# List of top-scoring protein chains for t04-100-30-dssp-ebghstl 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 1lvaA 258 4.82e-02 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1smtA 122 1.88e-01 1smtA a.4.5.5 16109 1lj9A 144 2.30e-01 a.4.5.28 78035 1bjaA 95 2.89e-01 1bjaA a.4.5.9 16122 1hw5A 210 2.98e-01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1j5yA 187 3.18e-01 a.4.5.1 71592 d.94.2.1 71593 1r1tA 122 4.00e-01 1aisB 200 4.57e-01 1aisB a.74.1.2 18384 a.74.1.2 18385 1fp2A 352 5.31e-01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1o57A 291 6.08e-01 unknown_sccs -249 c.61.1.1 -7960 1in4A 334 7.21e-01 1hqcA a.4.5.11 62597 c.37.1.20 62598 1in6A 334 7.65e-01 1hqcA a.4.5.11 62601 c.37.1.20 62602 1jhfA 202 7.74e-01 a.4.5.2 63057 b.87.1.1 63058 1lnwA 147 1.05e+00 a.4.5.28 78104 1oyiA 82 1.12e+00 a.4.5.19 -292 1p2fA 220 1.30e+00 a.4.6.1 87720 c.23.1.1 87721 1mkmA 249 1.32e+00 a.4.5.33 79242 d.110.2.2 79243 1j75A 67 1.38e+00 a.4.5.19 62673 1okrA 123 1.47e+00 unknown_sccs -235 1bia 321 1.52e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1q1hA 110 1.67e+00 unknown_sccs -262 1hw1A 239 1.82e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1opc 110 2.30e+00 1opc a.4.6.1 16231 1res 43 2.41e+00 1ret a.4.1.2 16023 1rypE 242 2.63e+00 1rypE d.153.1.4 41936 1rwyA 109 2.64e+00 a.39.1.4 -825 1khyA 148 3.01e+00 a.174.1.1 77410 1l9vA 317 3.13e+00 d.13.2.1 73760 d.216.1.1 73761 1gvjA 146 3.23e+00 a.4.5.21 -293 1cuk 203 3.24e+00 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1s3jA 155 3.27e+00 a.4.5.28 -227 1p4xA 250 3.51e+00 a.4.5.28 87784 a.4.5.28 87785 1on2A 142 3.65e+00 a.4.5.24 87103 a.76.1.1 87104 1fy7A 278 3.99e+00 1fy7A d.108.1.1 40817 1mjnA 179 4.75e+00 c.62.1.1 79210 1xwl 580 4.99e+00 1xwl c.55.3.5 33708 e.8.1.1 43001 1j2rA 199 5.09e+00 unknown_sccs -6799 1l3lA 234 5.19e+00 a.4.6.2 73541 d.110.5.1 73542 1je8A 82 5.22e+00 a.4.6.2 77108 1np7A 489 5.31e+00 a.99.1.1 80677 c.28.1.1 80678 1byi 224 5.62e+00 1byi c.37.1.10 32199 1nxiA 132 5.90e+00 d.58.47.1 86381 1kgsA 225 6.03e+00 a.4.6.1 68596 c.23.1.1 68597 1pu6A 218 6.18e+00 unknown_sccs -1282 1i27A 73 6.23e+00 1i27A a.4.5.30 61555 1ng6A 148 6.32e+00 a.182.1.1 85670 1cbs 137 6.40e+00 1hmt b.60.1.2 27201 1fi2A 201 6.75e+00 1fi2A b.82.1.2 59845 1qbjA 81 6.85e+00 1qbjA a.4.5.19 16155 1azsA 220 6.92e+00 1azsA d.58.29.1 39416 1rypL 212 6.97e+00 d.153.1.4 41880 8rucI 123 7.24e+00 1rboC d.73.1.1 39629 1burS 123 7.43e+00 1rboC 1no4A 97 7.45e+00 h.1.24.1 85918 1pylA 97 7.87e+00 1pi1A 185 7.97e+00 unknown_sccs -762 1nk4A 580 8.08e+00 c.55.3.5 -7625 e.8.1.1 -11875 1c7gA 456 8.17e+00 c.67.1.2 -8153 1k47A 337 8.27e+00 d.14.1.5 72040 d.58.26.4 72041 1g71A 347 8.37e+00 1g71A unknown_sccs 43268 1tlqA 189 8.39e+00 1keaA 221 8.43e+00 a.96.1.2 68491 1l3sA 580 8.62e+00 c.55.3.5 84521 e.8.1.1 84522 1qc7A 101 8.87e+00 1qc7A a.118.14.1 18456 1ku3A 73 8.91e+00 a.4.13.2 73000 1te5A 257 8.98e+00 1j3mA 129 9.82e+00 1a5t 334 9.93e+00 1a5t a.80.1.1 18450 c.37.1.20 32423 1nnvA 110 9.94e+00 unknown_sccs -9309 1hr6B 443 1.06e+01 1be3A d.185.1.1 61166 d.185.1.1 61167 1ub9A 100 1.07e+01 a.4.5.28 -231 1mw9X 592 1.10e+01 e.10.1.1 -11986 1fnnA 389 1.10e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1fx2A 235 1.14e+01 1fx2A d.58.29.1 39430 1v33A 366 1.19e+01 unknown_sccs -11384 1lfaA 187 1.20e+01 1ido c.62.1.1 34122 1nqkA 381 1.21e+01 c.1.16.4 -5607 4kbpA 432 1.21e+01 4kbpA b.1.12.1 22345 d.159.1.1 42064 1dlwA 116 1.23e+01 1dlyA a.1.1.1 14982 1ctt 294 1.24e+01 1ctt c.97.1.1 36022 c.97.1.1 36023 1or7A 194 1.25e+01 a.4.13.2 87332 a.177.1.1 87333 1k7jA 206 1.26e+01 d.115.1.1 72103 1vjzA 341 1.31e+01 c.1.8.3 -5318 1a8h 500 1.32e+01 1a8h a.27.1.1 16922 c.26.1.1 31589 2dtr 226 1.33e+01 1bi0 a.4.5.24 16193 a.76.1.1 18399 b.34.1.2 24450 1ufmA 84 1.35e+01 1f1zA 273 1.37e+01 1f1zA a.4.5.27 16081 c.52.1.16 33334 1nigA 152 1.38e+01 a.25.2.1 85740 1gxqA 106 1.39e+01 a.4.6.1 70721 1mf7A 194 1.39e+01 c.62.1.1 84937 1o08A 221 1.39e+01 c.108.1.6 86525 1ezvA 430 1.40e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 1kk8B 139 1.42e+01 a.39.1.5 77430 1kb9A 431 1.42e+01 d.185.1.1 77311 d.185.1.1 77312 1regX 122 1.46e+01 1regX d.58.27.1 39406 1teaA 299 1.48e+01 1rypI 222 1.54e+01 d.153.1.4 41877 1rypG 244 1.55e+01 d.153.1.4 41938 1fpzA 212 1.55e+01 1fpzA c.45.1.1 59976 1v38A 78 1.56e+01 a.60.1.2 -1016 1abv 134 1.57e+01 1abv a.70.1.1 18317 1gy8A 397 1.61e+01 c.2.1.2 83376 1kbpA 432 1.61e+01 4kbpA b.1.12.1 22349 d.159.1.1 42068 1jx4A 352 1.61e+01 unknown_sccs -10188 unknown_sccs -11898 1rypC 244 1.63e+01 1rypC d.153.1.4 41934 1r1uA 106 1.63e+01 1csn 298 1.67e+01 1csn d.144.1.7 41664 5eau 548 1.69e+01 5eat a.102.4.1 18851 a.128.1.3 19443 1ckiA 317 1.78e+01 1csn d.144.1.7 41660 1p4wA 99 1.80e+01 a.4.6.2 87783 1qo7A 394 1.82e+01 1qo7A c.69.1.11 34697 1iw7C 1119 1.82e+01 e.29.1.1 71474 1rec 201 1.83e+01 1rec a.39.1.5 17326 1n3yA 198 1.84e+01 c.62.1.1 79976 1s7oA 113 1.87e+01 1bjt 793 1.90e+01 1bjt e.11.1.1 43249 1gnxA 479 1.91e+01 c.1.8.4 76241 1hg4A 279 1.93e+01 1lbd a.123.1.1 19333 1octC 156 1.95e+01 1au7A a.4.1.1 15991 a.35.1.1 17017 1mi3A 322 1.95e+01 c.1.7.1 -5257 4crxA 322 1.96e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1q5qA 259 2.01e+01 d.153.1.4 -11433 1r1mA 164 2.05e+01 unknown_sccs -10431 1pvmA 184 2.07e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1b79A 119 2.08e+01 1b79A a.81.1.1 18451 1a04A 215 2.09e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1k8uA 90 2.10e+01 a.39.1.2 72181 1tml 286 2.10e+01 1tml c.6.1.1 30656 1ucrA 78 2.12e+01 unknown_sccs -308 1r6rA 100 2.18e+01 unknown_sccs -1071 1ido 192 2.22e+01 1ido c.62.1.1 34139 1b24A 188 2.22e+01 1b24A d.95.2.1 40573 d.95.2.1 40574 1pxvA 183 2.23e+01 d.3.1.1 -8881 1f44A 324 2.29e+01 a.60.9.1 64982 d.163.1.1 64983 1rypH 205 2.31e+01 d.153.1.4 41876 1fjgD 209 2.34e+01 1c05A d.66.1.2 39553 1nb8A 353 2.34e+01 d.3.1.9 80385 1frb 315 2.45e+01 1frb c.1.7.1 28665 1apyB 141 2.45e+01 1apyB 1tiqA 180 2.45e+01 1fobA 334 2.49e+01 c.1.8.3 83255 1foeA 377 2.52e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1omrA 201 2.52e+01 a.39.1.5 -854 1rqtA 37 2.56e+01 a.108.1.1 -1473 1qlpA 394 2.64e+01 1ovaA e.1.1.1 42628 1edg 380 2.65e+01 1edg c.1.8.3 28807 1pueE 89 2.68e+01 1awcA a.4.5.21 16165 1phnA 162 2.68e+01 1cpcA a.1.1.3 15641 1vkeA 133 2.69e+01 1guxA 218 2.72e+01 1guxA a.74.1.3 18388 1hbnB 442 2.75e+01 1mroB a.89.1.1 60900 d.58.31.2 60901 1mroB 442 2.80e+01 1mroB a.89.1.1 18531 d.58.31.2 39449 6paxA 133 2.82e+01 6paxA a.4.1.5 64758 a.4.1.5 64759 1rypD 241 2.82e+01 1rypD d.153.1.4 41935 1p9bA 442 2.84e+01 c.37.1.10 -7115 1j8uA 325 2.85e+01 d.178.1.1 71611 1d0vA 356 2.86e+01 1d0vA c.39.1.1 32476 4pah 308 2.88e+01 4pah d.178.1.1 42576 5pal 109 2.91e+01 1a75A a.39.1.4 17215 1l5oA 356 2.93e+01 c.39.1.1 77711 1vin 268 2.93e+01 1vin a.74.1.1 18354 a.74.1.1 18355 1nthA 458 2.94e+01 c.1.25.1 80730 1iqrA 420 2.97e+01 a.99.1.1 66275 c.28.1.1 66276 1i7dA 659 2.97e+01 1d6mA e.10.1.1 61886 1aj8A 371 2.98e+01 1aj8A a.103.1.1 18900 1owlA 484 2.99e+01 a.99.1.1 -1296 c.28.1.1 -6646 1qnf 484 3.01e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1r0vA 305 3.03e+01 c.52.2.1 -7572 c.52.2.1 -7573 d.75.1.1 -10344 1scfA 273 3.07e+01 1exzA a.26.1.2 16873 1bed 181 3.08e+01 1fvkA unknown_sccs -7444 1jzgA 128 3.13e+01 b.6.1.1 67855 1k78A 149 3.14e+01 a.4.1.5 68255 a.4.1.5 68256 3rubS 123 3.15e+01 1rboC d.73.1.1 39616 1ii7A 333 3.15e+01 1ii7A d.159.1.4 62415 1rcwA 231 3.15e+01 unknown_sccs -1921 1om0A 274 3.18e+01 c.1.8.5 87058 1nfp 228 3.27e+01 1nfp c.1.16.2 29555 1q7bA 244 3.28e+01 c.2.1.2 -5826 1oeyJ 107 3.30e+01 d.15.2.2 -9168 1hrhA 136 3.32e+01 1rthA c.55.3.1 33577 1obwA 175 3.37e+01 2prd b.40.5.1 25416 1gntA 553 3.38e+01 e.26.1.1 70290 1cpcA 162 3.39e+01 1cpcA a.1.1.3 15643 2ahjB 212 3.40e+01 2ahjB b.34.4.4 24599 1jclA 260 3.45e+01 c.1.10.1 66501 1p1xA 260 3.48e+01 1r5qA 102 3.50e+01 unknown_sccs -965 1gk8I 140 3.59e+01 d.73.1.1 65242 1i40A 175 3.60e+01 b.40.5.1 66024 1uheA 97 3.67e+01 1rypA 243 3.68e+01 1pmaA d.153.1.4 41932 1a9xA 1058 3.73e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1e3oC 160 3.76e+01 1au7A a.4.1.1 59197 a.35.1.1 59198 1p0zA 131 3.76e+01 unknown_sccs -10853 1pyfA 312 3.78e+01 c.1.7.1 -5251 1k1vA 41 3.79e+01 a.37.1.1 71999 1s9pA 227 3.82e+01 1g0oA 283 3.90e+01 1ybvA c.2.1.2 60181 1f2aA 215 3.91e+01 1cs8A d.3.1.1 37040 1heiA 451 3.92e+01 1heiA c.37.1.14 32463 c.37.1.14 32464 1it2A 146 3.93e+01 a.1.1.2 66365 1bby 69 3.99e+01 2bby a.4.5.15 16149