# List of top-scoring protein chains for t2k-100-30-n_notor2-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 1o26A 232 4.43e-01 d.207.1.1 86566 1b7lA 130 8.96e-01 3lzt d.2.1.2 36515 1lz1 130 2.05e+00 3lzt d.2.1.2 36415 1iyoA 262 2.10e+00 e.3.1.1 76970 1bb3A 130 2.38e+00 3lzt d.2.1.2 36544 1b7rA 130 2.98e+00 3lzt d.2.1.2 36436 1b7mA 130 3.12e+00 3lzt d.2.1.2 36569 1b7qA 130 3.27e+00 3lzt d.2.1.2 36549 1b7nA 130 3.29e+00 3lzt d.2.1.2 36468 1b5xA 130 3.33e+00 3lzt d.2.1.2 36550 1wmaA 276 3.35e+00 1jsf 130 3.38e+00 3lzt d.2.1.2 36410 1vnc 609 3.40e+00 1vns a.111.1.3 19065 134l 130 3.49e+00 3lzt d.2.1.2 36505 1b5uA 130 3.59e+00 3lzt d.2.1.2 36453 1t9kA 347 3.82e+00 c.124.1.5 106721 1xkyA 301 3.99e+00 1b7oA 130 4.06e+00 3lzt d.2.1.2 36491 1yfsA 465 4.12e+00 1y08A 323 4.19e+00 2gdzA 267 4.20e+00 1vns 609 4.81e+00 1vns a.111.1.3 19061 1b5wA 130 5.02e+00 3lzt d.2.1.2 36557 1t2aA 375 5.03e+00 c.2.1.2 99078 1qqyA 130 5.05e+00 3lzt d.2.1.2 36586 1xwwA 157 5.05e+00 1lmt 136 5.08e+00 3lzt d.2.1.2 36416 1g1sA 162 5.43e+00 d.169.1.1,g.3.11.1 65100,65101 1pnkB 557 5.55e+00 1ajqB 1fwrA 213 5.63e+00 1fwrA c.1.10.1 29164 1hurA 180 6.22e+00 1hurA c.37.1.8 32052 1t0bA 252 6.25e+00 c.23.16.6 106199 1ag8A 499 6.28e+00 1bpwA c.82.1.1 35341 1cnv 299 6.30e+00 1cnv c.1.8.5 28989 1p5hA 428 6.43e+00 c.123.1.1 87802 1bkcI 256 6.60e+00 1bkcA d.92.1.10 40334 1u0tA 307 6.80e+00 e.52.1.1 107567 1h49A 512 7.08e+00 c.1.8.4 83477 1gm9B 557 7.22e+00 2c0rA 362 7.43e+00 2airB 153 7.89e+00 2an3A 289 8.83e+00 1xqwA 293 9.28e+00 1n9eA 787 9.31e+00 b.30.2.1,d.17.2.1,d.17.2.1 91708,91709,91710 1e55A 512 9.54e+00 1e70M c.1.8.4 28934 1v4pA 157 1.01e+01 1at1A 310 1.01e+01 3csuA c.78.1.1,c.78.1.1 35168,35169 1t3gA 159 1.03e+01 1k7kA 221 1.04e+01 c.51.4.1 72104 1qv9A 283 1.05e+01 c.127.1.1 96356 1lokA 291 1.06e+01 c.56.5.4 78122 1bkcE 256 1.09e+01 1bkcA d.92.1.10 40333 1lqaA 346 1.12e+01 c.1.7.1 84674 1uf3A 228 1.13e+01 d.159.1.6 99317 2c07A 285 1.17e+01 1itkA 731 1.21e+01 a.93.1.3,a.93.1.3 71417,71418 2f57A 317 1.24e+01 1qs0A 407 1.26e+01 1qs0A c.36.1.11 31829 1mtzA 293 1.34e+01 c.69.1.7 79467 1zrsA 317 1.37e+01 2aumA 317 1.37e+01 2aunA 317 1.37e+01 6prcC 336 1.41e+01 6prcC a.138.1.2 19671 2ffeA 311 1.42e+01 1mhyD 521 1.44e+01 1mhyD a.25.1.2 16780 1eywA 331 1.44e+01 1pscA c.1.9.3 29057 1ut8A 291 1.45e+01 a.60.7.1,c.120.1.2 99908,99909 1amy 403 1.46e+01 1jdc b.71.1.1,c.1.8.1 27799,28786 1apa 266 1.46e+01 1qi7A d.165.1.1 42205 1xmbA 418 1.53e+01 1agnA 373 1.62e+01 2ohxA b.35.1.2,c.2.1.1 24737,29753 2b0mA 393 1.64e+01 1bsg 266 1.68e+01 1btl e.3.1.1 42729 1zosA 230 1.73e+01 1ed5A 444 1.77e+01 1nseA d.174.1.1 42530 1d1vA 444 1.83e+01 1nseA d.174.1.1 59101 1heiA 451 1.87e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1y0yA 353 1.91e+01 1wkyA 464 1.97e+01 1vyiA 112 2.01e+01 1nseA 444 2.06e+01 1nseA d.174.1.1 42534 1w36C 1122 2.09e+01 1kq6A 141 2.10e+01 d.189.1.1 91020 1ie7C 570 2.12e+01 1ubpC b.92.1.1,c.1.9.2 62315,62316 1zl0A 311 2.15e+01 1ei1A 391 2.16e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1b5vA 130 2.21e+01 3lzt d.2.1.2 36563 1ghsA 306 2.26e+01 1aq0A c.1.8.3 28840 1d2zB 153 2.29e+01 1d2zB a.77.1.2 18439 1awqA 164 2.30e+01 2cpl b.62.1.1 27461 1g9uA 454 2.31e+01 c.10.2.6 65172 1aa8A 347 2.38e+01 1an9A 1yhtA 367 2.38e+01 1m3yA 413 2.41e+01 b.121.2.3,b.121.2.3 78579,78580 1b5yA 130 2.41e+01 3lzt d.2.1.2 36570 1q35A 320 2.46e+01 c.94.1.1 95661 1b2oA 54 2.52e+01 1rb9 g.41.5.1 45233 1ao0A 459 2.53e+01 1ecfB c.61.1.1,d.153.1.1 34049,41816 1b5zA 130 2.53e+01 3lzt d.2.1.2 36567 1u5hA 273 2.53e+01 1zkcA 197 2.55e+01 1uanA 227 2.58e+01 c.134.1.1 99135 1qmuA 380 2.62e+01 1qmuA b.3.2.1,c.56.5.1 22534,33827 1ot5A 477 2.63e+01 b.18.1.20,c.41.1.1 87409,87410 1yj7A 171 2.67e+01 1e3aB 560 2.75e+01 1ajqB 1t3cA 421 2.76e+01 d.92.1.7 106343 1gadO 330 2.81e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 1ll2A 333 2.83e+01 c.68.1.14 74005 2b9dA 52 2.90e+01 1mplA 349 2.93e+01 e.3.1.1 79387 1kxu 333 2.94e+01 1jkw a.74.1.1,a.74.1.1 18358,18359 1jae 471 3.01e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1n2sA 299 3.04e+01 c.2.1.2 79857 1p2fA 220 3.10e+01 a.4.6.1,c.23.1.1 87720,87721 7icd 416 3.12e+01 1iso c.77.1.1 35072 1gqyA 475 3.15e+01 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1epwA 1290 3.25e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1b3rA 431 3.30e+01 1b3rA c.2.1.4,c.23.12.3 30106,31366 4ubpC 570 3.42e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1vb5A 276 3.44e+01 1wdyA 285 3.52e+01 1a9z 338 3.53e+01 1xel c.2.1.2 29795 1h1yA 228 3.57e+01 c.1.2.2 76506 1h0hA 977 3.67e+01 b.52.2.2,c.81.1.1 76435,76436 1gm7B 557 3.70e+01 7ceiB 206 3.70e+01 1bxiB d.4.1.1 37134 1vf8A 377 3.73e+01 1thjA 214 3.73e+01 1qreA b.81.1.5 28072 1og6A 298 3.75e+01 c.1.7.1 86984 1wdtA 665 3.76e+01 1l9mA 692 3.80e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 73732,73733,73734,73735 1aerA 205 3.87e+01 1aerA d.166.1.1 42249 1ohvA 472 3.88e+01 c.67.1.4 93031 1lniA 96 3.92e+01 d.1.1.2 74046 2ac2A 309 3.94e+01 1fiy 883 3.94e+01 1fiy c.1.12.3 29307 1aye 401 3.94e+01 1aye c.56.5.1,d.58.3.1 33824,39065 1cur 155 3.99e+01 1rcy b.6.1.1 23021 1fecA 490 4.00e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 2aaa 484 4.07e+01 7taa b.71.1.1,c.1.8.1 27777,28764 1k8tA 510 4.07e+01 e.41.1.1 68316 1i49A 224 4.14e+01 1i49A h.4.7.1 61679 2fnaA 357 4.20e+01 1py5A 326 4.20e+01 d.144.1.7 104389 1f3yA 165 4.24e+01 d.113.1.1 59635 1zq4A 693 4.28e+01 2bd0A 244 4.29e+01 1pi4A 358 4.37e+01 e.3.1.1 94700 1ydnA 295 4.37e+01 1ysjA 404 4.38e+01 2ap1A 327 4.39e+01 1s7zA 117 4.42e+01 a.159.3.1 98715 1e4yA 214 4.47e+01 1zin c.37.1.1,g.41.2.1 31901,45181 2bvyA 475 4.52e+01 1fivA 113 4.70e+01 1fmb b.50.1.1 26764 1l0gA 358 4.71e+01 e.3.1.1 73400 1gph1 465 4.72e+01 1ecfB 1h7xD 1025 4.74e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15690,28635,30331,30616,39014 1sflA 238 4.78e+01 1dszA 86 4.80e+01 2nllB g.39.1.2 45129 1jjoC 261 4.87e+01 1a8l 226 4.87e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1gk9B 557 4.88e+01 1ympA 135 4.95e+01 1jfrA 262 4.95e+01 1jfrA c.69.1.16 34724 1lxdA 100 4.96e+01 1lfdA d.15.1.5 37624 1ppjB 439 4.96e+01 d.185.1.1,d.185.1.1 104254,104255 1b2jA 54 5.04e+01 1rb9 g.41.5.1 45231 1x3lA 440 5.04e+01 1txgA 335 5.10e+01 1c7iA 489 5.13e+01 1thg c.69.1.1 34632 1anv 356 5.18e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17890,45365,45371 1o59A 355 5.20e+01 b.18.1.22,b.18.1.22 92495,92496 1qwkA 317 5.22e+01 c.1.7.1 96482 1iro 54 5.30e+01 1rb9 g.41.5.1 45223 1mucA 373 5.31e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 1pgvA 197 5.31e+01 c.10.1.1 88073 1enfA 212 5.42e+01 3seb b.40.2.2,d.15.6.1 25198,37787 1b13A 54 5.43e+01 1rb9 g.41.5.1 45227 1vi6A 208 5.60e+01 c.23.15.1 100736 1edqA 540 5.62e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1phk 298 5.64e+01 1cdkA d.144.1.7 41635 1gkfB 557 5.66e+01 1atnD 260 5.76e+01 3dni d.151.1.1 41793 1a7lA 389 5.78e+01 4mbp c.94.1.1 35787 5rxn 54 5.85e+01 1rb9 g.41.5.1 45225 1f1xA 322 5.87e+01 d.32.1.3,d.32.1.3 83208,83209 1kmoA 774 5.92e+01 f.4.3.3 72753 1x7oA 287 5.92e+01 1h2bA 359 5.93e+01 b.35.1.2,c.2.1.1 90543,90544 3minC 491 6.01e+01 1qguA c.92.2.3 35607 1p1xA 260 6.01e+01 c.1.10.1 104060 1sz7A 200 6.02e+01 2a6hE 99 6.02e+01 1tzbA 302 6.04e+01 c.80.1.1 107470 1a8rA 221 6.06e+01 1a8rA d.96.1.1 40587 1aliA 449 6.18e+01 1b8jA c.76.1.1 34996 1ua7A 422 6.19e+01 b.71.1.1,c.1.8.1 107759,107760 1fsyA 358 6.20e+01 1gceA e.3.1.1 60016 1b7yB 785 6.22e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 2fp4B 395 6.27e+01 1xaoA 121 6.30e+01 2c6qA 351 6.31e+01 1bza 262 6.41e+01 1btl e.3.1.1 42701 1iysA 262 6.45e+01 e.3.1.1 90723 1suwA 249 6.45e+01 e.52.1.1 106027 1ajqB 557 6.45e+01 1ajqB 1xo7A 166 6.50e+01 1xc3A 302 6.65e+01 1hy7A 173 6.65e+01 d.92.1.11 65957 2gfhA 260 6.72e+01 2ffyA 358 6.75e+01 1b63A 333 6.80e+01 1b63A d.14.1.3,d.122.1.2 37566,41107 1a3c 181 6.82e+01 1a3c c.61.1.1 34095 1cid 177 6.83e+01 1cid b.1.1.1,b.1.1.3 19740,21679 1hzfA 367 6.94e+01 a.102.4.4 76731 1sty 150 7.01e+01 1snc b.40.1.1 24812 1onxA 390 7.03e+01 b.92.1.7,c.1.9.13 87176,87177 1anjA 446 7.12e+01 1b8jA c.76.1.1 35008 1uylA 236 7.14e+01 d.122.1.1 108147 1kypA 237 7.15e+01 d.22.1.1 73280 1cwoA 165 7.25e+01 2cpl b.62.1.1 27445 1cr5A 189 7.29e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1zd0A 150 7.33e+01 1tag 324 7.42e+01 1cipA a.66.1.1,c.37.1.8 18197,32080 1n40A 396 7.44e+01 a.104.1.1 79977 2cwcA 303 7.49e+01 1ji6A 589 7.53e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1qopB 396 7.55e+01 2tysB c.79.1.1 35270 1gd5A 130 7.61e+01 1gd5A d.189.1.1 60439 1m3sA 186 7.62e+01 c.80.1.3 78573 1x88A 359 7.62e+01 1d5wC 126 7.65e+01 1dbwA c.23.1.1 31101 1nxcA 478 7.78e+01 a.102.2.1 92293 1lmq 129 7.82e+01 3lzt d.2.1.2 36588 1jcjA 260 7.83e+01 c.1.10.1 66499 1vj0A 380 7.86e+01 b.35.1.2,c.2.1.1 100786,100787 1vquA 374 7.88e+01 1zbtA 371 7.93e+01 1jscA 630 8.08e+01 c.31.1.3,c.36.1.5,c.36.1.9 67224,67225,67226 1a50B 396 8.11e+01 2tysB c.79.1.1 35280 3pmgA 561 8.12e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1m1nA 491 8.17e+01 c.92.2.3 78417 1e9rA 437 8.23e+01 c.37.1.11 64827 1fib 269 8.25e+01 3fib d.171.1.1 42456 1ecxA 384 8.30e+01 1ecxA c.67.1.3 34431 1reqB 637 8.30e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 2fazA 78 8.34e+01 1zxxA 319 8.35e+01 1b7pA 130 8.35e+01 3lzt d.2.1.2 36551 1j0mA 752 8.53e+01 a.102.3.2,b.24.1.1,b.30.5.2 83910,83911,83912 1ht6A 405 8.59e+01 b.71.1.1,c.1.8.1 83629,83630 1ofhA 310 8.60e+01 c.37.1.20 86948 1akeA 214 8.63e+01 1zin c.37.1.1,g.41.2.1 31905,45185 1vprA 374 8.67e+01 2adcA 229 8.73e+01 1fjxA 327 8.76e+01 6mhtA c.66.1.26 34228 1h4rA 314 8.77e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1hr6B 443 8.79e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1oi0A 124 8.85e+01 c.97.3.1 93045 1jclA 260 8.99e+01 c.1.10.1 66501