# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 2fe5A 94 9.41e-19 2fcfA 103 2.82e-18 1g9oA 91 2.11e-17 1pdr b.36.1.1 60400 1tp5A 119 3.81e-17 1qavA 90 3.87e-17 1qauA b.36.1.1 24777 1bfeA 119 4.62e-17 1pdr b.36.1.1 24775 1be9A 119 4.70e-17 1pdr b.36.1.1 24774 1pdr 99 7.53e-17 1pdr b.36.1.1 24771 1i92A 91 8.89e-17 1pdr b.36.1.1 61990 1n7eA 97 1.15e-16 b.36.1.1 91691 1n7fA 97 1.21e-16 b.36.1.1 91692 1ihjA 98 4.98e-16 1pdr b.36.1.1 62382 2f0aA 98 1.65e-15 1q3oA 109 1.69e-15 b.36.1.1 95700 1l6oA 95 3.05e-15 b.36.1.1 84534 1kwaA 88 4.19e-15 1kwaA b.36.1.1 24772 1qavB 115 5.19e-15 1qauA b.36.1.1 24780 1kwaB 88 5.57e-15 1kwaA b.36.1.1 24773 1b8qA 127 7.48e-15 1qauA b.36.1.1 24781 1i16 130 1.22e-14 1i16 b.36.1.2 24787 1qauA 112 1.55e-14 1qauA b.36.1.1 24779 1mfgA 95 1.74e-14 b.36.1.1 79043 1nf3C 128 2.24e-14 b.36.1.1 85596 1wf7A 103 2.68e-14 1n99A 166 7.01e-14 b.36.1.1,b.36.1.1 85459,85460 1v5lA 103 3.15e-13 b.36.1.1 108378 2f5yA 91 1.06e-12 1m5zA 91 1.76e-12 b.36.1.1 78676 1nteA 82 4.71e-12 b.36.1.1 86163 1r6jA 82 4.71e-12 b.36.1.1 97151 1fc6A 388 1.32e-10 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 3.70e-07 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 5.50e-07 1ky9B 448 4.70e-05 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 1y8tA 324 1.28e-04 1sotA 320 2.04e-03 b.36.1.4,b.47.1.1 105852,105853 1zn8A 180 1.19e-02 1ky9A 448 3.27e-02 b.36.1.4,b.47.1.1 73198,73199 1ao0A 459 7.52e-02 1ecfB c.61.1.1,d.153.1.1 34049,41816 1db3A 372 3.90e-01 1db3A c.2.1.2 29813 1gph1 465 5.66e-01 1ecfB 1qb7A 236 5.91e-01 1qb7A c.61.1.1 34087 1g2qA 187 7.05e-01 c.61.1.1 65117 1fxlA 167 8.64e-01 1b7fA d.58.7.1,d.58.7.1 39183,39184 2bh8A 101 1.00e+00 1yg9A 330 1.37e+00 1x3mA 415 1.37e+00 1opr 213 1.41e+00 1opr c.61.1.1 34091 2g8oA 264 1.75e+00 1evfA 264 1.85e+00 1bkpA d.117.1.1 40932 1axwA 265 1.85e+00 1bkpA d.117.1.1 40938 2g8mA 264 1.86e+00 1qqqA 264 1.88e+00 1bkpA d.117.1.1 40931 1t6t1 118 1.89e+00 1tys 265 2.00e+00 1bkpA d.117.1.1 40937 1zm8A 259 2.11e+00 1aiqA 264 2.41e+00 1bkpA d.117.1.1 40967 1vpqA 273 3.21e+00 1cliA 345 3.24e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1fxrA 64 3.32e+00 1fxd d.58.1.4 38993 1dfd 64 3.93e+00 1fxd d.58.1.4 38995 2tscA 264 4.40e+00 1bkpA d.117.1.1 40952 1bx4A 345 4.85e+00 1bx4A c.72.1.1 34935 1dax 64 5.94e+00 1fxd d.58.1.4 38996 1fwkA 296 6.13e+00 1fwkA d.14.1.5,d.58.26.1 37576,39398 1oroA 213 6.60e+00 1opr c.61.1.1 34093 1eb0A 147 7.10e+00 b.107.1.1,d.58.38.1 64890,64891 1jalA 363 7.95e+00 c.37.1.8,d.15.10.2 84138,84139 1kcbA 340 8.15e+00 b.6.1.3,b.6.1.3 90951,90952 1d8cA 723 8.77e+00 1d8cA c.1.13.1 29325 1x65A 89 8.81e+00 1mt6A 280 9.40e+00 b.76.2.1,b.85.7.1 79446,79447 1h3iA 293 9.71e+00 b.76.2.1,b.85.7.1 76635,76636 1vf7A 369 1.03e+01 f.46.1.1 108557 1w30A 201 1.07e+01 2d4pA 141 1.09e+01 1mjc 69 1.11e+01 1mjc b.40.4.5 25319 1t5eA 360 1.13e+01 f.46.1.1 106436 1p7tA 731 1.15e+01 c.1.13.1 94319 2sxl 88 1.15e+01 1b7fA d.58.7.1 39179 1ciqA 40 1.21e+01 2sniI d.40.1.1 38576 2bsyA 278 1.23e+01 1fsgA 233 1.28e+01 1qk3A c.61.1.1 34029 1tsm 316 1.29e+01 1bkpA d.117.1.1 41024 1fmaE 150 1.32e+01 1fmaE d.41.5.1 38630 1lh0A 213 1.33e+01 c.61.1.1 73896 1fa8A 135 1.35e+01 1qipA d.32.1.1 38486 1lvoA 302 1.36e+01 b.47.1.4 74284 1p9uA 302 1.38e+01 b.47.1.4 88001 2bw3A 534 1.45e+01 1y0bA 197 1.46e+01 1n6aA 259 1.47e+01 b.76.2.1,b.85.7.1 80121,80122 2adcA 229 1.49e+01 1csp 67 1.51e+01 1mjc b.40.4.5 25321 1zsyA 357 1.51e+01 1r13A 148 1.58e+01 d.169.1.1,h.1.1.1 96782,96783 1kw4A 89 1.66e+01 a.60.1.2 73077 2cc0A 195 1.66e+01 1uh5A 329 1.72e+01 c.2.1.2 107840 1ecfA 504 1.73e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 2agcA 162 1.75e+01 2bw4A 340 1.75e+01 2az4A 429 1.80e+01 2pcfB 250 1.82e+01 1hcz i.4.1.1 45911 2f7fA 494 1.83e+01 1ecfB 504 1.86e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 2c9wA 169 1.92e+01 1cis 66 1.94e+01 2sniI k.1.1.1 46375 1uc2A 481 1.97e+01 d.261.1.1 99161 1c9oA 66 1.98e+01 1mjc b.40.4.5 25325 1koe 172 2.01e+01 1koe d.169.1.5 42448 1p2fA 220 2.09e+01 a.4.6.1,c.23.1.1 87720,87721 1coaI 64 2.09e+01 2sniI d.40.1.1 38574 1hcz 252 2.10e+01 1hcz b.2.6.1,b.84.2.2 22464,28250 1t3qB 788 2.14e+01 d.41.1.1,d.133.1.1 106369,106370 1p99A 295 2.16e+01 c.94.1.1 94384 1nif 340 2.19e+01 1nif b.6.1.3,b.6.1.3 23048,23049 1l6zA 216 2.21e+01 b.1.1.1,b.1.1.4 77770,77771 1sw5A 275 2.21e+01 c.94.1.1 106069 1b7fA 168 2.27e+01 1b7fA d.58.7.1,d.58.7.1 39169,39170 1l5aA 436 2.33e+01 c.43.1.2,c.43.1.2 75923,75924 1l1qA 186 2.38e+01 c.61.1.1 77653 1vkmA 297 2.48e+01 c.138.1.1 108670 1xv5A 401 2.50e+01 1w78A 422 2.53e+01 1gjjA 168 2.54e+01 a.140.1.1,a.140.1.1 83291,83292 1jnyA 435 2.72e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1u9yA 284 2.75e+01 1i52A 236 2.78e+01 1i52A c.68.1.13 61767 1earA 147 2.79e+01 b.107.1.1,d.58.38.1 64875,64876 1fm0E 150 2.82e+01 1fmaE d.41.5.1 38629 1o57A 291 2.82e+01 a.4.5.40,c.61.1.1 92483,92484 1as6A 343 2.85e+01 1nif b.6.1.3,b.6.1.3 23090,23091 1g57A 217 2.89e+01 1g57A d.115.1.2 60253 1glaF 168 2.92e+01 1gpr b.84.3.1 28274 1h72C 296 2.92e+01 d.14.1.5,d.58.26.1 60712,60713 2ampA 304 2.96e+01 1fr3A 67 3.02e+01 1fr3A b.40.6.1 25436 3sxlA 184 3.05e+01 1b7fA d.58.7.1,d.58.7.1 39173,39174 1q1rA 431 3.05e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1as8A 343 3.10e+01 1nif b.6.1.3,b.6.1.3 23074,23075 1vheA 373 3.14e+01 b.49.3.1,c.56.5.4 100669,100670 1vj0A 380 3.17e+01 b.35.1.2,c.2.1.1 100786,100787 1f76A 336 3.23e+01 c.1.4.1 76160 1y7mA 164 3.23e+01 1js8A 394 3.23e+01 a.86.1.1,b.112.1.1 67219,67220 1iyu 79 3.24e+01 1iyu b.84.1.1 28227 2fvgA 340 3.25e+01 1xdnA 277 3.37e+01 1mwrA 646 3.43e+01 d.17.4.5,d.175.1.1,e.3.1.1 79586,79587,79588 1mq7A 154 3.43e+01 b.85.4.1 79404 1mngA 203 3.48e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1st0A 337 3.48e+01 d.13.1.3,d.246.1.1 98979,98980 1vdmA 153 3.49e+01 1aurA 218 3.54e+01 1auoA c.69.1.14 34718 1auoA 218 3.61e+01 1auoA c.69.1.14 34716 1o63A 219 3.63e+01 c.94.1.1 92540 1et7A 341 3.70e+01 1nif b.6.1.3,b.6.1.3 23070,23071 1sixA 174 3.85e+01 b.85.4.1 98892 1ah1 129 3.86e+01 1ah1 b.1.1.1 20652 1lw6I 64 3.88e+01 d.40.1.1 74294 2f69A 261 3.89e+01 1vqqA 646 3.91e+01 1ueoA 63 3.92e+01 j.107.1.1 99269 1hvyA 288 4.00e+01 1bkpA d.117.1.1 41049 1p7gA 222 4.01e+01 a.2.11.1,d.44.1.1 94223,94224 1to2I 64 4.04e+01 1rutX 188 4.11e+01 1qk4A 233 4.19e+01 1qk3A c.61.1.1 34037 1vraB 215 4.23e+01 1xx6A 191 4.30e+01 1f9zA 135 4.32e+01 1qipA d.32.1.1 38484 2c5qA 240 4.39e+01 1fdr 248 4.48e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1iezA 217 4.52e+01 d.115.1.2 66129 1a97A 148 4.58e+01 1nulA c.61.1.1 34023 1vchA 175 4.68e+01 1h3gA 601 4.71e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1zkpA 268 4.73e+01 1d7oA 297 4.78e+01 1enp c.2.1.2 29907 1shwA 138 4.79e+01 b.6.1.5 105562 1ad3A 452 4.79e+01 1ad3A c.82.1.1 35335 1fl0A 171 4.95e+01 1eujA b.40.4.4 25315 1uthA 315 4.95e+01 c.94.1.1 108032 2b4aA 138 4.99e+01 2ahqA 76 4.99e+01 1ti6A 875 5.01e+01 b.52.2.2,c.81.1.1 106974,106975 1a04A 215 5.05e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1llnA 262 5.11e+01 d.165.1.1 84625 1avaC 181 5.15e+01 1avaC b.42.4.1 25604 2cyjA 118 5.20e+01 1ep3B 262 5.26e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1viuA 203 5.28e+01 d.113.1.1 100771 1vc3B 97 5.33e+01 1vzoA 355 5.42e+01 d.144.1.7 108971 1i6pA 220 5.44e+01 1ddzA c.53.2.1 61848 1zq9A 285 5.50e+01 1lnh 857 5.52e+01 1yge a.119.1.1,b.12.1.1 19237,23637 1xebA 150 5.62e+01 1nwaA 203 5.74e+01 d.58.28.1 86295 1qk3A 233 5.90e+01 1qk3A c.61.1.1 34031 1cq3A 233 5.95e+01 1cq3A b.27.1.1 23923 1l0bA 229 6.02e+01 c.15.1.3,c.15.1.3 73391,73392 1mkmA 249 6.08e+01 a.4.5.33,d.110.2.2 79242,79243 3mefA 69 6.18e+01 1mjc b.40.4.5 25320 1eno 312 6.22e+01 1enp c.2.1.2 29905 1iscA 192 6.24e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1shxA 138 6.24e+01 1isaA 192 6.25e+01 1avmA a.2.11.1,d.44.1.1 15731,38724 1yioA 208 6.27e+01 1f3z 161 6.36e+01 1gpr b.84.3.1 28273 1y5eA 169 6.68e+01 1lghB 45 6.70e+01 1lghB f.3.1.1 43734 1oi7A 288 6.87e+01 c.2.1.8,c.23.4.1 87049,87050 1b7aA 186 6.88e+01 1a44 b.17.1.1 23705 1jzxK 205 6.92e+01 i.1.1.2 67885 1enp 312 7.05e+01 1enp c.2.1.2 29906 1mwsA 646 7.11e+01 d.17.4.5,d.175.1.1,e.3.1.1 79592,79593,79594 1wlsA 328 7.12e+01 1g8sA 230 7.13e+01 c.66.1.3 90507 1xhfA 123 7.14e+01 2bb3A 221 7.23e+01 1ppfE 218 7.34e+01 1a7s b.47.1.2 26234 1poiA 317 7.34e+01 1poiA c.124.1.2 34153 1rl2A 137 7.37e+01 1rl2A b.34.5.3,b.40.4.5 24610,25342 1uzcA 71 7.43e+01 a.159.2.1 100222 1ggrA 168 7.47e+01 1gpr b.84.3.1 28279 1b0fA 218 7.53e+01 1a7s b.47.1.2 26237 1jv2B 692 7.61e+01 b.1.15.1,c.62.1.1,d.200.1.1,g.3.11.6,g.3.11.6 67338,67339,67340,67341,67342 1gv3A 248 7.62e+01 a.2.11.1,d.44.1.1 70585,70586 1axiA 191 7.65e+01 1huw a.26.1.1 16832 2b8tA 223 7.81e+01 1r62A 160 7.83e+01 d.122.1.3 104816 1q52A 314 7.85e+01 c.14.1.3 95846 1v61A 132 7.88e+01 b.55.1.1 108389 1ugmA 125 7.97e+01 d.15.1.3 107827 1vcaA 202 7.98e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1ialA 453 8.06e+01 1bk5A a.118.1.1 19116 1bfi 112 8.06e+01 1qadA d.93.1.1 40499 2bs3A 656 8.12e+01 1at0 145 8.12e+01 1at0 b.86.1.1 28374 1qlaA 656 8.14e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1ksr 100 8.17e+01 1qfhA b.1.18.10 21897 1j9qA 341 8.22e+01 1nif b.6.1.3,b.6.1.3 62765,62766 1rurH 218 8.40e+01 b.1.1.1,b.1.1.2 97879,97880 1iiyA 101 8.47e+01 b.89.1.1 66152 1ni4A 365 8.50e+01 c.36.1.11 85728 1a44 185 8.53e+01 1a44 b.17.1.1 23704 1ypvA 313 8.63e+01 1xtmA 175 8.67e+01 1l7bA 92 8.69e+01 c.15.1.2 91053 1rwrA 301 8.69e+01 b.80.1.11 97990 1r4aA 165 8.77e+01 c.37.1.8 96986 1xmrA 243 8.78e+01 1h05A 146 8.80e+01 c.23.13.1 76433 1a62 130 8.89e+01 1a62 a.140.3.1,b.40.4.5 64708,64709