# 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 1grx 85 2.74e-02 1kte c.47.1.1 32766 1kte 105 7.99e-02 1kte c.47.1.1 32771 1ksiA 642 1.25e-01 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1k3yA 221 2.18e-01 a.45.1.1 77245 c.47.1.5 77246 1eu8A 409 2.68e-01 1eu8A c.94.1.1 59502 1xgsA 295 2.70e-01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1gcb 454 3.52e-01 3gcb d.3.1.1 37034 1f3aA 222 4.16e-01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1s4nA 348 4.62e-01 unknown_sccs -8262 3gcb 470 5.29e-01 3gcb d.3.1.1 37032 1zfjA 491 6.13e-01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1r5tA 142 6.52e-01 1f37A 110 8.14e-01 1f37A c.47.1.11 33088 1uouA 474 8.23e-01 a.46.2.1 -951 c.27.1.1 -6642 d.41.3.1 -9715 1m2dA 110 1.34e+00 c.47.1.11 78476 1r8sA 164 1.38e+00 c.37.1.8 -7082 1t1vA 93 1.59e+00 1aba 87 1.62e+00 1aba c.47.1.1 32760 1j3vA 289 1.83e+00 a.100.1.1 -1303 c.2.1.6 -5947 1h7eA 245 1.83e+00 c.68.1.13 60717 1bykA 255 1.85e+00 1bykA c.93.1.1 35706 1vjgA 218 2.70e+00 unknown_sccs -6447 1rjdA 334 2.72e+00 unknown_sccs -8079 1o3yA 166 2.92e+00 c.37.1.8 86618 1eejA 216 3.01e+00 1eejA c.47.1.9 33057 d.17.3.1 38071 1j0fA 100 3.45e+00 unknown_sccs -7483 1ni3A 392 3.56e+00 c.37.1.8 80531 d.15.10.2 80532 1mvoA 136 3.80e+00 c.23.1.1 79513 1eg5A 384 5.03e+00 1ecxA c.67.1.3 34429 1f89A 291 5.17e+00 d.160.1.1 64988 1r5pA 108 5.33e+00 unknown_sccs -7487 1s1hM 132 5.47e+00 1iloA 77 5.93e+00 c.47.1.1 66205 1iyxA 432 6.14e+00 c.1.11.1 83815 d.54.1.1 83816 1kamA 194 6.52e+00 c.26.1.3 72254 1nmoA 247 6.84e+00 unknown_sccs -8746 1igwA 434 7.07e+00 c.1.12.7 62370 1pbjA 125 7.53e+00 d.37.1.1 -9608 d.37.1.1 -9609 1b1cA 181 7.72e+00 1amoA c.23.5.2 31212 1quqB 121 7.80e+00 1quqB b.40.4.3 25305 1gnwA 211 7.93e+00 1gnwA a.45.1.1 17727 c.47.1.5 33021 1o94A 729 8.18e+00 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1jtdB 273 8.26e+00 b.69.5.2 67265 1thx 115 8.39e+00 1thx c.47.1.1 32732 2tpsA 227 8.57e+00 2tpsA c.1.3.1 28591 1co4A 42 8.63e+00 1co4A g.47.1.1 45347 1fp1D 372 8.80e+00 1fpqA a.4.5.29 59939 c.66.1.12 59940 1h75A 81 9.28e+00 1h75A c.47.1.1 60716 1r26A 125 9.39e+00 c.47.1.1 -7389 1o0wA 252 9.49e+00 a.149.1.1 80751 d.50.1.1 80752 1djnA 729 9.61e+00 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1hurA 180 9.67e+00 1hurA c.37.1.8 32052 3daaA 277 9.71e+00 1daaA e.17.1.1 43272 1pvyA 227 9.89e+00 d.115.1.2 -10937 2tmdA 729 9.91e+00 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1adoA 363 9.92e+00 1fbaA c.1.10.1 29124 1cl8A 276 9.96e+00 1ckqA c.52.1.1 33230 1bu8A 452 9.99e+00 1gpl b.12.1.2 23647 c.69.1.19 34795 1aszB 490 1.01e+01 1b8aA b.40.4.1 25241 d.104.1.1 40762 1jb9A 316 1.04e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 1nnwA 252 1.04e+01 d.159.1.5 80674 1mkyA 439 1.05e+01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1sra 151 1.14e+01 1sra a.39.1.3 17190 1j79A 347 1.15e+01 1j79A c.1.9.4 62675 1ayl 541 1.19e+01 1ayl c.91.1.1 64718 c.109.1.1 64719 1sxrA 183 1.23e+01 1orrA 347 1.26e+01 c.2.1.2 -5776 2ae2A 260 1.26e+01 1bdb c.2.1.2 29945 1a8y 367 1.33e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1bw0A 416 1.41e+01 1bw0A c.67.1.1 34385 1a2vA 655 1.42e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1jfrA 262 1.42e+01 1jfrA c.69.1.16 34724 1i1kA 309 1.43e+01 1daaA e.17.1.1 61533 1k0fA 277 1.44e+01 c.92.2.2 71974 1sgpI 51 1.44e+01 2ovo unknown_sccs 44678 1dd9A 338 1.47e+01 1dd9A e.13.1.1 43254 1vhxA 150 1.48e+01 unknown_sccs -7663 1ns5A 155 1.51e+01 c.116.1.3 80705 1r0rI 51 1.51e+01 unknown_sccs -12572 1gskA 513 1.52e+01 b.6.1.3 83314 b.6.1.3 83315 b.6.1.3 83316 1hufA 140 1.53e+01 1hufA d.195.1.1 61272 1r4aA 165 1.56e+01 c.37.1.8 -7089 1sviA 195 1.61e+01 1fc6A 388 1.68e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1oihA 301 1.69e+01 b.82.2.5 -4899 1d3yA 301 1.77e+01 1d3yA e.12.1.1 43252 1pvmA 184 1.80e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1j8fA 323 1.81e+01 1j8fA c.31.1.5 62738 1wkqA 164 1.87e+01 1g6hA 257 1.87e+01 1gajA c.37.1.12 60318 1o0yA 260 1.91e+01 c.1.10.1 80756 1fw1A 216 1.95e+01 a.45.1.1 60051 c.47.1.5 60052 1qipA 183 1.96e+01 1qipA d.32.1.1 38470 1oyjA 231 1.98e+01 a.45.1.1 87597 c.47.1.5 87598 1uyrA 737 2.01e+01 c.14.1.4 -6258 c.14.1.4 -6259 3lynA 136 2.03e+01 1lis a.19.1.1 16413 1s48A 609 2.05e+01 e.8.1.4 -11955 1pb1A 416 2.08e+01 c.77.1.1 88014 1tiyA 164 2.14e+01 1gky 187 2.22e+01 1gky c.37.1.1 31839 1jvwA 167 2.26e+01 d.26.1.1 71907 1vjqA 79 2.40e+01 unknown_sccs -13478 1nycA 111 2.42e+01 unknown_sccs -4522 1gtmA 419 2.47e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1fzqA 181 2.50e+01 1hurA c.37.1.8 32060 1uw4A 91 2.56e+01 unknown_sccs -10038 1ax4A 467 2.59e+01 1ax4A c.67.1.2 34391 1ig3A 263 2.60e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1dzfA 215 2.63e+01 1dzfA c.52.3.1 33344 d.78.1.1 39753 1kkoA 413 2.64e+01 c.1.11.2 68675 d.54.1.1 68676 1qnaA 200 2.65e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1m4jA 142 2.74e+01 d.109.1.2 78602 1ne6A 283 2.75e+01 b.82.3.2 -4918 b.82.3.2 -4919 1j2mA 99 2.76e+01 a.165.1.1 84018 1imbA 277 2.81e+01 1imbA e.7.1.1 42957 1ip9A 85 2.82e+01 1ip9A d.15.2.2 62638 1jx4A 352 2.84e+01 unknown_sccs -10188 unknown_sccs -11898 2hhmA 276 2.84e+01 1imbA e.7.1.1 42955 1k66A 149 2.90e+01 c.23.1.1 -6406 1mh9A 197 2.91e+01 c.108.1.8 79118 1evfA 264 2.92e+01 1bkpA d.117.1.1 40932 1q4mA 221 2.92e+01 unknown_sccs -1910 1scuA 288 2.93e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1hyhA 309 2.95e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1qstA 160 2.95e+01 1yghA d.108.1.1 40804 1rf6A 427 2.96e+01 d.68.2.2 -10314 1hekA 131 2.98e+01 a.61.1.5 65818 1fgyA 127 2.99e+01 1faoA b.55.1.1 26976 1k0mA 241 3.05e+01 a.45.1.1 67949 c.47.1.5 67950 1toaA 313 3.08e+01 1toaA c.92.2.2 35598 1otvA 259 3.08e+01 unknown_sccs -1915 1mo0A 275 3.10e+01 c.1.1.1 79329 1i4wA 353 3.11e+01 c.66.1.24 66028 1vgyA 393 3.19e+01 c.56.5.4 -7882 d.58.19.1 -10106 1jwiB 125 3.21e+01 d.169.1.1 67384 1php 394 3.22e+01 16pk c.86.1.1 35452 1hk9A 74 3.24e+01 b.38.1.2 83541 1c8bA 371 3.33e+01 1c8bA c.56.1.2 59082 1fsz 372 3.34e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1nhs 447 3.35e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1hwxA 501 3.38e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1iso 416 3.39e+01 1iso c.77.1.1 35065 1dp4A 435 3.41e+01 1dp4A c.93.1.1 35710 1ex2A 189 3.48e+01 1ex2A c.51.4.2 33225 3vub 101 3.52e+01 3vub b.34.6.1 24613 1s6yA 450 3.53e+01 4enl 436 3.54e+01 4enl c.1.11.1 29202 d.54.1.1 38846 1e6bA 221 3.56e+01 1e6bA a.45.1.1 59294 c.47.1.5 59295 1vhvA 268 3.56e+01 c.90.1.1 -8619 1uptA 171 3.62e+01 c.37.1.8 -7085 1nb9A 147 3.76e+01 b.43.5.1 85515 1iyeA 309 3.76e+01 e.17.1.1 83786 1jo0A 98 3.77e+01 d.68.4.1 77140 1rybA 212 3.78e+01 c.56.3.1 -7858 1nhp 447 3.80e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1ex7A 186 3.84e+01 1gky c.37.1.1 59537 1q92A 197 3.86e+01 c.108.1.8 -6819