# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1m6yA 301 3.60e-45 a.60.13.1 78716 c.66.1.23 78717 1l3iA 192 1.09e-05 c.66.1.22 77676 1sqgA 429 1.17e-05 1uwvA 433 1.37e-04 unknown_sccs -3950 unknown_sccs -8107 1ixkA 315 1.55e-04 unknown_sccs -8099 1o54A 277 7.24e-04 c.66.1.13 -8095 1d2gA 292 1.53e-03 1xvaA c.66.1.5 34187 1i9gA 280 1.82e-03 c.66.1.13 62090 1xvaA 292 2.40e-03 1xvaA c.66.1.5 34183 1h1dA 221 4.09e-03 c.66.1.1 83452 1vid 221 4.44e-03 1vid c.66.1.1 34178 1bhjA 292 8.44e-03 1xvaA c.66.1.5 34189 1hnnA 282 1.20e-02 c.66.1.15 65895 1qyrA 252 1.49e-02 1qamA 244 3.39e-02 2ercA c.66.1.24 34220 1inlA 296 3.50e-02 c.66.1.17 66220 1g6q2 328 4.63e-02 1g6q2 1qzzA 374 5.83e-02 a.4.5.29 -277 c.66.1.12 -8045 1hmy 327 6.67e-02 6mhtA c.66.1.26 34229 1jq3A 296 7.30e-02 c.66.1.17 67079 1ufkA 254 7.42e-02 unknown_sccs -8103 1l1eA 287 7.66e-02 c.66.1.18 73454 1nv8A 284 7.82e-02 c.66.1.30 86224 1dl5A 317 9.77e-02 1dl5A c.66.1.7 64720 d.197.1.1 64721 1f3lA 321 1.01e-01 1g6q2 c.66.1.6 59630 2ercA 244 1.10e-01 2ercA c.66.1.24 34224 3mhtA 327 1.12e-01 6mhtA c.66.1.26 34234 1dusA 194 1.21e-01 1dusA c.66.1.4 34182 1ej0A 180 1.24e-01 1ej0A c.66.1.2 34179 1pjbA 361 1.26e-01 1sayA c.2.1.4 30103 c.23.12.2 31363 1sayA 361 1.64e-01 1sayA c.2.1.4 30102 c.23.12.2 31362 1fpqA 372 1.73e-01 1fpqA a.4.5.29 59947 c.66.1.12 59948 1ne2A 200 1.78e-01 c.66.1.32 85586 1fjxA 327 1.88e-01 6mhtA c.66.1.26 34228 1g60A 260 2.00e-01 c.66.1.11 70151 1fp1D 372 2.02e-01 1fpqA a.4.5.29 59939 c.66.1.12 59940 1h2bA 359 2.07e-01 b.35.1.2 -3679 c.2.1.1 -5703 1khhA 198 2.11e-01 c.66.1.16 68615 1p1cA 199 2.16e-01 c.66.1.16 87669 1kpgA 287 2.31e-01 c.66.1.18 68735 1pjcA 361 2.82e-01 1sayA c.2.1.4 30101 c.23.12.2 31361 1bdb 277 2.88e-01 1bdb c.2.1.2 29874 1kp9B 287 4.16e-01 c.66.1.18 68734 6mhtA 327 4.33e-01 6mhtA c.66.1.26 34226 1bg6 359 4.70e-01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1ee2A 373 4.72e-01 2ohxA b.35.1.2 24663 c.2.1.1 29679 1n8kA 374 5.04e-01 b.35.1.2 80298 c.2.1.1 80299 1hetA 374 5.26e-01 2ohxA b.35.1.2 60975 c.2.1.1 60976 2reb 352 5.82e-01 2reb c.37.1.11 32282 d.48.1.1 38767 1heuA 374 5.84e-01 2ohxA b.35.1.2 60979 c.2.1.1 60980 1jg1A 235 6.16e-01 c.66.1.7 66661 8adh 374 6.27e-01 2ohxA b.35.1.2 24690 c.2.1.1 29706 1agnA 373 6.71e-01 2ohxA b.35.1.2 24737 c.2.1.1 29753 1mjfA 281 8.08e-01 c.66.1.17 79198 2admA 421 8.13e-01 2admA c.66.1.27 34238 1aqjA 421 9.24e-01 2admA c.66.1.27 34242 1g38A 393 9.27e-01 2admA c.66.1.27 60235 1g8aA 227 9.50e-01 c.66.1.3 -8049 2ohxA 374 1.06e+00 2ohxA b.35.1.2 24669 c.2.1.1 29685 1jvbA 347 1.10e+00 b.35.1.2 77181 c.2.1.1 77182 1pedA 351 1.36e+00 1pedA b.35.1.2 24753 c.2.1.1 29769 1nriA 306 1.40e+00 c.80.1.3 86123 1uirA 314 1.45e+00 c.66.1.17 -8114 1jqbA 351 1.55e+00 b.35.1.2 77151 c.2.1.1 77152 1kr5A 226 1.64e+00 c.66.1.7 68847 1i1nA 226 1.66e+00 c.66.1.7 71102 1o9gA 250 1.71e+00 c.66.1.29 86692 2hsdA 253 1.73e+00 1e6wA c.2.1.2 29866 1kevA 351 1.91e+00 1pedA b.35.1.2 24749 c.2.1.1 29765 1f8fA 371 1.98e+00 b.35.1.2 83246 c.2.1.1 83247 1im8A 244 1.99e+00 c.66.1.14 66212 1fpxA 352 2.21e+00 1fpxA a.4.5.29 59950 c.66.1.12 59951 1ri5A 298 2.28e+00 unknown_sccs -8063 1fp2A 352 2.44e+00 1fpxA a.4.5.29 59941 c.66.1.12 59942 1p27B 106 2.45e+00 d.58.7.1 -10020 1v3vA 333 3.51e+00 1st9A 143 3.64e+00 c.47.1.10 -7503 1srrA 124 3.87e+00 1dz3A c.23.1.1 31110 1nw3A 416 3.88e+00 c.66.1.31 86288 1hdcA 253 3.93e+00 1e6wA c.2.1.2 29862 1h6gA 256 4.23e+00 1h6gA a.24.9.1 60669 a.24.9.1 60670 1qzgA 187 4.47e+00 b.40.4.3 -3920 1q7zA 566 4.64e+00 c.1.21.2 -5638 c.1.26.1 -5666 2vsgA 358 4.67e+00 2vsgA h.4.1.1 45780 1ubeA 349 4.67e+00 c.37.1.11 88412 d.48.1.1 88413 1adjA 421 5.03e+00 1adjA c.51.1.1 33188 d.104.1.1 40737 1g19A 350 5.11e+00 2reb c.37.1.11 32284 d.48.1.1 38770 1jsxA 207 5.28e+00 c.66.1.20 71846 1a7j 290 5.43e+00 1a7j c.37.1.6 31952 1nzhA 282 5.48e+00 d.151.1.2 -11398 1hl6A 165 5.58e+00 d.58.7.1 83609 1lssA 140 5.96e+00 c.2.1.9 74246 1aa3 63 6.06e+00 2reb d.48.1.1 38769 1r1dA 247 6.25e+00 unknown_sccs -8335 2fsp 124 6.32e+00 1dz3A c.23.1.1 31119 2occE 109 6.62e+00 2occE a.118.11.1 19224 1ih7A 903 6.71e+00 1clqA c.55.3.5 62375 e.8.1.1 62376 1ntfA 282 6.85e+00 d.151.1.2 -11397 1ox0A 430 6.93e+00 c.95.1.1 87495 c.95.1.1 87496 1qmpA 130 7.02e+00 1dz3A c.23.1.1 31106 1eg2A 319 7.06e+00 1eg2A c.66.1.11 34249 1dctA 324 7.07e+00 6mhtA c.66.1.26 34244 1q6cA 495 7.11e+00 c.1.8.1 -5300 1nw8A 319 7.14e+00 c.66.1.11 86292 1p99A 295 7.32e+00 c.94.1.1 -8697 1iz0A 302 7.77e+00 b.35.1.2 83821 c.2.1.1 83822 1sknP 92 7.85e+00 1sknP a.37.1.1 17127 1j3vA 289 8.09e+00 a.100.1.1 -1303 c.2.1.6 -5947 1agi 125 8.30e+00 7rsa d.5.1.1 37303 1l3kA 196 8.35e+00 d.58.7.1 73539 d.58.7.1 73540 1rk8A 165 8.50e+00 d.58.7.1 -10018 1teaA 299 8.55e+00 1v3hA 495 8.65e+00 1ko6A 187 8.67e+00 b.119.1.1 77471 1fxlA 167 8.98e+00 1b7fA d.58.7.1 39183 d.58.7.1 39184 1g5bA 221 9.05e+00 1g5bA d.159.1.3 60261 1dmhA 311 9.67e+00 1dmhA b.3.6.1 22633 1exrA 148 9.71e+00 1cll a.39.1.5 17299 1v54E 109 9.78e+00 a.118.11.1 -1652 1tk9A 188 9.81e+00 1h4vB 421 1.02e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1byb 495 1.06e+01 1byb c.1.8.1 28790 3fisA 98 1.07e+01 1fipA unknown_sccs 18994 1f1eA 154 1.10e+01 a.22.1.2 64927 1c7nA 399 1.11e+01 1d2fA c.67.1.3 34413 1b65A 375 1.22e+01 1b65A d.154.1.1 42020 1rec 201 1.23e+01 1rec a.39.1.5 17326 1lm8B 118 1.23e+01 d.15.1.1 74033 1lsuA 147 1.26e+01 c.2.1.9 74250 1e3oC 160 1.26e+01 1au7A a.4.1.1 59197 a.35.1.1 59198 1bn6A 294 1.27e+01 1bn6A c.69.1.8 34678 1e85A 127 1.30e+01 1bbhA a.24.3.2 16549 1m2oA 768 1.34e+01 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1axdA 209 1.35e+01 1gnwA a.45.1.1 17730 c.47.1.5 33024 1fb6A 105 1.40e+01 1thx c.47.1.1 32739 3cln 148 1.44e+01 1cll a.39.1.5 17286 1pk9A 237 1.48e+01 c.56.2.1 -7734 1db3A 372 1.52e+01 1db3A c.2.1.2 29813 1qkkA 155 1.53e+01 1dbwA c.23.1.1 31104 1qxyA 252 1.53e+01 d.127.1.1 -10993 1l5zA 155 1.54e+01 c.23.1.1 77722 1jfuA 186 1.56e+01 c.47.1.10 62940 1l6wA 220 1.56e+01 c.1.10.1 73632 1o0sA 605 1.57e+01 c.2.1.7 86540 c.58.1.3 86541 1osa 148 1.58e+01 1cll a.39.1.5 17300 1eqfA 280 1.60e+01 1eqfA a.29.2.1 16972 a.29.2.1 16973 1hslA 238 1.60e+01 1lst c.94.1.1 35804 1gjjA 168 1.63e+01 a.140.1.1 83291 a.140.1.1 83292 1etxA 98 1.63e+01 1fipA unknown_sccs 18978 2lbp 346 1.66e+01 2liv c.93.1.1 35709 1usgA 346 1.66e+01 c.93.1.1 -8635 1jadA 251 1.68e+01 h.4.10.1 66461 1bmtA 246 1.70e+01 1bmtA a.46.1.1 17757 c.23.6.1 31235 1lst 239 1.80e+01 1lst c.94.1.1 35755 1cgo 127 1.91e+01 1cpq a.24.3.2 16550 1hta 69 1.92e+01 1a7w a.22.1.2 16476 1vduA 172 1.93e+01 unknown_sccs -1651 1svy 114 1.94e+01 1svy d.109.1.1 40831 1c75A 71 1.95e+01 451c a.3.1.1 15796 1se9A 126 1.96e+01 d.15.1.1 -9145 1a04A 215 2.02e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1qsgA 265 2.06e+01 1eny c.2.1.2 29935 1s4bP 674 2.08e+01 1pueE 89 2.09e+01 1awcA a.4.5.21 16165 1mgtA 174 2.12e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1d2fA 390 2.14e+01 1d2fA c.67.1.3 34411 1v7oA 165 2.15e+01 unknown_sccs -10249 1lkdA 297 2.16e+01 d.32.1.3 78059 d.32.1.3 78060 1cll 148 2.17e+01 1cll a.39.1.5 17263 1bn7A 294 2.17e+01 1bn6A c.69.1.8 34677 1kagA 173 2.18e+01 c.37.1.2 72249 1lgtA 297 2.20e+01 d.32.1.3 77956 d.32.1.3 77957 1c14A 262 2.20e+01 1eny c.2.1.2 29927 1gio 125 2.34e+01 7rsa d.5.1.1 37304 1qg6A 261 2.38e+01 1eny c.2.1.2 29919 1ngvA 534 2.38e+01 c.111.1.2 85698 1cqwA 295 2.39e+01 1b6g c.69.1.8 34679 1fjgB 256 2.39e+01 1fjfB c.23.15.1 31400 8fabA 212 2.42e+01 8fabA b.1.1.1 19772 b.1.1.2 20882 1han 297 2.48e+01 1han d.32.1.3 38506 d.32.1.3 38507 1jfkA 134 2.57e+01 a.39.1.5 66639 1h9fA 57 2.64e+01 1h9fA a.140.1.1 60826 1ooeA 236 2.66e+01 c.2.1.2 87196 1qntA 176 2.69e+01 1sfe a.4.2.1 16074 c.55.7.1 33749 1d2eA 397 2.70e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1ofdA 1520 2.71e+01 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1vcbA 118 2.78e+01 1vcbA d.15.1.1 37603 1b9gA 57 2.79e+01 2gf1 g.1.1.1 43991 1br1B 150 2.79e+01 1wdcC a.39.1.5 17309 1o4vA 183 2.88e+01 c.23.8.1 86628 1fipA 98 2.94e+01 1fipA unknown_sccs 18980 1gvdA 52 2.97e+01 a.4.1.3 83338 1b8zA 90 2.98e+01 1huuA a.55.1.1 17902 1k04A 162 3.00e+01 a.24.14.1 67904 1k8tA 510 3.08e+01 e.41.1.1 68316 1ly1A 181 3.08e+01 c.37.1.1 74334 1ihcA 188 3.08e+01 1di6A c.57.1.1 62379 1d1gA 168 3.15e+01 1d1gA c.71.1.1 34889 1r53A 382 3.17e+01 unknown_sccs -11177 1ha1 184 3.17e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1erw 105 3.24e+01 1erv c.47.1.1 32745 1ass 159 3.28e+01 1a6dA c.8.5.2 30818 1q0sA 259 3.35e+01 c.66.1.28 -8110 1qrqA 325 3.37e+01 1qrqA c.1.7.1 28667 1fc4A 401 3.37e+01 1bs0A c.67.1.4 59760 1gc5A 467 3.38e+01 1gc5A c.72.1.3 60429 1pnsB 234 3.46e+01 i.1.1.1 88169 1fbnA 230 3.49e+01 1fbnA c.66.1.3 34181 1g8sA 230 3.51e+01 c.66.1.3 -8047 1fjhA 257 3.51e+01 1fjhB c.2.1.2 29870 1llnA 262 3.56e+01 d.165.1.1 84625 1b2pA 119 3.56e+01 1b2pA b.78.1.1 27998 1gegA 256 3.57e+01 1ybvA c.2.1.2 29888 1keaA 221 3.60e+01 a.96.1.2 68491 2nmbA 160 3.68e+01 2nmbA b.55.1.2 26994 1ad3A 452 3.69e+01 1ad3A c.82.1.1 35335 1asx 159 3.69e+01 1a6dA c.8.5.2 30821 1mw7A 240 3.72e+01 e.39.1.1 79557 1j5eB 256 3.78e+01 c.23.15.1 71543 1rzfL 213 3.81e+01 b.1.1.1 -2147 b.1.1.2 -2438 1lrzA 426 3.81e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1f3aA 222 3.87e+01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1i5pA 633 3.90e+01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 2dvh 79 3.93e+01 1c53 a.3.1.1 15803 1qcrA 446 3.96e+01 1be3A d.185.1.1 59025 d.185.1.1 59026