# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1hw5A 210 2.21e-02 2cgpA a.4.5.4 16098 b.82.3.2 28137 1lvaA 258 3.81e-02 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1fp2A 352 2.39e-01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1j5yA 187 2.61e-01 a.4.5.1 71592 d.94.2.1 71593 1lj9A 144 4.94e-01 a.4.5.28 78035 1jhfA 202 5.13e-01 a.4.5.2 63057 b.87.1.1 63058 1okrA 123 6.45e-01 unknown_sccs -235 1azsA 220 6.95e-01 1azsA d.58.29.1 39416 1np7A 489 8.20e-01 a.99.1.1 80677 c.28.1.1 80678 1r1tA 122 9.04e-01 1smtA 122 1.16e+00 1smtA a.4.5.5 16109 1rwyA 109 1.46e+00 a.39.1.4 -825 1oyiA 82 1.51e+00 a.4.5.19 -292 1o57A 291 1.86e+00 unknown_sccs -249 c.61.1.1 -7960 1jx4A 352 2.07e+00 unknown_sccs -10188 unknown_sccs -11898 1te5A 257 2.11e+00 1mkmA 249 2.27e+00 a.4.5.33 79242 d.110.2.2 79243 1lnwA 147 2.29e+00 a.4.5.28 78104 1l9vA 317 2.42e+00 d.13.2.1 73760 d.216.1.1 73761 1in6A 334 2.44e+00 1hqcA a.4.5.11 62601 c.37.1.20 62602 1in4A 334 2.51e+00 1hqcA a.4.5.11 62597 c.37.1.20 62598 1pu6A 218 2.68e+00 unknown_sccs -1282 1no4A 97 3.01e+00 h.1.24.1 85918 1q1hA 110 3.21e+00 unknown_sccs -262 1opc 110 3.55e+00 1opc a.4.6.1 16231 1p4xA 250 3.68e+00 a.4.5.28 87784 a.4.5.28 87785 1bjaA 95 4.23e+00 1bjaA a.4.5.9 16122 1aisB 200 4.33e+00 1aisB a.74.1.2 18384 a.74.1.2 18385 1s3jA 155 4.49e+00 a.4.5.28 -227 1cuk 203 4.86e+00 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1vj7A 393 4.90e+00 unknown_sccs -1265 unknown_sccs -9814 1pi1A 185 5.02e+00 unknown_sccs -762 1f1zA 273 5.24e+00 1f1zA a.4.5.27 16081 c.52.1.16 33334 1mjnA 179 5.51e+00 c.62.1.1 79210 1j75A 67 6.24e+00 a.4.5.19 62673 1khyA 148 7.06e+00 a.174.1.1 77410 1l3lA 234 7.14e+00 a.4.6.2 73541 d.110.5.1 73542 1hw1A 239 7.17e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1fx2A 235 7.48e+00 1fx2A d.58.29.1 39430 1g71A 347 7.59e+00 1g71A unknown_sccs 43268 1j2rA 199 7.73e+00 unknown_sccs -6799 1jtvA 327 7.78e+00 c.2.1.2 84230 1bia 321 8.32e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1qc7A 101 8.57e+00 1qc7A a.118.14.1 18456 1mw9X 592 8.57e+00 e.10.1.1 -11986 1p2fA 220 8.60e+00 a.4.6.1 87720 c.23.1.1 87721 1fezA 256 8.85e+00 1fezA c.108.1.3 43343 1vhnA 318 9.03e+00 c.1.4.1 -5209 1nk4A 580 9.39e+00 c.55.3.5 -7625 e.8.1.1 -11875 1fds 327 9.45e+00 1fds c.2.1.2 29838 1xwl 580 9.47e+00 1xwl c.55.3.5 33708 e.8.1.1 43001 1l3sA 580 9.69e+00 c.55.3.5 84521 e.8.1.1 84522 1ng6A 148 9.73e+00 a.182.1.1 85670 1p4wA 99 1.23e+01 a.4.6.2 87783 1c9kA 180 1.25e+01 1c9kB c.37.1.11 32363 1fpzA 212 1.25e+01 1fpzA c.45.1.1 59976 1cbs 137 1.34e+01 1hmt b.60.1.2 27201 1qnf 484 1.35e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1regX 122 1.42e+01 1regX d.58.27.1 39406 1d0vA 356 1.50e+01 1d0vA c.39.1.1 32476 1v33A 366 1.51e+01 unknown_sccs -11384 1l5oA 356 1.53e+01 c.39.1.1 77711 1nqkA 381 1.58e+01 c.1.16.4 -5607 1owlA 484 1.58e+01 a.99.1.1 -1296 c.28.1.1 -6646 1je8A 82 1.63e+01 a.4.6.2 77108 1byi 224 1.74e+01 1byi c.37.1.10 32199 1hyeA 313 1.81e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1j3wA 163 1.82e+01 unknown_sccs -10870 1rypE 242 1.86e+01 1rypE d.153.1.4 41936 1lfaA 187 1.88e+01 1ido c.62.1.1 34122 1rec 201 1.93e+01 1rec a.39.1.5 17326 1or7A 194 1.97e+01 a.4.13.2 87332 a.177.1.1 87333 1ctt 294 1.97e+01 1ctt c.97.1.1 36022 c.97.1.1 36023 1res 43 1.99e+01 1ret a.4.1.2 16023 1dxeA 256 1.99e+01 1dxeA c.1.12.5 29310 1burS 123 1.99e+01 1rboC 1j3mA 129 2.00e+01 1c7gA 456 2.00e+01 c.67.1.2 -8153 1gxqA 106 2.06e+01 a.4.6.1 70721 1f3vA 179 2.08e+01 1f3vA d.58.22.1 39382 1fnnA 389 2.13e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 8rucI 123 2.19e+01 1rboC d.73.1.1 39629 1tikA 213 2.19e+01 1pueE 89 2.40e+01 1awcA a.4.5.21 16165 1i7dA 659 2.41e+01 1d6mA e.10.1.1 61886 5eau 548 2.43e+01 5eat a.102.4.1 18851 a.128.1.3 19443 1di0A 158 2.50e+01 1di0A c.16.1.1 30957 1mf7A 194 2.55e+01 c.62.1.1 84937 1vjzA 341 2.67e+01 c.1.8.3 -5318 1ef1C 90 2.73e+01 1ef1C a.137.5.1 19642 1jjiA 311 2.73e+01 c.69.1.2 66766 1b4pA 217 2.74e+01 a.45.1.1 83158 c.47.1.5 83159 1nzjA 298 2.74e+01 c.26.1.1 -6600 1q5qA 259 2.79e+01 d.153.1.4 -11433 6paxA 133 2.79e+01 6paxA a.4.1.5 64758 a.4.1.5 64759 1nrwA 288 2.88e+01 c.108.1.10 86128 1gy8A 397 2.92e+01 c.2.1.2 83376 1udxA 416 2.94e+01 b.117.1.1 -3546 c.37.1.8 -7101 unknown_sccs -9009 1gowA 489 2.98e+01 1qvbA c.1.8.4 28981 1jfxA 217 2.98e+01 c.1.8.8 62943 1qlpA 394 3.00e+01 1ovaA e.1.1.1 42628 1jlvA 209 3.02e+01 a.45.1.1 71729 c.47.1.5 71730 1ckiA 317 3.07e+01 1csn d.144.1.7 41660 1v02A 565 3.13e+01 1oz9A 150 3.15e+01 unknown_sccs -10588 1e6yB 433 3.22e+01 1mroB a.89.1.1 18535 d.58.31.2 39453 1fi2A 201 3.27e+01 1fi2A b.82.1.2 59845 1oheA 348 3.27e+01 c.45.1.1 87013 c.45.1.1 87014 1csn 298 3.35e+01 1csn d.144.1.7 41664 1i27A 73 3.40e+01 1i27A a.4.5.30 61555 1qo7A 394 3.51e+01 1qo7A c.69.1.11 34697 1aj8A 371 3.57e+01 1aj8A a.103.1.1 18900 1b24A 188 3.57e+01 1b24A d.95.2.1 40573 d.95.2.1 40574 2ahjB 212 3.62e+01 2ahjB b.34.4.4 24599 1fobA 334 3.66e+01 c.1.8.3 83255 1k1vA 41 3.83e+01 a.37.1.1 71999 1iw7C 1119 3.83e+01 e.29.1.1 71474 1kbpA 432 3.88e+01 4kbpA b.1.12.1 22349 d.159.1.1 42068 1p9bA 442 3.91e+01 c.37.1.10 -7115 1qbjA 81 3.92e+01 1qbjA a.4.5.19 16155