# 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 2a2pA 129 9.98e-02 2cokA 113 1.11e-01 1xngA 268 1.41e-01 1zczA 464 2.69e-01 1pmzA 86 4.94e-01 a.39.1.10 104195 1mvwB 145 7.85e-01 i.15.1.1 79524 1tif 78 9.28e-01 1tif d.15.8.1 37836 1p5hA 428 1.52e+00 c.123.1.1 87802 2bl0B 145 1.58e+00 1po5A 476 2.26e+00 a.104.1.1 94963 1f5aA 513 2.32e+00 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39337,75835,75836 1cjsA 219 2.73e+00 1cjsA e.24.1.1 43354 1ugnA 198 3.49e+00 b.1.1.4,b.1.1.4 107828,107829 1i2aA 219 3.52e+00 e.24.1.1 90660 1q79A 514 3.72e+00 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1id3B 102 3.81e+00 a.22.1.1 66113 1nw3A 416 3.95e+00 c.66.1.31 86288 1g0xA 197 4.13e+00 1nkr b.1.1.4,b.1.1.4 21805,21806 1tzyD 103 4.18e+00 a.22.1.1 107533 1go3F 107 4.21e+00 a.60.8.2 65407 1pvyA 227 4.29e+00 d.115.1.2 95195 1snnA 227 4.50e+00 d.115.1.2 105821 1vddA 228 4.89e+00 e.49.1.1 108519 1rc9A 221 5.11e+00 1qtnA 164 5.40e+00 1pauA c.17.1.1 30999 1cxqA 162 5.74e+00 1cxqA c.55.3.2 33621 1lgpA 116 5.98e+00 b.26.1.2 73890 1hq3D 103 6.08e+00 1aoiB a.22.1.1 16464 1fkf 107 6.12e+00 1fkj d.26.1.1 38386 1asu 162 6.21e+00 1cxqA c.55.3.2 33626 1m6yA 301 6.49e+00 a.60.13.1,c.66.1.23 78716,78717 1fkd 107 6.55e+00 1fkj d.26.1.1 38383 1pydA 556 6.69e+00 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31735,31773,31774 1gm6A 175 6.72e+00 b.60.1.1 70272 1bkf 107 6.78e+00 1fkj d.26.1.1 38382 1fkj 107 7.04e+00 1fkj d.26.1.1 38384 1hlvA 131 7.42e+00 a.4.1.7,a.4.1.7 65854,65855 1qsgA 265 7.57e+00 1eny c.2.1.2 29935 1cj3A 392 7.80e+00 1pbe c.3.1.2,d.16.1.2 30347,37878 1eal 127 7.81e+00 1hmt b.60.1.2 27227 1pvdA 537 8.02e+00 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 2a1vA 144 8.31e+00 1k9uA 78 8.41e+00 a.39.1.10 84348 1hjrA 158 8.41e+00 1hjrA c.55.3.6 33727 1a5v 162 8.60e+00 1cxqA c.55.3.2 33629 1aoiF 87 8.65e+00 1aoiB a.22.1.1 16471 1i6uA 130 8.87e+00 d.140.1.1 61850 1aoiB 87 8.95e+00 1aoiB a.22.1.1 16470 1oxxK 353 8.98e+00 b.40.6.3,c.37.1.12 93715,93716 1yruB 74 9.21e+00 1theB 260 9.22e+00 1theB d.3.1.1 37057 1wr2A 238 9.26e+00 1kx5B 102 9.43e+00 a.22.1.1 77594 1theA 260 9.65e+00 1theB d.3.1.1 37056 2phh 394 1.02e+01 1pbe c.3.1.2,d.16.1.2 30353,37884 1qg6A 261 1.03e+01 1eny c.2.1.2 29919 1bgj 394 1.03e+01 1pbe c.3.1.2,d.16.1.2 30352,37883 1pbe 394 1.04e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1j8yF 297 1.09e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1k0iA 394 1.12e+01 c.3.1.2,d.16.1.2 67942,67943 1tocR 120 1.12e+01 1tocR g.8.1.2,g.8.1.2 44558,44559 1h6kZ 98 1.12e+01 d.58.7.1 60686 1exrA 148 1.17e+01 1cll a.39.1.5 17299 1ykjA 394 1.17e+01 1q4mA 221 1.17e+01 a.132.1.3 95805 1g4yR 148 1.18e+01 1cll a.39.1.5 60252 1mszA 86 1.19e+01 d.68.7.1 79428 1g5cA 170 1.19e+01 1g5cA c.53.2.1 60264 2f3yA 148 1.20e+01 1lbvA 252 1.20e+01 e.7.1.1 73813 1osa 148 1.23e+01 1cll a.39.1.5 17300 2f9lA 199 1.24e+01 1a63 130 1.28e+01 1a62 a.140.3.1,b.40.4.5 64710,64711 1oxsC 353 1.30e+01 b.40.6.3,c.37.1.12 87519,87520 1iw0A 215 1.30e+01 a.132.1.1 83720 1cqqA 180 1.30e+01 1cqqA b.47.1.4 26422 1wdcC 156 1.32e+01 1wdcC a.39.1.5 17317 1ars 396 1.33e+01 1ajsA c.67.1.1 34287 1m45A 148 1.36e+01 a.39.1.5 78598 1at3A 247 1.37e+01 1at3A b.57.1.1 27021 1zx1A 231 1.37e+01 3cln 148 1.38e+01 1cll a.39.1.5 17286 1goh 639 1.39e+01 1gof b.1.18.2,b.18.1.1,b.69.1.1 21809,23711,27633 1gof 639 1.39e+01 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1tafB 70 1.45e+01 1tafB a.22.1.3 16482 1ni5A 433 1.47e+01 c.26.2.5,d.229.1.1 80533,80534 1wzdA 215 1.47e+01 1h6kX 97 1.49e+01 d.58.7.1 60684 1vsd 152 1.54e+01 1cxqA c.55.3.2 33625 2f2gA 221 1.64e+01 1sg0A 230 1.65e+01 1nmeA 146 1.67e+01 c.17.1.1 85874 1mr4A 47 1.72e+01 g.3.7.5 91429 1e69B 322 1.72e+01 1e69B c.37.1.12 32377 1bxdA 161 1.74e+01 1bxdA d.122.1.3 41111 1mkeA 152 1.75e+01 b.55.1.4 79231 2bzsA 236 1.79e+01 1vlmA 219 1.81e+01 c.66.1.41 108836 1iq4A 179 1.84e+01 1iq4A d.77.1.1 62641 1kjs 74 1.84e+01 1kjs a.50.1.1 17792 1vhqA 232 1.85e+01 c.23.16.2 100696 1gpmA 525 1.88e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1rypI 222 1.88e+01 d.153.1.4 41877 2aop 497 1.92e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39503,39504,41427,41428 2fp3A 316 1.93e+01 1kbaA 66 1.94e+01 3ebx g.7.1.1 44431 1whzA 70 1.95e+01 1cll 148 2.01e+01 1cll a.39.1.5 17263 1c14A 262 2.03e+01 1eny c.2.1.2 29927 1qyaA 307 2.03e+01 d.21.1.2,d.21.1.2 104653,104654 1k3iA 656 2.10e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1aop 497 2.10e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1ok0A 74 2.10e+01 b.5.1.1 93191 1wi6A 88 2.16e+01 1ew3A 159 2.18e+01 1mup b.60.1.1 27114 1kn1A 160 2.19e+01 a.1.1.3 77455 1zljA 78 2.24e+01 1ru8A 232 2.27e+01 c.26.2.1 97849 1qpbA 563 2.27e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 1spa 396 2.29e+01 1ajsA c.67.1.1 34291 1z8fA 228 2.30e+01 1gmyA 261 2.32e+01 d.3.1.1 76236 1a62 130 2.35e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1r5jA 337 2.35e+01 c.77.1.5 97097 1oivA 191 2.36e+01 c.37.1.8 93076 1hoe 74 2.38e+01 1hoe b.5.1.1 22833 2g76A 335 2.38e+01 1yovA 537 2.39e+01 1ahr 146 2.40e+01 1cll a.39.1.5 17287 1kb9D 246 2.42e+01 a.3.1.3,f.23.11.1 77317,77318 1qwdA 177 2.45e+01 b.60.1.1 96471 1a8vA 121 2.48e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 1s4qA 228 2.53e+01 c.37.1.1 98507 1eikA 77 2.57e+01 1eikA d.78.1.1 39751 1oy1A 228 2.58e+01 c.23.16.2 87548 1cp3A 277 2.61e+01 1pauA c.17.1.1 30992 1j8mF 297 2.65e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1oixA 191 2.68e+01 3ait 74 2.69e+01 1hoe b.5.1.1 22835 1zxtA 76 2.70e+01 1ezvD 245 2.79e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 1myn 44 2.81e+01 1gpt g.3.7.4 44172 1qysA 106 2.82e+01 k.41.1.1 96603 2ait 74 2.83e+01 1hoe b.5.1.1 22837 1sh0A 510 2.89e+01 e.8.1.4 98876 1w85I 49 3.02e+01 1l1eA 287 3.09e+01 c.66.1.18 73454 1l6rA 227 3.12e+01 c.108.1.10 77768 1dbrA 231 3.17e+01 1qk3A c.61.1.1 34041 1n4kA 381 3.26e+01 a.118.22.1,b.42.6.1 79992,79993 1txb 73 3.33e+01 1txb g.7.1.1 44455 1csbB 205 3.38e+01 1theB 1art 396 3.41e+01 1ajsA c.67.1.1 34285 1rz4A 226 3.46e+01 a.4.5.53,a.118.1.18 105131,105132 1h2vZ 156 3.52e+01 d.58.7.1 76595 1q1vA 70 3.53e+01 a.159.4.1 104479 1h97A 147 3.56e+01 1h97A a.1.1.2 60812 1zrjA 50 3.60e+01 1rylA 167 3.61e+01 d.276.1.1 105124 1wdcB 156 3.61e+01 1wdcB a.39.1.5 17302 1fsgA 233 3.61e+01 1qk3A c.61.1.1 34029 1p4fA 293 3.65e+01 d.144.1.7 104063 1td4A 115 3.65e+01 1vgwA 231 3.68e+01 c.68.1.13 100612 1qk3A 233 3.70e+01 1qk3A c.61.1.1 34031 2pii 112 3.78e+01 2pii d.58.5.1 39071 2pdd 43 3.80e+01 1ebdC a.9.1.1 16358 1m46A 148 3.87e+01 a.39.1.5 78599 1jeqA 609 3.87e+01 1jeqA a.140.2.1,b.131.1.1,c.62.1.3 64748,90366,90367 2bcmA 165 3.98e+01 1kyoD 248 3.99e+01 a.3.1.3,f.23.11.1 73254,73255 1uu1A 335 4.00e+01 c.67.1.1 99993 2mysB 166 4.02e+01 1wdcB a.39.1.5 17308 2d13A 227 4.13e+01 1pil 112 4.28e+01 2pii d.58.5.1 39072 1bymA 97 4.29e+01 1bi0 b.34.1.2 24458 1hta 69 4.35e+01 1a7w a.22.1.2 16476 1zmaA 118 4.36e+01 1t4fM 110 4.39e+01 1g47A 77 4.51e+01 1g47A g.39.1.3,g.39.1.3 45147,45148 1c93A 265 4.53e+01 2ebn c.1.8.5 28998 1ahxA 396 4.53e+01 1ajsA c.67.1.1 34293 1itg 166 4.55e+01 1b9dA c.55.3.2 33661 1avsA 90 4.56e+01 1cll a.39.1.5 17226 1qzzA 374 4.56e+01 a.4.5.29,c.66.1.12 96719,96720 1x1rA 178 4.62e+01 2b43A 526 4.70e+01 1vyxA 60 4.85e+01 1a0qL 212 4.89e+01 8fabA b.1.1.1,b.1.1.2 20286,21278 1oksA 56 4.99e+01 a.8.5.1 93271 1no5A 114 5.01e+01 d.218.1.5 92014 1ycrA 109 5.02e+01 1ycqA a.42.1.1 17420 1pauA 147 5.02e+01 1pauA c.17.1.1 30994 1ariA 396 5.07e+01 1ajsA c.67.1.1 34331 1ybiA 288 5.08e+01 2rveA 244 5.14e+01 1rvaA c.52.1.2 33283 1ps1A 337 5.14e+01 1ps1A a.128.1.4 19450 1b67A 68 5.15e+01 1a7w a.22.1.2 16474 1fjeB 175 5.16e+01 1fj7A d.58.7.1,d.58.7.1 39210,39211 1dctA 324 5.21e+01 6mhtA c.66.1.26 34244 1a4pA 96 5.27e+01 1b4cA a.39.1.2 17176 1ta0A 197 5.30e+01 c.108.1.16 106729 1ty0A 211 5.34e+01 b.40.2.2,d.15.6.1 107440,107441 2a14A 263 5.39e+01 1vjgA 218 5.39e+01 c.23.10.6 100810 1io2A 213 5.39e+01 1ekeA c.55.3.1 62612 1ek0A 170 5.42e+01 1ctqA c.37.1.8 32076 1v0jA 399 5.44e+01 1lb2B 84 5.47e+01 a.60.3.1 77871 1x42A 232 5.53e+01 2f5gA 133 5.69e+01 1xtaA 221 5.71e+01 1mylA 53 5.72e+01 1bazA a.43.1.1 17427 1rznA 205 5.73e+01 1wr8A 231 5.75e+01 1m15A 357 5.79e+01 a.83.1.1,d.128.1.2 78368,78369 1qtfA 246 5.80e+01 1agjA b.47.1.1 25830 1zo0A 126 5.82e+01 1eexG 173 5.84e+01 1dioG a.23.2.1 16490 1b96A 244 5.95e+01 1rvaA c.52.1.2 33268 1vixA 420 6.03e+01 c.56.5.4,d.58.19.1 100777,100778 2cxaA 256 6.09e+01 2axiA 115 6.09e+01 2gf9A 189 6.14e+01 1keaA 221 6.15e+01 a.96.1.2 68491 2cpgA 45 6.16e+01 2cpgA a.43.1.3 17455 1kigL 51 6.21e+01 1hcgB g.3.11.1 44239 1qf6A 642 6.22e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 1louA 101 6.24e+01 1ris d.58.14.1 39323 1gq2A 555 6.25e+01 c.2.1.7,c.58.1.3 70308,70309 1kao 167 6.27e+01 1ctqA c.37.1.8 32014 2fyxA 143 6.27e+01 1jalA 363 6.28e+01 c.37.1.8,d.15.10.2 84138,84139 1g62A 224 6.30e+01 1g61A d.126.1.1 41128 1omhA 293 6.32e+01 d.89.1.5 93348 2a6nA 292 6.41e+01 1efyA 350 6.43e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 2g6bA 180 6.44e+01 1lba 146 6.45e+01 1lba d.118.1.1 41062 1dipA 78 6.52e+01 1dipA h.1.12.1 45632 1kn0A 212 6.62e+01 d.50.1.3 77444 2bl0C 142 6.64e+01 1s28A 132 6.64e+01 d.198.1.1 105223 1gnkA 112 6.66e+01 2pii d.58.5.1 39073 3rabA 169 6.67e+01 1ctqA c.37.1.8 32018 1a81A 254 6.85e+01 1a81A d.93.1.1,d.93.1.1 40507,40508 1jr3D 343 6.89e+01 a.80.1.1,c.37.1.20 63251,63252 1i58A 189 6.95e+01 1b3qA d.122.1.3 61773 1r13A 148 6.95e+01 d.169.1.1,h.1.1.1 96782,96783 1parA 53 6.97e+01 1bazA a.43.1.1 17437 1t0fA 276 7.10e+01 1allA 160 7.15e+01 1qgwC a.1.1.3 15647 2d4qA 257 7.15e+01 1xl3C 92 7.18e+01 2f6mA 65 7.20e+01 1c3pA 375 7.22e+01 1c3pA c.42.1.2 32606 1r89A 437 7.23e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1hup 141 7.25e+01 1rtm1 d.169.1.1,h.1.1.1 42354,45422 1y9wA 140 7.25e+01 1hka 158 7.31e+01 1hka d.58.30.1 39433 1mdbA 539 7.44e+01 e.23.1.1 79008 1mpgA 282 7.47e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1mykA 53 7.53e+01 1bazA a.43.1.1 17425 1qxoA 388 7.57e+01 d.258.1.1 96539 1sur 215 7.57e+01 1sur c.26.2.2 31620 1sr4A 206 7.61e+01 b.42.2.1 105948 1s6cA 183 7.69e+01 a.39.1.5 98594 1b94A 244 7.71e+01 1rvaA c.52.1.2 33250 1nkd 65 7.75e+01 1nkd a.30.1.1 16974 1scmB 145 7.76e+01 1wdcB a.39.1.5 17304 1t5iA 172 7.79e+01 c.37.1.19 106450 1arzC 273 7.80e+01 1drw c.2.1.3,d.81.1.3 30061,39976 1bn8A 420 7.81e+01 1pcl b.80.1.1 28022 1vj2A 126 7.87e+01 b.82.1.10 100796 2a7oA 112 7.94e+01 2bspA 420 7.97e+01 1pcl b.80.1.1 28023 1j7rA 86 8.02e+01 1j7rA a.39.1.5 62701 1t5jA 313 8.03e+01 a.209.1.1 99125 1sknP 92 8.04e+01 1sknP a.37.1.1 17127 1zoyA 622 8.16e+01 1bdtA 53 8.17e+01 1bazA a.43.1.1 17433 1sdjA 310 8.20e+01 d.21.1.2,d.21.1.2 98807,98808 3fisA 98 8.26e+01 1fipA a.4.1.12 18994 1fmtA 314 8.34e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 1xv2A 237 8.50e+01 1e6mA 128 8.51e+01 3chy c.23.1.1 31039 1vzyA 291 8.75e+01 1aroL 151 8.76e+01 1lba d.118.1.1 41063 1l2mA 118 8.83e+01 d.89.1.4 77657 1lfpA 249 8.85e+01 e.39.1.1 73885 2a6lA 292 8.88e+01 1bazA 53 8.92e+01 1bazA a.43.1.1 17421 1q0gA 117 8.98e+01 a.24.22.1 104428 1t6kA 278 8.98e+01