# List of top-scoring protein chains for t04-100-30-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 1xngA 268 2.60e-03 1zczA 464 4.60e-02 1d2eA 397 4.61e-02 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1b7yB 785 1.07e-01 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 1wh0A 134 4.81e-01 1g5cA 170 5.47e-01 1g5cA c.53.2.1 60264 2a2pA 129 6.56e-01 1f5aA 513 7.35e-01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39337,75835,75836 1tif 78 8.07e-01 1tif d.15.8.1 37836 1el5A 389 1.15e+00 1b3mA c.3.1.2,d.16.1.3 30369,37937 1yhfA 115 1.26e+00 1q79A 514 1.28e+00 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1po5A 476 1.32e+00 a.104.1.1 94963 1dceB 331 1.63e+00 1dceB a.102.4.3 18872 1cxqA 162 1.84e+00 1cxqA c.55.3.2 33621 1theA 260 1.89e+00 1theB d.3.1.1 37056 1m2xA 223 1.95e+00 d.157.1.1 84764 1p5hA 428 2.11e+00 c.123.1.1 87802 1iq4A 179 2.14e+00 1iq4A d.77.1.1 62641 1x8hA 228 2.25e+00 2cokA 113 2.34e+00 1snnA 227 2.52e+00 d.115.1.2 105821 1exmA 405 2.76e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1pvyA 227 2.81e+00 d.115.1.2 95195 2f9lA 199 2.84e+00 1gof 639 3.01e+00 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1pvdA 537 3.07e+00 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1dq3A 454 3.29e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1ru8A 232 3.31e+00 c.26.2.1 97849 1mszA 86 3.36e+00 d.68.7.1 79428 1i2aA 219 3.44e+00 e.24.1.1 90660 1k3iA 656 3.45e+00 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1zn8A 180 3.47e+00 1ha3A 405 3.61e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 2d13A 227 3.95e+00 2c78A 405 4.36e+00 1aop 497 4.37e+00 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1j3mA 129 4.37e+00 d.129.7.1 103836 1vlmA 219 4.38e+00 c.66.1.41 108836 1sh0A 510 4.48e+00 e.8.1.4 98876 1hlvA 131 4.63e+00 a.4.1.7,a.4.1.7 65854,65855 1v6fA 151 4.78e+00 d.109.1.2 108395 1jjeA 222 4.79e+00 1a7tA d.157.1.1 63117 1j8yF 297 4.79e+00 1ng1 a.24.13.1,c.37.1.10 62747,62748 2fhxA 246 4.79e+00 1qmeA 702 4.82e+00 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1xhbA 472 5.34e+00 1gmyA 261 5.36e+00 d.3.1.1 76236 1b43A 340 5.64e+00 1a76 a.60.7.1,c.120.1.2 18092,33362 1gpmA 525 5.69e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 2b43A 526 5.89e+00 1yovA 537 6.07e+00 1lbvA 252 6.09e+00 e.7.1.1 73813 1vsd 152 6.27e+00 1cxqA c.55.3.2 33625 1zvnA 99 6.31e+00 1at3A 247 6.35e+00 1at3A b.57.1.1 27021 1jjtA 228 6.70e+00 1a7tA d.157.1.1 63139 1j8mF 297 6.92e+00 1ng1 a.24.13.1,c.37.1.10 62742,62743 1hoe 74 7.53e+00 1hoe b.5.1.1 22833 1wlfA 179 7.56e+00 b.52.2.3,d.31.1.1 109396,109397 1j83A 180 7.59e+00 b.18.1.12 66430 1wi6A 88 8.13e+00 1r7lA 110 8.50e+00 d.277.1.1 104837 1m6yA 301 9.15e+00 a.60.13.1,c.66.1.23 78716,78717 1qzzA 374 9.68e+00 a.4.5.29,c.66.1.12 96719,96720 1oaqL 120 1.00e+01 b.1.1.1 92708 1fsgA 233 1.01e+01 1qk3A c.61.1.1 34029 1bkf 107 1.02e+01 1fkj d.26.1.1 38382 1cc1L 498 1.05e+01 1h2rL e.18.1.1 43301 1ok0A 74 1.07e+01 b.5.1.1 93191 1tzyD 103 1.11e+01 a.22.1.1 107533 1kk1A 410 1.15e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1m45A 148 1.15e+01 a.39.1.5 78598 1qxoA 388 1.15e+01 d.258.1.1 96539 2cxaA 256 1.16e+01 1mkeA 152 1.17e+01 b.55.1.4 79231 1wdcC 156 1.18e+01 1wdcC a.39.1.5 17317 1vkyA 347 1.19e+01 e.53.1.1 108696 2aamA 309 1.23e+01 1ewkA 490 1.23e+01 1ewkA c.93.1.1 35712 1nciA 110 1.36e+01 1edhA b.1.6.1 22191 1lb2B 84 1.36e+01 a.60.3.1 77871 1z3eB 73 1.39e+01 1a6wL 109 1.39e+01 1mfa b.1.1.1 20252 1gzsB 165 1.45e+01 a.168.1.1 76425 2cmd 312 1.56e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1mvwB 145 1.56e+01 i.15.1.1 79524 1lgpA 116 1.56e+01 b.26.1.2 73890 1l6rA 227 1.59e+01 c.108.1.10 77768 2g76A 335 1.66e+01 1y96A 86 1.68e+01 1fa0A 537 1.69e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1kx5B 102 1.71e+01 a.22.1.1 77594 2fyxA 143 1.72e+01 1wznA 252 1.75e+01 1o0wA 252 1.78e+01 a.149.1.1,d.50.1.1 80751,80752 1hq3D 103 1.78e+01 1aoiB a.22.1.1 16464 1pxfA 111 1.81e+01 b.40.4.4 88341 1odkA 235 1.83e+01 c.56.2.1 86863 1vckA 115 1.89e+01 1v52A 133 1.95e+01 1gvp 87 1.98e+01 1gvp b.40.4.7 25369 1vqb 87 2.04e+01 1gvp b.40.4.7 25370 1uz5A 402 2.09e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 2azqA 311 2.11e+01 1q4mA 221 2.14e+01 a.132.1.3 95805 1ars 396 2.16e+01 1ajsA c.67.1.1 34287 1pzgA 331 2.27e+01 c.2.1.5,d.162.1.1 95425,95426 1t0aA 159 2.39e+01 1ykjA 394 2.41e+01 1ml9A 302 2.41e+01 b.85.7.1 79282 1sg0A 230 2.42e+01 1rhfA 182 2.46e+01 b.1.1.1,b.1.1.4 97469,97470 1h6kZ 98 2.49e+01 d.58.7.1 60686 1zmaA 118 2.52e+01 1ni5A 433 2.52e+01 c.26.2.5,d.229.1.1 80533,80534 1a76 326 2.56e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1914 232 2.69e+01 1914 d.49.1.1,d.49.1.1 83028,83029 2fp3A 316 2.80e+01 1qsgA 265 2.85e+01 1eny c.2.1.2 29935 1u3oA 82 2.86e+01 1rypI 222 2.87e+01 d.153.1.4 41877 1zx1A 231 2.87e+01 1h97A 147 2.94e+01 1h97A a.1.1.2 60812 1gv9A 260 2.96e+01 b.29.1.13 70596 2bzsA 236 2.97e+01 1q2yA 140 3.00e+01 d.108.1.1 95655 1nw3A 416 3.04e+01 c.66.1.31 86288 1k0iA 394 3.05e+01 c.3.1.2,d.16.1.2 67942,67943 2sas 185 3.11e+01 2sas a.39.1.5 17258 2bl0B 145 3.18e+01 2f2gA 221 3.19e+01 1v6tA 255 3.21e+01 1cqqA 180 3.22e+01 1cqqA b.47.1.4 26422 1oixA 191 3.25e+01 1zxkA 98 3.27e+01 2dhqA 146 3.34e+01 2dhqA c.23.13.1 31382 1oivA 191 3.37e+01 c.37.1.8 93076 1hjrA 158 3.38e+01 1hjrA c.55.3.6 33727 1y7rA 133 3.39e+01 1x8gA 227 3.42e+01 1uv4A 293 3.43e+01 1id0A 152 3.56e+01 d.122.1.3 66111 1zljA 78 3.71e+01 1q1vA 70 3.73e+01 a.159.4.1 104479 2djkA 133 3.77e+01 1ybiA 288 3.80e+01 3chy 128 3.85e+01 3chy c.23.1.1 31038 2crvA 120 3.90e+01 1fmtA 314 4.00e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1h05A 146 4.03e+01 c.23.13.1 76433 1p9bA 442 4.05e+01 c.37.1.10 94385 1ps1A 337 4.07e+01 1ps1A a.128.1.4 19450 1rznA 205 4.16e+01 1l1eA 287 4.22e+01 c.66.1.18 73454 1nycA 111 4.27e+01 b.61.2.2 92336 1ut9A 609 4.28e+01 a.102.1.2,b.1.18.2 99912,99913 1zxfA 155 4.29e+01 1uldA 150 4.29e+01 b.29.1.3 99545 1jbeA 128 4.32e+01 3chy c.23.1.1 62845 1a62 130 4.35e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1wy5A 317 4.36e+01 2pii 112 4.38e+01 2pii d.58.5.1 39071 1o6sB 105 4.39e+01 b.1.6.1 81096 1a8vA 121 4.43e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 1zeeA 403 4.48e+01 1c93A 265 4.52e+01 2ebn c.1.8.5 28998 1tu7A 208 4.56e+01 1vhqA 232 4.60e+01 c.23.16.2 100696 1exrA 148 4.69e+01 1cll a.39.1.5 17299 1fnd 314 4.85e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1w9yA 319 4.86e+01 1xj4A 119 4.87e+01 2fpoA 202 4.97e+01 1fnc 314 5.03e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1yruB 74 5.04e+01 1r5jA 337 5.05e+01 c.77.1.5 97097 1k4iA 233 5.09e+01 d.115.1.2 72056 1js8A 394 5.19e+01 a.86.1.1,b.112.1.1 67219,67220 1usuA 260 5.21e+01 d.14.1.8 99885 1pbe 394 5.24e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1g0xA 197 5.41e+01 1nkr b.1.1.4,b.1.1.4 21805,21806 1v5rA 97 5.44e+01 1mp1A 111 5.45e+01 a.188.1.1 91382 1ta0A 197 5.52e+01 c.108.1.16 106729 1ee6A 197 5.56e+01 1ee6A b.80.1.1 28024 1w85I 49 5.60e+01 2cbp 96 5.60e+01 2cbp b.6.1.1 22895 1kb9D 246 5.60e+01 a.3.1.3,f.23.11.1 77317,77318 1dz3A 130 5.62e+01 1dz3A c.23.1.1 31105 1fdr 248 5.71e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1lmmA 40 5.78e+01 g.3.6.2 91080 2bcmA 165 5.78e+01 1jqeA 292 5.83e+01 c.66.1.19 71789 2gjgA 248 5.90e+01 2f5gA 133 5.98e+01 1k78A 149 6.06e+01 a.4.1.5,a.4.1.5 68255,68256 1bx1A 314 6.15e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1q7hA 153 6.16e+01 b.122.1.1,d.17.6.2 96042,96043 1lba 146 6.20e+01 1lba d.118.1.1 41062 1jalA 363 6.22e+01 c.37.1.8,d.15.10.2 84138,84139 1qtnA 164 6.38e+01 1pauA c.17.1.1 30999 1ezvD 245 6.43e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 1pqhA 143 6.43e+01 b.52.2.1 95017 1ew0A 130 6.55e+01 1drmA d.110.3.2 40905 1h1aA 191 6.74e+01 b.29.1.11 83450 2b95A 106 6.76e+01 1plc 99 6.77e+01 1plc b.6.1.1 22846 1y81A 138 6.87e+01 1zuoA 186 7.03e+01 1tafB 70 7.05e+01 1tafB a.22.1.3 16482 1t5iA 172 7.05e+01 c.37.1.19 106450 1wh5A 80 7.10e+01 1qwnA 1045 7.10e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1mxrA 375 7.20e+01 a.25.1.2 85197 1lswA 131 7.22e+01 d.110.3.2 78181 1yioA 208 7.35e+01 1whzA 70 7.35e+01 1jk3A 158 7.37e+01 d.92.1.11 66790 1tocR 120 7.38e+01 1tocR g.8.1.2,g.8.1.2 44558,44559 1ugnA 198 7.65e+01 b.1.1.4,b.1.1.4 107828,107829 1jmtA 104 7.68e+01 d.58.7.3 63180 2g6bA 180 7.68e+01 1louA 101 7.75e+01 1ris d.58.14.1 39323 1h5uA 842 7.77e+01 1a8i c.87.1.4 60655 1s1hC 192 7.80e+01 i.1.1.1 105156 1ahxA 396 7.80e+01 1ajsA c.67.1.1 34293 1tit 98 7.83e+01 1tit b.1.1.4 21716 1vgwA 231 7.84e+01 c.68.1.13 100612 1v7pB 128 7.86e+01 d.169.1.1 108407 1rwiA 270 7.88e+01 b.68.9.1 97987 1qmpA 130 7.92e+01 1dz3A c.23.1.1 31106 1iugA 352 7.92e+01 c.67.1.3 90699 1sqwA 188 7.94e+01 1yz1A 174 7.94e+01 1pmzA 86 8.01e+01 a.39.1.10 104195 2a7yA 83 8.01e+01 1vi7A 217 8.02e+01 d.14.1.11,d.58.11.2 100740,100741 1wkvA 389 8.02e+01 1wguA 136 8.15e+01 1wy7A 207 8.18e+01 1mr4A 47 8.21e+01 g.3.7.5 91429 1ebdC 41 8.22e+01 1ebdC a.9.1.1 16355 1sacA 204 8.22e+01 1sacA b.29.1.5 24237 1dyoA 160 8.31e+01 1dyoA b.18.1.7 23771 1cfr 285 8.43e+01 1cfr c.52.1.7 33312 2a1vA 144 8.54e+01 1rtwA 220 8.55e+01 a.132.1.3 97823 1ek0A 170 8.58e+01 1ctqA c.37.1.8 32076 1uroA 367 8.63e+01 1uroA c.1.22.1 29675 2bl0C 142 8.63e+01 1x4rA 99 8.63e+01 1iw0A 215 8.69e+01 a.132.1.1 83720 1zckA 154 8.83e+01 1t6kA 278 8.84e+01 2aq8A 269 8.86e+01 1xv2A 237 8.87e+01 1ii5A 233 8.91e+01 c.94.1.1 62412 2f4nA 273 8.95e+01