# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 2bcoA 350 5.22e-25 1yw4A 341 2.33e-22 1qmuA 380 9.26e-03 1qmuA b.3.2.1,c.56.5.1 22534,33827 1h8lA 380 9.75e-03 b.3.2.1,c.56.5.1 65737,65738 2bo9A 308 4.17e-02 2f9cA 334 1.66e+00 1jqgA 433 1.91e+00 c.56.5.1,d.58.3.1 71791,71792 2c1cA 312 2.83e+00 1ttuA 477 3.48e+00 b.1.18.1,b.2.5.8,b.42.7.1 107305,107306,107307 1h4pA 408 3.87e+00 c.1.8.3 90617 1aye 401 4.09e+00 1aye c.56.5.1,d.58.3.1 33824,39065 1ycsB 239 5.24e+00 1ycsB d.211.1.1,b.34.2.1 19155,24553 1dtdA 303 5.86e+00 1aye c.56.5.1 33823 1eugA 229 6.04e+00 3eugA c.18.1.1 31021 1a49A 530 6.40e+00 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1jv1A 505 6.94e+00 c.68.1.5 71892 3eugA 229 7.29e+00 3eugA c.18.1.1 31018 1c0aA 585 7.77e+00 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 2adcA 229 8.62e+00 1csp 67 9.25e+00 1mjc b.40.4.5 25321 1c9oA 66 9.36e+00 1mjc b.40.4.5 25325 1k77A 260 9.92e+00 c.1.15.5 72096 1jwqA 179 9.94e+00 c.56.5.6 90921 2aqjA 538 1.11e+01 1vm8A 534 1.11e+01 1pkn 530 1.14e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27042,29271,33125 1pkm 530 1.25e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27051,29254,33108 1flzA 228 1.26e+01 3eugA c.18.1.1 31027 4eugA 229 1.40e+01 3eugA c.18.1.1 31019 1m1nB 522 1.44e+01 c.92.2.3 78418 1q74A 303 1.50e+01 c.134.1.1 96019 1b5l 172 1.55e+01 1b5l a.26.1.3 16900 1wojA 214 1.65e+01 1s55A 156 1.70e+01 2minB 522 1.79e+01 1qguB c.92.2.3 35610 1y13A 181 1.79e+01 3minB 522 1.82e+01 1qguB c.92.2.3 35606 1f0yA 302 1.83e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1ummA 172 1.97e+01 a.3.1.1 107958 2c8sA 172 1.99e+01 1zj6A 187 2.11e+01 1bynA 128 2.14e+01 1rsy b.7.1.2 23193 1w61A 414 2.18e+01 1c7nA 399 2.20e+01 1d2fA c.67.1.3 34413 1v8fA 276 2.28e+01 c.26.1.4 100503 1x7vA 99 2.35e+01 d.58.4.11 109501 1kcqA 104 2.53e+01 d.109.1.1 68449 1ndbA 596 2.55e+01 c.43.1.3,c.43.1.3 80411,80412 1zcbA 362 2.57e+01 1eqcA 394 2.57e+01 1cz1A c.1.8.3 28811 1iqaA 160 2.63e+01 b.22.1.1 71274 1jdqA 98 2.65e+01 d.68.3.3 66559 2g50A 530 2.67e+01 1wr7A 41 2.69e+01 2hdhA 293 2.88e+01 2hdhA a.100.1.3,c.2.1.6 18795,30199 1rsy 152 2.97e+01 1rsy b.7.1.2 23192 1ruwA 69 2.99e+01 1cz1A 394 3.04e+01 1cz1A c.1.8.3 28839 3mefA 69 3.05e+01 1mjc b.40.4.5 25320 1tbmA 326 3.19e+01 a.211.1.2 106744 1yp5A 58 3.20e+01 1ivnA 190 3.26e+01 c.23.10.5 83719 1v1aA 309 3.37e+01 c.72.1.1 100249 1z9lA 128 3.44e+01 1vj0A 380 3.45e+01 b.35.1.2,c.2.1.1 100786,100787 1rc6A 261 3.46e+01 b.82.1.11 97287 1gnxA 479 3.52e+01 c.1.8.4 76241 1nonA 179 3.60e+01 c.61.1.1 103868 1l8nA 679 3.60e+01 c.1.8.10,d.92.2.2 84564,84565 1aocA 175 3.64e+01 1aocA g.17.1.5 44817 1vd5A 377 3.73e+01 a.102.1.7 108518 1k9dA 679 3.83e+01 c.1.8.10,d.92.2.2 77292,77293 1euiA 228 3.86e+01 3eugA c.18.1.1 31028 1mjc 69 3.93e+01 1mjc b.40.4.5 25319 1x2kA 68 3.98e+01 1ja1A 622 4.17e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 2occE 109 4.18e+01 2occE a.118.11.1 19224 1l3iA 192 4.23e+01 c.66.1.22 77676 1ki9A 192 4.35e+01 c.37.1.1 84404 1v54E 109 4.37e+01 a.118.11.1 100326 1xznA 179 4.46e+01 2c78A 405 4.46e+01 1vpbA 451 4.48e+01 1qm9A 198 4.56e+01 1qm9A d.58.7.1,d.58.7.1 39207,39208 2cxvA 219 4.61e+01 1sefA 274 4.65e+01 b.82.1.11 105452 1gxmA 332 4.70e+01 a.102.5.1 76371 1wcgA 464 4.70e+01 3ullA 132 4.72e+01 3ullA b.40.4.3 25282 1t0iA 191 4.73e+01 c.23.5.4 106209 1f47B 144 4.74e+01 1f46A d.129.4.1 59645 1hv2A 99 4.74e+01 d.42.1.1 61287 1nnhA 294 4.88e+01 d.104.1.1 92005 1midA 91 4.91e+01 a.52.1.1 91280 1rlkA 117 4.95e+01 c.131.1.1 97651 2g6fX 59 4.98e+01 1wh0A 134 4.99e+01 1zklA 353 4.99e+01 1semA 58 5.04e+01 1ckaA b.34.2.1 24544 1exmA 405 5.14e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1cauA 181 5.40e+01 1dgwA b.82.1.2 28102 1eft 405 5.40e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 1df7A 159 5.41e+01 3dfr c.71.1.1 34885 1mioB 458 5.44e+01 1qguB c.92.2.3 35602 1aipA 405 5.49e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1to6A 371 5.52e+01 c.141.1.1 107170 1ha3A 405 5.55e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1kgqA 274 5.59e+01 b.81.1.2 72447 2booA 247 5.66e+01 1m98A 317 5.68e+01 a.175.1.1,d.17.4.6 78866,78867 1qi9A 556 5.72e+01 1qhbA a.111.1.2 19053 1aipE 405 5.79e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1mhdA 132 5.81e+01 1mhdA d.164.1.1 42175 2fpeA 62 5.82e+01 1anu 138 5.86e+01 1aohA b.2.2.2 22403 1d1nA 99 5.88e+01 1d1nA b.43.3.1 25718 1ouoA 210 5.90e+01 d.4.1.6 93554 1fp3A 402 5.95e+01 1fp3A a.102.1.3 18842 1m4lA 307 5.99e+01 c.56.5.1 78604 1k38A 254 6.13e+01 e.3.1.1 84303 1nykA 165 6.15e+01 b.33.1.1 86408 1o0xA 262 6.26e+01 d.127.1.1 80755 1xteA 154 6.28e+01 1ozjA 144 6.35e+01 d.164.1.1 93846 5eau 548 6.39e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1th0A 226 6.40e+01 d.3.1.7 106903 2ak5A 64 6.59e+01 1dgwA 178 6.61e+01 1dgwA b.82.1.2 28090 2fi1A 190 6.63e+01 1jrkA 156 6.68e+01 d.113.1.1 71827 1nc5A 373 6.73e+01 a.102.1.6 85548 1t2wA 145 6.97e+01 b.100.1.1 106289 1yt8A 539 7.01e+01 2ctb 307 7.03e+01 1aye c.56.5.1 33803 1ijaA 148 7.29e+01 1ijaA b.100.1.1 62484 1a3c 181 7.29e+01 1a3c c.61.1.1 34095 1yme 309 7.30e+01 1aye c.56.5.1 33804 1pq4A 291 7.32e+01 c.92.2.2 94995 1m2kA 249 7.34e+01 c.31.1.5 84754 1vmfA 145 7.35e+01 1qguB 519 7.46e+01 1qguB c.92.2.3 35626 1dgrC 178 7.46e+01 1dgwA b.82.1.2 28100 1vmaA 306 7.55e+01 a.24.13.1,c.37.1.10 108887,108888 2fflA 756 7.58e+01 2f4eA 180 7.69e+01 1db3A 372 7.70e+01 1db3A c.2.1.2 29813 2ctc 307 7.86e+01 1aye c.56.5.1 33802 1zbqA 327 7.98e+01 3hmgA 328 8.18e+01 1hgeA b.19.1.2 23825 2tdt 274 8.19e+01 3tdt b.81.1.2 28054 1w9sA 142 8.29e+01 1efcA 393 8.33e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1yqyA 523 8.34e+01 1fb6A 105 8.34e+01 1thx c.47.1.1 32739 1hgeA 328 8.39e+01 1hgeA b.19.1.2 23816 1vbuA 328 8.39e+01 1f46A 140 8.43e+01 1f46A d.129.4.1 59643 2cxaA 256 8.56e+01 2viuA 328 8.61e+01 1hgeA b.19.1.2 23797 1zxfA 155 8.63e+01 1jopA 155 8.78e+01 b.82.2.7 84187 1orjA 130 8.90e+01 a.24.19.1 93456 1azsC 388 8.91e+01 1cipA a.66.1.1,c.37.1.8 18203,32086