# List of top-scoring protein chains for t04-100-30-str2 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 1qsaA 618 1.30e+00 1qsaA a.118.5.1 19182 d.2.1.6 36988 1o86A 589 1.30e+00 d.92.1.5 81177 1giqA 413 1.58e+00 d.166.1.1 76224 d.166.1.1 76225 1tlqA 189 1.88e+00 1f5qB 252 2.28e+00 1f5qB a.74.1.1 18362 a.74.1.1 18363 1p4xA 250 3.79e+00 a.4.5.28 87784 a.4.5.28 87785 1babB 146 3.94e+00 1abwA a.1.1.2 15414 1rtwA 220 4.51e+00 unknown_sccs -1904 1jk0A 419 4.75e+00 a.25.1.2 63142 1sly 618 5.03e+00 1qsaA a.118.5.1 19184 d.2.1.6 36990 1dvkA 173 5.28e+00 1dvkA a.72.1.1 18319 2pgd 482 5.69e+00 2pgd a.100.1.1 18778 c.2.1.6 30190 1top 162 5.72e+00 1ncx a.39.1.5 17223 1mhyB 395 5.95e+00 1mtyB a.25.1.2 16781 1lnwA 147 6.09e+00 a.4.5.28 78104 1dxrL 273 6.30e+00 6prcL f.26.1.1 43431 1j54A 186 6.68e+00 c.55.3.5 77077 1xwl 580 6.77e+00 1xwl c.55.3.5 33708 e.8.1.1 43001 1a6q 382 7.29e+00 1a6q a.159.1.1 75801 d.219.1.1 75802 2occA 514 7.98e+00 2occA f.24.1.1 43518 1jq5A 370 8.29e+00 e.22.1.2 67084 1llp 343 8.33e+00 1arv a.93.1.1 18578 1hr6B 443 8.55e+00 1be3A d.185.1.1 61166 d.185.1.1 61167 1i37A 260 8.70e+00 1a28A a.123.1.1 61583 1aisB 200 8.98e+00 1aisB a.74.1.2 18384 a.74.1.2 18385 1g8qA 90 9.18e+00 1g8qA a.135.1.1 19621 1ohuA 175 9.38e+00 f.1.4.1 -12058 1nk4A 580 9.64e+00 c.55.3.5 -7625 e.8.1.1 -11875 1gnwA 211 1.05e+01 1gnwA a.45.1.1 17727 c.47.1.5 33021 1dceA 567 1.06e+01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1lis 136 1.07e+01 1lis a.19.1.1 16406 2lisA 136 1.07e+01 1lis a.19.1.1 16405 1uedA 406 1.09e+01 a.104.1.1 -1459 1l0lG 81 1.10e+01 f.23.13.1 84493 1l9hA 349 1.11e+01 f.13.1.2 73720 1qciA 262 1.16e+01 1qi7A d.165.1.1 42201 1l3sA 580 1.24e+01 c.55.3.5 84521 e.8.1.1 84522 1qazA 351 1.26e+01 1qazA a.102.3.1 18848 1om2A 95 1.29e+01 1om2A a.23.4.1 16520 1lshA 1056 1.31e+01 a.118.4.1 74242 f.7.1.1 74243 f.7.1.1 74244 1gzsB 165 1.39e+01 a.168.1.1 76425 1be3G 81 1.39e+01 1be3G f.23.13.1 43669 1ak0 270 1.43e+01 1ak0 a.124.1.2 19345 1tfr 305 1.52e+01 1tfr a.60.7.1 18081 c.120.1.2 33351 1v54A 514 1.53e+01 f.24.1.1 -12235 1ax8 146 1.54e+01 1ax8 a.26.1.1 16844 1hz4A 373 1.57e+01 a.118.8.2 65960 1qyiA 384 1.64e+01 unknown_sccs -6836 1spgB 147 1.69e+01 1cg5B a.1.1.2 15588 1ls1A 295 1.70e+01 a.24.13.1 78170 c.37.1.10 78171 1sig 339 1.71e+01 1sig a.177.1.1 19068 1i50B 1224 1.76e+01 e.29.1.1 61755 1q0gA 117 1.80e+01 1j1qA 261 1.81e+01 d.165.1.1 -11546 1pi1A 185 1.83e+01 unknown_sccs -762 1guxA 218 1.83e+01 1guxA a.74.1.3 18388 1iomA 377 1.87e+01 a.103.1.1 83698 1irdB 146 1.87e+01 a.1.1.2 66287 1pu6A 218 1.90e+01 unknown_sccs -1282 1cpt 412 1.90e+01 1cpt a.104.1.1 18968 1ka2A 499 1.93e+01 d.92.1.5 77305 1hzxA 349 1.94e+01 1f88A f.13.1.2 61466 1bg6 359 1.97e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1guxB 152 2.00e+01 1guxB a.74.1.3 18389 1ssqA 267 2.05e+01 1pfvA 551 2.07e+01 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1f4lA 551 2.13e+01 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1h6pA 203 2.16e+01 a.146.1.1 60690 1g2rA 100 2.18e+01 1g2rA d.192.1.1 60231 1cg5A 141 2.19e+01 1abwA a.1.1.2 15406 1h6kA 757 2.23e+01 unknown_sccs 60675 unknown_sccs 60676 unknown_sccs 60677 1g4iA 123 2.28e+01 1poa a.133.1.2 60241 1dhn 121 2.34e+01 1dhn d.96.1.3 40663 1qqeA 292 2.35e+01 1qqeA a.118.8.1 19210 1lfkA 398 2.40e+01 a.104.1.1 77926 1kpsB 171 2.46e+01 a.118.12.1 68787 1ng6A 148 2.51e+01 a.182.1.1 85670 1ngvA 534 2.60e+01 c.111.1.2 85698 1sur 215 2.66e+01 1sur c.26.2.2 31620 1v4eA 299 2.73e+01 a.128.1.1 -1781 1vjqA 79 2.85e+01 unknown_sccs -13478 1ioj 57 2.89e+01 1ioj j.39.1.1 46293 1ad3A 452 2.91e+01 1ad3A c.82.1.1 35335 1v61A 132 2.94e+01 1csh 435 2.95e+01 1csh a.103.1.1 18880 4ubpA 101 2.95e+01 1ubpA d.8.1.1 37352 1rwyA 109 2.97e+01 a.39.1.4 -825 1kq3A 376 3.01e+01 e.22.1.2 68790 1fkmA 396 3.08e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1k1vA 41 3.09e+01 a.37.1.1 71999 1h2sA 225 3.09e+01 f.13.1.1 76578 1e2uA 553 3.11e+01 1e1dA e.26.1.1 43362 1allA 160 3.11e+01 1qgwC a.1.1.3 15647 1gntA 553 3.12e+01 e.26.1.1 70290 1lnsA 763 3.14e+01 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 2ng1 293 3.16e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1t7pA 698 3.24e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1lvaA 258 3.27e+01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 2ahjB 212 3.29e+01 2ahjB b.34.4.4 24599 1b66A 140 3.34e+01 1b66A d.96.1.2 40657 1j6rA 214 3.40e+01 d.173.1.2 71598 1kn1A 160 3.58e+01 a.1.1.3 77455 1idaA 99 3.60e+01 1fmb b.50.1.1 26715 1iwhB 146 3.61e+01 a.1.1.2 76883 1rypL 212 3.94e+01 d.153.1.4 41880 1o98A 511 3.95e+01 c.105.1.1 86684 c.76.1.3 86685 1fvkA 189 3.97e+01 1fvkA unknown_sccs -7419 1hh8A 213 3.99e+01 1e96B a.118.8.1 61042 1nt2B 258 4.00e+01 a.183.1.1 86150