# List of top-scoring protein chains for t04-100-30-dssp-ebghstl 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 1tiqA 180 3.11e-18 1vhsA 175 4.48e-17 d.108.1.1 -10794 1nslA 184 6.12e-15 d.108.1.1 86137 1s3zA 165 5.25e-14 1qsmA 152 7.98e-14 1qsmA d.108.1.1 40808 1gheA 177 2.24e-13 d.108.1.1 76222 1qsoA 149 3.62e-13 1qsmA d.108.1.1 40812 1i12A 160 3.26e-12 1i21A d.108.1.1 61515 1i1dA 161 5.12e-12 1i21A d.108.1.1 61526 1cjwA 166 1.24e-11 1cjwA d.108.1.1 40818 1on0A 158 1.52e-11 d.108.1.1 87095 1mk4A 157 5.90e-11 d.108.1.1 84979 1n71A 180 7.77e-11 d.108.1.1 85370 1qstA 160 1.76e-10 1yghA d.108.1.1 40804 1p0hA 318 3.24e-10 d.108.1.1 -10802 1q2yA 140 4.45e-10 d.108.1.1 -10791 1bo4A 168 6.51e-10 1bo4A d.108.1.1 40798 1sqhA 312 5.98e-08 unknown_sccs -10812 1yghA 164 9.69e-08 1yghA d.108.1.1 40802 1m4iA 181 3.62e-06 d.108.1.1 74457 1bob 320 9.65e-05 1bob d.108.1.1 40816 1iicA 422 1.12e-04 1nmtA d.108.1.2 62422 d.108.1.2 62423 1fy7A 278 2.14e-03 1fy7A d.108.1.1 40817 1lrzA 426 4.98e-02 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1ne9A 335 1.32e-01 d.108.1.4 -10805 d.108.1.4 -10806 1kzfA 230 1.38e-01 d.108.1.3 73354 1uyrA 737 2.51e-01 c.14.1.4 -6258 c.14.1.4 -6259 1thm 279 4.83e-01 1gci c.41.1.1 32544 1im5A 180 7.97e-01 unknown_sccs 66211 1oltA 457 8.91e-01 unknown_sccs -5688 1vicA 262 1.24e+00 c.68.1.13 -8252 1rfmA 344 1.32e+00 c.122.1.1 -8032 1o50A 157 1.64e+00 d.37.1.1 -9604 d.37.1.1 -9605 1han 297 1.67e+00 1han d.32.1.3 38506 d.32.1.3 38507 1gci 269 1.70e+00 1gci c.41.1.1 32503 1lkdA 297 1.76e+00 d.32.1.3 78059 d.32.1.3 78060 1vhmA 195 2.05e+00 d.110.2.1 -10828 1p5dX 463 2.05e+00 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1fsgA 233 2.23e+00 1qk3A c.61.1.1 34029 1hqsA 423 2.30e+00 1iso c.77.1.1 61154 1su4A 994 2.45e+00 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1eulA 994 2.50e+00 1eulA 1gd0A 122 2.56e+00 1dptA d.80.1.3 39834 1afwA 393 2.79e+00 1afwA c.95.1.1 35900 c.95.1.1 35901 1fjgK 129 2.87e+00 1fjfK c.55.4.1 33733 1q16A 1247 2.87e+00 b.52.2.2 -4337 c.81.1.1 -8547 1o5oA 221 2.93e+00 c.61.1.1 -7954 1s48A 609 3.08e+00 e.8.1.4 -11955 1k2yX 463 3.30e+00 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1flcA 432 3.40e+00 1flcA b.19.1.3 23837 c.23.10.2 31337 1dar 691 3.63e+00 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1opr 213 3.78e+00 1opr c.61.1.1 34091 1qysA 106 3.82e+00 unknown_sccs -13432 1ml4A 308 3.90e+00 c.78.1.1 79255 c.78.1.1 79256 1lh0A 213 4.00e+00 c.61.1.1 73896 1f1uA 323 4.06e+00 d.32.1.3 83200 d.32.1.3 83201 1mxgA 435 4.09e+00 b.71.1.1 85193 c.1.8.1 85194 1pvmA 184 4.29e+00 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1j8yF 297 4.57e+00 1ng1 a.24.13.1 62747 c.37.1.10 62748 1j8mF 297 4.61e+00 1ng1 a.24.13.1 62742 c.37.1.10 62743 1bjwA 382 4.95e+00 1bjwA c.67.1.1 34349 1pea 385 5.06e+00 1pea c.93.1.1 35662 1b5pA 385 5.08e+00 c.67.1.1 -8133 1f1xA 322 5.26e+00 d.32.1.3 83208 d.32.1.3 83209 1uehA 253 5.53e+00 c.101.1.1 -6879 1w1kA 560 5.71e+00 1gv3A 248 5.95e+00 a.2.11.1 70585 d.44.1.1 70586 1m7yA 435 6.60e+00 c.67.1.4 78761 1r31A 428 6.85e+00 d.58.20.1 -10108 d.179.1.1 -11716 1iscA 192 6.91e+00 1avmA a.2.11.1 15733 d.44.1.1 38726 1edzA 320 6.96e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1uurA 473 7.00e+00 a.47.1.1 -968 b.2.5.5 -2904 d.93.1.1 -10632 1bmtA 246 7.26e+00 1bmtA a.46.1.1 17757 c.23.6.1 31235 1pbjA 125 7.32e+00 d.37.1.1 -9608 d.37.1.1 -9609 1kw3B 292 7.41e+00 d.32.1.3 77549 d.32.1.3 77550 1idk 359 7.63e+00 1qcxA b.80.1.2 28025 1a53 247 8.06e+00 1a53 c.1.2.4 28564 1igs 248 8.06e+00 1a53 c.1.2.4 28565 1vjqA 79 8.11e+00 unknown_sccs -13478 1hfoA 113 8.46e+00 d.80.1.3 61006 1f9mA 112 8.72e+00 1erv c.47.1.1 32736 1ofdA 1520 8.83e+00 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1hi9A 274 8.98e+00 1hi9A c.99.1.1 61063 1bzyA 217 9.25e+00 1qk3A c.61.1.1 34071 1jyeA 349 9.61e+00 c.93.1.1 67455 1faaA 124 9.92e+00 1erv c.47.1.1 32738 1v2xA 194 9.93e+00 c.116.1.1 -6704 1hrdA 449 9.97e+00 1k89 c.2.1.7 30219 c.58.1.1 33867 1jflA 228 1.01e+01 c.78.2.1 71656 c.78.2.1 71657 1mngA 203 1.03e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1ojrA 274 1.06e+01 c.74.1.1 -8441 1tuhA 156 1.07e+01 1mo9A 523 1.07e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1i1iP 681 1.14e+01 1i1iP d.92.1.5 40297 1bgvA 449 1.16e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1r72A 211 1.17e+01 unknown_sccs -215 unknown_sccs -5981 1b8gA 429 1.19e+01 1b8gA c.67.1.4 34499 1ofuA 320 1.20e+01 c.32.1.1 86972 d.79.2.1 86973 1cg2A 393 1.23e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1ad3A 452 1.27e+01 1ad3A c.82.1.1 35335 4pfk 319 1.28e+01 3pfk c.89.1.1 35582 1oroA 213 1.33e+01 1opr c.61.1.1 34093 1tljA 213 1.34e+01 1hdoA 206 1.36e+01 1he2A c.2.1.2 60965 2lbp 346 1.39e+01 2liv c.93.1.1 35709 1kolA 398 1.40e+01 b.35.1.2 77474 c.2.1.1 77475 1usgA 346 1.40e+01 c.93.1.1 -8635 1l3kA 196 1.44e+01 d.58.7.1 73539 d.58.7.1 73540 1pii 452 1.45e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1rkqA 282 1.53e+01 c.108.1.10 -6847 1s4bP 674 1.55e+01 1rypA 243 1.61e+01 1pmaA d.153.1.4 41932 1nrgA 261 1.62e+01 b.45.1.1 80694 1rtqA 299 1.64e+01 c.56.5.4 -7864 1ve9A 347 1.64e+01 c.4.1.2 -6056 d.16.1.3 -9214 1iznB 277 1.64e+01 e.43.1.2 83848 1c96A 753 1.67e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1my6A 199 1.67e+01 a.2.11.1 85232 d.44.1.1 85233 1eu8A 409 1.70e+01 1eu8A c.94.1.1 59502 1oj5A 132 1.74e+01 unknown_sccs -10848 1ne6A 283 1.77e+01 b.82.3.2 -4918 b.82.3.2 -4919 1cjbA 231 1.77e+01 1qk3A c.61.1.1 34079 1cvl 319 1.80e+01 1cvl c.69.1.18 34786 1jvbA 347 1.85e+01 b.35.1.2 77181 c.2.1.1 77182 1l1qA 186 1.86e+01 c.61.1.1 77653 1mla 309 1.92e+01 1mla c.19.1.1 31031 d.58.23.1 39383 1j5yA 187 1.94e+01 a.4.5.1 71592 d.94.2.1 71593 1ds1A 324 1.94e+01 1drtA b.82.2.2 28127 1sn4A 64 1.95e+01 1aho g.3.7.1 44136 1g8yA 279 1.99e+01 1g8yA c.37.1.11 32302 1ahxA 396 1.99e+01 1ajsA c.67.1.1 34293 1h75A 81 1.99e+01 1h75A c.47.1.1 60716 1dozA 309 2.01e+01 1ak1 c.92.1.1 35592 1q7bA 244 2.02e+01 c.2.1.2 -5826 1seiA 130 2.08e+01 1seiA d.140.1.1 41463 1lqpA 135 2.09e+01 d.32.1.2 78151 1nkiA 135 2.09e+01 d.32.1.2 -9544 1cr1A 296 2.10e+01 1cr1A c.37.1.11 32286 1vk9A 151 2.10e+01 1tiyA 164 2.13e+01 1d4xA 375 2.13e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1lokA 291 2.14e+01 c.56.5.4 78122 1o0wA 252 2.15e+01 a.149.1.1 80751 d.50.1.1 80752 1dik 874 2.15e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1qisA 396 2.17e+01 1ajsA c.67.1.1 34284 1j0hA 588 2.23e+01 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 2bbkH 355 2.25e+01 2bbkH b.69.2.1 27634 1iugA 352 2.26e+01 c.67.1.3 -8176 1ufkA 254 2.26e+01 unknown_sccs -8103 1ni9A 338 2.26e+01 e.7.1.2 85739 1jykA 254 2.28e+01 c.68.1.13 67458 1qz5A 375 2.35e+01 c.55.1.1 -7590 c.55.1.1 -7591 1j2rA 199 2.41e+01 unknown_sccs -6799 1j6zA 376 2.42e+01 1yagA c.55.1.1 62667 c.55.1.1 62668 1i9zA 347 2.42e+01 1i9yA d.151.1.2 62102 1eexA 554 2.42e+01 1dioA c.1.19.3 29650 1nlfA 279 2.43e+01 c.37.1.11 85850 1dd9A 338 2.43e+01 1dd9A e.13.1.1 43254 1o20A 427 2.45e+01 c.82.1.1 86556 1p4kA 295 2.48e+01 d.153.1.5 87772 1fxlA 167 2.48e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1iso 416 2.49e+01 1iso c.77.1.1 35065 1bouB 302 2.52e+01 1bouB c.56.6.1 33859 1dazC 99 2.53e+01 1hvc b.50.1.1 26501 1lfpA 249 2.53e+01 e.39.1.1 73885 1npk 154 2.53e+01 1npk d.58.6.1 39099 1i0vA 104 2.56e+01 9rnt d.1.1.4 36054 1udmA 149 2.57e+01 1rpxA 230 2.57e+01 1rpxA c.1.2.2 28536 1gk8I 140 2.63e+01 d.73.1.1 65242 1q7lA 198 2.64e+01 c.56.5.4 -7886 1vhoA 346 2.66e+01 unknown_sccs -4283 c.56.5.4 -7893 1hh1A 143 2.67e+01 1gefA c.52.1.18 61036 1hgxA 183 2.71e+01 1tc1A c.61.1.1 34027 1ecsA 126 2.73e+01 1ecsA d.32.1.2 59407 1j97A 211 2.79e+01 1f5sA c.108.1.4 62753 1fc6A 388 2.79e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 9gafA 295 2.87e+01 1apyA d.153.1.5 42008 1wdkC 390 2.89e+01 1amp 291 2.90e+01 1amp c.56.5.4 33837 1p0zA 131 2.90e+01 unknown_sccs -10853 1stfI 98 2.92e+01 1stfI d.17.1.2 38006 8acn 754 2.93e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1uesA 191 2.94e+01 1ha1 184 2.96e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1qwgA 251 2.96e+01 unknown_sccs -5678 1h1yA 228 2.97e+01 c.1.2.2 76506 1bpyA 335 2.97e+01 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 2pfkA 320 2.99e+01 3pfk c.89.1.1 35577 1cqqA 180 3.01e+01 1cqqA b.47.1.4 26422 1gpeA 587 3.02e+01 1gpeA c.3.1.2 30387 d.16.1.1 37951 1rkuA 206 3.05e+01 unknown_sccs -6823 1pe1A 267 3.07e+01 c.1.10.4 -5553 1fsz 372 3.08e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1sr9A 644 3.10e+01 1uf5A 303 3.12e+01 1gox 370 3.13e+01 1gox c.1.4.1 28607 1ars 396 3.13e+01 1ajsA c.67.1.1 34287 1qnnA 191 3.15e+01 1avmA a.2.11.1 15792 d.44.1.1 38755 1s0uA 408 3.18e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1fnoA 417 3.32e+01 c.56.5.4 75841 d.58.19.1 70145 1cqxA 403 3.32e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1fwsA 267 3.34e+01 1d9eA c.1.10.4 60063 1bia 321 3.34e+01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1q2wA 308 3.35e+01 b.47.1.4 88355 1dgaA 375 3.36e+01 1yagA 1e8gA 560 3.37e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1nd4A 264 3.37e+01 d.144.1.6 -11381 1vheA 373 3.42e+01 unknown_sccs -4280 c.56.5.4 -7890 1kblA 873 3.44e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1rypC 244 3.47e+01 1rypC d.153.1.4 41934 1r62A 160 3.49e+01 1kdgA 546 3.51e+01 c.3.1.2 77337 d.16.1.1 77338 1jatA 155 3.54e+01 1u9aA d.20.1.1 62818 1fs0G 230 3.58e+01 1fs0G c.49.2.1 59999 1nm2A 317 3.58e+01 c.19.1.1 80654 d.58.23.1 80655 1s1qA 145 3.59e+01 d.20.1.2 -9405 1nxuA 333 3.62e+01 c.122.1.1 86389 1h1nA 305 3.64e+01 c.1.8.3 70855 1cseE 274 3.65e+01 1gci c.41.1.1 32481 1v93A 296 3.68e+01 c.1.23.1 -5654 1o0uA 429 3.77e+01 c.118.1.1 80743 1jcxA 267 3.78e+01 c.1.10.4 66510 1dxy 333 3.81e+01 1dxy c.2.1.4 30094 c.23.12.1 31354 1an9A 340 3.84e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1l7mA 211 3.87e+01 c.108.1.4 73664 1nvmA 345 3.90e+01 a.5.7.1 86249 c.1.10.5 86250 1ukfA 188 3.91e+01 unknown_sccs -8886 1j08A 226 3.98e+01 c.47.1.2 83855 c.47.1.2 83856 1ryp1 222 3.99e+01 1ryp1 1pb1A 416 4.00e+01 c.77.1.1 88014