# List of top-scoring protein chains for t04-100-30-bys 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 1.54e-02 1kte c.47.1.1 32766 1ksiA 642 4.52e-02 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1eu8A 409 7.90e-02 1eu8A c.94.1.1 59502 1gcb 454 1.11e-01 3gcb d.3.1.1 37034 3gcb 470 1.17e-01 3gcb d.3.1.1 37032 1s4nA 348 1.39e-01 unknown_sccs -8262 1kte 105 4.73e-01 1kte c.47.1.1 32771 1h75A 81 1.72e+00 1h75A c.47.1.1 60716 1j79A 347 1.77e+00 1j79A c.1.9.4 62675 1bykA 255 1.90e+00 1bykA c.93.1.1 35706 1ayl 541 1.93e+00 1ayl c.91.1.1 64718 c.109.1.1 64719 1mh1 186 2.06e+00 1eesA c.37.1.8 32002 1j3vA 289 2.34e+00 a.100.1.1 -1303 c.2.1.6 -5947 1igwA 434 2.39e+00 c.1.12.7 62370 1ry9A 145 3.06e+00 d.198.1.1 -9020 1iyxA 432 3.32e+00 c.1.11.1 83815 d.54.1.1 83816 1f3aA 222 3.44e+00 1pgtA a.45.1.1 17701 c.47.1.5 32995 1fn9A 365 3.64e+00 1fn9A d.196.1.1 59894 1dp4A 435 3.98e+00 1dp4A c.93.1.1 35710 1cl8A 276 4.35e+00 1ckqA c.52.1.1 33230 1dq3A 454 4.56e+00 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1s6yA 450 5.07e+00 1orrA 347 5.10e+00 c.2.1.2 -5776 1fgyA 127 5.23e+00 1faoA b.55.1.1 26976 1m2dA 110 5.38e+00 c.47.1.11 78476 1vjgA 218 5.44e+00 unknown_sccs -6447 1xgsA 295 5.58e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 1eejA 216 5.85e+00 1eejA c.47.1.9 33057 d.17.3.1 38071 1a8y 367 5.97e+00 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1mvoA 136 6.02e+00 c.23.1.1 79513 1pzxA 289 6.30e+00 c.119.1.1 -8623 1sr9A 644 6.30e+00 3vub 101 7.58e+00 3vub b.34.6.1 24613 1jqeA 292 8.06e+00 c.66.1.19 71789 1r8sA 164 8.52e+00 c.37.1.8 -7082 1b0pA 1231 8.65e+00 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1sra 151 8.73e+00 1sra a.39.1.3 17190 1jtdB 273 8.79e+00 b.69.5.2 67265 1oaa 259 9.25e+00 1oaa c.2.1.2 29829 1fsz 372 9.40e+00 1fsz c.32.1.1 31750 d.79.2.1 39802 1t1vA 93 9.47e+00 1imbA 277 1.06e+01 1imbA e.7.1.1 42957 1dd9A 338 1.12e+01 1dd9A e.13.1.1 43254 1ja1A 622 1.15e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1b1cA 181 1.15e+01 1amoA c.23.5.2 31212 1jndA 420 1.21e+01 c.1.8.5 71757 d.26.3.1 71758 1f37A 110 1.22e+01 1f37A c.47.1.11 33088 1nrfA 262 1.25e+01 e.3.1.1 -11780 1g5aA 628 1.28e+01 b.71.1.1 65152 c.1.8.1 65153 1o50A 157 1.29e+01 d.37.1.1 -9604 d.37.1.1 -9605 1k3yA 221 1.32e+01 a.45.1.1 77245 c.47.1.5 77246 1mo0A 275 1.34e+01 c.1.1.1 79329 3daaA 277 1.35e+01 1daaA e.17.1.1 43272 3lynA 136 1.40e+01 1lis a.19.1.1 16413 1mbxC 106 1.41e+01 d.45.1.2 78929 1fzqA 181 1.41e+01 1hurA c.37.1.8 32060 1s1hM 132 1.47e+01 1j08A 226 1.59e+01 c.47.1.2 83855 c.47.1.2 83856 1m4jA 142 1.59e+01 d.109.1.2 78602 2tpsA 227 1.61e+01 2tpsA c.1.3.1 28591 1qqgA 264 1.64e+01 1qqgA b.55.1.2 26987 b.55.1.2 26988 1gpl 432 1.64e+01 1gpl b.12.1.2 23645 c.69.1.19 34793 1eg5A 384 1.64e+01 1ecxA c.67.1.3 34429 2hhmA 276 1.65e+01 1imbA e.7.1.1 42955 1mai 131 1.68e+01 1mai b.55.1.1 26951 1nu0A 138 1.78e+01 unknown_sccs -7658 1jmsA 381 1.81e+01 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 1adoA 363 1.82e+01 1fbaA c.1.10.1 29124 1whtA 256 1.94e+01 1ivyA c.69.1.5 34646 1hurA 180 1.94e+01 1hurA c.37.1.8 32052 1pbjA 125 1.95e+01 d.37.1.1 -9608 d.37.1.1 -9609 1a7i 81 1.95e+01 1b8tA g.39.1.3 45143 g.39.1.3 45144 1b78A 193 2.08e+01 1b78A c.51.4.1 33221 1pvmA 184 2.12e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1jalA 363 2.16e+01 c.37.1.8 84138 d.15.10.2 84139 1kekA 1231 2.17e+01 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1jx4A 352 2.19e+01 unknown_sccs -10188 unknown_sccs -11898 1r0rI 51 2.20e+01 unknown_sccs -12572 1uedA 406 2.27e+01 a.104.1.1 -1459 1o3yA 166 2.28e+01 c.37.1.8 86618 1whsA 255 2.34e+01 1ivyA c.69.1.5 34649 1lwdA 413 2.35e+01 c.77.1.1 78265 1pd21 199 2.48e+01 1pd21 1gxrA 337 2.48e+01 b.69.4.1 70722 1xbrA 184 2.49e+01 1xbrA b.2.5.4 22458 1hyhA 309 2.50e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1nmoA 247 2.50e+01 unknown_sccs -8746 1thg 544 2.58e+01 1thg c.69.1.17 34763 1qh5A 260 2.59e+01 1qh5A d.157.1.2 42057 1eazA 125 2.69e+01 b.55.1.1 70113 1qnaA 200 2.69e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1qh3A 260 2.79e+01 1qh5A d.157.1.2 42059 1co4A 42 2.80e+01 1co4A g.47.1.1 45347 1tx4B 178 2.86e+01 1ctqA c.37.1.8 32045 1zfjA 491 2.90e+01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1j0fA 100 2.93e+01 unknown_sccs -7483 1ut9A 609 2.94e+01 a.102.1.2 -1326 b.1.18.2 -2710 1pvyA 227 2.97e+01 d.115.1.2 -10937 1pb1A 416 2.99e+01 c.77.1.1 88014 1jz8A 1023 3.00e+01 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.5.1 67833 c.1.8.3 67834 1vjqA 79 3.00e+01 unknown_sccs -13478 1j6oA 268 3.01e+01 c.1.9.12 77088 1aba 87 3.06e+01 1aba c.47.1.1 32760 1dp0A 1023 3.09e+01 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.5.1 24346 c.1.8.3 28845 2plc 274 3.15e+01 2plc c.1.18.2 29614 1sgpI 51 3.15e+01 2ovo unknown_sccs 44678 1r5pA 108 3.16e+01 unknown_sccs -7487 1oihA 301 3.25e+01 b.82.2.5 -4899 1nycA 111 3.25e+01 unknown_sccs -4522 1fv5A 36 3.32e+01 1fv5A g.37.1.2 45075 1vhxA 150 3.40e+01 unknown_sccs -7663 1bw0A 416 3.63e+01 1bw0A c.67.1.1 34385 1gnwA 211 3.71e+01 1gnwA a.45.1.1 17727 c.47.1.5 33021 1p4xA 250 3.77e+01 a.4.5.28 87784 a.4.5.28 87785 1ni3A 392 3.89e+01 c.37.1.8 80531 d.15.10.2 80532 1vi2A 300 3.94e+01 c.2.1.7 -5960 c.58.1.5 -6366 1lvwA 295 3.97e+01 c.68.1.6 84723 1iyeA 309 3.98e+01 e.17.1.1 83786 1pi1A 185 3.99e+01 unknown_sccs -762