# 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.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 1eiyB 785 5.11e-02 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16305,16306,25314,39313,40782,41458 1b7yB 785 5.57e-02 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1pysB 785 6.23e-02 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16299,16300,25311,39310,40779,41455 1xngA 268 2.49e-01 1eal 127 3.37e-01 1hmt b.60.1.2 27227 2cokA 113 1.15e+00 1csbB 205 1.39e+00 1theB 1b3mA 389 1.59e+00 1b3mA 1pydA 556 2.09e+00 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31735,31773,31774 1po5A 476 2.26e+00 a.104.1.1 94963 1gof 639 2.27e+00 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1l9fA 389 2.27e+00 c.3.1.2,d.16.1.3 73716,73717 1theB 260 2.32e+00 1theB d.3.1.1 37057 1fkf 107 2.48e+00 1fkj d.26.1.1 38386 1goh 639 2.54e+00 1gof b.1.18.2,b.18.1.1,b.69.1.1 21809,23711,27633 1k3iA 656 2.56e+00 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1gmyA 261 2.68e+00 d.3.1.1 76236 1fkj 107 2.71e+00 1fkj d.26.1.1 38384 1fkd 107 2.86e+00 1fkj d.26.1.1 38383 1bkf 107 3.05e+00 1fkj d.26.1.1 38382 1theA 260 3.08e+00 1theB d.3.1.1 37056 1el5A 389 3.11e+00 1b3mA c.3.1.2,d.16.1.3 30369,37937 1asu 162 3.16e+00 1cxqA c.55.3.2 33626 1cxqA 162 3.17e+00 1cxqA c.55.3.2 33621 1snnA 227 3.24e+00 d.115.1.2 105821 1p5hA 428 3.39e+00 c.123.1.1 87802 1pvyA 227 3.70e+00 d.115.1.2 95195 1a5v 162 3.72e+00 1cxqA c.55.3.2 33629 1tif 78 3.87e+00 1tif d.15.8.1 37836 1j8yF 297 3.96e+00 1ng1 a.24.13.1,c.37.1.10 62747,62748 1mvwB 145 4.38e+00 i.15.1.1 79524 1pvdA 537 4.61e+00 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1vckA 115 4.76e+00 1lbvA 252 4.77e+00 e.7.1.1 73813 1dceB 331 5.31e+00 1dceB a.102.4.3 18872 1dq3A 454 5.31e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1mkeA 152 5.36e+00 b.55.1.4 79231 2azqA 311 5.70e+00 1g5cA 170 5.87e+00 1g5cA c.53.2.1 60264 1ps1A 337 6.88e+00 1ps1A a.128.1.4 19450 1cj3A 392 7.48e+00 1pbe c.3.1.2,d.16.1.2 30347,37878 1j8mF 297 7.63e+00 1ng1 a.24.13.1,c.37.1.10 62742,62743 1cjsA 219 7.95e+00 1cjsA e.24.1.1 43354 1ykjA 394 7.97e+00 1qpbA 563 8.14e+00 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 1vsd 152 8.21e+00 1cxqA c.55.3.2 33625 1bgj 394 8.34e+00 1pbe c.3.1.2,d.16.1.2 30352,37883 1k0iA 394 8.76e+00 c.3.1.2,d.16.1.2 67942,67943 1i2aA 219 8.91e+00 e.24.1.1 90660 1pbe 394 9.29e+00 1pbe c.3.1.2,d.16.1.2 30338,37869 1iq4A 179 9.45e+00 1iq4A d.77.1.1 62641 2phh 394 9.49e+00 1pbe c.3.1.2,d.16.1.2 30353,37884 2aop 497 1.04e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39503,39504,41427,41428 1s6cA 183 1.10e+01 a.39.1.5 98594 1q4mA 221 1.18e+01 a.132.1.3 95805 1aop 497 1.19e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1qg6A 261 1.30e+01 1eny c.2.1.2 29919 1at3A 247 1.34e+01 1at3A b.57.1.1 27021 1j83A 180 1.35e+01 b.18.1.12 66430 1vlmA 219 1.44e+01 c.66.1.41 108836 1hlvA 131 1.44e+01 a.4.1.7,a.4.1.7 65854,65855 2d13A 227 1.51e+01 1qsgA 265 1.52e+01 1eny c.2.1.2 29935 1tzyD 103 1.55e+01 a.22.1.1 107533 2f2gA 221 1.68e+01 1k4mA 213 1.70e+01 c.26.1.3 77258 1c0aA 585 1.78e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 2f9lA 199 1.86e+01 1louA 101 1.91e+01 1ris d.58.14.1 39323 1cqqA 180 1.98e+01 1cqqA b.47.1.4 26422 1ok0A 74 2.00e+01 b.5.1.1 93191 1kx5B 102 2.12e+01 a.22.1.1 77594 1i6uA 130 2.14e+01 d.140.1.1 61850 1mszA 86 2.22e+01 d.68.7.1 79428 2sas 185 2.25e+01 2sas a.39.1.5 17258 1hq3D 103 2.35e+01 1aoiB a.22.1.1 16464 1mioA 534 2.43e+01 1qguA c.92.2.3 35601 1g47A 77 2.43e+01 1g47A g.39.1.3,g.39.1.3 45147,45148 1hoe 74 2.47e+01 1hoe b.5.1.1 22833 1aoiB 87 2.48e+01 1aoiB a.22.1.1 16470 1a81A 254 2.63e+01 1a81A d.93.1.1,d.93.1.1 40507,40508 1kbaA 66 2.78e+01 3ebx g.7.1.1 44431 1aroL 151 2.81e+01 1lba d.118.1.1 41063 1c14A 262 2.88e+01 1eny c.2.1.2 29927 1wi6A 88 2.96e+01 1id3B 102 2.96e+01 a.22.1.1 66113 3ait 74 2.99e+01 1hoe b.5.1.1 22835 1odkA 235 3.02e+01 c.56.2.1 86863 1aoiF 87 3.03e+01 1aoiB a.22.1.1 16471 2ait 74 3.05e+01 1hoe b.5.1.1 22837 2cmd 312 3.20e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 2a7yA 83 3.20e+01 1f5aA 513 3.37e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39337,75835,75836 1yovA 537 3.37e+01 1txb 73 3.44e+01 1txb g.7.1.1 44455 1wcwA 261 3.44e+01 1zmaA 118 3.48e+01 1ru8A 232 3.48e+01 c.26.2.1 97849 1cc1L 498 3.52e+01 1h2rL e.18.1.1 43301 1lba 146 3.58e+01 1lba d.118.1.1 41062 1h97A 147 3.64e+01 1h97A a.1.1.2 60812 1nezG 128 3.66e+01 b.1.1.1 85592 1wh5A 80 3.74e+01 2fyxA 143 3.78e+01 1dzaA 129 3.80e+01 7rsa d.5.1.1 37275 1i8nA 126 3.83e+01 1i8nA g.10.1.2 61976 1tocR 120 3.84e+01 1tocR g.8.1.2,g.8.1.2 44558,44559 1qzzA 374 3.88e+01 a.4.5.29,c.66.1.12 96719,96720 1pzgA 331 3.90e+01 c.2.1.5,d.162.1.1 95425,95426 1rypI 222 3.93e+01 d.153.1.4 41877 2pii 112 3.93e+01 2pii d.58.5.1 39071 1bymA 97 4.06e+01 1bi0 b.34.1.2 24458 1b43A 340 4.30e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1a63 130 4.32e+01 1a62 a.140.3.1,b.40.4.5 64710,64711 1bn7A 294 4.37e+01 1bn6A c.69.1.8 34677 1pil 112 4.46e+01 2pii d.58.5.1 39072 2bcmA 165 4.47e+01 1vj2A 126 4.48e+01 b.82.1.10 100796 2f5gA 133 4.56e+01 1q79A 514 4.58e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1rzfL 213 4.70e+01 b.1.1.1,b.1.1.2 98152,98153 1usuA 260 4.74e+01 d.14.1.8 99885 1a5iA 265 4.74e+01 5ptp b.47.1.2 26331 1oaqL 120 4.82e+01 b.1.1.1 92708 1oixA 191 4.84e+01 1oivA 191 4.87e+01 c.37.1.8 93076 1bn6A 294 5.13e+01 1bn6A c.69.1.8 34678 1vhqA 232 5.23e+01 c.23.16.2 100696 1m32A 366 5.28e+01 c.67.1.3 78508 1rsy 152 5.32e+01 1rsy b.7.1.2 23192 2a9mL 110 5.37e+01 1qxoA 388 5.54e+01 d.258.1.1 96539 2g76A 335 5.71e+01 1v52A 133 5.88e+01 1oy1A 228 5.88e+01 c.23.16.2 87548 1s1hC 192 5.89e+01 i.1.1.1 105156 1a76 326 5.93e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1lb2B 84 6.06e+01 a.60.3.1 77871 1kn0A 212 6.14e+01 d.50.1.3 77444 1pfxC 235 6.20e+01 5ptp b.47.1.2 26353 1vgwA 231 6.28e+01 c.68.1.13 100612 1xmxA 385 6.30e+01 1cye 129 6.37e+01 3chy c.23.1.1 31077 2pvbA 107 6.38e+01 1a75A a.39.1.4 17205 1cauA 181 6.42e+01 1dgwA b.82.1.2 28102 1e6mA 128 6.46e+01 3chy c.23.1.1 31039 1pal 108 6.53e+01 1a75A a.39.1.4 17209 1ru4A 400 6.57e+01 b.80.1.9 97836 1lgpA 116 6.64e+01 b.26.1.2 73890 1wy5A 317 6.66e+01 1wd7A 261 6.74e+01 1h6kZ 98 6.79e+01 d.58.7.1 60686 1kb9D 246 6.80e+01 a.3.1.3,f.23.11.1 77317,77318 1pt1A 143 6.97e+01 b.52.2.1 95084 1fdr 248 7.00e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1eziA 228 7.07e+01 1eyrA c.68.1.13 34512 1a4pA 96 7.07e+01 1b4cA a.39.1.2 17176 2b95A 106 7.19e+01 3chy 128 7.28e+01 3chy c.23.1.1 31038 1iw7C 1119 7.41e+01 e.29.1.1 71474 1jmmA 377 7.42e+01 b.30.6.1 71749 1jalA 363 7.46e+01 c.37.1.8,d.15.10.2 84138,84139 1go3F 107 7.48e+01 a.60.8.2 65407 2cxaA 256 7.52e+01 1tu9A 134 7.55e+01 a.1.1.2 107320 1q1vA 70 7.64e+01 a.159.4.1 104479 1pqhA 143 7.74e+01 b.52.2.1 95017 1oygA 447 7.75e+01 b.67.2.2 93726 1zrjA 50 7.79e+01 1jssA 224 7.89e+01 d.129.3.2 71844 1bqhG 129 7.92e+01 1cd8 b.1.1.1 19715 1ezvD 245 7.97e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 2fi9A 128 8.03e+01 1ab6A 125 8.03e+01 3chy c.23.1.1 31054 1r5jA 337 8.04e+01 c.77.1.5 97097 1ce4A 35 8.05e+01 1ce4A j.53.1.1 46337 1a6uL 108 8.07e+01 1mfa b.1.1.1 20254 1jbeA 128 8.15e+01 3chy c.23.1.1 62845 1bjmA 216 8.19e+01 8fabA b.1.1.1,b.1.1.2 20524,21460 1kjs 74 8.21e+01 1kjs a.50.1.1 17792 1gzsB 165 8.29e+01 a.168.1.1 76425 1h6yA 170 8.35e+01 b.18.1.7 70904 1yioA 208 8.37e+01 1v6tA 255 8.42e+01 2g5dA 422 8.57e+01 2g6bA 180 8.68e+01 1drw 273 8.72e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1hup 141 8.75e+01 1rtm1 d.169.1.1,h.1.1.1 42354,45422 2a6hC 1119 8.76e+01 1w85I 49 8.78e+01 2aq8A 269 8.84e+01 1jqcA 375 8.94e+01 1xikA a.25.1.2 63229