# List of top-scoring protein chains for t2k-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 1fo5A 85 6.97e-04 1fo5A c.47.1.1 59922 1hyuA 521 3.03e-03 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1ego 85 6.05e-03 1kte c.47.1.1 32767 1egr 85 6.27e-03 1kte c.47.1.1 32765 1grx 85 1.75e-02 1kte c.47.1.1 32766 1ksiA 642 3.24e-02 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1ksiB 642 4.13e-02 1ksiB b.30.2.1 24409 d.17.2.1 38045 d.17.2.1 38046 1qfnA 85 1.04e-01 1qfnA c.47.1.1 32768 1s4nA 348 1.52e-01 unknown_sccs -8262 1eu8A 409 2.05e-01 1eu8A c.94.1.1 59502 1gcb 454 2.60e-01 3gcb d.3.1.1 37034 3gcb 470 2.69e-01 3gcb d.3.1.1 37032 1a6r 471 3.56e-01 3gcb d.3.1.1 37033 1kte 105 5.88e-01 1kte c.47.1.1 32771 1ytbA 180 8.23e-01 1ytbA d.129.1.1 41276 d.129.1.1 41277 1ytbB 180 8.70e-01 1ytbA d.129.1.1 41278 d.129.1.1 41279 1idm 343 1.26e+00 1cnzA c.77.1.1 35035 1tbaB 180 1.42e+00 1ytbA d.129.1.1 41286 d.129.1.1 41287 1ipd 345 1.58e+00 1cnzA c.77.1.1 35038 1j3vA 289 1.70e+00 a.100.1.1 -1303 c.2.1.6 -5947 1igwA 434 1.78e+00 c.1.12.7 62370 1ayl 541 1.80e+00 1ayl c.91.1.1 64718 c.109.1.1 64719 1h75A 81 1.98e+00 1h75A c.47.1.1 60716 1j79A 347 2.02e+00 1j79A c.1.9.4 62675 1fn9A 365 2.18e+00 1fn9A d.196.1.1 59894 1mh1 186 2.25e+00 1eesA c.37.1.8 32002 1bykA 255 2.45e+00 1bykA c.93.1.1 35706 1im4A 221 2.47e+00 unknown_sccs 62581 1jqeA 292 2.47e+00 c.66.1.19 71789 1qc9A 276 3.09e+00 1ckqA c.52.1.1 33235 1qdlB 195 3.15e+00 1qdlB c.23.16.1 31437 1iyxA 432 3.23e+00 c.1.11.1 83815 d.54.1.1 83816 1ckqA 276 3.37e+00 1ckqA c.52.1.1 33229 1f3aA 222 3.43e+00 1pgtA a.45.1.1 17701 c.47.1.5 32995 1cl8A 276 3.57e+00 1ckqA c.52.1.1 33230 1a8y 367 3.57e+00 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1eriA 276 3.98e+00 1ckqA c.52.1.1 33231 2dabA 282 4.03e+00 1daaA e.17.1.1 43274 1sr9A 644 4.03e+00 1gpl 432 4.13e+00 1gpl b.12.1.2 23645 c.69.1.19 34793 1s6yA 450 4.49e+00 1ry9A 145 4.51e+00 d.198.1.1 -9020 1fgyA 127 4.51e+00 1faoA b.55.1.1 26976 1b0pA 1231 4.53e+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 1daaA 282 4.84e+00 1daaA e.17.1.1 43270 1xgsA 295 5.56e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 1dp4A 435 5.77e+00 1dp4A c.93.1.1 35710 1imdA 277 5.77e+00 1imbA e.7.1.1 42968 1m2dA 110 6.39e+00 c.47.1.11 78476 1cof 143 6.39e+00 1cof d.109.1.2 40860 1dr8B 344 6.66e+00 1cnzA c.77.1.1 35052 1pms 136 6.77e+00 1awe b.55.1.1 26966 1b1cA 181 6.88e+00 1amoA c.23.5.2 31212 1ja1A 622 7.24e+00 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 3vub 101 7.35e+00 3vub b.34.6.1 24613 1dq3A 454 7.40e+00 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1orrA 347 7.45e+00 c.2.1.2 -5776 1k3lA 221 7.45e+00 a.45.1.1 77229 c.47.1.5 77230 1g5aA 628 7.76e+00 b.71.1.1 65152 c.1.8.1 65153 1oen 540 7.82e+00 1ayl c.91.1.1 64750 c.109.1.1 64751 1mvoA 136 7.91e+00 c.23.1.1 79513 2tpsA 227 8.05e+00 2tpsA c.1.3.1 28591 1gseA 221 8.06e+00 1pgtA a.45.1.1 17667 c.47.1.5 32961 1qpsA 261 8.31e+00 1ckqA c.52.1.1 33234 1m2aA 110 8.52e+00 c.47.1.11 78472 1cfyA 143 9.02e+00 1cof d.109.1.2 40858 1dd9A 338 9.18e+00 1dd9A e.13.1.1 43254 1jtdB 273 9.30e+00 b.69.5.2 67265 1ecxA 384 9.34e+00 1ecxA c.67.1.3 34431 1cdwA 179 9.39e+00 1ytbA d.129.1.1 41212 d.129.1.1 41213 1imbA 277 9.72e+00 1imbA e.7.1.1 42957 1vjgA 218 9.87e+00 unknown_sccs -6447 1pmt 203 1.00e+01 1a0fA a.45.1.1 17740 c.47.1.5 33034 1qqgA 264 1.02e+01 1qqgA b.55.1.2 26987 b.55.1.2 26988 1oaa 259 1.05e+01 1oaa c.2.1.2 29829 1kekA 1231 1.12e+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 1ddeA 338 1.15e+01 1dd9A e.13.1.1 43255 1eg5A 384 1.16e+01 1ecxA c.67.1.3 34429 1m2bA 110 1.16e+01 c.47.1.11 78474 1mo0A 275 1.18e+01 c.1.1.1 79329 1eqnA 321 1.18e+01 1dd9A e.13.1.1 43256 3lynA 136 1.20e+01 1lis a.19.1.1 16413 1k3yA 221 1.20e+01 a.45.1.1 77245 c.47.1.5 77246 3daaA 277 1.24e+01 1daaA e.17.1.1 43272 1eejA 216 1.33e+01 1eejA c.47.1.9 33057 d.17.3.1 38071 1hph 37 1.37e+01 1hph j.15.1.1 46159 1mai 131 1.38e+01 1mai b.55.1.1 26951 1jndA 420 1.42e+01 c.1.8.5 71757 d.26.3.1 71758 1jmsA 381 1.43e+01 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 1f37A 110 1.46e+01 1f37A c.47.1.11 33088 1uedA 406 1.47e+01 a.104.1.1 -1459 1pvmA 184 1.49e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 2hhmA 276 1.50e+01 1imbA e.7.1.1 42955 1ghsA 306 1.52e+01 1aq0A c.1.8.3 28840 1b8tA 192 1.53e+01 1b8tA g.39.1.3 45135 g.39.1.3 45136 g.39.1.3 45137 g.39.1.3 45138 1nrfA 262 1.57e+01 e.3.1.1 -11780 1bw0A 416 1.64e+01 1bw0A c.67.1.1 34385 1awe 130 1.64e+01 1awe b.55.1.1 26968 1mbxC 106 1.67e+01 d.45.1.2 78929 3grx 82 1.68e+01 1aba c.47.1.1 32769 1o50A 157 1.71e+01 d.37.1.1 -9604 d.37.1.1 -9605 1s1hM 132 1.72e+01 1pzxA 289 1.72e+01 c.119.1.1 -8623 1thg 544 1.74e+01 1thg c.69.1.17 34763 1m4jA 142 1.74e+01 d.109.1.2 78602 1a7i 81 1.78e+01 1b8tA g.39.1.3 45143 g.39.1.3 45144 1pd21 199 1.81e+01 1pd21 1lct 333 1.81e+01 1cb6A c.94.1.2 35836 1f28A 297 1.82e+01 1bkpA d.117.1.1 59608 1nmoA 247 1.85e+01 unknown_sccs -8746 1kx9A 112 1.88e+01 unknown_sccs 77602 1e9iA 431 1.91e+01 c.1.11.1 64818 d.54.1.1 64819 1nycA 111 1.95e+01 unknown_sccs -4522 1t1vA 93 1.95e+01 1gqoX 143 1.96e+01 c.23.13.1 76317 1j7nB 776 1.99e+01 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1gxrA 337 2.01e+01 b.69.4.1 70722 1qh5A 260 2.05e+01 1qh5A d.157.1.2 42057 1bcsA 263 2.07e+01 1ivyA c.69.1.5 34647 1qb0A 211 2.07e+01 1c25 c.46.1.1 32699 1lwdA 413 2.08e+01 c.77.1.1 78265 1pbjA 125 2.11e+01 d.37.1.1 -9608 d.37.1.1 -9609 1whtA 256 2.12e+01 1ivyA c.69.1.5 34646 1qh3A 260 2.16e+01 1qh5A d.157.1.2 42059 1co4A 42 2.18e+01 1co4A g.47.1.1 45347 1pvyA 227 2.19e+01 d.115.1.2 -10937 1jz8A 1023 2.20e+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 1bq3B 246 2.23e+01 1qhfA c.60.1.1 33979 1dp0A 1023 2.23e+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 1sra 151 2.25e+01 1sra a.39.1.3 17190 1p4xA 250 2.27e+01 a.4.5.28 87784 a.4.5.28 87785 1j08A 226 2.28e+01 c.47.1.2 83855 c.47.1.2 83856 1gnwA 211 2.28e+01 1gnwA a.45.1.1 17727 c.47.1.5 33021 1xbrA 184 2.34e+01 1xbrA b.2.5.4 22458 1hrzA 76 2.34e+01 1hryA a.21.1.1 16430 1eazA 125 2.36e+01 b.55.1.1 70113 1whsA 255 2.39e+01 1ivyA c.69.1.5 34649 1fvyA 31 2.45e+01 1fvyA j.15.1.1 46157 1vhxA 150 2.45e+01 unknown_sccs -7663 1vjqA 79 2.46e+01 unknown_sccs -13478 1amoA 615 2.48e+01 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1gqoC 143 2.50e+01 c.23.13.1 76297 1jvwA 167 2.56e+01 d.26.1.1 71907 1hryA 76 2.59e+01 1hryA a.21.1.1 16429 1gqoM 143 2.68e+01 c.23.13.1 76307 1jx4A 352 2.75e+01 unknown_sccs -10188 unknown_sccs -11898 1ns5A 155 2.77e+01 c.116.1.3 80705 1adoA 363 2.88e+01 1fbaA c.1.10.1 29124 1gqoJ 143 2.91e+01 c.23.13.1 76304 1zfjA 491 2.91e+01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1gqoQ 143 2.95e+01 c.23.13.1 76311 1gqoV 143 2.97e+01 c.23.13.1 76316 1gqoP 143 2.99e+01 c.23.13.1 76310 1bwx 39 2.99e+01 1bwx j.15.1.1 46155 1hmpA 217 3.00e+01 1qk3A c.61.1.1 34075 1gqoT 143 3.00e+01 c.23.13.1 76314 1fv5A 36 3.00e+01 1fv5A g.37.1.2 45075 1tx4B 178 3.08e+01 1ctqA c.37.1.8 32045 1aba 87 3.16e+01 1aba c.47.1.1 32760 1qk3A 233 3.19e+01 1qk3A c.61.1.1 34031 1of8A 370 3.20e+01 c.1.10.4 -5508 1gqoG 143 3.22e+01 c.23.13.1 76301 1qhfA 240 3.26e+01 1qhfA c.60.1.1 33960 1gqoF 143 3.28e+01 c.23.13.1 76300 1sviA 195 3.36e+01 1jalA 363 3.42e+01 c.37.1.8 84138 d.15.10.2 84139 1et1A 34 3.44e+01 1hpy j.15.1.1 46152 1r5pA 108 3.46e+01 unknown_sccs -7487 1gqoK 143 3.47e+01 c.23.13.1 76305 1wer 334 3.49e+01 1wer a.116.1.2 19108 1bh5A 183 3.53e+01 1qipA d.32.1.1 38476 1gqoU 143 3.53e+01 c.23.13.1 76315 1oivA 191 3.55e+01 c.37.1.8 -7074 1hv8A 367 3.60e+01 1hv8A c.37.1.19 32405 c.37.1.19 32406 1gqoB 143 3.66e+01 c.23.13.1 76296 1lzlA 323 3.79e+01 c.69.1.2 78306 1f8mA 429 3.86e+01 1dquA c.1.12.7 29315 1dbhA 354 3.93e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1rch 155 3.95e+01 2rn2 c.55.3.1 33570 1ajsA 412 3.98e+01 1ajsA c.67.1.1 34276 1fsz 372 4.00e+01 1fsz c.32.1.1 31750 d.79.2.1 39802