# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 2b49A 287 1.25e+00 2ap1A 327 1.30e+00 1yw5A 177 1.47e+00 1p90A 145 1.76e+00 c.55.5.2 94377 1jhdA 396 2.20e+00 b.122.1.3,c.26.1.5 66712,66713 3cla 213 2.42e+00 3cla c.43.1.1 32610 1u6dX 308 2.44e+00 1zgkA 308 2.49e+00 1v4sA 455 2.81e+00 c.55.1.3,c.55.1.3 100309,100310 1x3mA 415 2.83e+00 1wbpA 397 4.41e+00 1wdtA 665 4.73e+00 1zc6A 305 5.66e+00 1j5pA 253 6.71e+00 d.81.1.3,c.2.1.3 71577,83092 1jpc 109 6.87e+00 1b2pA b.78.1.1 27986 1poiB 260 6.95e+00 1poiB c.124.1.3 34155 1svy 114 6.99e+00 1svy d.109.1.1 40831 1m2kA 249 8.43e+00 c.31.1.5 84754 1q8iA 783 8.66e+00 c.55.3.5,e.8.1.1 96208,96209 1jx4A 352 8.71e+00 d.240.1.1,e.8.1.7 90378,90379 1pu5A 164 8.80e+00 b.95.1.1 104310 1howA 373 8.86e+00 1hcl d.144.1.7 41679 2bkrA 212 9.81e+00 1uwzA 136 1.03e+01 c.97.1.1 108081 1dhs 344 1.06e+01 1dhs c.31.1.1 31727 1g13A 162 1.07e+01 1g13A b.95.1.1 60194 2ajrA 331 1.08e+01 1ztpA 251 1.18e+01 2beiA 170 1.20e+01 2dfkA 402 1.21e+01 1zip 217 1.26e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1g60A 260 1.36e+01 c.66.1.11 70151 1eo1A 124 1.36e+01 1eo1A c.55.5.1 33739 2c60A 111 1.37e+01 1z83A 196 1.38e+01 1jtkA 136 1.38e+01 c.97.1.1 71862 1qqcA 773 1.49e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1zin 217 1.51e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1q8yA 373 1.51e+01 d.144.1.7 96234 1tiiD 99 1.51e+01 1tiiD b.40.2.1 24965 1a05A 358 1.53e+01 1cnzA c.77.1.1 35059 2eu9A 355 1.60e+01 1ig8A 486 1.66e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1dkzA 219 1.74e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 2fr1A 486 1.79e+01 1zg2A 107 1.82e+01 1xt9A 212 1.83e+01 2bkqA 212 1.85e+01 1ukz 203 1.95e+01 1zin c.37.1.1 31840 1g99A 408 2.07e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1rlzA 369 2.12e+01 c.31.1.1 104989 1whzA 70 2.16e+01 1xs0A 136 2.16e+01 2b7aA 293 2.21e+01 1qb5D 99 2.22e+01 b.40.2.1 88357 1o4sA 389 2.25e+01 c.67.1.1 86620 1sd4A 126 2.29e+01 a.4.5.39 105428 3nul 130 2.31e+01 3nul d.110.1.1 40891 1lu4A 136 2.33e+01 c.47.1.10 91124 1g8fA 511 2.39e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1u00A 227 2.39e+01 1k2eA 156 2.40e+01 d.113.1.1 72010 1pinA 163 2.42e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 1gpc 218 2.42e+01 1gpc b.40.4.7 25393 1zd8A 227 2.47e+01 2bk7B 222 2.51e+01 2bo9B 222 2.51e+01 1i05A 180 2.54e+01 1mup b.60.1.1 27130 1y74A 57 2.59e+01 2a4hA 126 2.65e+01 1ooeA 236 2.70e+01 c.2.1.2 87196 1k8kC 372 2.81e+01 b.69.4.1 68308 1wrjA 156 2.82e+01 1uoyA 64 2.84e+01 g.3.19.1 99709 1kjkA 64 2.94e+01 d.10.1.4 72613 1pi1A 185 2.95e+01 a.29.7.1 94699 1g2rA 100 2.98e+01 1g2rA d.192.1.1 60231 1ytqA 204 3.01e+01 1vl4A 447 3.02e+01 d.283.1.1 108718 1neiA 60 3.04e+01 d.253.1.1 91843 1wryA 121 3.06e+01 2ak3A 226 3.07e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1e9mA 106 3.10e+01 1ayfA d.15.4.1 59397 1jv4A 162 3.10e+01 b.60.1.1 67343 1f1zA 273 3.16e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1xd5A 112 3.19e+01 1b4vA 504 3.20e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 1pov1 302 3.25e+01 1pov1 2cr9A 139 3.32e+01 1cb8A 678 3.38e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1xg8A 111 3.41e+01 1x6oA 174 3.42e+01 b.34.5.2,b.40.4.5 109493,109494 2a1kA 233 3.44e+01 1lkkA 105 3.47e+01 1lckA d.93.1.1 40412 1z2mA 155 3.49e+01 1hxs1 302 3.51e+01 1khdA 345 3.53e+01 a.46.2.1,c.27.1.1 77400,77401 1mup 166 3.59e+01 1mup b.60.1.1 27133 1kcqA 104 3.62e+01 d.109.1.1 68449 2fhzA 109 3.63e+01 1zxuA 217 3.67e+01 1x0rA 249 3.70e+01 1t6cA 315 3.71e+01 c.55.1.8,c.55.1.8 106558,106559 1f9aA 168 3.72e+01 1f9aA c.26.1.3 31602 1xodA 118 3.73e+01 1i06A 180 3.74e+01 1mup b.60.1.1 27131 1qlaB 239 3.76e+01 1qlaB a.1.2.1,d.15.4.2 15679,37707 1pda 315 3.78e+01 1pda c.94.1.1,d.50.2.1 35751,38794 1w1wA 430 3.93e+01 1sazA 381 3.95e+01 1lc0A 294 3.98e+01 c.2.1.3,d.81.1.4 73823,73824 1ayoA 130 4.04e+01 1ayoA b.2.4.1 22431 9gafA 295 4.07e+01 1apyA d.153.1.5 42008 2agcA 162 4.08e+01 1x6vA 630 4.10e+01 1iw7C 1119 4.10e+01 e.29.1.1 71474 1uwmA 106 4.12e+01 1woqA 267 4.13e+01 c.55.1.10,c.55.1.10 109462,109463 1ofuX 119 4.15e+01 c.37.1.22 86976 5ukdA 194 4.19e+01 1zin c.37.1.1 31851 2fy6A 143 4.22e+01 1rpyA 114 4.23e+01 d.93.1.1 97718 1a8l 226 4.24e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 2bb2 181 4.28e+01 2bb2 b.11.1.1,b.11.1.1 23604,23605 1tltA 319 4.30e+01 c.2.1.3,d.81.1.5 107135,107136 1wnaA 131 4.31e+01 1w9aA 147 4.35e+01 1y71A 130 4.39e+01 2gkpA 167 4.41e+01 1qc7A 101 4.49e+01 1qc7A a.118.14.1 18456 1x9mA 698 4.56e+01 1vheA 373 4.58e+01 b.49.3.1,c.56.5.4 100669,100670 1ohzB 60 4.59e+01 a.139.1.1 93044 1sqsA 242 4.63e+01 c.23.5.5 98968 1qf9A 194 4.69e+01 1zin c.37.1.1 31848 1mxtA 504 4.77e+01 c.3.1.2,d.16.1.1 79671,79672 1on0A 158 4.81e+01 d.108.1.1 87095 1otgA 125 4.82e+01 1otgA d.80.1.2 39831 1gvnB 287 4.89e+01 c.37.1.21 76354 2bkfA 87 4.90e+01 1wi0A 113 4.98e+01 1s3cA 141 5.00e+01 1z5yE 149 5.00e+01 1spgA 144 5.02e+01 1abwA a.1.1.2 15409 1uheA 97 5.05e+01 1iktA 120 5.11e+01 d.106.1.1 66188 1frd 98 5.11e+01 1awd d.15.4.1 37648 1n4wA 504 5.13e+01 c.3.1.2,d.16.1.1 91676,91677 1g5cA 170 5.20e+01 1g5cA c.53.2.1 60264 2a6hC 1119 5.23e+01 1tn6B 437 5.29e+01 1qy1A 174 5.30e+01 b.60.1.1 96568 1h3gA 601 5.31e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 2g7zA 282 5.32e+01 1j9bA 141 5.37e+01 c.47.1.12 66459 1jykA 254 5.38e+01 c.68.1.13 67458 1l3lA 234 5.45e+01 a.4.6.2,d.110.5.1 73541,73542 1k4mA 213 5.46e+01 c.26.1.3 77258 1amm 174 5.54e+01 1amm b.11.1.1,b.11.1.1 23587,23588 1czpA 98 5.58e+01 1awd d.15.4.1 37645 1r6xA 395 5.62e+01 b.122.1.3,c.26.1.5 97167,97168 1oj7A 408 5.63e+01 e.22.1.2 103971 1ckaA 57 5.76e+01 1ckaA b.34.2.1 24459 1jhgA 101 5.76e+01 1jhgA a.4.12.1 19009 1gxqA 106 5.78e+01 a.4.6.1 70721 1jihA 531 5.84e+01 d.240.1.1,e.8.1.7 90374,90375 1e8yA 966 5.85e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 2cn3A 737 5.96e+01 1hw6A 278 5.99e+01 1frb c.1.7.1 61296 1w9cA 321 5.99e+01 1k07A 263 6.01e+01 d.157.1.1 77218 1yd0A 96 6.06e+01 1qz8A 113 6.07e+01 b.140.1.1 96619 2fz4A 237 6.10e+01 1b5pA 385 6.12e+01 c.67.1.1 90403 1vhoA 346 6.14e+01 b.49.3.1,c.56.5.4 100694,100695 1bjwA 382 6.15e+01 1bjwA c.67.1.1 34349 1kngA 156 6.16e+01 c.47.1.10 72777 1nukA 183 6.20e+01 1nukA b.18.1.4 23721 1r5iD 216 6.30e+01 a.202.1.1 97091 2biiA 424 6.30e+01 2acaA 189 6.37e+01 1gcuA 295 6.42e+01 1gcuA c.2.1.3,d.81.1.4 30063,39978 1nrvA 105 6.47e+01 d.93.1.1 86126 1gky 187 6.55e+01 1gky c.37.1.1 31839 1o13A 136 6.56e+01 c.55.5.1 80762 1uj0A 62 6.59e+01 b.34.2.1 99449 2bt2A 161 6.65e+01 1v52A 133 6.71e+01 1r1qA 100 6.74e+01 d.93.1.1 104763 1shfA 59 6.77e+01 1bbzA b.34.2.1 24462 1tvxA 75 6.79e+01 1tvxA d.9.1.1 37441 1ld8B 437 6.82e+01 a.102.4.3 73839 1nm1G 125 6.86e+01 d.109.1.1 80653 1xx1A 285 6.86e+01 1n13A 52 6.89e+01 d.155.1.2 85248 1dynA 125 6.93e+01 1dynA b.55.1.1 26955 2b5eA 504 7.02e+01 1s3aA 102 7.04e+01 2bl1A 172 7.09e+01 1wraA 308 7.18e+01 1v58A 241 7.19e+01 c.47.1.9,d.17.3.1 108371,108372 1uanA 227 7.26e+01 c.134.1.1 99135 1vhxA 150 7.27e+01 c.55.3.8 100712 1lehA 364 7.31e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1t7pA 698 7.33e+01 1t7pA c.55.3.5,e.8.1.1 33712,43005 1gc5A 467 7.35e+01 1gc5A c.72.1.3 60429 1jeyA 609 7.36e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 1ma3A 253 7.37e+01 c.31.1.5 78883 1h8gA 95 7.39e+01 b.109.1.1 65735 1ui8A 638 7.46e+01 b.30.2.1,d.17.2.1,d.17.2.1 99419,99420,99421 2c31A 568 7.52e+01 2ag9A 164 7.54e+01 1k32A 1045 7.55e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1t0fA 276 7.63e+01 1lvwA 295 7.67e+01 c.68.1.6 84723 1mkeA 152 7.69e+01 b.55.1.4 79231 1kgyA 181 7.73e+01 b.18.1.4 72449 2liv 344 7.79e+01 2liv c.93.1.1 35708 1kjwA 295 7.80e+01 b.34.2.1,c.37.1.1 68643,68644 1jkxA 212 7.82e+01 c.65.1.1 66813 1t71A 281 7.86e+01 1ydnA 295 7.86e+01 1pbyB 337 7.88e+01 b.69.2.2 94422 1m8uA 173 7.94e+01 b.11.1.1,b.11.1.1 91233,91234 1w6gA 646 8.07e+01 1sixA 174 8.13e+01 b.85.4.1 98892 1xxoA 147 8.13e+01 2b33A 140 8.14e+01 2bv2A 83 8.16e+01 2gk3A 256 8.17e+01 1vggA 161 8.22e+01 1p2fA 220 8.27e+01 a.4.6.1,c.23.1.1 87720,87721 1unqA 125 8.31e+01 b.55.1.1 107968 1ovnA 248 8.35e+01 a.71.1.1,c.47.1.7 93602,93603 2a7yA 83 8.38e+01 2sak 121 8.40e+01 2sak d.15.5.1 37711 2ag4A 164 8.41e+01 1g7oA 215 8.45e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1lktA 104 8.48e+01 1lktA b.90.1.1 28398 1lba 146 8.57e+01 1lba d.118.1.1 41062 1zirA 173 8.57e+01 2es9A 115 8.62e+01 2bc4A 211 8.62e+01 1p4kA 295 8.67e+01 d.153.1.5 87772 1h10A 125 8.70e+01 b.55.1.1 83446 1d4xG 126 8.79e+01 1d0nA d.109.1.1 59109 2a2pA 129 8.79e+01 1jnrB 150 8.82e+01 d.58.1.5 66969 1x1gA 129 8.88e+01 1qlmA 316 8.97e+01 1qlmA d.147.1.1 41765 1yumA 242 8.99e+01