.61.1.1,d.153.1.1 34049,41816 1brmA 367 3.51e+01 1brmA c.2.1.3,d.81.1.1 30030,39945 2nncA 124 3.54e+01 1jftA 340 3.60e+01 a.35.1.5,c.93.1.1 66652,66653 1nif 340 3.62e+01 1nif 1ozjA 144 3.64e+01 d.164.1.1 93846 1qfjA 232 3.65e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 2reb 352 3.70e+01 2reb 2rebA 352 3.70e+01 c.37.1.11,d.48.1.1 32282,38767 1eeoA 321 3.70e+01 1pty c.45.1.2 32655 2ffuA 501 3.71e+01 1hy3A 294 3.71e+01 c.37.1.5 71090 1omiA 248 3.78e+01 b.82.3.3,a.4.5.4 87079,87080 1mszA 86 3.79e+01 d.68.7.1 79428 1iweA 457 3.82e+01 c.37.1.10 71486 2acvA 463 3.85e+01 1ta3A 274 3.91e+01 c.1.8.5 106731 2zdrA 349 3.93e+01 1j9qA 341 3.96e+01 1nif b.6.1.3,b.6.1.3 62765,62766 1z4eA 153 4.02e+01 d.108.1.1 124431 2d1gA 498 4.04e+01 2r98A 456 4.06e+01 1tvkA 440 4.13e+01 c.32.1.1,d.79.2.1 107362,107363 2p38A 166 4.16e+01 1t4bA 367 4.16e+01 c.2.1.3,d.81.1.1 106406,106407 1cbfA 285 4.28e+01 c.90.1.1 35587 1r7mA 235 4.30e+01 d.95.2.1,d.95.2.1 111713,111714 2hmaA 376 4.33e+01 2b49A 287 4.40e+01 1khdA 345 4.41e+01 a.46.2.1,c.27.1.1 77400,77401 2ckkA 127 4.45e+01 1ouoA 210 4.48e+01 d.4.1.6 93554 1oe1A 336 4.50e+01 b.6.1.3,b.6.1.3 86891,86892 1vl6A 388 4.54e+01 c.2.1.7,c.58.1.3 108724,108725 2qm1A 326 4.55e+01 1ptvA 321 4.57e+01 1pty c.45.1.2 32665 3bblA 287 4.59e+01 1bykA 255 4.62e+01 1bykA c.93.1.1 35706 1a1vA 476 4.62e+01 1heiA c.37.1.14,c.37.1.14 32467,32468 1kcbA 340 4.68e+01 b.6.1.3,b.6.1.3 90951,90952 2j13A 247 4.70e+01 c.6.2.3 137934 1et7A 341 4.76e+01 1nif b.6.1.3,b.6.1.3 23070,23071 1ebfA 358 4.93e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 3pfk 319 5.10e+01 3pfk 2qr3A 140 5.19e+01 1k3kA 158 5.23e+01 f.1.4.1 72017 3tmkA 216 5.26e+01 3tmkA c.37.1.1 31920 1jq0A 84 5.27e+01 h.3.2.1 71786 2j16A 182 5.30e+01 2i8lA 156 5.34e+01 1w77A 228 5.38e+01 c.68.1.13 120679 2gdgA 114 5.46e+01 d.80.1.3 135015 1f7uA 607 5.48e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1uc7A 125 5.49e+01 c.47.1.1 99163 1erw 105 5.54e+01 1erv 1qorA 327 5.64e+01 1qorA b.35.1.2,c.2.1.1 24766,29782 1gph1 465 5.64e+01 1ecfB 2p4dA 172 5.64e+01 2fy6A 143 5.70e+01 c.47.1.10 134344 2bw4A 340 5.78e+01 b.6.1.3,b.6.1.3 129320,129321 1bgpA 309 5.89e+01 a.93.1.1 18690 1fiqC 763 5.97e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 2cr4A 126 5.97e+01 1xd8A 289 6.08e+01 3cnyA 301 6.10e+01 1rpmA 278 6.12e+01 2shpA c.45.1.2 32679 1zcoA 262 6.16e+01 1u94A 356 6.20e+01 c.37.1.11,d.48.1.1 107743,107744 1snrA 341 6.25e+01 b.6.1.3,b.6.1.3 105823,105824 1pwxA 254 6.26e+01 c.2.1.2 95262 2yvwA 425 6.34e+01 1zmtA 254 6.35e+01 c.2.1.2 125363 1vdmA 153 6.36e+01 c.61.1.1 119994 1q7gA 359 6.36e+01 c.2.1.3,d.81.1.2 96038,96039 1qf9A 194 6.37e+01 1zin c.37.1.1 31848 2i8aA 252 6.47e+01 1g59A 468 6.51e+01 a.97.1.1,c.26.1.1 60257,60258 1ytlA 174 6.51e+01 c.31.1.6 124008 2pv7A 298 6.51e+01 1m07A 111 6.58e+01 d.5.1.1 78328 2nygA 273 6.58e+01 2dlwA 113 6.67e+01 1k2yX 463 6.71e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 2imiA 221 6.73e+01 1d7yA 408 6.78e+01 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1o0wA 252 6.79e+01 a.149.1.1,d.50.1.1 80751,80752 1ei1A 391 6.85e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1upkA 341 7.03e+01 a.118.1.15 99758 2z2iA 191 7.06e+01 1zzwA 149 7.14e+01 3b9jC 763 7.27e+01 2i1oA 398 7.27e+01 2bklA 695 7.32e+01 2vacA 134 7.39e+01 2v26A 784 7.41e+01 2c4nA 250 7.47e+01 c.108.1.14 129837 2jd4A 383 7.48e+01 2atzA 180 7.56e+01 d.264.1.3 127317 1o89A 345 7.57e+01 b.35.1.2,c.2.1.1 92644,92645 1xhbA 472 7.81e+01 b.42.2.1,c.68.1.17 115290,115291 2bekA 257 7.83e+01 2yysA 286 7.91e+01 2iykA 162 7.91e+01 2bkhA 814 7.95e+01