# List of top-scoring protein chains for t06-100-40-40-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 2c78A 405 3.06e-02 2fhxA 246 1.45e-01 1uebA 184 2.52e-01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1m2xA 223 2.71e-01 d.157.1.1 84764 1x8hA 228 2.89e-01 1kk1A 410 3.21e-01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1oalA 151 7.63e-01 b.1.8.1 86739 1hd7A 318 8.33e-01 1bix d.151.1.1 41780 1x8gA 227 9.32e-01 1z6bA 154 1.16e+00 1jjtA 228 1.82e+00 1a7tA d.157.1.1 63139 2c5qA 240 2.23e+00 2bz6H 254 2.28e+00 1gxuA 91 2.90e+00 d.58.10.1 76378 1bx1A 314 3.07e+00 1fnc b.43.4.2,c.25.1.1 25629,31519 1owxA 121 3.09e+00 d.58.7.1 87494 1ok0A 74 3.44e+00 b.5.1.1 93191 1hn0A 1021 3.79e+00 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 2as9A 210 3.82e+00 1gpc 218 3.84e+00 1gpc b.40.4.7 25393 1fnd 314 4.03e+00 1fnc b.43.4.2,c.25.1.1 25626,31516 1neu 124 4.44e+00 1neu b.1.1.1 19704 1oaqL 120 4.50e+00 b.1.1.1 92708 1cid 177 5.48e+00 1cid b.1.1.1,b.1.1.3 19740,21679 2bb6A 414 5.62e+00 1vzqH 250 6.03e+00 1zo0A 126 6.19e+00 1sr9A 644 6.28e+00 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 2alaA 391 6.37e+00 2fblA 153 6.44e+00 1yhfA 115 6.81e+00 1fjgL 135 6.86e+00 1fjfL b.40.4.5 25346 1yb3A 175 7.01e+00 1fvuB 125 7.45e+00 1ixxB d.169.1.1 42346 1cqxA 403 7.68e+00 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 2fs2A 151 7.68e+00 1lo6A 223 7.76e+00 b.47.1.2 74143 2a1kA 233 7.98e+00 2fcbA 173 8.00e+00 2fcbA b.1.1.4,b.1.1.4 21781,21782 2fimA 276 8.46e+00 1xwvA 129 8.60e+00 1xauA 122 8.63e+00 1n12A 138 8.67e+00 b.2.3.2 79779 1yhpA 212 9.26e+00 2d4qA 257 9.69e+00 1z9lA 128 9.78e+00 1x99A 145 9.92e+00 1h8dH 260 1.03e+01 5ptp 1fdr 248 1.03e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1tbuA 118 1.10e+01 1ifrA 121 1.15e+01 b.1.16.1 71203 1z8gA 372 1.31e+01 1g1kA 143 1.31e+01 1aohA b.2.2.2 22404 2brcA 214 1.32e+01 2cwsA 237 1.40e+01 1ts9A 102 1.40e+01 1yloA 348 1.41e+01 2d7nA 93 1.43e+01 1dyoA 160 1.44e+01 1dyoA b.18.1.7 23771 1k7iA 479 1.46e+01 b.80.7.1,d.92.1.6 77281,77282 1iz6A 138 1.50e+01 b.34.5.2,b.40.4.5 76976,76977 1x89A 178 1.53e+01 1hrhA 136 1.57e+01 1rthA c.55.3.1 33577 1jmtA 104 1.60e+01 d.58.7.3 63180 1zn8A 180 1.63e+01 2c60A 111 1.63e+01 1pmnA 364 1.70e+01 d.144.1.7 94907 1mqoA 227 1.73e+01 d.157.1.1 103846 1bbzA 58 1.74e+01 1bbzA b.34.2.1 24477 2a6sA 84 1.74e+01 1fs0E 138 1.75e+01 1aqt a.2.10.1,b.93.1.1 59997,59998 1yukB 120 1.89e+01 1nkgA 508 1.93e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1ub1A 133 1.93e+01 d.10.1.3 99140 1ftrA 296 1.98e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1ifqA 138 2.00e+01 1ifqA d.110.4.1 62350 1kcqA 104 2.05e+01 d.109.1.1 68449 1j7xA 302 2.05e+01 c.14.1.2 66425 1y55X 126 2.07e+01 2eifA 136 2.17e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 2f4lA 297 2.18e+01 2gpzA 111 2.43e+01 2bhuA 602 2.43e+01 2fhzB 108 2.44e+01 1j1tA 233 2.46e+01 b.29.1.18 90771 1p2zA 968 2.46e+01 b.121.2.2,b.121.2.2 93962,93963 1ixmA 192 2.48e+01 1ixmA d.123.1.1 41114 1ukgA 252 2.50e+01 b.29.1.1 99489 1sb2A 133 2.58e+01 2fytA 340 2.70e+01 1q1rA 431 2.72e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1xypA 190 2.72e+01 1axkA b.29.1.11 24327 1avbA 226 2.77e+01 1led b.29.1.1 24158 1ycsB 239 2.81e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 1r9fA 136 2.83e+01 d.255.1.1 97257 1a8rA 221 2.83e+01 1a8rA d.96.1.1 40587 1i1qB 192 2.83e+01 1qdlB c.23.16.1 61544 1ckaA 57 2.91e+01 1ckaA b.34.2.1 24459 2a7yA 83 2.93e+01 1pz4A 116 2.96e+01 d.106.1.1 95400 1zkkA 167 3.13e+01 1gbg 214 3.13e+01 1axkA b.29.1.2 24171 2b3nA 159 3.15e+01 2an1A 292 3.20e+01 2g1lA 104 3.21e+01 1lmiA 131 3.22e+01 b.1.19.1 78098 1a7tA 232 3.25e+01 1a7tA d.157.1.1 42041 1ogiA 303 3.38e+01 b.43.4.2,c.25.1.1 92914,92915 1gvzA 237 3.43e+01 b.47.1.2 76360 1qz8A 113 3.45e+01 b.140.1.1 96619 1rds 105 3.58e+01 9rnt d.1.1.4 36236 1mj4A 82 3.61e+01 d.120.1.1 79189 2cwzA 141 3.62e+01 1wbiA 129 3.63e+01 2bgoA 140 3.63e+01 1qlpA 394 3.75e+01 1ovaA e.1.1.1 42628 1ylnA 252 3.78e+01 1gsmA 210 3.83e+01 b.1.1.4,b.1.1.4 65535,65536 1r6vA 671 3.83e+01 1o4tA 133 3.88e+01 b.82.1.9 86622 1qmyA 167 3.88e+01 1qmyA d.3.1.2 37094 1rsgA 516 3.91e+01 1bqsA 209 4.06e+01 1bqsA b.1.1.4,b.1.1.4 21704,21705 1xr4A 509 4.06e+01 1e5dA 402 4.08e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1e7uA 961 4.18e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1914 232 4.19e+01 1914 d.49.1.1,d.49.1.1 83028,83029 1m8aA 70 4.27e+01 d.9.1.1 74579 1jb9A 316 4.31e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1gl4B 98 4.36e+01 b.1.1.4 65288 1vqqA 646 4.38e+01 1k5dB 201 4.39e+01 b.55.1.3 68169 1earA 147 4.41e+01 b.107.1.1,d.58.38.1 64875,64876 1t0bA 252 4.42e+01 c.23.16.6 106199 1umhA 184 4.44e+01 b.18.1.21 99605 1jwiB 125 4.45e+01 d.169.1.1 67384 1qx4A 274 4.45e+01 b.43.4.2,c.25.1.1 104624,104625 1k3bA 119 4.46e+01 b.61.5.1 72016 1f1gA 154 4.47e+01 b.1.8.1 76153 1jetA 517 4.50e+01 1jevA c.94.1.1 35718 1luzA 88 4.55e+01 b.40.4.5 74271 1axiB 236 4.55e+01 1axiB b.1.2.1,b.1.2.1 21997,21998 1b77A 228 4.56e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1s12A 94 4.66e+01 2bsfA 176 4.68e+01 1tvxA 75 4.71e+01 1tvxA d.9.1.1 37441 1am2 199 4.71e+01 1am2 b.86.1.2 28381 2bw2A 140 4.76e+01 1mkfA 382 4.77e+01 b.116.1.1 79232 1kjvB 100 4.81e+01 b.1.1.2 77423 1dzkA 157 4.83e+01 1obpA b.60.1.1 27096 1g0sA 209 4.98e+01 1g0sA d.113.1.1 60187 1rewC 135 5.02e+01 g.7.1.3 97336 2ciaA 102 5.03e+01 1ecfA 504 5.06e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1uldA 150 5.07e+01 b.29.1.3 99545 1dzaA 129 5.10e+01 7rsa d.5.1.1 37275 2a6aA 218 5.16e+01 1e8cA 498 5.20e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1vc1A 110 5.29e+01 c.13.2.1 108493 2a6vA 226 5.36e+01 1i0vA 104 5.40e+01 9rnt d.1.1.4 36054 1c01A 76 5.50e+01 1c01A b.11.1.5 23633 1g38A 393 5.56e+01 2admA c.66.1.27 60235 1mla 309 5.56e+01 1mla c.19.1.1,d.58.23.1 31031,39383 1qy6A 274 5.58e+01 b.47.1.1 96574 1ko3A 230 5.61e+01 d.157.1.1 90974 1vioA 243 5.63e+01 d.265.1.3,d.66.1.5 100762,100763 1o97C 264 5.65e+01 c.26.2.3 81232 1xkpC 143 5.70e+01 2bivA 243 5.71e+01 1cr1A 296 5.74e+01 1cr1A c.37.1.11 32286 2cfxA 144 5.77e+01 1g8mA 593 5.78e+01 1g8mA c.24.1.3,c.97.2.1 60371,60372 1jfmA 174 5.78e+01 d.19.1.1 66640 1vqoE 178 5.85e+01 1f60A 458 5.87e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1ux6A 350 5.92e+01 b.29.1.16,g.75.1.1 100145,100146 1a7j 290 5.92e+01 1a7j c.37.1.6 31952 1quqA 129 6.04e+01 1quqA b.40.4.3 25303 1v58A 241 6.06e+01 c.47.1.9,d.17.3.1 108371,108372 1b8kA 119 6.08e+01 1bndA g.17.1.3 44795 1vqoA 240 6.08e+01 1bkb 136 6.09e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 1h5uA 842 6.14e+01 1a8i c.87.1.4 60655 1rzfL 213 6.19e+01 b.1.1.1,b.1.1.2 98152,98153 4ubpA 101 6.29e+01 1ubpA d.8.1.1 37352 1e9pA 151 6.31e+01 1mfmA b.1.8.1 22215 1mdl 359 6.34e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1cs0A 1073 6.35e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1i78A 297 6.43e+01 f.4.4.1 66046 1wexA 104 6.45e+01 1ok8A 394 6.47e+01 b.1.18.4,f.10.1.1 93236,93237 1kwaA 88 6.49e+01 1kwaA b.36.1.1 24772 1ng2A 193 6.52e+01 b.34.2.1,b.34.2.1 85660,85661 2azpA 318 6.55e+01 1j48A 110 6.58e+01 b.1.7.1 84112 1wqsA 173 6.58e+01 1quqB 121 6.59e+01 1quqB b.40.4.3 25305 1k12A 158 6.62e+01 b.18.1.15 71978 1iq6A 134 6.62e+01 d.38.1.4 76755 1z47A 355 6.63e+01 1tjxA 159 6.64e+01 1gvp 87 6.66e+01 1gvp b.40.4.7 25369 1f00I 282 6.66e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 1j3wA 163 6.73e+01 d.110.7.1 90833 1fnlA 175 6.77e+01 2fcbA b.1.1.4,b.1.1.4 21783,21784 1kte 105 6.78e+01 1kte c.47.1.1 32771 1vjqA 79 6.79e+01 k.43.1.1 100830 2carA 196 6.84e+01 1a9xA 1058 6.89e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1yl3V 253 7.03e+01 1e5pA 151 7.11e+01 1bj7 b.60.1.1 59272 1l7yA 94 7.12e+01 d.15.1.6 73676 1ep3B 262 7.12e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 2cxkA 95 7.17e+01 1zkiA 133 7.21e+01 1ut1A 148 7.24e+01 b.2.3.6 108014 1eylA 186 7.26e+01 1wba b.42.4.1 25593 1uqtA 482 7.33e+01 c.87.1.6 99794 1rtu 114 7.36e+01 9rnt d.1.1.4 36139 2ac3A 316 7.36e+01 2frgP 106 7.38e+01 1oygA 447 7.47e+01 b.67.2.2 93726 1jeyA 609 7.49e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 1rhfA 182 7.56e+01 b.1.1.1,b.1.1.4 97469,97470 2aiqA 231 7.58e+01 1p6oA 161 7.62e+01 c.97.1.2 94185 1p30A 952 7.66e+01 b.121.2.2,b.121.2.2 93964,93965 1zvyA 136 7.69e+01 1xniA 118 7.79e+01 1vmeA 410 7.79e+01 c.23.5.1,d.157.1.3 108893,108894 1tu7A 208 7.79e+01 1xnkA 196 7.87e+01 1f3lA 321 7.91e+01 1g6q2 c.66.1.6 59630 1uypA 432 7.92e+01 b.29.1.19,b.67.2.3 100176,100177 1lk2B 99 7.99e+01 b.1.1.2 91058 1q0eA 152 8.00e+01 b.1.8.1 95504 1wruA 379 8.00e+01 1utiA 58 8.05e+01 b.34.2.1 99962 1w2tA 432 8.10e+01 1m0wA 491 8.14e+01 c.30.1.4,d.142.1.6 78363,78364 2c9wA 169 8.15e+01 1qzgA 187 8.17e+01 b.40.4.3 96643 1wloA 136 8.33e+01 2cw8A 537 8.36e+01 4bcl 366 8.39e+01 4bcl b.75.1.1 27968 1svy 114 8.39e+01 1svy d.109.1.1 40831 1k7kA 221 8.43e+01 c.51.4.1 72104 1kshB 152 8.53e+01 b.1.18.8 72915 1uvqA 197 8.53e+01 b.1.1.2,d.19.1.1 100062,100063 1mh1 186 8.56e+01 1eesA c.37.1.8 32002 1t77A 414 8.63e+01 1gutA 68 8.67e+01 b.40.6.1 65576 2bm3A 166 8.73e+01 1ejxA 100 8.87e+01 d.8.1.1 83182 1vhyA 257 8.88e+01 b.122.1.2,c.116.1.5 100714,100715 1y2tA 142 8.90e+01 1bcpB 199 8.95e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 1ji6A 589 8.96e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068