# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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.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 1tffA 234 2.75e-01 d.3.1.11 106854 1qs2A 401 1.72e+00 1qs1A d.166.1.1,d.166.1.1 42268,42269 1dmtA 696 2.67e+00 1dmtA d.92.1.4 40296 1b8zA 90 2.97e+00 1huuA a.55.1.1 17902 1qs1A 462 3.25e+00 1qs1A d.166.1.1,d.166.1.1 42260,42261 2fbwC 141 4.11e+00 1wgzA 510 4.31e+00 2mgb 154 4.44e+00 1a6m a.1.1.2 15102 1spgB 147 4.86e+00 1cg5B a.1.1.2 15588 1mgn 154 4.90e+00 1a6m a.1.1.2 15097 1gvhA 396 4.95e+00 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1q3eA 207 4.98e+00 b.82.3.2 95669 1uvjA 664 5.21e+00 e.8.1.6 100045 1a16 440 5.26e+00 1az9 c.55.2.1,d.127.1.1 33548,41165 1wl9A 440 5.35e+00 2bwvA 440 5.35e+00 1az9 457 5.39e+00 1az9 c.55.2.1,d.127.1.1 33547,41164 1jhgA 101 5.51e+00 1jhgA a.4.12.1 19009 1chkA 238 5.69e+00 1chkA d.2.1.7 36999 1vgmA 378 5.98e+00 1hhsA 664 6.16e+00 1hi0P e.8.1.6 61045 1hi0P 664 6.19e+00 1hi0P e.8.1.6 61051 1mojA 182 6.27e+00 a.25.1.1 91367 2fvhA 120 6.51e+00 103m 154 6.89e+00 1a6m a.1.1.2 15124 1sheA 103 7.01e+00 d.274.1.1 105551 1mlg 154 7.30e+00 1a6m a.1.1.2 15104 1c9bA 207 7.31e+00 1tfb a.74.1.2,a.74.1.2 18372,18373 102m 154 7.45e+00 1a6m a.1.1.2 15073 2spo 154 7.60e+00 1a6m a.1.1.2 15053 1a6g 151 7.61e+00 1a6m a.1.1.2 15021 1mlo 154 7.68e+00 1a6m a.1.1.2 15085 2spl 154 7.69e+00 1a6m a.1.1.2 15047 1mod 154 7.70e+00 1a6m a.1.1.2 15107 1mym 154 7.81e+00 1a6m a.1.1.2 15054 1a6m 151 7.85e+00 1a6m a.1.1.2 15018 1mbd 153 7.94e+00 1a6m a.1.1.2 15033 1mll 154 7.95e+00 1a6m a.1.1.2 15057 1rwtA 232 8.03e+00 f.43.1.1 97992 1bzpA 153 8.33e+00 1a6m a.1.1.2 15020 1yz7A 188 8.60e+00 1kz7A 353 8.71e+00 a.87.1.1,b.55.1.1 73333,73334 1tjoA 182 8.93e+00 2mgg 154 8.95e+00 1a6m a.1.1.2 15069 1iawA 317 8.96e+00 c.52.1.9 62126 1gjnA 153 9.93e+00 a.1.1.2 70191 1dwtA 153 9.97e+00 1a6m a.1.1.2 15190 2bh9A 489 1.01e+01 1am4A 199 1.03e+01 1tx4A a.116.1.1 19100 1r1hA 696 1.04e+01 d.92.1.4 104756 2wrpR 107 1.10e+01 1jhgA a.4.12.1 19010 1av1A 201 1.20e+01 1av1A h.5.1.1 45796 1t9kA 347 1.21e+01 c.124.1.5 106721 1qy5A 269 1.22e+01 d.122.1.1 96573 1csn 298 1.22e+01 1csn d.144.1.7 41664 1gk9A 260 1.30e+01 d.153.1.2 65246 1lj2A 110 1.35e+01 h.1.13.2 73926 1dbhA 354 1.41e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1v1rA 400 1.46e+01 c.36.1.11 108272 2ahrA 259 1.51e+01 1pnkA 209 1.54e+01 1ajqA d.153.1.2 41839 2aelA 374 1.65e+01 1t9xA 1049 1.74e+01 2g7lA 243 1.74e+01 1trrA 107 1.76e+01 1jhgA a.4.12.1 19017 1wy0A 342 1.85e+01 1e3aA 260 1.87e+01 1ajqA d.153.1.2 41838 1a41 234 1.87e+01 1a41 d.163.1.2 42174 1jfaA 374 1.89e+01 a.128.1.5 66622 1txgA 335 1.89e+01 1chrA 370 1.93e+01 1mucA c.1.11.2,d.54.1.1 29252,38896 1bg1A 722 1.94e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1rvkA 382 1.96e+01 c.1.11.2,d.54.1.1 97928,97929 1yv5A 374 1.99e+01 1yq7A 374 2.04e+01 2f94F 350 2.08e+01 1volA 204 2.10e+01 1tfb a.74.1.2,a.74.1.2 18370,18371 1x7yA 400 2.13e+01 2eutA 294 2.27e+01 1s2xA 206 2.30e+01 a.47.3.1 105229 1dseA 292 2.32e+01 1ryc a.93.1.1 59130 1khoA 370 2.33e+01 a.124.1.1,b.12.1.3 72489,72490 1cviA 342 2.39e+01 1cviA c.60.1.2 33989 1rcsA 105 2.45e+01 1jhgA a.4.12.1 19025 1u8vA 490 2.48e+01 1rw6A 210 2.52e+01 a.47.4.1 105113 2hpaA 342 2.66e+01 1cviA c.60.1.2 33985 1nd6A 354 2.66e+01 c.60.1.2 80407 1gm7A 209 2.70e+01 d.153.1.2 65302 1g291 372 2.73e+01 1g291 1myf 153 2.75e+01 1a6m a.1.1.2 15147 1af7 274 2.79e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1v9dA 340 2.80e+01 a.207.1.1 100535 2anuA 255 2.81e+01 1chuA 540 2.84e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 2cyp 294 2.85e+01 1ryc a.93.1.1 18600 1aorA 605 2.86e+01 1b25A a.110.1.1,d.152.1.1 19042,41794 1z53A 294 2.93e+01 1zbyA 294 2.94e+01 1tc6A 236 2.95e+01 d.122.1.1 106756 1mhyG 169 2.98e+01 1mtyG a.23.3.1 16518 1fxxA 482 3.11e+01 1fxxA c.55.3.5 33726 1tx4A 198 3.13e+01 1tx4A a.116.1.1 19098 1iq8A 582 3.17e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1dh3A 55 3.23e+01 1a02J h.1.3.1 45546 1ab7 89 3.27e+01 1ay7B c.9.1.1 30835 1ldfA 281 3.28e+01 f.19.1.1 73845 1rprA 63 3.34e+01 1nkd a.30.1.1 16989 1urvA 190 3.36e+01 1ut0A 190 3.36e+01 a.1.1.2 108012 1a2f 291 3.44e+01 1ryc a.93.1.1 18619 1a2g 291 3.45e+01 1ryc a.93.1.1 18620 1ccg 291 3.46e+01 1ryc a.93.1.1 18627 1u61A 138 3.46e+01 a.149.1.1 107696 1ds4A 292 3.47e+01 1ryc a.93.1.1 59129 1or4A 178 3.50e+01 a.1.1.2 93447 1bc5A 269 3.52e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1ac4 294 3.55e+01 1ryc a.93.1.1 18657 1uor 585 3.63e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19396,19397,19398 1v4xA 144 3.64e+01 a.1.1.2 108363 1eluB 390 3.73e+01 1elqA c.67.1.3 34435 1ryc 294 3.76e+01 1ryc a.93.1.1 18601 1qguB 519 3.88e+01 1qguB c.92.2.3 35626 1qh8B 519 3.91e+01 1qguB c.92.2.3 35634 1aszB 490 3.91e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 1vin 268 3.93e+01 1vin a.74.1.1,a.74.1.1 18354,18355 1s1fA 406 3.95e+01 1qmzB 259 3.97e+01 1vin a.74.1.1,a.74.1.1 18338,18339 1ai7A 209 3.98e+01 1ajqA d.153.1.2 41845 1ajqA 209 3.98e+01 1ajqA d.153.1.2 41840 1n1cA 217 4.01e+01 a.184.1.1 85254 1fmhB 33 4.05e+01 1fmhB k.6.1.1 46410 1elqA 390 4.05e+01 1elqA c.67.1.3 34436 1jq5A 370 4.10e+01 e.22.1.2 67084 1jqaA 370 4.10e+01 e.22.1.2 67085 1v9nA 360 4.16e+01 2fflA 756 4.20e+01 1eluA 390 4.21e+01 1elqA c.67.1.3 34434 1oyeA 1049 4.23e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1olsA 400 4.26e+01 c.36.1.11 93331 1bxnA 485 4.38e+01 1burA c.1.14.1,d.58.9.1 29376,39282 1jdrA 294 4.46e+01 1ryc a.93.1.1 62908 2sas 185 4.49e+01 2sas a.39.1.5 17258 1px5A 349 4.51e+01 a.160.1.2,d.218.1.6 95277,95278 1xl7A 612 4.53e+01 1k8kA 418 4.57e+01 c.55.1.1,c.55.1.1 68305,68306 1ft1A 377 4.59e+01 1ft1A a.118.6.1 19186 1z4eA 153 4.61e+01 1yvhA 329 4.67e+01 1yyqA 374 4.84e+01 1ec7A 446 4.86e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1mw5A 187 4.94e+01 d.259.1.1 91477 1jfgA 374 4.95e+01 a.128.1.5 66636 1fx8A 281 5.04e+01 f.19.1.1 43651 1iseA 185 5.05e+01 d.67.3.1 90691 1ev7B 317 5.09e+01 1ev7B c.52.1.9 33316 2c2aA 258 5.11e+01 16vpA 366 5.13e+01 16vpA d.180.1.1 42601 1ew6B 137 5.17e+01 1ewaA a.1.1.2 15638 1gnwA 211 5.19e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1jgtA 513 5.28e+01 c.26.2.1,d.153.1.1 66684,66685 1colA 204 5.32e+01 1a87 f.1.1.1 43378 1utuA 108 5.37e+01 2end 138 5.40e+01 2end a.18.1.1 16400 1ab4 477 5.44e+01 1ab4 e.11.1.1 43251 1l9hA 349 5.58e+01 f.13.1.2 73720 1kiyA 374 5.68e+01 a.128.1.5 72555 1ew6A 137 5.69e+01 1ewaA a.1.1.2 15637 1tk9A 188 5.70e+01 c.80.1.3 107082 1miwA 404 5.71e+01 a.173.1.1,d.218.1.4 79162,79163 1u5pA 216 5.72e+01 1zdnA 158 5.81e+01 1xqwA 293 5.91e+01 1nw2A 105 5.93e+01 c.47.1.1 92215 1uz3A 102 5.94e+01 1y14A 187 6.00e+01 1e8xA 961 6.01e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19148,23183,37631,41711 1nswA 105 6.02e+01 c.47.1.1 92097 1ewaA 137 6.14e+01 1ewaA a.1.1.2 15639 1ovnA 248 6.18e+01 a.71.1.1,c.47.1.7 93602,93603 1e7lA 157 6.18e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1b27D 90 6.21e+01 1ay7B c.9.1.1 30840 1go3F 107 6.32e+01 a.60.8.2 65407 1f75A 249 6.45e+01 1f75A c.101.1.1 59662 1hzxA 349 6.48e+01 1f88A f.13.1.2 61466 1v63A 101 6.55e+01 a.21.1.1 108391 2b8wA 328 6.58e+01 1iapA 211 6.58e+01 a.91.1.1 62119 1lq7A 67 6.62e+01 k.9.1.1 74183 1f88A 348 6.65e+01 1f88A f.13.1.2 43429 1d8dA 377 6.68e+01 1ft1A a.118.6.1 19185 2bfdA 400 6.71e+01 1brsD 89 6.71e+01 1ay7B c.9.1.1 30825 1ev7A 317 6.75e+01 1ev7B c.52.1.9 33315 1o5hA 214 6.78e+01 a.191.1.1 92497 1s5jA 847 6.85e+01 1tia 279 6.89e+01 3tgl c.69.1.17 34737 1qghA 156 6.89e+01 1qghA a.25.1.1 16728 1hma 73 6.93e+01 1cktA a.21.1.1 16427 1zowA 313 6.95e+01 1clc 639 6.99e+01 1clc a.102.1.2,b.1.18.2 18835,21872 2ex3B 264 7.04e+01 1e7uA 961 7.05e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1f16A 192 7.11e+01 1f16A f.1.4.1 43400 1mioB 458 7.18e+01 1qguB c.92.2.3 35602 1mkrA 294 7.21e+01 a.93.1.1 84997 1rtwA 220 7.27e+01 a.132.1.3 97823 1eni 138 7.29e+01 2end a.18.1.1 16403 1a8h 500 7.35e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1zoyC 140 7.36e+01 1cipA 353 7.36e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 2fh5A 185 7.47e+01 1or0A 160 7.54e+01 d.153.1.2 93445 1rqlA 267 7.60e+01 c.108.1.3 97750 1nox 205 7.67e+01 1nox d.90.1.1 40242 1w5rA 278 7.69e+01 1b6q 63 7.78e+01 1nkd a.30.1.1 16977 1enj 138 7.80e+01 2end a.18.1.1 16401 1emy 153 7.80e+01 1a6m a.1.1.2 15204 1ajsA 412 7.86e+01 1ajsA c.67.1.1 34276 2fbmA 291 7.86e+01 1na3A 91 7.87e+01 k.38.1.1 85481 1qc7A 101 7.89e+01 1qc7A a.118.14.1 18456 1rsoB 56 7.89e+01 a.194.1.1 97812 1lbd 282 7.93e+01 1lbd a.123.1.1 19279 1w98B 283 7.95e+01 1vz6A 393 7.96e+01 d.154.1.2 108949 1fm2A 169 7.99e+01 1fm2A d.153.1.2 59877 1utrA 96 8.03e+01 1utg a.101.1.1 18817 1woyA 500 8.12e+01 2aaoA 166 8.13e+01 1ofgA 381 8.21e+01 1ofgA c.2.1.3,d.81.1.5 30064,39979 1lrzA 426 8.23e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1up7A 417 8.23e+01 1jfiA 98 8.26e+01 1jfiA a.22.1.3 62936 1e19A 314 8.27e+01 1b7bA c.73.1.1 34967 2avyC 232 8.28e+01 1mtzA 293 8.37e+01 c.69.1.7 79467 1u19A 349 8.39e+01 1vpmA 169 8.44e+01 1g5yA 238 8.44e+01 1lbd a.123.1.1 60294 1j08A 226 8.46e+01 c.47.1.2,c.47.1.2 83855,83856 1wnfA 328 8.46e+01 1ki1B 352 8.56e+01 a.87.1.1,b.55.1.1 72497,72498 1jdfA 447 8.59e+01 c.1.11.2,d.54.1.1 62897,62898 1w2yA 229 8.59e+01 a.204.1.1 109140 1jq0A 84 8.62e+01 h.3.2.1 71786 1en7A 157 8.68e+01 1en7A a.140.4.1,d.4.1.5 64733,64734 1rcwA 231 8.69e+01 a.132.1.4 97299 1r2zA 274 8.74e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 2cblA 305 8.75e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1ca1 370 8.79e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1h6dA 433 8.87e+01 c.2.1.3,d.81.1.5 65656,65657 1ux8A 132 8.89e+01 3fruA 269 8.94e+01 1agdA b.1.1.2,d.19.1.1 20657,38150