# List of top-scoring protein chains for T0268.t04-w0.5 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 4.29e-38 a.60.13.1 78716 c.66.1.23 78717 1l3iA 192 9.92e-05 c.66.1.22 77676 1ixkA 315 1.65e-04 unknown_sccs -8099 1sqgA 429 3.89e-02 1xvaA 292 8.43e-02 1xvaA c.66.1.5 34183 1d2gA 292 9.25e-02 1xvaA c.66.1.5 34187 1g6q1 328 1.04e-01 1g6q2 1uwvA 433 1.04e-01 unknown_sccs -3950 unknown_sccs -8107 1yub 245 1.11e-01 2ercA c.66.1.24 34219 1f3lA 321 1.19e-01 1g6q2 c.66.1.6 59630 1p91A 269 1.21e-01 unknown_sccs -8054 1g38A 393 1.27e-01 2admA c.66.1.27 60235 1qyrA 252 1.37e-01 1ufkA 254 1.45e-01 unknown_sccs -8103 1aqjA 421 1.48e-01 2admA c.66.1.27 34242 2admA 421 1.48e-01 2admA c.66.1.27 34238 1l9kA 305 1.91e-01 c.66.1.25 84569 1o54A 277 2.05e-01 c.66.1.13 -8095 1t43A 277 2.36e-01 1ri5A 298 4.11e-01 unknown_sccs -8063 1kpiA 302 4.43e-01 c.66.1.18 68743 1ntoA 347 4.78e-01 b.35.1.2 -3669 c.2.1.1 -5693 1i9gA 280 4.85e-01 c.66.1.13 62090 1qamA 244 5.23e-01 2ercA c.66.1.24 34220 1bdb 277 5.46e-01 1bdb c.2.1.2 29874 1jg1A 235 9.76e-01 c.66.1.7 66661 1lluA 342 1.08e+00 b.35.1.2 -3682 c.2.1.1 -5706 1dusA 194 1.15e+00 1dusA c.66.1.4 34182 1iy9A 275 1.29e+00 c.66.1.17 76943 1ne2A 200 1.50e+00 c.66.1.32 85586 1jvbA 347 1.65e+00 b.35.1.2 77181 c.2.1.1 77182 1k2yX 463 2.47e+00 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1p5dX 463 2.63e+00 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1oioA 178 2.66e+00 b.2.3.5 -2884 1ej0A 180 2.75e+00 1ej0A c.66.1.2 34179 1or8A 340 3.06e+00 c.66.1.6 -8090 1oriA 343 3.07e+00 c.66.1.6 87339 1ht0A 374 3.17e+00 2ohxA b.35.1.2 24709 c.2.1.1 29725 1orhA 353 3.29e+00 c.66.1.6 -8089 4pbgA 468 3.79e+00 1e70M c.1.8.4 28949 1a71A 374 3.99e+00 2ohxA b.35.1.2 24673 c.2.1.1 29689 1uhlA 236 3.99e+00 1axgA 374 4.05e+00 2ohxA b.35.1.2 24691 c.2.1.1 29707 1h9uA 224 4.06e+00 a.123.1.1 70923 2pbg 468 4.11e+00 1e70M c.1.8.4 28948 1pjcA 361 4.52e+00 1sayA c.2.1.4 30101 c.23.12.2 31361 1hsoA 374 4.67e+00 2ohxA b.35.1.2 24731 c.2.1.1 29747 1htbA 374 4.82e+00 2ohxA b.35.1.2 24715 c.2.1.1 29731 1hdyA 374 4.91e+00 2ohxA b.35.1.2 24723 c.2.1.1 29739 1dehA 374 4.93e+00 2ohxA b.35.1.2 24713 c.2.1.1 29729 1ej6A 1289 5.10e+00 i.7.1.1 45967 1hdzA 374 5.10e+00 2ohxA b.35.1.2 24725 c.2.1.1 29741 1q0sA 259 5.42e+00 c.66.1.28 -8110 1amoA 615 5.59e+00 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1ja1A 622 5.64e+00 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1ja0A 620 5.66e+00 1amoA b.43.4.1 62798 c.23.5.2 62799 c.25.1.4 62800 1j9zA 622 5.67e+00 1amoA b.43.4.1 62792 c.23.5.2 62793 c.25.1.4 62794 1g43A 160 5.70e+00 1nbcA b.2.2.2 22392 1d1tA 373 5.73e+00 2ohxA b.35.1.2 24719 c.2.1.1 29735 1d1sA 373 5.80e+00 2ohxA b.35.1.2 24727 c.2.1.1 29743 1pbgA 468 5.83e+00 1e70M c.1.8.4 28946 1bg6 359 6.60e+00 1bg6 a.100.1.5 18810 c.2.1.6 30214 1m3sA 186 6.98e+00 c.80.1.3 78573 1vivA 197 7.50e+00 c.80.1.3 -8528 1nv8A 284 8.80e+00 c.66.1.30 86224 1i1nA 226 8.88e+00 c.66.1.7 71102 1inlA 296 8.89e+00 c.66.1.17 66220 1fngB 224 9.13e+00 1iakB b.1.1.2 59906 d.19.1.1 59907 1ieaB 228 9.16e+00 1iakB b.1.1.2 21632 d.19.1.1 38206 1f8fA 371 9.26e+00 b.35.1.2 83246 c.2.1.1 83247 1r18A 227 9.48e+00 c.66.1.7 -8092 1uk0A 350 9.60e+00 a.41.1.1 -902 d.166.1.2 -11584 1ee2A 373 9.91e+00 2ohxA b.35.1.2 24663 c.2.1.1 29679 1fneB 224 9.96e+00 1iakB b.1.1.2 59898 d.19.1.1 59899 1ktdB 215 1.01e+01 b.1.1.2 72966 d.19.1.1 72967 1mgoA 374 1.02e+01 b.35.1.2 79094 c.2.1.1 79095 1axeA 374 1.05e+01 2ohxA b.35.1.2 24681 c.2.1.1 29697 1heuA 374 1.06e+01 2ohxA b.35.1.2 60979 c.2.1.1 60980 1b8zA 90 1.09e+01 1huuA a.55.1.1 17902 1qv6A 374 1.10e+01 b.35.1.2 -3665 c.2.1.1 -5689 1ju9A 374 1.14e+01 b.35.1.2 63293 c.2.1.1 63294 1n8kA 374 1.14e+01 b.35.1.2 80298 c.2.1.1 80299 1qe0A 420 1.19e+01 1adjA c.51.1.1 33186 d.104.1.1 40735 1svuA 327 1.25e+01 6mhtA 327 1.33e+01 6mhtA c.66.1.26 34226 1sb8A 352 1.34e+01 1qlhA 374 1.35e+01 2ohxA b.35.1.2 24685 c.2.1.1 29701 1qzzA 374 1.41e+01 a.4.5.29 -277 c.66.1.12 -8045 1g60A 260 1.46e+01 c.66.1.11 70151 1iruH 205 1.47e+01 d.153.1.4 71359 1fjxA 327 1.50e+01 6mhtA c.66.1.26 34228 2tohA 343 1.51e+01 4pah d.178.1.1 42574 1toh 343 1.52e+01 4pah d.178.1.1 42573 1kczA 413 1.53e+01 c.1.11.2 68451 d.54.1.1 68452 1d5tA 433 1.55e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1g5bA 221 1.57e+01 1g5bA d.159.1.3 60261 1b1cA 181 1.58e+01 1amoA c.23.5.2 31212 1v33A 366 1.58e+01 unknown_sccs -11384 1pnuE 177 1.58e+01 i.1.1.1 88202 1lv0A 449 1.58e+01 c.3.1.3 -6038 d.16.1.6 -9258 1t0qA 498 1.60e+01 1oen 540 1.62e+01 1ayl c.91.1.1 64750 c.109.1.1 64751 1os1A 540 1.62e+01 c.91.1.1 -8625 c.109.1.1 -8628 1ayl 541 1.62e+01 1ayl c.91.1.1 64718 c.109.1.1 64719 1nwyE 185 1.69e+01 i.1.1.2 86349 1ajkA 214 1.70e+01 1axkA b.29.1.2 24176 1gnd 447 1.73e+01 1gnd c.3.1.3 30423 d.16.1.6 37987 1li4A 432 1.74e+01 c.2.1.4 84616 c.23.12.3 84617 1nzdA 351 1.80e+01 c.87.1.1 -8573 1a7aA 432 1.82e+01 1b3rA c.2.1.4 30104 c.23.12.3 31364 1lnuA 182 1.82e+01 b.1.1.2 74097 d.19.1.1 74098 1p30A 952 1.82e+01 b.121.2.2 -3022 b.121.2.2 -3023 1cpm 214 1.89e+01 1axkA b.29.1.2 24178 1iebB 227 1.91e+01 1iakB b.1.1.2 21636 d.19.1.1 38210 1nkwE 212 1.94e+01 i.1.1.2 80590 1cpn 208 1.96e+01 1axkA b.29.1.2 24175 1macA 212 1.97e+01 1axkA b.29.1.2 24183 2ayh 214 2.03e+01 1axkA b.29.1.2 24172 1axkA 394 2.03e+01 1axkA b.29.1.2 24181 b.29.1.11 24315 1mujA 190 2.03e+01 b.1.1.2 79488 d.19.1.1 79489 1mxgA 435 2.08e+01 b.71.1.1 85193 c.1.8.1 85194 1aerA 211 2.09e+01 1aerA d.166.1.1 42249 1m6hA 373 2.10e+01 b.35.1.2 74529 c.2.1.1 74530 1mc5A 374 2.11e+01 b.35.1.2 84929 c.2.1.1 84930 1kl1A 419 2.11e+01 c.67.1.4 72663 1dmaA 214 2.11e+01 1aerA d.166.1.1 42251 1kpgA 287 2.12e+01 c.66.1.18 68735 1jixA 351 2.13e+01 1c3jA c.87.1.1 63081 1efyA 350 2.15e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1aerB 201 2.20e+01 1aerA d.166.1.1 42250 1viaA 175 2.33e+01 c.37.1.2 -7021 1bn7A 294 2.43e+01 1bn6A c.69.1.8 34677 1cqwA 295 2.45e+01 1b6g c.69.1.8 34679 1mjfA 281 2.46e+01 c.66.1.17 79198 2yhx 457 2.50e+01 2yhx i.12.1.1 46024 1a26 361 2.50e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1dl5A 317 2.59e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1khhA 198 2.72e+01 c.66.1.16 68615 1fp1D 372 2.72e+01 1fpqA a.4.5.29 59939 c.66.1.12 59940 1p1cA 199 2.72e+01 c.66.1.16 87669 1mpp 361 2.84e+01 2rmpA b.50.1.2 26856 1cdoA 374 2.86e+01 2ohxA b.35.1.2 24747 c.2.1.1 29763 1n9rA 93 2.88e+01 b.38.1.1 80344 1am5 324 2.91e+01 1smrA b.50.1.2 26855 1hvc 203 2.93e+01 1hvc b.50.1.1 26614 1nplA 109 3.01e+01 1b2pA b.78.1.1 27997 2lao 238 3.05e+01 1lst c.94.1.1 35758 1nuoA 261 3.06e+01 a.123.1.1 86198 1lst 239 3.07e+01 1lst c.94.1.1 35755 1gteA 1025 3.07e+01 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 1h7xA 1025 3.10e+01 1h7wA a.1.2.2 15687 c.1.4.1 28632 c.3.1.1 30328 c.4.1.1 30613 d.58.1.5 39011 1q4xA 253 3.13e+01 a.123.1.1 -1677 1naxA 252 3.15e+01 a.123.1.1 85501 1nq2A 264 3.17e+01 a.123.1.1 86007 1n46A 258 3.21e+01 a.123.1.1 85315 1qs8A 329 3.21e+01 1smrA b.50.1.2 26887 1i7nA 309 3.23e+01 c.30.1.5 83681 d.142.1.3 83682 1bsxA 260 3.24e+01 2lbd a.123.1.1 19330 1nq0A 263 3.25e+01 a.123.1.1 86005 1oahA 519 3.29e+01 a.138.1.3 86736 1ae1A 273 3.31e+01 1bdb c.2.1.2 29943 1tbmA 326 3.35e+01 1t47A 381 3.37e+01 1ldjA 760 3.40e+01 a.4.5.34 73847 a.118.17.1 73848 e.40.1.1 73849 1o9zA 177 3.44e+01 b.2.3.5 86717 1o9wA 177 3.46e+01 b.2.3.5 86713 1m54A 363 3.51e+01 c.79.1.1 74463 1gmuA 143 3.51e+01 b.107.1.1 65335 d.58.38.1 65336 1fl9A 161 3.53e+01 c.37.1.18 70137 1gfyA 298 3.56e+01 1pty c.45.1.2 32666 1gmvA 143 3.58e+01 b.107.1.1 65343 d.58.38.1 65344 1nq1A 263 3.59e+01 a.123.1.1 86006 1jbqA 435 3.59e+01 1oasA c.79.1.1 62850 1htwA 158 3.62e+01 c.37.1.18 71083 1c86A 298 3.63e+01 1pty c.45.1.2 32668 1r8hA 87 3.64e+01 d.58.8.1 -10041 1gmwD 143 3.65e+01 b.107.1.1 65353 d.58.38.1 65354 1hnnA 282 3.72e+01 c.66.1.15 65895 1l9uC 1118 3.74e+01 i.8.1.1 73750 1i6vC 1118 3.74e+01 e.29.1.1 61856 1hqmC 1119 3.74e+01 i.8.1.1 45974 2tprA 490 3.85e+01 3grs c.3.1.5 30505 c.3.1.5 30506 d.87.1.1 40184 1fecA 490 3.86e+01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1typA 487 3.88e+01 3grs c.3.1.5 30509 c.3.1.5 30510 d.87.1.1 40186 1c83A 298 3.90e+01 1pty c.45.1.2 32660