# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-scores 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 1yr0A 175 1.37e-18 2fe7A 166 1.52e-18 1yvoA 172 3.20e-18 2bl1A 172 1.03e-17 2ge3A 170 6.65e-17 2beiA 170 2.09e-16 1vhsA 175 3.40e-15 d.108.1.1 100698 2cy2A 174 6.40e-15 1tiqA 180 9.61e-15 d.108.1.1 107010 1z4eA 153 1.27e-14 1qsmA 152 2.22e-14 1qsmA d.108.1.1 40808 2b5gA 171 2.29e-14 1s3zA 165 3.38e-14 d.108.1.1 105250 1u6mA 199 4.21e-14 1qsoA 149 4.28e-14 1qsmA d.108.1.1 40812 2ae6A 166 6.07e-14 1wwzA 159 1.89e-13 1y9kA 157 4.71e-13 1gheA 177 7.54e-13 d.108.1.1 76222 2fl4A 149 4.52e-12 1yx0A 159 1.13e-11 1on0A 158 1.19e-11 d.108.1.1 87095 1ufhA 180 1.24e-11 d.108.1.1 88485 1vkcA 158 1.74e-11 1i12A 160 3.53e-11 1i21A d.108.1.1 61515 1mk4A 157 3.87e-11 d.108.1.1 84979 1i1dA 161 4.04e-11 1i21A d.108.1.1 61526 1i21A 159 4.71e-11 1i21A d.108.1.1 61549 2bswA 146 5.08e-11 1q2yA 140 7.20e-11 d.108.1.1 95655 1nslA 184 8.01e-11 d.108.1.1 86137 2c27A 315 8.61e-11 1p0hA 318 1.01e-10 d.108.1.1 93866 1kuxA 207 1.08e-10 d.108.1.1 73021 1cjwA 166 1.33e-10 1cjwA d.108.1.1 40818 2ganA 190 1.38e-10 1yreA 197 2.09e-10 1y9wA 140 2.89e-10 1yvkA 163 3.37e-10 2a4nA 182 4.66e-10 2g3aA 152 4.81e-10 1s7kA 182 5.51e-10 2atrA 138 6.17e-10 1b87A 181 6.23e-10 1b87A d.108.1.1 40797 1n71A 180 6.26e-10 d.108.1.1 85370 1xebA 150 6.93e-10 2fckA 181 2.79e-09 1b6bA 174 2.85e-09 1cjwA d.108.1.1 40819 1bo4A 168 7.12e-09 1bo4A d.108.1.1 40798 1bo4B 168 7.69e-09 1bo4A d.108.1.1 40799 1z4rA 168 9.58e-09 1qstA 160 2.22e-08 1yghA d.108.1.1 40804 5gcnA 166 3.73e-08 1yghA d.108.1.1 40807 2aj6A 159 4.70e-08 1sqhA 312 1.89e-07 d.108.1.5 98966 1y7rA 133 3.33e-07 1yghA 164 3.54e-07 1yghA d.108.1.1 40802 1m4iA 181 7.93e-07 d.108.1.1 74457 2fsrA 195 2.17e-06 1nmtA 392 4.04e-05 1nmtA d.108.1.2,d.108.1.2 40823,40824 1yk3A 210 6.77e-05 1fy7A 278 7.89e-04 1fy7A d.108.1.1 40817 2d4pA 141 1.60e-03 1bob 320 1.80e-03 1bob d.108.1.1 40816 1iicA 422 7.66e-03 1nmtA d.108.1.2,d.108.1.2 62422,62423 2givA 295 8.51e-03 1yleA 342 1.20e-02 1xmtA 103 2.34e-02 1kzfA 230 5.20e-02 d.108.1.3 73354 1ne9A 335 1.02e-01 d.108.1.4,d.108.1.4 91839,91840 1k4jA 230 1.19e-01 d.108.1.3 72057 1ro5A 201 2.49e-01 d.108.1.3 105023 1svjA 156 7.37e-01 d.220.1.1 106049 1shdA 107 7.95e-01 1fmk d.93.1.1 40440 2bhmA 164 1.81e+00 1pxtB 390 2.39e+00 1afwA c.95.1.1,c.95.1.1 35906,35907 1rfmA 344 3.09e+00 c.122.1.1 97385 1o50A 157 3.22e+00 d.37.1.1,d.37.1.1 92478,92479 1afwA 393 3.97e+00 1afwA c.95.1.1,c.95.1.1 35900,35901 1rypH 205 4.74e+00 d.153.1.4 41876 1vicA 262 4.82e+00 c.68.1.13 100756 1y1uA 585 5.12e+00 1m3kA 392 5.26e+00 c.95.1.1,c.95.1.1 78565,78566 1zy9A 564 5.31e+00 1qflA 389 5.40e+00 1afwA c.95.1.1,c.95.1.1 35908,35909 1iznB 277 5.50e+00 e.43.1.2 83848 1gifA 115 6.03e+00 1dptA d.80.1.3 39837 1gd0A 122 6.17e+00 1dptA d.80.1.3 39834 1nxuA 333 6.28e+00 c.122.1.1 86389 1m4tA 392 6.37e+00 c.95.1.1,c.95.1.1 78617,78618 1zo0A 126 6.59e+00 1tuoA 464 7.40e+00 1eysH 259 7.53e+00 6prcH b.41.1.1,f.23.10.1 25484,43517 1xtmA 175 7.98e+00 1y81A 138 8.59e+00 1v2xA 194 8.68e+00 c.116.1.1 100274 1q3iA 214 9.10e+00 d.220.1.1 104524 1f2fA 104 9.20e+00 1fmk d.93.1.1 40455 1diiC 80 9.22e+00 1diiC a.3.1.1 15925 1xtlA 175 9.41e+00 1wveC 80 1.06e+01 1pu1A 94 1.06e+01 d.266.1.1 104307 1vdnA 162 1.11e+01 1shbA 104 1.13e+01 1fmk d.93.1.1 40425 1pvmA 184 1.13e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1llwA 1520 1.25e+01 b.80.4.1,c.1.4.1,d.153.1.1 74017,74018,74019 2gwdA 449 1.35e+01 2gw2A 198 1.41e+01 1qhqA 140 1.43e+01 1qhqA b.6.1.1 63326 1o4rA 108 1.52e+01 d.93.1.1 92469 1ndk 155 1.52e+01 1npk d.58.6.1 39118 2atzA 180 1.57e+01 1ojaA 520 1.60e+01 c.3.1.2,d.16.1.5 93096,93097 1qq4A 198 1.62e+01 1qq4A b.47.1.1 25768 1gt7A 274 1.65e+01 c.74.1.1 70398 1ssxA 198 1.67e+01 b.47.1.1 98978 2alp 198 1.67e+01 1qq4A b.47.1.1 25772 1p04A 198 1.67e+01 1qq4A b.47.1.1 25805 1s4iA 175 1.68e+01 1qysA 106 1.69e+01 k.41.1.1 96603 1f1xA 322 1.70e+01 d.32.1.3,d.32.1.3 83208,83209 1a1aA 107 1.71e+01 1fmk d.93.1.1 40449 1shaA 104 1.74e+01 1fmk d.93.1.1 40424 1ofdA 1520 1.76e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1bawA 105 1.77e+01 1plc b.6.1.1 22868 1stfI 98 1.78e+01 1stfI d.17.1.2 38006 1yueA 427 1.81e+01 1zmaA 118 1.82e+01 1ne6A 283 1.85e+01 b.82.3.2,b.82.3.2 91831,91832 1aop 497 1.88e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1u7eB 154 1.97e+01 1o0sA 605 1.97e+01 c.2.1.7,c.58.1.3 86540,86541 1tljA 213 1.99e+01 d.282.1.1 107126 1s57A 153 2.04e+01 2aop 497 2.05e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39503,39504,41427,41428 1opr 213 2.12e+01 1opr c.61.1.1 34091 1h7xC 1025 2.14e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15689,28634,30330,30615,39013 1h7xB 1025 2.15e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15688,28633,30329,30614,39012 1h7xA 1025 2.15e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1h7wB 1025 2.16e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15684,28629,30325,30610,39008 1h7wD 1025 2.17e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15686,28631,30327,30612,39010 1h7wA 1025 2.18e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1ojrA 274 2.18e+01 c.74.1.1 93147 1gteA 1025 2.18e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1gthC 1025 2.18e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70493,70494,70495,70496,70497 1gthA 1025 2.21e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70483,70484,70485,70486,70487 1rgs 288 2.23e+01 1rgs b.82.3.2,b.82.3.2 28146,28147 2cxaA 256 2.29e+01 1cwoA 165 2.29e+01 2cpl b.62.1.1 27445 1kolA 398 2.31e+01 b.35.1.2,c.2.1.1 77474,77475 1y0bA 197 2.33e+01 1npk 154 2.34e+01 1npk d.58.6.1 39099 1gt8C 1025 2.36e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70428,70429,70430,70431,70432 1h7xD 1025 2.38e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15690,28635,30331,30616,39014 1gteD 1025 2.40e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70455,70456,70457,70458,70459 1qq9A 284 2.41e+01 1xjo c.56.5.4 33841 2cpl 165 2.43e+01 2cpl b.62.1.1 27420 1rvgA 305 2.44e+01 c.1.10.2 97920 1f3fA 155 2.45e+01 1npk d.58.6.1 39101 1sqwA 188 2.47e+01 1yndA 165 2.50e+01 1i9zA 347 2.58e+01 1i9yA d.151.1.2 62102 1i9yA 347 2.58e+01 1i9yA d.151.1.2 62101 1dioA 554 2.59e+01 1dioA c.1.19.3 29656 1eexA 554 2.63e+01 1dioA c.1.19.3 29650 2gfaA 119 2.65e+01 1awqA 164 2.71e+01 2cpl b.62.1.1 27461 1zzmA 259 2.72e+01 1d5tA 433 2.73e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1drtA 324 2.74e+01 1drtA b.82.2.2 28130 1vixA 420 2.75e+01 c.56.5.4,d.58.19.1 100777,100778 1awsA 164 2.75e+01 2cpl b.62.1.1 27431 1ucnA 152 2.81e+01 d.58.6.1 99183 1tf9A 284 2.87e+01 1hqsA 423 2.88e+01 1iso c.77.1.1 61154 1lqpA 135 2.92e+01 d.32.1.2 78151 1nkiA 135 2.92e+01 d.32.1.2 91941 1skyE 473 2.93e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18314,26479,32359 1ipiA 123 2.94e+01 c.52.1.18 66255 1cg2A 393 2.94e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 1j5eK 129 2.96e+01 c.55.4.1 71554 1xqiA 195 3.00e+01 1fjcA 96 3.01e+01 1fjcA d.58.7.1 39212 1ds1A 324 3.05e+01 1drtA b.82.2.2 28127 1lh0A 213 3.06e+01 c.61.1.1 73896 1xjo 284 3.07e+01 1xjo c.56.5.4 33843 1aup 449 3.12e+01 1k89 c.2.1.7,c.58.1.1 30222,33870 1t5yA 190 3.13e+01 b.122.1.1,d.17.6.3 106495,106496 1f1uA 323 3.13e+01 d.32.1.3,d.32.1.3 83200,83201 2bklA 695 3.16e+01 1k89 449 3.16e+01 1k89 c.2.1.7,c.58.1.1 30218,33866 1ox6A 555 3.21e+01 c.1.2.1,c.23.16.1 87505,87506 1vl2A 421 3.27e+01 c.26.2.1,d.210.1.1 108708,108709 1zejA 293 3.30e+01 1tkjA 284 3.31e+01 2bj7A 138 3.36e+01 1k4nA 192 3.40e+01 d.32.1.5 72059 2a5kA 307 3.43e+01 1yagA 375 3.44e+01 1yagA c.55.1.1,c.55.1.1 33449,33450 1g4uS 383 3.44e+01 1g4uS a.24.11.1,c.45.1.2 16643,32691 2d5cA 263 3.49e+01 1o0wA 252 3.52e+01 a.149.1.1,d.50.1.1 80751,80752 2ew2A 316 3.61e+01 1gthB 1025 3.62e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70488,70489,70490,70491,70492 1kllA 130 3.67e+01 d.32.1.2 72720 1s3eA 520 3.67e+01 c.3.1.2,d.16.1.5 98426,98427 1dryA 324 3.73e+01 1drtA b.82.2.2 28128 1z5vA 474 3.74e+01 1gt8B 1025 3.87e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70423,70424,70425,70426,70427 1gt8A 1025 3.93e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70418,70419,70420,70421,70422 1wxdA 263 4.00e+01 1gt8D 1025 4.00e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70433,70434,70435,70436,70437 1rypI 222 4.02e+01 d.153.1.4 41877 1gosA 520 4.03e+01 c.3.1.2,d.16.1.5 65425,65426 1dceA 567 4.04e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 2furA 209 4.06e+01 1k8qA 377 4.12e+01 c.69.1.6 72177 1czaN 917 4.17e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1w94A 156 4.25e+01 2btoA 473 4.32e+01 1zjjA 263 4.38e+01 1lckA 175 4.42e+01 1lckA b.34.2.1,d.93.1.1 24552,40421 1flcA 432 4.45e+01 1flcA b.19.1.3,c.23.10.2 23837,31337 1oo4A 111 4.51e+01 d.93.1.1 87185 1m8jA 181 4.56e+01 c.26.1.3 84875 2fyxA 143 4.62e+01 1dgkN 917 4.67e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33487,33488,33489,33490 1xbfA 140 4.68e+01 d.273.1.1 109538 2as9A 210 4.71e+01 1pbjA 125 4.76e+01 d.37.1.1,d.37.1.1 94414,94415 2bjrA 368 4.78e+01 1p5dX 463 4.83e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2aeuA 374 4.84e+01 1n6zA 105 4.92e+01 d.263.1.1 85369 1r5jA 337 4.94e+01 c.77.1.5 97097 1dgaA 375 4.94e+01 1yagA 2bitX 165 4.97e+01 1q2wA 308 5.08e+01 b.47.1.4 88355 2amdA 311 5.09e+01 1ss4A 153 5.12e+01 d.32.1.6 105976 2cy0A 263 5.16e+01 1zn6A 227 5.16e+01 1gnxA 479 5.19e+01 c.1.8.4 76241 1k2yX 463 5.21e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 2fbyA 205 5.22e+01 1hkcA 917 5.23e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33475,33476,33477,33478 2b18A 164 5.34e+01 1g4wR 383 5.34e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1oroA 213 5.35e+01 1opr c.61.1.1 34093 1rqpA 299 5.40e+01 b.141.1.1,c.132.1.1 97754,97755 1gefA 123 5.44e+01 1gefA c.52.1.18 60465 1hh1A 143 5.46e+01 1gefA c.52.1.18 61036 1knb 196 5.48e+01 1qhvA b.21.1.1 23841 1uf3A 228 5.48e+01 d.159.1.6 99317 1azvA 153 5.48e+01 1mfmA b.1.8.1 22247 2g5dA 422 5.50e+01 1prcH 259 5.59e+01 6prcH b.41.1.1,f.23.10.1 25460,43445 1zbpA 273 5.63e+01 1hkbA 917 5.70e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33479,33480,33481,33482 1g2qA 187 5.72e+01 c.61.1.1 65117 1ayzA 169 5.73e+01 1u9aA d.20.1.1 38326 1zcoA 262 5.81e+01 2iv2X 715 5.82e+01 2gimA 106 5.86e+01 1xnpA 202 5.86e+01 2cfeA 162 5.87e+01 1b4uB 302 5.91e+01 1bouB c.56.6.1 33861 1e79D 482 5.91e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1ujpA 271 5.95e+01 c.1.2.4 99462 1agjA 242 5.98e+01 1agjA b.47.1.1 25827 1aa6 715 6.00e+01 2napA b.52.2.2,c.81.1.1 26916,35324 1wl4A 397 6.06e+01 1ecfB 504 6.07e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 1fnoA 417 6.11e+01 d.58.19.1,c.56.5.4 70145,75841 1oniA 137 6.11e+01 d.79.1.1 87144 1ecfA 504 6.19e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1lcjA 109 6.20e+01 1qadA d.93.1.1 40414 1bouB 302 6.22e+01 1bouB c.56.6.1 33859 1o6aA 96 6.31e+01 b.139.1.1 92562 1df9A 191 6.38e+01 1befA b.47.1.3 26420 2cwkA 160 6.41e+01 1i7xB 151 6.45e+01 1i7xB j.71.1.1 61914 1l8qA 324 6.47e+01 a.4.12.2,c.37.1.20 77809,77810 1ve1A 304 6.53e+01 1te5A 257 6.55e+01 d.153.1.1 106795 1fjgK 129 6.57e+01 1fjfK c.55.4.1 33733 1cqqA 180 6.58e+01 1cqqA b.47.1.4 26422 1ut1A 148 6.59e+01 b.2.3.6 108014 1wzvA 155 6.59e+01 1cvl 319 6.66e+01 1cvl c.69.1.18 34786 2fpnA 216 6.71e+01 1cvrA 435 6.75e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1zkkA 167 6.78e+01 1uurA 473 6.82e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1rypC 244 6.83e+01 1rypC d.153.1.4 41934 2fsjA 346 6.90e+01 1f32A 149 6.93e+01 1f32A d.62.1.1 39539 1cjxA 357 6.98e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 2ae2A 260 7.02e+01 1bdb c.2.1.2 29945 1to6A 371 7.05e+01 c.141.1.1 107170 1a8l 226 7.07e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1dxrH 258 7.11e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 6prcH 258 7.11e+01 6prcH b.41.1.1,f.23.10.1 25457,43436 1mfiA 114 7.13e+01 1dptA d.80.1.3 39856 1bo1A 416 7.14e+01 1bo1A d.143.1.2 41591 2b8eA 273 7.15e+01 2pldA 105 7.18e+01 1qadA d.93.1.1 40521 1xrtA 467 7.21e+01 1ebdA 455 7.32e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1i3zA 103 7.41e+01 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