# 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 6.02e-18 2fneA 117 1.81e-17 2fcfA 103 3.32e-17 1be9A 119 5.21e-17 1pdr b.36.1.1 24774 1tp5A 119 5.26e-17 1bfeA 119 6.39e-17 1pdr b.36.1.1 24775 1g9oA 91 1.38e-16 1pdr b.36.1.1 60400 1pdr 99 1.38e-16 1pdr b.36.1.1 24771 1i92A 91 6.63e-16 1pdr b.36.1.1 61990 1q3oA 109 6.91e-16 b.36.1.1 95700 1qavA 90 8.02e-16 1qauA b.36.1.1 24777 1n7eA 97 8.37e-16 b.36.1.1 91691 1n7fA 97 9.25e-16 b.36.1.1 91692 2h2bA 107 4.51e-15 2f0aA 98 5.96e-15 1l6oA 95 7.86e-15 b.36.1.1 84534 1i16 130 8.60e-15 1i16 b.36.1.2 24787 1ihjA 98 1.02e-14 1pdr b.36.1.1 62382 1qavB 115 1.20e-14 1qauA b.36.1.1 24780 1qauA 112 2.79e-14 1qauA b.36.1.1 24779 1b8qA 127 3.14e-14 1qauA b.36.1.1 24781 1wf7A 103 4.17e-14 2h3lA 103 5.06e-14 1mfgA 95 5.84e-14 b.36.1.1 79043 1kwaB 88 8.00e-14 1kwaA b.36.1.1 24773 1kwaA 88 1.04e-13 1kwaA b.36.1.1 24772 1n99A 166 3.01e-13 b.36.1.1,b.36.1.1 85459,85460 1nf3C 128 4.23e-13 b.36.1.1 85596 1v5lA 103 1.59e-12 b.36.1.1 108378 2f5yA 91 5.60e-12 1m5zA 91 1.91e-11 b.36.1.1 78676 1nteA 82 2.08e-10 b.36.1.1 86163 1r6jA 82 2.08e-10 b.36.1.1 97151 1fc6A 388 5.24e-10 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 3.02e-07 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 5.79e-06 1ky9B 448 1.08e-04 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 1y8tA 324 2.35e-04 1sotA 320 2.09e-03 b.36.1.4,b.47.1.1 105852,105853 1ao0A 459 3.05e-02 1ecfB c.61.1.1,d.153.1.1 34049,41816 1zn8A 180 3.69e-02 1ky9A 448 7.13e-02 b.36.1.4,b.47.1.1 73198,73199 1gph1 465 3.16e-01 1ecfB 1x3mA 415 4.08e-01 1qb7A 236 5.76e-01 1qb7A c.61.1.1 34087 1db3A 372 8.68e-01 1db3A c.2.1.2 29813 1mwrA 646 1.81e+00 d.17.4.5,d.175.1.1,e.3.1.1 79586,79587,79588 1vqqA 646 1.83e+00 1yg9A 330 2.31e+00 2bh8A 101 2.51e+00 1t6t1 118 2.84e+00 1bx4A 345 3.02e+00 1bx4A c.72.1.1 34935 1zm8A 259 3.32e+00 1o57A 291 3.49e+00 a.4.5.40,c.61.1.1 92483,92484 1mwsA 646 3.75e+00 d.17.4.5,d.175.1.1,e.3.1.1 79592,79593,79594 1fwkA 296 3.89e+00 1fwkA d.14.1.5,d.58.26.1 37576,39398 1eb0A 147 3.93e+00 b.107.1.1,d.58.38.1 64890,64891 2g8oA 264 5.05e+00 1evfA 264 5.17e+00 1bkpA d.117.1.1 40932 1tys 265 5.23e+00 1bkpA d.117.1.1 40937 1axwA 265 5.26e+00 1bkpA d.117.1.1 40938 2g8mA 264 5.28e+00 1qqqA 264 5.29e+00 1bkpA d.117.1.1 40931 1g2qA 187 6.18e+00 c.61.1.1 65117 1ecfB 504 6.51e+00 1ecfB c.61.1.1,d.153.1.1 34054,41821 1fxlA 167 6.68e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 1jalA 363 6.72e+00 c.37.1.8,d.15.10.2 84138,84139 1ecfA 504 7.10e+00 1ecfB c.61.1.1,d.153.1.1 34053,41820 1aiqA 264 8.45e+00 1bkpA d.117.1.1 40967 1fxrA 64 8.83e+00 1fxd d.58.1.4 38993 2tscA 264 9.15e+00 1bkpA d.117.1.1 40952 1h3iA 293 9.29e+00 b.76.2.1,b.85.7.1 76635,76636 1cliA 345 9.40e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1earA 147 1.01e+01 b.107.1.1,d.58.38.1 64875,64876 2f69A 261 1.01e+01 1dfd 64 1.02e+01 1fxd d.58.1.4 38995 1kcbA 340 1.05e+01 b.6.1.3,b.6.1.3 90951,90952 1vpqA 273 1.09e+01 1mt6A 280 1.11e+01 b.76.2.1,b.85.7.1 79446,79447 2gwnA 452 1.22e+01 1to2I 64 1.26e+01 1w30A 201 1.28e+01 1opr 213 1.39e+01 1opr c.61.1.1 34091 2bw4A 340 1.45e+01 2d4pA 141 1.47e+01 1coaI 64 1.49e+01 2sniI d.40.1.1 38574 1y0bA 197 1.51e+01 1uc2A 481 1.55e+01 d.261.1.1 99161 1dax 64 1.55e+01 1fxd d.58.1.4 38996 2sxl 88 1.55e+01 1b7fA d.58.7.1 39179 1vheA 373 1.56e+01 b.49.3.1,c.56.5.4 100669,100670 1d8cA 723 1.57e+01 1d8cA c.1.13.1 29325 1lw6I 64 1.58e+01 d.40.1.1 74294 2pcfB 250 1.60e+01 1hcz i.4.1.1 45911 1t3qB 788 1.64e+01 d.41.1.1,d.133.1.1 106369,106370 1h72C 296 1.66e+01 d.14.1.5,d.58.26.1 60712,60713 1uh5A 329 1.73e+01 c.2.1.2 107840 1jnyA 435 1.79e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2b4aA 138 1.82e+01 2fvgA 340 1.82e+01 1tsm 316 1.82e+01 1bkpA d.117.1.1 41024 1yy6A 155 1.89e+01 2fojA 155 1.89e+01 1p7tA 731 1.90e+01 c.1.13.1 94319 1ueoA 63 1.95e+01 j.107.1.1 99269 1g7tA 594 1.97e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25714,25715,31033,32148 1fsgA 233 1.97e+01 1qk3A c.61.1.1 34029 1g57A 217 2.05e+01 1g57A d.115.1.2 60253 1g7rA 594 2.14e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25716,25717,31034,32149 1ciqA 40 2.16e+01 2sniI d.40.1.1 38576 1u9yA 284 2.19e+01 1hcz 252 2.32e+01 1hcz b.2.6.1,b.84.2.2 22464,28250 2bsyA 278 2.33e+01 1zsyA 357 2.39e+01 1iezA 217 2.60e+01 d.115.1.2 66129 1g7sA 594 2.66e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1oroA 213 2.79e+01 1opr c.61.1.1 34093 2cc0A 195 2.82e+01 1glaF 168 2.84e+01 1gpr b.84.3.1 28274 1fr3A 67 2.85e+01 1fr3A b.40.6.1 25436 1nif 340 2.86e+01 1nif b.6.1.3,b.6.1.3 23048,23049 1fmaE 150 2.87e+01 1fmaE d.41.5.1 38630 2sniI 83 2.91e+01 2sniI d.40.1.1 38573 1avaC 181 2.94e+01 1avaC b.42.4.1 25604 1mkmA 249 2.97e+01 a.4.5.33,d.110.2.2 79242,79243 1n6aA 259 3.00e+01 b.76.2.1,b.85.7.1 80121,80122 1w78A 422 3.03e+01 1gjjA 168 3.04e+01 a.140.1.1,a.140.1.1 83291,83292 2ckiA 262 3.15e+01 1x65A 89 3.21e+01 2bw3A 534 3.24e+01 1st0A 337 3.26e+01 d.13.1.3,d.246.1.1 98979,98980 1kw4A 89 3.26e+01 a.60.1.2 73077 1vj0A 380 3.38e+01 b.35.1.2,c.2.1.1 100786,100787 1xv5A 401 3.40e+01 1p99A 295 3.54e+01 c.94.1.1 94384 1xx6A 191 3.55e+01 2c9wA 169 3.73e+01 1cis 66 3.82e+01 2sniI k.1.1.1 46375 1vkmA 297 3.99e+01 c.138.1.1 108670 1l1qA 186 4.01e+01 c.61.1.1 77653 1r13A 148 4.08e+01 d.169.1.1,h.1.1.1 96782,96783 1xdnA 277 4.10e+01 1py5A 326 4.16e+01 d.144.1.7 104389 2abwA 227 4.17e+01 1l6zA 216 4.31e+01 b.1.1.1,b.1.1.4 77770,77771 1uisA 231 4.31e+01 d.22.1.1 99431 1uheA 97 4.35e+01 2fa1A 160 4.38e+01 1lvoA 302 4.47e+01 b.47.1.4 74284 2f7fA 494 4.48e+01 1et7A 341 4.50e+01 1nif b.6.1.3,b.6.1.3 23070,23071 1p2fA 220 4.58e+01 a.4.6.1,c.23.1.1 87720,87721 1ijgA 309 4.59e+01 1fouA e.27.1.1 62493 1o63A 219 4.71e+01 c.94.1.1 92540 1y791 680 4.73e+01 1oi7A 288 4.73e+01 c.2.1.8,c.23.4.1 87049,87050 1as8A 343 4.74e+01 1nif b.6.1.3,b.6.1.3 23074,23075 2bb3A 221 4.77e+01 1zq9A 285 4.80e+01 1xv2A 237 4.82e+01 1yloA 348 4.85e+01 1sw5A 275 4.85e+01 c.94.1.1 106069 1p9uA 302 4.87e+01 b.47.1.4 88001 1fm0E 150 4.91e+01 1fmaE d.41.5.1 38629 1as6A 343 4.95e+01 1nif b.6.1.3,b.6.1.3 23090,23091 2b18A 164 4.97e+01 1whmA 92 5.02e+01 1mjc 69 5.09e+01 1mjc b.40.4.5 25319 1nwaA 203 5.11e+01 d.58.28.1 86295 1vc3B 97 5.11e+01 1tzfA 259 5.11e+01 c.68.1.13 107476 1ffkF 157 5.43e+01 1ffkF d.41.4.1 38628 1wvcA 259 5.48e+01 2bs3A 656 5.53e+01 1ksr 100 5.55e+01 1qfhA b.1.18.10 21897 1bzyA 217 5.55e+01 1qk3A c.61.1.1 34071 1qlaA 656 5.56e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1poiA 317 5.56e+01 1poiA c.124.1.2 34153 1lckA 175 5.61e+01 1lckA b.34.2.1,d.93.1.1 24552,40421 1uylA 236 5.65e+01 d.122.1.1 108147 1f3z 161 5.68e+01 1gpr b.84.3.1 28273 1vdmA 153 5.69e+01 2ahqA 76 5.76e+01 1a04A 215 5.89e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1ppfE 218 5.90e+01 1a7s b.47.1.2 26234 1v76A 96 5.95e+01 1a97A 148 5.99e+01 1nulA c.61.1.1 34023 1ti6A 875 6.00e+01 b.52.2.2,c.81.1.1 106974,106975 1lh0A 213 6.16e+01 c.61.1.1 73896 2az4A 429 6.26e+01 1b0fA 218 6.32e+01 1a7s b.47.1.2 26237 1koe 172 6.33e+01 1koe d.169.1.5 42448 3sxlA 184 6.34e+01 1b7fA d.58.7.1,d.58.7.1 39173,39174 1ag8A 499 6.40e+01 1bpwA c.82.1.1 35341 1o6uA 403 6.59e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1hvyA 288 6.65e+01 1bkpA d.117.1.1 41049 1ggrA 168 6.70e+01 1gpr b.84.3.1 28279 1aotF 106 6.73e+01 1lckA d.93.1.1 40458 1vlrA 350 6.74e+01 d.13.1.3,d.246.1.1 108860,108861 1vchA 175 6.76e+01 1zkpA 268 6.78e+01 1xfoA 357 6.83e+01 1siqA 392 6.84e+01 a.29.3.1,e.6.1.1 105585,105586 1ad3A 452 6.85e+01 1ad3A c.82.1.1 35335 1eyqA 222 6.88e+01 1eypA d.36.1.1 38534 1qk4A 233 6.89e+01 1qk3A c.61.1.1 34037 1vraB 215 6.92e+01 2f1wA 158 7.19e+01 1se8A 301 7.21e+01 b.40.4.3 105448 2fe7A 166 7.29e+01 1i52A 236 7.42e+01 1i52A c.68.1.13 61767 1olmA 403 7.43e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1yer 228 7.47e+01 1yer d.122.1.1 41101 1viuA 203 7.50e+01 d.113.1.1 100771 1wd5A 208 7.73e+01 1f6fB 210 7.75e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 1bfi 112 7.76e+01 1qadA d.93.1.1 40499 1wvhA 134 7.84e+01 2gm5A 139 7.85e+01 1gmuA 143 7.86e+01 b.107.1.1,d.58.38.1 65335,65336 1vjyA 303 7.95e+01 d.144.1.7 108633 1vhzA 198 7.96e+01 d.113.1.1 100718 1lghB 45 7.98e+01 1lghB f.3.1.1 43734 1jhfA 202 8.23e+01 a.4.5.2,b.87.1.1 63057,63058 1csp 67 8.29e+01 1mjc b.40.4.5 25321 1jmuB 666 8.36e+01 2ampA 304 8.39e+01 1ypcI 64 8.41e+01 2sniI d.40.1.1 38570 1ojhA 65 8.43e+01 a.214.1.1 103976 1y5eA 169 8.46e+01 1z1dA 103 8.53e+01 1gky 187 8.60e+01 1gky c.37.1.1 31839 1uzcA 71 8.69e+01 a.159.2.1 100222 1l0bA 229 8.76e+01 c.15.1.3,c.15.1.3 73391,73392 1a44 185 8.76e+01 1a44 b.17.1.1 23704 1dpuA 99 8.80e+01 1dpuA a.4.5.16 16150 2adcA 229 8.88e+01 1rutX 188 8.90e+01 1b7aA 186 8.96e+01 1a44 b.17.1.1 23705 1gmwA 143 8.97e+01 b.107.1.1,d.58.38.1 65347,65348