# List of top-scoring protein chains for T0335.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 1il1A 219 1.23e+00 1igtB b.1.1.1,b.1.1.2 62539,62540 1qokA 282 1.26e+00 1f3rB b.1.1.1,b.1.1.1 20492,20493 2amyA 246 1.40e+00 1r2uA 89 2.29e+00 a.39.1.5 104783 1pv5A 264 3.03e+00 d.251.1.1 95150 1b5sA 242 3.12e+00 1eaf c.43.1.1 32626 1y96B 85 3.20e+00 2fzfA 175 3.36e+00 1xupO 487 3.45e+00 1r59O 505 3.49e+00 2aepH 217 4.21e+00 1ap4 89 4.71e+00 1ncx a.39.1.5 17253 1v9kA 228 5.23e+00 d.265.1.3 108449 1xpiA 231 5.32e+00 1q6gA 495 5.62e+00 c.1.8.1 95974 1v3iA 495 5.63e+00 c.1.8.1 108304 1wdsA 495 5.64e+00 1ukpA 495 5.64e+00 c.1.8.1 99505 1wdpA 495 5.64e+00 1wdqA 495 5.64e+00 1wdrA 495 5.64e+00 1ukoA 495 5.65e+00 c.1.8.1 99501 1v3hA 495 5.72e+00 c.1.8.1 108303 1q6dA 495 5.75e+00 c.1.8.1 95971 1btc 491 5.80e+00 1byb c.1.8.1 28791 1byb 495 5.82e+00 1byb c.1.8.1 28790 1ic5H 114 7.32e+00 1f3rB b.1.1.1 62254 1ad9B 219 7.36e+00 1gc1H b.1.1.1,b.1.1.2 20215,21227 1pta 327 7.38e+00 1pscA c.1.9.3 29064 1dpmA 329 7.40e+00 1pscA c.1.9.3 29062 1eywA 331 7.41e+00 1pscA c.1.9.3 29057 1ndgB 210 7.42e+00 b.1.1.1,b.1.1.2 85578,85579 1i0dA 332 7.42e+00 1pscA c.1.9.3 61487 1ic7H 114 7.43e+00 1f3rB b.1.1.1 62258 1zxfA 155 7.45e+00 1jgmA 336 7.50e+00 1pscA c.1.9.3 62953 1j1xH 114 7.50e+00 b.1.1.1 77063 1qw7A 336 7.52e+00 2d2jA 329 7.56e+00 1ic4H 114 7.64e+00 1f3rB b.1.1.1 62251 1pscA 365 7.70e+00 1pscA c.1.9.3 29058 1q6eA 495 7.97e+00 c.1.8.1 95972 1cr9H 217 8.34e+00 8fabA b.1.1.1,b.1.1.2 20431,21401 1fgnH 214 9.71e+00 1igtB b.1.1.1,b.1.1.2 20217,21229 1la0A 161 1.07e+01 a.39.1.5 77864 1uacH 114 1.08e+01 b.1.1.1 99132 1b1yA 500 1.15e+01 1byb c.1.8.1 28796 1ndmB 210 1.23e+01 b.1.1.1,b.1.1.2 85583,85584 1k6qH 216 1.25e+01 b.1.1.1,b.1.1.2 72092,72093 1wrkA 88 1.36e+01 3hfmH 215 1.37e+01 1igtB b.1.1.1,b.1.1.2 19977,21033 2ctn 89 1.41e+01 1ncx a.39.1.5 17242 1dqqB 210 1.66e+01 1igtB b.1.1.1,b.1.1.2 20421,21391 1cfvH 119 1.66e+01 1igtB b.1.1.1 20161 1wmhA 89 1.68e+01 1pg7H 217 1.72e+01 b.1.1.1,b.1.1.2 94674,94675 1jptH 225 1.76e+01 b.1.1.1,b.1.1.2 67051,67052 1gafH 217 1.96e+01 1mfa b.1.1.1,b.1.1.2 20083,21115 1fa2A 498 2.05e+01 1byb c.1.8.1 28797 1atnD 260 2.12e+01 3dni d.151.1.1 41793 2bk6A 156 2.32e+01 1dqdH 222 2.33e+01 1igtB b.1.1.1,b.1.1.2 20441,21407 1qghA 156 2.33e+01 1qghA a.25.1.1 16728 2fzlA 219 2.34e+01 1qvbA 481 2.42e+01 1qvbA c.1.8.4 28983 1e08D 88 2.43e+01 i.4.1.1 45915 2fueA 262 2.47e+01 12e8H 221 2.48e+01 1igtB b.1.1.1,b.1.1.2 20269,21269 1rkbA 173 2.53e+01 1x48A 88 2.63e+01 2bkcA 156 2.67e+01 2bjyA 156 2.67e+01 1b0nA 111 2.79e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1mvwC 147 2.80e+01 i.15.1.1 79525 2mysC 149 2.82e+01 1wdcC a.39.1.5 17323 1ae6H 218 2.97e+01 1igtB b.1.1.1,b.1.1.2 20211,21223 1v08A 512 2.98e+01 c.1.8.4 108202 1h49A 512 3.00e+01 c.1.8.4 83477 1hxjA 507 3.22e+01 c.1.8.4 76729 1e1eA 512 3.24e+01 1e70M c.1.8.4 28944 1j05B 121 3.26e+01 b.1.1.1 90736 1nakH 214 3.32e+01 b.1.1.1,b.1.1.2 91753,91754 1sczA 233 3.46e+01 c.43.1.1 98802 1aj4 161 3.49e+01 1ncx a.39.1.5 17244 1cpq 129 3.52e+01 1cpq a.24.3.2 16556 1djsA 216 3.53e+01 1cvsC b.1.1.4,b.1.1.4 21746,21747 1e0oB 219 3.54e+01 1cvsC b.1.1.4,b.1.1.4 21748,21749 1ev2E 220 3.55e+01 1cvsC b.1.1.4,b.1.1.4 21738,21739 1ii4E 220 3.56e+01 1cvsC b.1.1.4,b.1.1.4 62404,62405 1cpr 129 3.56e+01 1cpq a.24.3.2 16559 1dtlA 161 3.57e+01 1ncx a.39.1.5 17229 1nunB 230 3.58e+01 b.1.1.4,b.1.1.4 80735,80736 1iilE 220 3.61e+01 1cvsC b.1.1.4,b.1.1.4 62437,62438 2fdbP 220 3.62e+01 2rcsH 217 3.67e+01 1mfa b.1.1.1,b.1.1.2 20087,21119 1qfuH 223 3.68e+01 1igtB b.1.1.1,b.1.1.2 20293,21285 2gsiB 221 3.79e+01 1h6zA 913 3.88e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 2h1pH 220 4.12e+01 1igtB b.1.1.1,b.1.1.2 20191,21207 1ikfH 228 4.22e+01 1igtB b.1.1.1,b.1.1.2 20033,21087 1p6bA 336 4.32e+01 c.1.9.3 94163 2bdnH 217 4.34e+01 1ofcX 304 4.39e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2chgA 226 4.41e+01 1dtp 190 4.67e+01 1ddt d.166.1.1 42248 2b5xA 148 4.71e+01 2cycA 375 4.75e+01 35c8H 217 4.80e+01 8fabA b.1.1.1,b.1.1.2 20297,21289 1ifvA 155 5.01e+01 d.129.3.1 71204 1xysA 347 5.17e+01 1zd3A 555 5.17e+01 1kzyA 195 5.17e+01 b.2.5.2 73381 1e5nA 348 5.19e+01 1taxA c.1.8.3 28904 1w2vA 348 5.27e+01 1npqA 90 5.30e+01 a.39.1.5 85983 1clxA 347 5.33e+01 1taxA c.1.8.3 28899 1xguB 210 5.33e+01 1gzhC 198 5.35e+01 b.2.5.2 70810 1w32A 348 5.35e+01 1w2pA 348 5.36e+01 1ycsA 199 5.37e+01 1tupA b.2.5.2 22433 1m0sA 219 5.37e+01 c.124.1.4,d.58.40.1 78351,78352 1zvhA 134 5.44e+01 2f62A 161 5.45e+01 2a6sA 84 5.45e+01 1smg 90 5.49e+01 1ncx a.39.1.5 17234 1w3hA 359 5.50e+01 2fejA 204 5.57e+01 1avsA 90 5.71e+01 1cll a.39.1.5 17226 1t04B 219 5.74e+01 1t3fB 220 5.75e+01 1fexA 59 5.78e+01 a.4.1.3 59803 1dsfH 119 5.80e+01 1igtB b.1.1.1 20247 2bimA 219 5.82e+01 1mvuB 121 5.86e+01 b.1.1.1 91475 2ap2B 122 5.86e+01 1mfa b.1.1.1 20179 1vb5A 276 5.91e+01 1jbaA 204 5.93e+01 1rec a.39.1.5 17330 1ap2B 123 5.95e+01 1mfa b.1.1.1 20183 2bioA 219 5.95e+01 1txvH 219 5.95e+01 2biqA 219 5.98e+01 1uolA 219 5.98e+01 b.2.5.2 99695 1e28A 276 6.00e+01 1agdA b.1.1.2,d.19.1.1 20765,38272 1e27A 276 6.01e+01 1agdA b.1.1.2,d.19.1.1 20763,38271 2chqA 319 6.14e+01 1uz5A 402 6.20e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 2binA 219 6.26e+01 2bipA 219 6.26e+01 2gu2A 312 6.35e+01 1br1B 150 6.37e+01 1wdcC a.39.1.5 17309 1jsxA 207 6.47e+01 c.66.1.20 71846 1b4jH 220 6.53e+01 1igtB b.1.1.1,b.1.1.2 20309,21301 1v11A 400 6.62e+01 c.36.1.11 108227 2bfeA 400 6.65e+01 2bfbA 400 6.65e+01 1v16A 400 6.68e+01 c.36.1.11 108240 1x7yA 400 6.68e+01 2bffA 400 6.68e+01 1x7xA 400 6.68e+01 2bfdA 400 6.68e+01 2bewA 400 6.68e+01 1v1rA 400 6.68e+01 c.36.1.11 108272 1x7wA 400 6.68e+01 1tupA 219 6.69e+01 1tupA b.2.5.2 22434 1x7zA 400 6.70e+01 2bfcA 400 6.73e+01 1kn3A 183 6.79e+01 b.17.1.1 72764 1rz7H 219 6.92e+01 b.1.1.1,b.1.1.2 98133,98134 1cloH 222 6.97e+01 1igtB b.1.1.1,b.1.1.2 20123,21153 1ydfA 257 7.00e+01 1qsmA 152 7.07e+01 1qsmA d.108.1.1 40808 2crjA 92 7.21e+01 1ddmA 135 7.24e+01 2nmbA b.55.1.2 26993 1v4bA 200 7.26e+01 1v8kA 410 7.26e+01 c.37.1.9 100510 1qsoA 149 7.45e+01 1qsmA d.108.1.1 40812 1hfeS 123 7.49e+01 1hfeS a.137.4.1 19640 1tikA 213 7.53e+01 c.23.5.3 107003 1dvfD 120 7.61e+01 1mfa b.1.1.1 20107 1a5fH 217 7.82e+01 1igtB b.1.1.1,b.1.1.2 20303,21295 2b5aA 77 8.16e+01 1nz0A 118 8.21e+01 d.14.1.2 86433 1beyH 219 8.26e+01 1igtB b.1.1.1,b.1.1.2 20321,21313 1ce1H 220 8.28e+01 1igtB b.1.1.1,b.1.1.2 20319,21311 2bjmH 120 8.40e+01 1oaqH 121 8.45e+01 b.1.1.1 92707 1oauH 122 8.49e+01 b.1.1.1 92717 1icxA 155 8.52e+01 d.129.3.1 71191 2nmbA 160 8.54e+01 2nmbA b.55.1.2 26994 2c5kT 95 8.64e+01 1dzbA 253 8.72e+01 32c2A b.1.1.1,b.1.1.1 20488,20489 1uio 349 8.72e+01 1a4mA c.1.9.1 29021 1itkA 731 8.76e+01 a.93.1.3,a.93.1.3 71417,71418 1a4mA 349 8.87e+01 1a4mA c.1.9.1 29014 1fkw 349 8.87e+01 1a4mA c.1.9.1 29019 2ada 352 8.92e+01 1a4mA c.1.9.1 29027 1uip 349 8.97e+01 1a4mA c.1.9.1 29022 1gpoH 221 8.99e+01 1igtB b.1.1.1,b.1.1.2 20225,21237