# 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 1ksiA 642 2.56e-01 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1kte 105 3.18e-01 1kte c.47.1.1 32771 1grx 85 3.32e-01 1kte c.47.1.1 32766 1gcb 454 3.46e-01 3gcb d.3.1.1 37034 3gcb 470 3.70e-01 3gcb d.3.1.1 37032 1s4nA 348 5.61e-01 unknown_sccs -8262 1dp4A 435 6.17e-01 1dp4A c.93.1.1 35710 1b1cA 181 8.26e-01 1amoA c.23.5.2 31212 1o3yA 166 9.94e-01 c.37.1.8 86618 1eg5A 384 1.17e+00 1ecxA c.67.1.3 34429 1eu8A 409 1.20e+00 1eu8A c.94.1.1 59502 1iyxA 432 1.25e+00 c.1.11.1 83815 d.54.1.1 83816 1igwA 434 1.32e+00 c.1.12.7 62370 1r8sA 164 1.58e+00 c.37.1.8 -7082 1o94A 729 1.62e+00 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1xgsA 295 1.72e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 1ja1A 622 1.83e+00 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1r5pA 108 2.00e+00 unknown_sccs -7487 2tmdA 729 2.17e+00 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1djnA 729 2.20e+00 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1kamA 194 2.52e+00 c.26.1.3 72254 1ajsA 412 2.53e+00 1ajsA c.67.1.1 34276 1m2dA 110 2.58e+00 c.47.1.11 78476 1f37A 110 2.80e+00 1f37A c.47.1.11 33088 1k3yA 221 2.96e+00 a.45.1.1 77245 c.47.1.5 77246 1ax4A 467 3.24e+00 1ax4A c.67.1.2 34391 1ry9A 145 3.26e+00 d.198.1.1 -9020 1f61A 429 3.62e+00 1dquA c.1.12.7 29319 1j3vA 289 3.71e+00 a.100.1.1 -1303 c.2.1.6 -5947 1jb9A 316 3.72e+00 1fnc b.43.4.2 62840 c.25.1.1 62841 1pvyA 227 4.07e+00 d.115.1.2 -10937 2tpsA 227 4.41e+00 2tpsA c.1.3.1 28591 1vid 221 4.48e+00 1vid c.66.1.1 34178 1r26A 125 4.59e+00 c.47.1.1 -7389 4enl 436 4.83e+00 4enl c.1.11.1 29202 d.54.1.1 38846 1quqB 121 5.06e+00 1quqB b.40.4.3 25305 1zfjA 491 5.54e+00 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1thx 115 5.58e+00 1thx c.47.1.1 32732 1f3aA 222 5.81e+00 1pgtA a.45.1.1 17701 c.47.1.5 32995 1sra 151 5.97e+00 1sra a.39.1.3 17190 1r5tA 142 6.16e+00 1vjgA 218 6.40e+00 unknown_sccs -6447 1aba 87 6.41e+00 1aba c.47.1.1 32760 1oneA 436 6.46e+00 4enl c.1.11.1 29200 d.54.1.1 38844 1ec7A 446 6.50e+00 1bqg c.1.11.2 29218 d.54.1.1 38862 1jx4A 352 7.22e+00 unknown_sccs -10188 unknown_sccs -11898 1exbA 332 7.68e+00 1qrqA c.1.7.1 28666 1k0fA 277 7.77e+00 c.92.2.2 71974 1uhgA 385 8.50e+00 e.1.1.1 88491 1ovaA 386 8.72e+00 1ovaA e.1.1.1 42619 1f8mA 429 8.94e+00 1dquA c.1.12.7 29315 1sviA 195 9.17e+00 1adoA 363 9.41e+00 1fbaA c.1.10.1 29124 1jndA 420 9.82e+00 c.1.8.5 71757 d.26.3.1 71758 1pb1A 416 1.01e+01 c.77.1.1 88014 1vjqA 79 1.01e+01 unknown_sccs -13478 1cl8A 276 1.08e+01 1ckqA c.52.1.1 33230 1ogiA 303 1.15e+01 b.43.4.2 -4042 c.25.1.1 -6587 1rjdA 334 1.15e+01 unknown_sccs -8079 1fzqA 181 1.18e+01 1hurA c.37.1.8 32060 1fgyA 127 1.31e+01 1faoA b.55.1.1 26976 1bw0A 416 1.39e+01 1bw0A c.67.1.1 34385 1mvoA 136 1.39e+01 c.23.1.1 79513 1uptA 171 1.42e+01 c.37.1.8 -7085 1h75A 81 1.48e+01 1h75A c.47.1.1 60716 1a2vA 655 1.49e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1toaA 313 1.49e+01 1toaA c.92.2.2 35598 1gskA 513 1.51e+01 b.6.1.3 83314 b.6.1.3 83315 b.6.1.3 83316 1d3yA 301 1.54e+01 1d3yA e.12.1.1 43252 1nnwA 252 1.58e+01 d.159.1.5 80674 1jalA 363 1.61e+01 c.37.1.8 84138 d.15.10.2 84139 1r2qA 170 1.66e+01 c.37.1.8 -7071 1que 303 1.68e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 1jqeA 292 1.68e+01 c.66.1.19 71789 1itg 166 1.70e+01 1b9dA c.55.3.2 33661 1hurA 180 1.70e+01 1hurA c.37.1.8 32052 1exqA 154 1.70e+01 1b9dA c.55.3.2 33646 1go2A 304 1.70e+01 b.43.4.2 76243 c.25.1.1 76244 1s1hM 132 1.71e+01 1imbA 277 1.71e+01 1imbA e.7.1.1 42957 1j6oA 268 1.71e+01 c.1.9.12 77088 1h2wA 710 1.71e+01 b.69.7.1 76596 c.69.1.4 76597 2hhmA 276 1.72e+01 1imbA e.7.1.1 42955 1co4A 42 1.77e+01 1co4A g.47.1.1 45347 1h7eA 245 1.82e+01 c.68.1.13 60717 1aq0A 306 1.84e+01 1aq0A c.1.8.3 28842 1oihA 301 1.93e+01 b.82.2.5 -4899 1a4iA 301 2.01e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1ars 396 2.01e+01 1ajsA c.67.1.1 34287 1puiA 210 2.05e+01 c.37.1.8 88292 1rf6A 427 2.06e+01 d.68.2.2 -10314 1ayl 541 2.08e+01 1ayl c.91.1.1 64718 c.109.1.1 64719 1s6yA 450 2.08e+01 1a8y 367 2.09e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1ni3A 392 2.09e+01 c.37.1.8 80531 d.15.10.2 80532 1qfmA 710 2.09e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1r4aA 165 2.10e+01 c.37.1.8 -7089 1ahxA 396 2.10e+01 1ajsA c.67.1.1 34293 1p3wA 404 2.10e+01 c.67.1.3 87752 1s48A 609 2.14e+01 e.8.1.4 -11955 1fsz 372 2.14e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1eudA 311 2.15e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 3daaA 277 2.16e+01 1daaA e.17.1.1 43272 1pjhA 280 2.25e+01 c.14.1.3 -6229 1iso 416 2.26e+01 1iso c.77.1.1 35065 1qlpA 394 2.26e+01 1ovaA e.1.1.1 42628 1vkhA 273 2.26e+01 1eo6A 117 2.28e+01 1eo6A d.15.1.3 37609 1vhxA 150 2.29e+01 unknown_sccs -7663 2ae2A 260 2.36e+01 1bdb c.2.1.2 29945 1phk 298 2.38e+01 1cdkA d.144.1.7 41635 1kshA 186 2.39e+01 c.37.1.8 72914 1mbxC 106 2.44e+01 d.45.1.2 78929 1f2dA 341 2.55e+01 1f2dA c.79.1.1 35298 1ky3A 182 2.64e+01 c.37.1.8 73193 1nu0A 138 2.73e+01 unknown_sccs -7658 3lynA 136 2.73e+01 1lis a.19.1.1 16413 1ebfA 358 2.77e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1h1dA 221 2.79e+01 c.66.1.1 83452 1mtzA 293 2.82e+01 c.69.1.7 79467 1qqgA 264 2.87e+01 1qqgA b.55.1.2 26987 b.55.1.2 26988 1vypX 364 2.87e+01 1gvoA 364 2.93e+01 c.1.4.1 76357 1fnc 314 3.00e+01 1fnc b.43.4.2 25627 c.25.1.1 31517 1ui8A 638 3.05e+01 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 1r9dA 787 3.06e+01 1vsd 152 3.11e+01 1cxqA c.55.3.2 33625 1uxoA 192 3.11e+01 1hn0A 1021 3.20e+01 a.102.3.2 83616 b.18.1.17 83617 b.24.1.1 83618 b.30.5.2 83619 1otvA 259 3.20e+01 unknown_sccs -1915 1dzfA 215 3.22e+01 1dzfA c.52.3.1 33344 d.78.1.1 39753 1udxA 416 3.24e+01 b.117.1.1 -3546 c.37.1.8 -7101 unknown_sccs -9009 1vyrA 364 3.27e+01 1h61A 364 3.30e+01 1oyc c.1.4.1 60657 1ex2A 189 3.40e+01 1ex2A c.51.4.2 33225 1esmA 316 3.42e+01 1esmA c.37.1.6 31953 1m3uA 264 3.53e+01 c.1.12.8 84784 1orrA 347 3.66e+01 c.2.1.2 -5776 1kyhA 276 3.70e+01 c.72.1.4 73222 1r5jA 337 3.72e+01 unknown_sccs -8471 1go3E 187 3.73e+01 b.40.4.5 83054 d.230.1.1 83055 1g9oA 91 3.75e+01 1pdr b.36.1.1 60400 1jfuA 186 3.80e+01 c.47.1.10 62940 3rabA 169 3.83e+01 1ctqA c.37.1.8 32018 1fv5A 36 3.95e+01 1fv5A g.37.1.2 45075 1rljA 139 4.00e+01