# List of top-scoring protein chains for t2k-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 1tiqA 180 1.01e-23 1vhsA 175 1.17e-21 d.108.1.1 -10794 1gheA 177 1.46e-16 d.108.1.1 76222 1s3zA 165 2.53e-16 1qsoA 149 1.18e-15 1qsmA d.108.1.1 40812 1qsmA 152 2.10e-15 1qsmA d.108.1.1 40808 1cjwA 166 4.09e-13 1cjwA d.108.1.1 40818 1on0A 158 5.07e-13 d.108.1.1 87095 1p0hA 318 6.31e-13 d.108.1.1 -10802 1ufhA 180 6.39e-13 d.108.1.1 88485 1mk4A 157 6.60e-13 d.108.1.1 84979 1kuxA 207 1.16e-12 d.108.1.1 73021 1qstA 160 1.40e-12 1yghA d.108.1.1 40804 1i21A 159 2.18e-12 1i21A d.108.1.1 61549 1i12A 160 2.20e-12 1i21A d.108.1.1 61515 1q2yA 140 2.48e-12 d.108.1.1 -10791 1i1dA 161 2.90e-12 1i21A d.108.1.1 61526 1nslA 184 5.01e-12 d.108.1.1 86137 1b87A 181 8.71e-12 1b87A d.108.1.1 40797 1n71A 180 9.95e-12 d.108.1.1 85370 1bo4A 168 1.27e-10 1bo4A d.108.1.1 40798 5gcnA 166 1.96e-10 1yghA d.108.1.1 40807 1bo4B 168 2.76e-10 1bo4A d.108.1.1 40799 1yghA 164 1.91e-08 1yghA d.108.1.1 40802 1sqhA 312 3.89e-08 unknown_sccs -10812 1m4iA 181 9.71e-07 d.108.1.1 74457 1nmtA 392 3.79e-05 1nmtA d.108.1.2 40823 d.108.1.2 40824 1iicA 422 1.03e-03 1nmtA d.108.1.2 62422 d.108.1.2 62423 1bob 320 1.03e-03 1bob d.108.1.1 40816 1fy7A 278 4.30e-03 1fy7A d.108.1.1 40817 1ne9A 335 5.18e-02 d.108.1.4 -10805 d.108.1.4 -10806 1kzfA 230 1.17e-01 d.108.1.3 73354 1k4jA 230 2.11e-01 d.108.1.3 72057 1lrzA 426 2.59e-01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1n0uA 842 2.81e-01 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1oltA 457 1.04e+00 unknown_sccs -5688 1ml4A 308 1.33e+00 c.78.1.1 79255 c.78.1.1 79256 1jmxA 494 1.69e+00 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 1bgvA 449 2.00e+00 1k89 c.2.1.7 30217 c.58.1.1 33865 1hrdA 449 2.05e+00 1k89 c.2.1.7 30219 c.58.1.1 33867 1pxtB 390 2.17e+00 1afwA c.95.1.1 35906 c.95.1.1 35907 1afwA 393 2.26e+00 1afwA c.95.1.1 35900 c.95.1.1 35901 1o50A 157 2.40e+00 d.37.1.1 -9604 d.37.1.1 -9605 1h3nA 878 2.94e+00 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1gv3A 248 3.07e+00 a.2.11.1 70585 d.44.1.1 70586 1skyE 473 3.09e+00 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1dik 874 3.68e+00 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1o20A 427 3.73e+00 c.82.1.1 86556 1kblA 873 4.03e+00 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1f1xA 322 4.03e+00 d.32.1.3 83208 d.32.1.3 83209 1iznB 277 4.04e+00 e.43.1.2 83848 1ig8A 486 4.05e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 1k89 449 4.19e+00 1k89 c.2.1.7 30218 c.58.1.1 33866 1fsgA 233 4.19e+00 1qk3A c.61.1.1 34029 1isaA 192 4.73e+00 1avmA a.2.11.1 15731 d.44.1.1 38724 1ci0A 228 4.74e+00 1ci0A b.45.1.1 25750 1jatA 155 4.77e+00 1u9aA d.20.1.1 62818 1dgaA 375 4.77e+00 1yagA 1iscA 192 5.18e+00 1avmA a.2.11.1 15733 d.44.1.1 38726 1ecfA 504 5.25e+00 1ecfB c.61.1.1 34053 d.153.1.1 41820 1uyrA 737 5.59e+00 c.14.1.4 -6258 c.14.1.4 -6259 1n9lA 109 5.71e+00 d.110.3.6 85468 1i0rA 169 5.82e+00 1i0rA b.45.1.2 61489 1i0sA 169 5.82e+00 1i0rA b.45.1.2 61491 1jqgA 433 5.91e+00 c.56.5.1 71791 d.58.3.1 71792 1d4xA 375 6.09e+00 1yagA c.55.1.1 59107 c.55.1.1 59108 1ecfB 504 6.16e+00 1ecfB c.61.1.1 34054 d.153.1.1 41821 1j6zA 376 6.16e+00 1yagA c.55.1.1 62667 c.55.1.1 62668 1shdA 107 6.37e+00 1fmk d.93.1.1 40440 1o5oA 221 6.81e+00 c.61.1.1 -7954 1qz5A 375 7.06e+00 c.55.1.1 -7590 c.55.1.1 -7591 1e79D 482 7.08e+00 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1stfI 98 7.39e+00 1stfI d.17.1.2 38006 1lkdA 297 7.56e+00 d.32.1.3 78059 d.32.1.3 78060 1eysH 259 7.63e+00 6prcH b.41.1.1 25484 f.23.10.1 43517 1h8eD 482 7.76e+00 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1thm 279 7.78e+00 1gci c.41.1.1 32544 1han 297 7.82e+00 1han d.32.1.3 38506 d.32.1.3 38507 1my6A 199 8.38e+00 a.2.11.1 85232 d.44.1.1 85233 1cwoA 165 8.44e+00 2cpl b.62.1.1 27445 1s01 283 8.53e+00 1gci c.41.1.1 32511 2cpl 165 8.61e+00 2cpl b.62.1.1 27420 1idk 359 8.64e+00 1qcxA b.80.1.2 28025 2btfA 375 8.96e+00 1yagA c.55.1.1 33429 c.55.1.1 33430 1od2A 805 9.00e+00 c.14.1.4 86821 c.14.1.4 86822 1b34B 118 9.04e+00 1b34B b.38.1.1 24797 1vhmA 195 9.30e+00 d.110.2.1 -10828 1gci 269 9.54e+00 1gci c.41.1.1 32503 1l3kA 196 9.60e+00 d.58.7.1 73539 d.58.7.1 73540 1tuhA 156 1.02e+01 1f1uA 323 1.02e+01 d.32.1.3 83200 d.32.1.3 83201 1udb 338 1.09e+01 1xel c.2.1.2 29787 1feuA 206 1.10e+01 1feuA b.53.1.1 59801 1lgtA 297 1.11e+01 d.32.1.3 77956 d.32.1.3 77957 1awsA 164 1.14e+01 2cpl b.62.1.1 27431 1awqA 164 1.15e+01 2cpl b.62.1.1 27461 1gsa 316 1.16e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1ndk 155 1.23e+01 1npk d.58.6.1 39118 1xel 338 1.27e+01 1xel c.2.1.2 29786 1fcbA 511 1.30e+01 1gox c.1.4.1 28620 d.120.1.1 41087 1kvs 338 1.31e+01 1xel c.2.1.2 29799 1ihgA 370 1.31e+01 2cpl a.118.8.1 62380 b.62.1.1 62381 1kllA 130 1.34e+01 d.32.1.2 72720 2udpA 338 1.38e+01 1xel c.2.1.2 29791 1udc 338 1.38e+01 1xel c.2.1.2 29785 1cg2A 393 1.39e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1ha1 184 1.45e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1ofdA 1520 1.46e+01 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1cr1A 296 1.50e+01 1cr1A c.37.1.11 32286 1lh0A 213 1.53e+01 c.61.1.1 73896 1i9yA 347 1.59e+01 1i9yA d.151.1.2 62101 1j2rA 199 1.62e+01 unknown_sccs -6799 1nom 248 1.63e+01 1bpyA a.60.12.1 75929 d.218.1.2 75930 1h75A 81 1.64e+01 1h75A c.47.1.1 60716 1mngA 203 1.64e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1cvjB 190 1.65e+01 1cvjB d.58.7.1 39193 d.58.7.1 39194 1fxlA 167 1.65e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1i9zA 347 1.67e+01 1i9yA d.151.1.2 62102 1fs0G 230 1.78e+01 1fs0G c.49.2.1 59999 1t82A 155 1.79e+01 1nmeA 146 1.81e+01 c.17.1.1 85874 1ao0A 459 1.82e+01 1ecfB c.61.1.1 34049 d.153.1.1 41816 1gc0A 398 1.82e+01 c.67.1.3 70168 1eexA 554 1.83e+01 1dioA c.1.19.3 29650 1pauA 147 1.92e+01 1pauA c.17.1.1 30994 1aa8A 347 1.92e+01 1an9A 1cqqA 180 1.99e+01 1cqqA b.47.1.4 26422 1uufA 369 1.99e+01 b.35.1.2 -3706 c.2.1.1 -5730 1llwA 1520 2.01e+01 b.80.4.1 74017 c.1.4.1 74018 d.153.1.1 74019 1an9A 340 2.02e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1dioA 554 2.06e+01 1dioA c.1.19.3 29656 1h0pA 182 2.07e+01 b.62.1.1 76450 1bsmA 201 2.09e+01 1avmA a.2.11.1 15780 d.44.1.1 38743 1avmA 201 2.13e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 1cvl 319 2.20e+01 1cvl c.69.1.18 34786 1gox 370 2.27e+01 1gox c.1.4.1 28607 1gk8I 140 2.28e+01 d.73.1.1 65242 1gtmA 419 2.29e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1npk 154 2.33e+01 1npk d.58.6.1 39099 1ve9A 347 2.36e+01 c.4.1.2 -6056 d.16.1.3 -9214 1vheA 373 2.38e+01 unknown_sccs -4280 c.56.5.4 -7890 1qoiA 177 2.40e+01 2cpl b.62.1.1 27490 1bqyA 234 2.41e+01 5ptp b.47.1.2 26332 1fp2A 352 2.42e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1h7zA 194 2.44e+01 1qhvA b.21.1.1 60733 1qnnA 191 2.46e+01 1avmA a.2.11.1 15792 d.44.1.1 38755 1vicA 262 2.46e+01 c.68.1.13 -8252 1f3fA 155 2.51e+01 1npk d.58.6.1 39101 1cvjA 190 2.53e+01 1cvjB d.58.7.1 39191 d.58.7.1 39192 1nkiA 135 2.54e+01 d.32.1.2 -9544 1oalA 151 2.55e+01 b.1.8.1 86739 1lqpA 135 2.56e+01 d.32.1.2 78151 1pbjA 125 2.56e+01 d.37.1.1 -9608 d.37.1.1 -9609 1gr8A 412 2.63e+01 1ockA 412 2.63e+01 c.117.1.1 86802 1nrgA 261 2.66e+01 b.45.1.1 80694 1tahA 318 2.75e+01 1cvl c.69.1.18 34775 1p04A 198 2.75e+01 1qq4A b.47.1.1 25805 1ne6A 283 2.75e+01 b.82.3.2 -4918 b.82.3.2 -4919 1qq4A 198 2.75e+01 1qq4A b.47.1.1 25768 1ssxA 198 2.77e+01 b.47.1.1 -4112 2alp 198 2.77e+01 1qq4A b.47.1.1 25772 1cp3A 277 2.79e+01 1pauA c.17.1.1 30992 1fn8A 224 2.79e+01 5ptp b.47.1.2 26012 2minB 522 2.82e+01 1qguB c.92.2.3 35610 1n6aA 259 2.86e+01 b.76.2.1 80121 b.85.7.1 80122 1a58 177 2.88e+01 2cpl b.62.1.1 27495 3minB 522 2.93e+01 1qguB c.92.2.3 35606 1rz1A 161 2.96e+01 b.45.1.2 -4088 1qysA 106 3.01e+01 unknown_sccs -13432 1g5gB 481 3.08e+01 f.12.1.1 65157 h.3.2.1 65158 1m1nB 522 3.12e+01 c.92.2.3 78418 1opr 213 3.13e+01 1opr c.61.1.1 34091 1uesA 191 3.15e+01 1yaiA 151 3.16e+01 1yaiA b.1.8.1 22289 1mxgA 435 3.23e+01 b.71.1.1 85193 c.1.8.1 85194 1cr0A 296 3.25e+01 1cr1A c.37.1.11 32287 1eulA 994 3.27e+01 1eulA 1ad3A 452 3.33e+01 1ad3A c.82.1.1 35335 1hqsA 423 3.36e+01 1iso c.77.1.1 61154 1ltdA 506 3.42e+01 1gox c.1.4.1 28618 d.120.1.1 41086 1pvmA 184 3.46e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1su4A 994 3.50e+01 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1rfmA 344 3.51e+01 c.122.1.1 -8032 1hkcA 917 3.59e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1fr9A 194 3.60e+01 1fr9A c.68.1.8 34579 1r62A 160 3.69e+01 1jokA 149 3.85e+01 1snc b.40.1.1 63214 1bzyA 217 3.90e+01 1qk3A c.61.1.1 34071 1iv0A 98 3.96e+01 unknown_sccs -7667