# List of top-scoring protein chains for t04-100-30-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 2f4qA 346 1.41e-01 1ffyA 917 6.65e-01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1ui0A 205 7.77e-01 c.18.1.2 99411 2c3vA 102 8.37e-01 1yaxA 153 1.18e+00 1lktA 104 1.34e+00 1lktA b.90.1.1 28398 1i3dA 146 1.55e+00 a.1.1.2 61587 1jogA 146 1.79e+00 a.24.16.2 77142 1lz1 130 1.88e+00 3lzt d.2.1.2 36415 1jsf 130 1.99e+00 3lzt d.2.1.2 36410 1tp6A 128 2.00e+00 d.17.4.12 107184 1yksA 440 2.56e+00 2fafA 608 2.65e+00 1t5yA 190 2.78e+00 b.122.1.1,d.17.6.3 106495,106496 1vr8A 142 2.82e+00 1yrlA 491 2.85e+00 1qqyA 130 3.83e+00 3lzt d.2.1.2 36586 1izoA 417 4.75e+00 a.104.1.1 83851 1zbfA 142 4.77e+00 1oyiA 82 4.98e+00 a.4.5.19 93729 1vq2A 193 5.23e+00 1m7xA 617 5.47e+00 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1iscA 192 5.75e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 1szoA 257 5.87e+00 c.14.1.3 106164 1g5aA 628 7.22e+00 b.71.1.1,c.1.8.1 65152,65153 1o8uA 257 7.31e+00 c.14.1.3 81194 1xewY 172 7.72e+00 1yx1A 264 7.95e+00 1gyxA 76 8.75e+00 d.80.1.1 76387 1vbvA 105 8.86e+00 1b24A 188 9.02e+00 1b24A d.95.2.1,d.95.2.1 40573,40574 1omiA 248 9.47e+00 b.82.3.3,a.4.5.4 87079,87080 1bkrA 109 9.83e+00 1bkrA a.40.1.1 17394 1pufB 73 1.03e+01 a.4.1.1 95132 1sqwA 188 1.03e+01 1khbA 625 1.05e+01 c.91.1.1,c.109.1.1 68606,68607 2b59B 172 1.11e+01 2hbg 147 1.13e+01 2hbg a.1.1.2 15014 1irdB 146 1.15e+01 a.1.1.2 66287 1e25A 282 1.17e+01 1e25A e.3.1.1 42731 1qx4A 274 1.21e+01 b.43.4.2,c.25.1.1 104624,104625 1cqyA 99 1.22e+01 1b9zA b.3.1.1 22527 2gw6A 123 1.27e+01 1uvqA 197 1.29e+01 b.1.1.2,d.19.1.1 100062,100063 2cfuA 658 1.29e+01 1babB 146 1.29e+01 1abwA a.1.1.2 15414 1jf3A 147 1.32e+01 a.1.1.2 71642 1v4eA 299 1.33e+01 a.128.1.1 100296 3ezmA 101 1.33e+01 3ezmA b.89.1.1 28395 1vfrA 218 1.35e+01 1vfrA d.90.1.1 40247 1txkA 498 1.37e+01 b.1.18.2,b.30.5.9 107425,107426 1u0tA 307 1.43e+01 e.52.1.1 107567 1hb6A 86 1.55e+01 a.11.1.1 70959 1vhnA 318 1.59e+01 c.1.4.1 100693 1sedA 117 1.67e+01 a.219.1.1 105449 1ttzA 87 1.89e+01 c.47.1.1 107309 1r1qA 100 1.92e+01 d.93.1.1 104763 1s4nA 348 2.05e+01 c.68.1.16 98501 1zcxA 178 2.12e+01 1d4oA 184 2.12e+01 1d4oA c.31.1.4 31748 1c75A 71 2.15e+01 451c a.3.1.1 15796 1xfsA 178 2.19e+01 d.129.3.5 109589 1y9wA 140 2.22e+01 2jdxA 385 2.30e+01 1jdw d.126.1.2 41139 1rgeA 96 2.32e+01 1rgeA d.1.1.2 36028 1gv3A 248 2.38e+01 a.2.11.1,d.44.1.1 70585,70586 1f5vA 240 2.39e+01 1bkjA d.90.1.1 40255 1qhoA 686 2.42e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1lwdA 413 2.44e+01 c.77.1.1 78265 1zkdA 387 2.49e+01 1j7gA 144 2.50e+01 c.110.1.1 84130 1lrwA 600 2.53e+01 b.70.1.1 91111 1r4gA 53 2.55e+01 a.8.5.1 96996 2abwA 227 2.58e+01 1tyyA 339 2.59e+01 1tqzA 133 2.66e+01 1b72B 87 2.70e+01 1akhA a.4.1.1 16001 1b9wA 89 2.72e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 1iakA 199 2.73e+01 1iakA b.1.1.2,d.19.1.1 21625,38199 1rpyA 114 2.75e+01 d.93.1.1 97718 2d2mD 145 2.80e+01 1tr0A 108 2.92e+01 d.58.4.4 107261 1ur1A 378 2.96e+01 c.1.8.3 99804 1npsA 88 3.04e+01 1prs b.11.1.1 23622 1ugjA 141 3.08e+01 b.41.1.3 107826 1i0cA 60 3.10e+01 1aojA b.34.2.1 61485 1ktbA 405 3.12e+01 b.71.1.1,c.1.8.1 72960,72961 1x3sA 195 3.16e+01 1bquA 215 3.28e+01 1bquA b.1.2.1,b.1.2.1 22066,22067 1j3bA 529 3.35e+01 c.91.1.1,c.109.1.1 77071,77072 1t2lA 141 3.41e+01 1zin 217 3.57e+01 1zin c.37.1.1,g.41.2.1 31915,45178 2fa8A 105 3.59e+01 1u07A 90 3.60e+01 1xhcA 367 3.64e+01 1un3A 123 3.64e+01 d.5.1.1 99646 1q4rA 112 3.69e+01 d.58.4.4 95823 2dg5B 190 3.69e+01 1w4xA 542 3.70e+01 c.3.1.5,c.3.1.5 109171,109172 1lniA 96 3.74e+01 d.1.1.2 74046 1jdw 423 3.76e+01 1jdw d.126.1.2 41129 2ciaA 102 3.81e+01 1yb3A 175 3.82e+01 1v0jA 399 3.86e+01 1e19A 314 3.89e+01 1b7bA c.73.1.1 34967 1h7mA 102 3.94e+01 d.79.3.1 83485 1z1lA 345 4.19e+01 1is1A 185 4.31e+01 d.67.3.1 83704 1dk8A 147 4.31e+01 1agrE a.91.1.1 18548 1a4yB 123 4.37e+01 7rsa d.5.1.1 37296 2fbmA 291 4.38e+01 1vjfA 180 4.41e+01 d.116.1.1 100809 1ijqA 316 4.44e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1nvpB 57 4.54e+01 a.32.1.1 92211 1vjvA 415 4.59e+01 d.3.1.9 108632 1m93C 41 4.61e+01 1hn2A 159 4.62e+01 b.60.1.1 65890 1vfqA 143 4.67e+01 1gt1A 159 4.70e+01 b.60.1.1 90515 1obpA 159 4.75e+01 1obpA b.60.1.1 27092 1xxoA 147 4.81e+01 1omrA 201 4.91e+01 a.39.1.5 93349 2cr5A 109 4.98e+01 1vjlA 164 5.00e+01 d.257.1.1 100822 1fp1D 372 5.07e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1zy9A 564 5.19e+01 2bgcA 238 5.21e+01 1vns 609 5.21e+01 1vns a.111.1.3 19061 1rwsA 77 5.22e+01 d.15.3.2 97991 1qmvA 197 5.34e+01 1qq2A c.47.1.10 33066 2eshA 118 5.35e+01 2gi9A 56 5.70e+01 1qhqA 140 5.71e+01 1qhqA b.6.1.1 63326 1ckaA 57 5.71e+01 1ckaA b.34.2.1 24459 1y8qB 640 5.83e+01 1o5oA 221 5.84e+01 c.61.1.1 92509 2gclA 261 5.87e+01 1t3yA 141 5.91e+01 1jb7B 260 5.92e+01 1otcB b.40.4.3 62839 1kllA 130 5.94e+01 d.32.1.2 72720 1dcjA 81 5.96e+01 1dcjA d.68.3.3 59115 2a25A 193 6.01e+01 1s0yA 76 6.05e+01 d.80.1.1 98314 1fjgP 88 6.10e+01 1emwA d.27.1.1 38444 1jyoE 105 6.12e+01 d.184.1.2 67487 1ri9A 102 6.21e+01 b.34.2.1 97506 1hg8A 349 6.22e+01 b.80.1.3 65830 1w9aA 147 6.24e+01 1w41A 101 6.29e+01 1hxrA 115 6.35e+01 1fwqA b.88.1.1 28392 1vr9A 213 6.60e+01 1y88A 199 6.62e+01 1itwA 741 6.63e+01 c.77.1.2 76793 1kutA 230 6.63e+01 d.143.1.1 73017 1tzyA 129 6.71e+01 a.22.1.1 107530 1h8eG 272 6.74e+01 1e79G c.49.2.1 60756 1l1qA 186 6.75e+01 c.61.1.1 77653 1qwlA 505 6.79e+01 e.5.1.1 96483 1s3cA 141 6.80e+01 1xrkA 124 6.83e+01 1i2uA 44 6.87e+01 g.3.7.4 65987 2a2pA 129 6.92e+01 1ny1A 240 6.97e+01 c.6.2.3 86395 1i4uA 181 7.02e+01 b.60.1.1 61732 1zgzA 122 7.07e+01 1udmA 149 7.08e+01 d.109.1.2 107780 1uzcA 71 7.14e+01 a.159.2.1 100222 1zip 217 7.16e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1p2fA 220 7.17e+01 a.4.6.1,c.23.1.1 87720,87721 2aq6A 147 7.18e+01 1j1tA 233 7.24e+01 b.29.1.18 90771 2go8A 122 7.25e+01 1eemA 241 7.27e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1kx5C 128 7.30e+01 a.22.1.1 77595 1dgfA 497 7.35e+01 1cf9A e.5.1.1 42782 1oacA 727 7.38e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1oksA 56 7.39e+01 a.8.5.1 93271 2cw8A 537 7.41e+01 1j79A 347 7.67e+01 1j79A c.1.9.4 62675 1cv8 174 7.70e+01 1cv8 d.3.1.1 37089 1lmq 129 7.77e+01 3lzt d.2.1.2 36588 1zq7A 207 7.83e+01 1pylA 97 7.87e+01 d.1.1.2 104391 5eau 548 7.88e+01 5eat a.102.4.1,a.128.1.3 18851,19443 2ct5A 73 7.94e+01 1m9sA 605 7.96e+01 b.1.18.15,b.34.11.1,b.34.11.1,b.34.11.1,c.10.2.1 78874,78875,78876,78877,78878 1m0uA 249 8.07e+01 a.45.1.1,c.47.1.5 78359,78360 1iseA 185 8.09e+01 d.67.3.1 90691 1vmjA 151 8.21e+01 2dchX 216 8.27e+01 1ek8A 185 8.28e+01 1ek8A d.67.3.1 59444 1vrvA 101 8.31e+01 1gsa 316 8.34e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1ddmA 135 8.39e+01 2nmbA b.55.1.2 26993 1fbr 93 8.65e+01 1fbr g.27.1.1,g.27.1.1 44948,44949 1wd2A 60 8.69e+01 g.44.1.1 109232 1k2fA 190 8.72e+01 b.8.1.2 68054 1tlfA 301 8.81e+01 1tlfA c.93.1.1 35687 1ne9A 335 8.83e+01 d.108.1.4,d.108.1.4 91839,91840 1rf6A 427 8.84e+01 d.68.2.2 97366 1o7fA 469 9.00e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133