# List of top-scoring protein chains for t2k-100-30-str2 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 1josA 128 1.54e-01 d.52.7.1 84191 1r3eA 309 2.08e-01 b.122.1.1 -5118 unknown_sccs -10146 2hqi 72 2.28e-01 1aw0 d.58.17.1 39340 1osdA 72 3.42e-01 1at3A 247 3.72e-01 1at3A b.57.1.1 27021 1ge9A 184 4.54e-01 1dd5A d.67.3.1 60463 1s9rA 410 1.26e+00 unknown_sccs -10989 1lxyA 409 1.28e+00 unknown_sccs -10987 1jksA 294 1.37e+00 d.144.1.7 71710 1cpzA 68 1.39e+00 1aw0 d.58.17.1 39351 1hd2A 161 1.49e+00 c.47.1.10 60962 1mo9A 523 1.51e+00 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1hw8A 467 1.63e+00 1dqaA d.58.20.1 61298 d.179.1.1 61299 1i1qB 192 1.73e+00 1qdlB c.23.16.1 61544 1uc2A 481 1.74e+00 unknown_sccs -11725 1l3iA 192 1.85e+00 c.66.1.22 77676 1blxA 326 1.96e+00 1hcl d.144.1.7 41596 1i1gA 141 2.05e+00 a.4.5.32 65982 d.58.4.2 65983 1i58A 189 2.14e+00 1b3qA d.122.1.3 61773 1kid 203 2.32e+00 1derA c.8.5.1 30771 1rro 108 2.33e+00 1a75A a.39.1.4 17195 1eriA 276 2.44e+00 1ckqA c.52.1.1 33231 1k38A 254 2.55e+00 e.3.1.1 84303 1cc8A 73 2.96e+00 1cc8A d.58.17.1 39343 1seiA 130 3.04e+00 1seiA d.140.1.1 41463 1v6fA 151 3.16e+00 1qpsA 261 3.25e+00 1ckqA c.52.1.1 33234 1afi 72 3.31e+00 1aw0 d.58.17.1 39339 1o6jA 150 3.33e+00 c.47.1.10 81089 1dqaC 467 3.45e+00 1dqaA d.58.20.1 39366 d.179.1.1 42587 1h8mA 140 3.80e+00 1h8mA d.110.4.1 60782 1o0pA 104 3.98e+00 d.58.7.1 86535 1dqaA 467 4.01e+00 1dqaA d.58.20.1 39364 d.179.1.1 42585 1psuA 140 4.06e+00 d.38.1.5 88285 1cof 143 4.08e+00 1cof d.109.1.2 40860 1tx4B 178 4.12e+00 1ctqA c.37.1.8 32045 1gehA 444 4.65e+00 c.1.14.1 65181 d.58.9.1 65182 1i5gA 144 4.66e+00 1ewxA c.47.1.10 61784 1csn 298 5.04e+00 1csn d.144.1.7 41664 1f3mC 297 5.06e+00 1hcl d.144.1.7 41677 1ckqA 276 5.16e+00 1ckqA c.52.1.1 33229 1cl8A 276 5.18e+00 1ckqA c.52.1.1 33230 1amuA 563 6.08e+00 1amuA e.23.1.1 43351 1qlaB 239 6.16e+00 1qlaB a.1.2.1 15679 d.15.4.2 37707 1cfyA 143 6.29e+00 1cof d.109.1.2 40858 1gk8A 475 6.47e+00 c.1.14.1 65234 d.58.9.1 65235 1h3gA 601 6.79e+00 b.1.18.2 -2725 b.71.1.1 -4653 c.1.8.1 -5277 1jy8A 159 6.93e+00 d.79.5.1 67452 1b9mA 265 7.08e+00 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1v7oA 165 7.23e+00 unknown_sccs -10249 1lci 550 7.31e+00 1lci e.23.1.1 43349 1v58A 241 7.37e+00 1h9sA 140 7.49e+00 1b9mA b.40.6.2 60843 b.40.6.2 60844 1pa4A 116 7.61e+00 d.52.7.1 -9780 1qc9A 276 7.72e+00 1ckqA c.52.1.1 33235 1o20A 427 7.73e+00 c.82.1.1 86556 1derA 547 7.75e+00 1derA 1gx1A 160 7.81e+00 d.79.5.1 70675 1fp3A 402 7.97e+00 1fp3A a.102.1.3 18842 4gr1 478 8.10e+00 3grs c.3.1.5 30461 c.3.1.5 30462 d.87.1.1 40162 3grs 478 8.10e+00 3grs c.3.1.5 30441 c.3.1.5 30442 d.87.1.1 40152 1lzlA 323 8.39e+00 c.69.1.2 78306 1ak1 310 8.44e+00 1ak1 c.92.1.1 35594 1f7wA 144 8.46e+00 1f46A d.129.4.1 59679 1egr 85 8.72e+00 1kte c.47.1.1 32765 1t95A 240 8.74e+00 1kzlA 208 9.52e+00 b.43.4.3 77635 b.43.4.3 77636 1dozA 309 9.54e+00 1ak1 c.92.1.1 35592 1lxiA 139 9.56e+00 g.17.1.2 84735 1pm3A 78 9.77e+00 unknown_sccs -3973 1b8sA 504 9.81e+00 1b8sA c.3.1.2 30335 d.16.1.1 37866 1b4vA 504 1.00e+01 1b8sA c.3.1.2 30334 d.16.1.1 37865 1k8hA 133 1.01e+01 b.111.1.1 72176 1k3sA 113 1.06e+01 d.198.1.1 68120 1b3qA 379 1.08e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 2acy 98 1.10e+01 2acy d.58.10.1 39298 1sxjE 354 1.12e+01 1r26A 125 1.12e+01 c.47.1.1 -7389 6prcH 258 1.12e+01 6prcH b.41.1.1 25457 f.23.10.1 43436 1dxrH 258 1.13e+01 6prcH b.41.1.1 25456 f.23.10.1 43433 1oxsC 353 1.13e+01 b.40.6.3 87519 c.37.1.12 87520 1oxxK 353 1.13e+01 b.40.6.3 -3969 c.37.1.12 -7187 1rpl 251 1.13e+01 1bpyA a.60.12.1 75933 d.218.1.2 75934 1um0A 365 1.14e+01 1k0rA 366 1.14e+01 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1o8xA 146 1.14e+01 c.47.1.10 86681 1gpmA 525 1.17e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 2pil 159 1.19e+01 2pil d.24.1.1 38376 1a48 306 1.20e+01 1a48 d.143.1.1 41590 1qk8A 146 1.20e+01 1ewxA c.47.1.10 33061 1ay2 159 1.22e+01 2pil d.24.1.1 38377 1i7pA 274 1.23e+01 b.43.4.2 66048 c.25.1.1 66049 3proD 166 1.23e+01 3proC d.52.1.1 38814 d.52.1.1 38815 1f46A 140 1.24e+01 1f46A d.129.4.1 59643 1howA 373 1.24e+01 1hcl d.144.1.7 41679 1kmqA 184 1.26e+01 c.37.1.8 84412 1tf4A 605 1.27e+01 1tf4A a.102.1.2 18827 b.2.2.2 22393 1qysA 106 1.29e+01 unknown_sccs -13432 1mxtA 504 1.29e+01 c.3.1.2 79671 d.16.1.1 79672 1n1pA 504 1.29e+01 c.3.1.2 -5988 d.16.1.1 -9206 1n4wA 504 1.29e+01 c.3.1.2 -5991 d.16.1.1 -9209 1b9lA 120 1.30e+01 1b9lA d.96.1.3 40665 1m4uL 139 1.31e+01 g.17.1.2 78626 2fmr 65 1.31e+01 2fmr d.51.1.1 38808 1lu4A 136 1.33e+01 c.47.1.10 -7509 1obdA 306 1.34e+01 d.143.1.1 86767 1f47B 144 1.37e+01 1f46A d.129.4.1 59645 1dppA 507 1.37e+01 1dpe c.94.1.1 35800 1gadO 330 1.39e+01 1dssG c.2.1.3 29950 d.81.1.1 39865 1ek8A 185 1.41e+01 1ek8A d.67.3.1 59444 1n8jA 186 1.41e+01 c.47.1.10 85401 1psdA 409 1.48e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1jvsA 400 1.48e+01 a.69.3.1 77187 c.2.1.3 77188 d.81.1.3 77189 1k3tA 359 1.50e+01 c.2.1.3 72022 d.81.1.1 72023 1jjoC 261 1.50e+01 1q1lA 401 1.51e+01 unknown_sccs -11166 1iupA 282 1.53e+01 c.69.1.10 76815 1ek0A 170 1.57e+01 1ctqA c.37.1.8 32076 1bn5 478 1.58e+01 1bn5 a.4.5.25 16224 d.127.1.1 41161 1ng4A 390 1.63e+01 c.3.1.2 85666 d.16.1.3 85667 1ris 101 1.63e+01 1ris d.58.14.1 39314 1gr5A 547 1.64e+01 i.16.1.1 65478 1b6a 478 1.67e+01 1bn5 a.4.5.25 16223 d.127.1.1 41160 1k8wA 327 1.68e+01 b.122.1.1 83094 unknown_sccs -10143 1gv4A 528 1.68e+01 c.3.1.5 70589 c.3.1.5 70590 d.87.1.1 70591 1ewxA 146 1.71e+01 1ewxA c.47.1.10 33062 1a3aC 148 1.82e+01 1a3aA d.112.1.1 40919 1gtmA 419 1.84e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1ijhA 504 1.84e+01 c.3.1.2 66161 d.16.1.1 66162 1nvmB 312 1.84e+01 c.2.1.3 86251 d.81.1.1 86252 1bcpF 99 1.84e+01 1prtF b.40.2.1 25142 1m6kA 251 1.87e+01 e.3.1.1 78695 1aw0 72 1.91e+01 1aw0 d.58.17.1 39342 1is1A 185 1.91e+01 d.67.3.1 83704 1dpe 507 1.92e+01 1dpe c.94.1.1 35799 1hcl 298 1.95e+01 1hcl d.144.1.7 41593 3rubS 123 1.98e+01 1rboC d.73.1.1 39616 1huqA 164 1.98e+01 1byuA c.37.1.8 32020 1rpuA 172 1.98e+01 unknown_sccs -10738 1ifqA 138 2.00e+01 1ifqA d.110.4.1 62350 1yprA 125 2.05e+01 3nul d.110.1.1 40888 1ap8 213 2.06e+01 1ap8 d.86.1.1 40151 1louA 101 2.06e+01 1ris d.58.14.1 39323 1e0bA 68 2.11e+01 1e0bA b.34.13.2 37476 3bamB 213 2.11e+01 1bam c.52.1.3 33289 1ok8A 394 2.15e+01 b.1.18.4 -2737 f.10.1.1 -12384 1plzA 189 2.18e+01 b.82.1.7 88160 1gz8A 299 2.19e+01 d.144.1.7 83405 1gw5S 142 2.20e+01 d.110.4.2 70633 1j5pA 253 2.23e+01 c.2.1.3 83092 d.81.1.3 71577 1kf6A 602 2.28e+01 a.7.3.1 72394 c.3.1.4 72395 d.168.1.1 72396 1bxnA 485 2.28e+01 1burA c.1.14.1 29376 d.58.9.1 39282 1mg7A 417 2.34e+01 d.14.1.6 84954 d.58.26.6 84955 1jajA 174 2.41e+01 d.218.1.2 66471 1qj2B 809 2.44e+01 1qj2B 1fvgA 199 2.47e+01 1fvaA d.58.28.1 39408 1quqA 129 2.49e+01 1quqA b.40.4.3 25303 1uyrA 737 2.53e+01 c.14.1.4 -6258 c.14.1.4 -6259 3bamA 213 2.55e+01 1bam c.52.1.3 33288 1an7A 136 2.64e+01 1seiA d.140.1.1 41465 1fvaA 217 2.66e+01 1fvaA d.58.28.1 39409 1um8A 376 2.67e+01 c.37.1.20 -7251 1ef8A 261 2.73e+01 1ef8A c.14.1.3 30921 1ctn 540 2.74e+01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1qzgA 187 2.82e+01 b.40.4.3 -3920 1e1xA 299 2.82e+01 1hcl d.144.1.7 59157 1h2vZ 156 2.83e+01 d.58.7.1 76595 821p 166 2.83e+01 1ctqA c.37.1.8 31969 1jovA 270 2.87e+01 b.30.5.7 84192 1qrdA 273 2.90e+01 1d4aA c.23.5.3 31217 1cnuA 137 2.95e+01 1cof d.109.1.2 40862 1tib 269 2.96e+01 3tgl c.69.1.17 34738 1n6hA 170 3.01e+01 c.37.1.8 80197 1lw9A 164 3.03e+01 d.2.1.3 84727 7timA 247 3.06e+01 1amk c.1.1.1 28457 1n62B 809 3.08e+01 d.41.1.1 80092 d.133.1.1 80093 1ci3M 249 3.12e+01 1hcz b.2.6.1 22480 b.84.2.2 28266 1h5vA 304 3.14e+01 c.1.8.3 70898 1qlpA 394 3.15e+01 1ovaA e.1.1.1 42628 1gt6A 269 3.18e+01 c.69.1.17 76342 1h6kX 97 3.21e+01 d.58.7.1 60684 1p36A 164 3.24e+01 d.2.1.3 -8840 1a3aA 148 3.30e+01 1a3aA d.112.1.1 40917 1uw6A 211 3.31e+01 b.96.1.1 -3077 1dpuA 99 3.34e+01 1dpuA a.4.5.16 16150 1qi7A 253 3.39e+01 1qi7A d.165.1.1 42210 1k32A 1045 3.41e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1h6kZ 98 3.42e+01 d.58.7.1 60686 1knb 196 3.44e+01 1qhvA b.21.1.1 23841 1qltA 560 3.48e+01 1qltA d.58.32.1 39457 d.145.1.1 41720 1prxB 224 3.49e+01 1prxA c.47.1.10 33077 1jvpP 298 3.54e+01 d.144.1.7 67371 1i19A 561 3.55e+01 1i19A d.58.32.3 61522 d.145.1.1 61523 1a7tA 232 3.55e+01 1a7tA d.157.1.1 42041 1q8yA 373 3.65e+01 d.144.1.7 -11319 1ghsA 306 3.66e+01 1aq0A c.1.8.3 28840 1bpb 248 3.70e+01 1bpyA a.60.12.1 75811 d.218.1.2 75812 8rucA 475 3.70e+01 1burA c.1.14.1 29339 d.58.9.1 39245 1nom 248 3.72e+01 1bpyA a.60.12.1 75929 d.218.1.2 75930 1qxrA 189 3.80e+01 b.82.1.7 -4834 1e2o 233 3.82e+01 1eaf c.43.1.1 32631 1hcz 252 3.84e+01 1hcz b.2.6.1 22464 b.84.2.2 28250 1no4A 97 3.85e+01 h.1.24.1 85918 1jxhA 288 3.85e+01 c.72.1.2 67415 1ermA 263 3.86e+01 1btl e.3.1.1 42690 1gypA 358 3.88e+01 1dssG c.2.1.3 30004 d.81.1.1 39919 1oapA 109 3.94e+01 unknown_sccs -10428 2pcfB 250 3.95e+01 1hcz i.4.1.1 45911 1shsA 147 3.96e+01 1shsA b.15.1.1 23675 1bed 181 3.97e+01 1fvkA unknown_sccs -7444 1e8gA 560 3.99e+01 1qltA d.58.32.1 39455 d.145.1.1 41718