# 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 1.64e-01 2a2pA 129 1.67e-01 1zczA 464 2.72e-01 1tif 78 6.30e-01 1tif d.15.8.1 37836 2cokA 113 6.77e-01 1iq4A 179 1.06e+00 1iq4A d.77.1.1 62641 1po5A 476 1.64e+00 a.104.1.1 94963 1pmzA 86 1.72e+00 a.39.1.10 104195 1g5cA 170 1.85e+00 1g5cA c.53.2.1 60264 1i2aA 219 2.15e+00 e.24.1.1 90660 2bl0B 145 2.19e+00 1mvwB 145 2.43e+00 i.15.1.1 79524 1p5hA 428 2.92e+00 c.123.1.1 87802 1f5aA 513 3.13e+00 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39337,75835,75836 1theA 260 3.56e+00 1theB d.3.1.1 37056 1wdcC 156 3.83e+00 1wdcC a.39.1.5 17317 1qtnA 164 3.93e+00 1pauA c.17.1.1 30999 1a8vA 121 4.17e+00 1a62 a.140.3.1,b.40.4.5 64712,64713 1pvyA 227 4.44e+00 d.115.1.2 95195 1snnA 227 4.60e+00 d.115.1.2 105821 1ugnA 198 4.68e+00 b.1.1.4,b.1.1.4 107828,107829 2f9lA 199 5.43e+00 1gmyA 261 5.57e+00 d.3.1.1 76236 1g0xA 197 5.60e+00 1nkr b.1.1.4,b.1.1.4 21805,21806 1a62 130 5.73e+00 1a62 a.140.3.1,b.40.4.5 64708,64709 1bkf 107 6.00e+00 1fkj d.26.1.1 38382 1ru8A 232 6.06e+00 c.26.2.1 97849 1qwdA 177 6.07e+00 b.60.1.1 96471 1hlvA 131 6.22e+00 a.4.1.7,a.4.1.7 65854,65855 1cxqA 162 6.27e+00 1cxqA c.55.3.2 33621 1m6yA 301 6.30e+00 a.60.13.1,c.66.1.23 78716,78717 1hjrA 158 6.42e+00 1hjrA c.55.3.6 33727 1j8yF 297 6.60e+00 1ng1 a.24.13.1,c.37.1.10 62747,62748 1m45A 148 6.72e+00 a.39.1.5 78598 1mszA 86 6.79e+00 d.68.7.1 79428 1cqqA 180 7.10e+00 1cqqA b.47.1.4 26422 1yruB 74 7.17e+00 1tzyD 103 7.27e+00 a.22.1.1 107533 1q79A 514 7.42e+00 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1iw0A 215 7.51e+00 a.132.1.1 83720 1nw3A 416 7.80e+00 c.66.1.31 86288 1wr2A 238 7.81e+00 1pbe 394 8.43e+00 1pbe c.3.1.2,d.16.1.2 30338,37869 1rypI 222 8.49e+00 d.153.1.4 41877 1wzdA 215 8.75e+00 1qysA 106 9.06e+00 k.41.1.1 96603 1ykjA 394 9.17e+00 1ni5A 433 9.25e+00 c.26.2.5,d.229.1.1 80533,80534 1exrA 148 9.53e+00 1cll a.39.1.5 17299 1g4yR 148 9.67e+00 1cll a.39.1.5 60252 1wi6A 88 9.90e+00 1k0iA 394 9.93e+00 c.3.1.2,d.16.1.2 67942,67943 1gof 639 1.00e+01 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1pvdA 537 1.03e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1hq3D 103 1.04e+01 1aoiB a.22.1.1 16464 1vlmA 219 1.04e+01 c.66.1.41 108836 1q4mA 221 1.04e+01 a.132.1.3 95805 1vhqA 232 1.05e+01 c.23.16.2 100696 2f3yA 148 1.06e+01 2cxaA 256 1.10e+01 1fsgA 233 1.11e+01 1qk3A c.61.1.1 34029 1dceB 331 1.12e+01 1dceB a.102.4.3 18872 1lbvA 252 1.14e+01 e.7.1.1 73813 1yovA 537 1.15e+01 1itg 166 1.21e+01 1b9dA c.55.3.2 33661 2dhqA 146 1.27e+01 2dhqA c.23.13.1 31382 1vddA 228 1.27e+01 e.49.1.1 108519 1ars 396 1.29e+01 1ajsA c.67.1.1 34287 1mr4A 47 1.29e+01 g.3.7.5 91429 2g76A 335 1.30e+01 1k3iA 656 1.32e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1b43A 340 1.33e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 2f2gA 221 1.34e+01 1j8mF 297 1.36e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1tafB 70 1.38e+01 1tafB a.22.1.3 16482 1sh0A 510 1.40e+01 e.8.1.4 98876 1at3A 247 1.43e+01 1at3A b.57.1.1 27021 1kx5B 102 1.45e+01 a.22.1.1 77594 1ha1 184 1.48e+01 1ha1 d.58.7.1,d.58.7.1 39147,39148 1ok0A 74 1.48e+01 b.5.1.1 93191 1l3kA 196 1.48e+01 d.58.7.1,d.58.7.1 73539,73540 2fp3A 316 1.49e+01 1mkeA 152 1.50e+01 b.55.1.4 79231 1vsd 152 1.51e+01 1cxqA c.55.3.2 33625 1gpmA 525 1.51e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1qsgA 265 1.57e+01 1eny c.2.1.2 29935 1rc9A 221 1.60e+01 1b7yB 785 1.60e+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 1aop 497 1.63e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1vgwA 231 1.65e+01 c.68.1.13 100612 1k9uA 78 1.66e+01 a.39.1.10 84348 2a1vA 144 1.67e+01 1oxxK 353 1.71e+01 b.40.6.3,c.37.1.12 93715,93716 1whzA 70 1.74e+01 1hoe 74 1.74e+01 1hoe b.5.1.1 22833 1qxoA 388 1.76e+01 d.258.1.1 96539 1r5jA 337 1.76e+01 c.77.1.5 97097 1qzzA 374 1.78e+01 a.4.5.29,c.66.1.12 96719,96720 1h6kZ 98 1.78e+01 d.58.7.1 60686 1kskA 234 1.85e+01 d.66.1.5,d.265.1.3 72920,90389 1zljA 78 1.85e+01 1tocR 120 1.96e+01 1tocR g.8.1.2,g.8.1.2 44558,44559 1n4kA 381 1.98e+01 a.118.22.1,b.42.6.1 79992,79993 2pii 112 1.99e+01 2pii d.58.5.1 39071 2fyxA 143 2.00e+01 2b43A 526 2.01e+01 1zx1A 231 2.07e+01 1ut9A 609 2.11e+01 a.102.1.2,b.1.18.2 99912,99913 1lgpA 116 2.14e+01 b.26.1.2 73890 1zo0A 126 2.20e+01 1qyaA 307 2.21e+01 d.21.1.2,d.21.1.2 104653,104654 2d13A 227 2.30e+01 1oixA 191 2.36e+01 1sg0A 230 2.36e+01 1lb2B 84 2.39e+01 a.60.3.1 77871 1ps1A 337 2.43e+01 1ps1A a.128.1.4 19450 1i58A 189 2.47e+01 1b3qA d.122.1.3 61773 2bzsA 236 2.48e+01 1sur 215 2.51e+01 1sur c.26.2.2 31620 1oxsC 353 2.58e+01 b.40.6.3,c.37.1.12 87519,87520 1l1eA 287 2.59e+01 c.66.1.18 73454 1cjbA 231 2.60e+01 1qk3A c.61.1.1 34079 1kn1A 160 2.66e+01 a.1.1.3 77455 1vj2A 126 2.68e+01 b.82.1.10 100796 1w85I 49 2.68e+01 1lfpA 249 2.72e+01 e.39.1.1 73885 1oaqL 120 2.72e+01 b.1.1.1 92708 1oivA 191 2.79e+01 c.37.1.8 93076 1ew0A 130 2.82e+01 1drmA d.110.3.2 40905 1h05A 146 2.90e+01 c.23.13.1 76433 1x1rA 178 2.90e+01 1dxsA 80 2.91e+01 1cokA a.60.1.2 17944 1rz4A 226 3.00e+01 a.4.5.53,a.118.1.18 105131,105132 1gxuA 91 3.06e+01 d.58.10.1 76378 1l6rA 227 3.12e+01 c.108.1.10 77768 2f5gA 133 3.18e+01 1e87A 118 3.19e+01 1b6e d.169.1.1 42327 1c93A 265 3.21e+01 2ebn c.1.8.5 28998 1jqeA 292 3.21e+01 c.66.1.19 71789 1no5A 114 3.26e+01 d.218.1.5 92014 1keaA 221 3.29e+01 a.96.1.2 68491 1p4fA 293 3.31e+01 d.144.1.7 104063 1ewkA 490 3.34e+01 1ewkA c.93.1.1 35712 2gf9A 189 3.35e+01 1kb9D 246 3.36e+01 a.3.1.3,f.23.11.1 77317,77318 1a6wL 109 3.36e+01 1mfa b.1.1.1 20252 1qf6A 642 3.37e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 1zrjA 50 3.37e+01 1ta0A 197 3.38e+01 c.108.1.16 106729 1qo3C 137 3.41e+01 1qo3C d.169.1.1 42350 2g6bA 180 3.42e+01 1o4sA 389 3.43e+01 c.67.1.1 86620 2a14A 263 3.46e+01 1kjs 74 3.47e+01 1kjs a.50.1.1 17792 1z8fA 228 3.52e+01 1fnd 314 3.53e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1f06A 320 3.59e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 2cmd 312 3.59e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1cc1L 498 3.61e+01 1h2rL e.18.1.1 43301 1nmeA 146 3.61e+01 c.17.1.1 85874 1m32A 366 3.62e+01 c.67.1.3 78508 1ek0A 170 3.65e+01 1ctqA c.37.1.8 32076 1s4qA 228 3.65e+01 c.37.1.1 98507 1gnkA 112 3.68e+01 2pii d.58.5.1 39073 1zk5A 176 3.80e+01 1pzgA 331 3.84e+01 c.2.1.5,d.162.1.1 95425,95426 1el5A 389 3.88e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1y9wA 140 3.91e+01 1rznA 205 3.91e+01 1ahxA 396 3.93e+01 1ajsA c.67.1.1 34293 1ezvD 245 3.94e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 1t4fM 110 4.06e+01 1xtaA 221 4.11e+01 1h97A 147 4.28e+01 1h97A a.1.1.2 60812 1bl3A 160 4.32e+01 1b9dA c.55.3.2 33655 1o9wA 177 4.34e+01 b.2.3.5 86713 1fnc 314 4.35e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1oksA 56 4.36e+01 a.8.5.1 93271 1t5iA 172 4.38e+01 c.37.1.19 106450 1dz3A 130 4.39e+01 1dz3A c.23.1.1 31105 1z3eB 73 4.39e+01 1omhA 293 4.44e+01 d.89.1.5 93348 3chy 128 4.48e+01 3chy c.23.1.1 31038 2cpgA 45 4.50e+01 2cpgA a.43.1.3 17455 1wr8A 231 4.55e+01 1avsA 90 4.56e+01 1cll a.39.1.5 17226 1vi1A 345 4.64e+01 c.77.1.4 100724 1sr4A 206 4.70e+01 b.42.2.1 105948 1vixA 420 4.77e+01 c.56.5.4,d.58.19.1 100777,100778 1jggA 60 4.81e+01 2hddA a.4.1.1 62950 2axiA 115 4.95e+01 1jalA 363 4.96e+01 c.37.1.8,d.15.10.2 84138,84139 1fmtA 314 5.04e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1q1vA 70 5.16e+01 a.159.4.1 104479 1ut7A 171 5.20e+01 b.143.1.1 99906 1xv2A 237 5.20e+01 1t6kA 278 5.21e+01 2aotA 292 5.27e+01 2bl0C 142 5.32e+01 1jbeA 128 5.33e+01 3chy c.23.1.1 62845 1td4A 115 5.36e+01 1wh8A 111 5.41e+01 1rylA 167 5.42e+01 d.276.1.1 105124 1mdbA 539 5.42e+01 e.23.1.1 79008 2d4qA 257 5.44e+01 1r3sA 367 5.46e+01 c.1.22.1 96963 1iueA 98 5.48e+01 d.15.4.1 90697 1go3F 107 5.56e+01 a.60.8.2 65407 1bx1A 314 5.62e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 3rabA 169 5.69e+01 1ctqA c.37.1.8 32018 1m15A 357 5.72e+01 a.83.1.1,d.128.1.2 78368,78369 2cveA 191 5.75e+01 1kpgA 287 5.84e+01 c.66.1.18 68735 2coeA 120 5.94e+01 1vp4A 425 6.07e+01 1sknP 92 6.11e+01 1sknP a.37.1.1 17127 1ycqA 107 6.19e+01 1ycqA a.42.1.1 17419 1uroA 367 6.20e+01 1uroA c.1.22.1 29675 1myn 44 6.23e+01 1gpt g.3.7.4 44172 1sqhA 312 6.26e+01 d.108.1.5 98966 1x0pA 143 6.26e+01 2g6tA 306 6.42e+01 1wy5A 317 6.43e+01 1jb9A 316 6.43e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1v0jA 399 6.55e+01 1qnxA 209 6.57e+01 1qnxA d.111.1.1 40914 1v52A 133 6.58e+01 1k4iA 233 6.61e+01 d.115.1.2 72056 1zdyA 307 6.62e+01 3seb 238 6.62e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1qmpA 130 6.87e+01 1dz3A c.23.1.1 31106 1y81A 138 7.01e+01 1vjgA 218 7.03e+01 c.23.10.6 100810 1vcoA 550 7.08e+01 c.23.16.1,c.37.1.10 108508,108509 1gzsB 165 7.13e+01 a.168.1.1 76425 1z2lA 423 7.13e+01 1ebdC 41 7.21e+01 1ebdC a.9.1.1 16355 1yspA 181 7.24e+01 1cjwA 166 7.26e+01 1cjwA d.108.1.1 40818 2a6nA 292 7.28e+01 1t0fA 276 7.33e+01 1x42A 232 7.34e+01 1xubA 298 7.35e+01 1n4nA 47 7.36e+01 g.3.7.5 91620 1lba 146 7.38e+01 1lba d.118.1.1 41062 1mvwC 147 7.44e+01 i.15.1.1 79525 2a5jA 191 7.48e+01 1u96A 69 7.51e+01 2f60K 64 7.57e+01 1wdcB 156 7.59e+01 1wdcB a.39.1.5 17302 1nbcA 155 7.59e+01 1nbcA b.2.2.2 22390 1mnaA 298 7.65e+01 c.69.1.22 79322 2f6mA 65 7.66e+01 1a76 326 7.67e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1lswA 131 7.70e+01 d.110.3.2 78181 1vyxA 60 7.76e+01 1louA 101 7.80e+01 1ris d.58.14.1 39323 2ew2A 316 7.83e+01 1h5uA 842 7.83e+01 1a8i c.87.1.4 60655 1esmA 316 7.89e+01 1esmA c.37.1.6 31953 1k92A 455 8.01e+01 c.26.2.1,d.210.1.1 68325,68326 1mp1A 111 8.07e+01 a.188.1.1 91382 2bcmA 165 8.19e+01 1edt 271 8.30e+01 2ebn c.1.8.5 28993 1yvkA 163 8.53e+01 1o4wA 147 8.57e+01 c.120.1.1 86629 5eau 548 8.62e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1ru4A 400 8.88e+01 b.80.1.9 97836 1i4uA 181 8.89e+01 b.60.1.1 61732 6paxA 133 8.90e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1sq5A 308 8.90e+01 c.37.1.6 105882 1bymA 97 8.90e+01 1bi0 b.34.1.2 24458 1q0gA 117 8.96e+01 a.24.22.1 104428