# List of top-scoring protein chains for t2k-100-30-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 2ygsA 92 6.37e-01 1cy5A a.77.1.3 18431 1cy5A 97 1.76e+00 1cy5A a.77.1.3 18430 1ndh 272 2.52e+00 1ndh b.43.4.2,c.25.1.1 25662,31552 1cwwA 102 2.84e+00 1cy5A a.77.1.3 18434 1w8iA 156 3.74e+00 1umkA 275 3.79e+00 1zxfA 155 4.10e+00 1eh2 106 4.87e+00 1eh2 a.39.1.6 17339 1g291 372 7.09e+00 1g291 1p90A 145 8.03e+00 c.55.5.2 94377 1uhnA 189 8.34e+00 a.39.1.5 99399 1t0iA 191 8.88e+00 c.23.5.4 106209 1bjt 793 8.90e+00 1bjt e.11.1.1 43249 1xb4A 202 9.80e+00 1u5tC 202 1.04e+01 a.4.5.54,a.4.5.54 107688,107689 1fa3A 96 1.06e+01 1molA d.17.1.1 37996 1b8xA 280 1.10e+01 1b8xA a.45.1.1,c.47.1.5 17739,33033 1qo3C 137 1.25e+01 1qo3C d.169.1.1 42350 1nrzA 164 1.26e+01 c.38.1.1 86131 1k8kC 372 1.57e+01 b.69.4.1 68308 1gg1A 350 1.58e+01 1qr7A c.1.10.4 29187 1i7pA 274 1.58e+01 b.43.4.2,c.25.1.1 66048,66049 1fit 147 1.72e+01 1fit d.13.1.1 37499 1qwtA 255 1.82e+01 b.26.1.3 96501 1na3A 91 1.84e+01 k.38.1.1 85481 1qr7A 350 1.86e+01 1qr7A c.1.10.4 29191 1ia8A 289 1.95e+01 1ia8A d.144.1.7 62112 1qjtA 99 2.19e+01 1eh2 a.39.1.6 17335 1jm4B 118 2.34e+01 a.29.2.1 71746 1pg4A 652 2.45e+01 e.23.1.1 88067 1awpA 92 2.47e+01 1cyo d.120.1.1 41071 1omrA 201 2.49e+01 a.39.1.5 93349 1k28D 391 2.54e+01 b.106.1.1,b.106.1.1 68052,68053 1xneA 113 2.54e+01 1rec 201 2.66e+01 1rec a.39.1.5 17326 1pzdA 322 2.68e+01 b.1.10.3,d.105.1.2 95413,95414 1wthD 391 2.94e+01 1xd5A 112 2.97e+01 1vdrA 162 2.99e+01 1vdrA c.71.1.1 34893 1n0uA 842 3.12e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1k2eA 156 3.20e+01 d.113.1.1 72010 1k26A 156 3.26e+01 d.113.1.1 72003 2gmyA 153 3.31e+01 1lj0A 92 3.36e+01 d.120.1.1 78019 1n8fA 350 3.48e+01 c.1.10.4 85397 1r4xA 275 3.68e+01 b.1.10.3,d.105.1.2 97054,97055 1yaxA 153 3.69e+01 1cskA 71 3.70e+01 1ckaA b.34.2.1 24513 1jrkA 156 3.73e+01 d.113.1.1 71827 2d00A 109 3.94e+01 1b91A 118 3.95e+01 1b91A 2a6tA 271 4.08e+01 1f53A 84 4.21e+01 1f53A b.11.1.4 23632 2fhi 147 4.26e+01 1fit d.13.1.1 37505 1zkrA 153 4.46e+01 1jdbB 1073 4.48e+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 18574,31503,31705,31706,41550,41551 1eueA 86 4.51e+01 1cyo d.120.1.1 59504 2f40A 96 4.52e+01 1bv8A 138 4.56e+01 1ayoA b.2.4.1 22430 1kinA 366 4.75e+01 1cs0C 1073 4.77e+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 18559,31488,31675,31676,41520,41521 1c3oC 1073 4.82e+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 18563,31492,31683,31684,41528,41529 1y0uA 96 4.85e+01 1c3oA 1073 4.87e+01 1c3oA a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18562,31491,31681,31682,41526,41527 1nvmB 312 4.90e+01 c.2.1.3,d.81.1.1 86251,86252 1keeA 1073 4.94e+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 68492,68493,68494,68495,68496,68497 1keeC 1073 4.94e+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 68500,68501,68502,68503,68504,68505 1f75A 249 5.01e+01 1f75A c.101.1.1 59662 1c3oG 1073 5.02e+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 18565,31494,31687,31688,41532,41533 1jegA 83 5.13e+01 b.34.2.1 66610 1oj7A 408 5.13e+01 e.22.1.2 103971 1z9zA 60 5.15e+01 1c3oE 1073 5.19e+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 18564,31493,31685,31686,41530,41531 2f22A 144 5.24e+01 1kjwA 295 5.27e+01 b.34.2.1,c.37.1.1 68643,68644 2c3gA 98 5.52e+01 1i7dA 659 5.58e+01 1d6mA e.10.1.1 61886 4cpv 109 5.64e+01 1a75A a.39.1.4 17198 1pal 108 5.64e+01 1a75A a.39.1.4 17209 1orjA 130 5.67e+01 a.24.19.1 93456 1qx4A 274 5.69e+01 b.43.4.2,c.25.1.1 104624,104625 1jx4A 352 5.76e+01 d.240.1.1,e.8.1.7 90378,90379 1d6mA 653 5.80e+01 1d6mA e.10.1.1 43248 2b33A 140 5.81e+01 1oboA 169 5.82e+01 c.23.5.1 86776 1ka2A 499 5.96e+01 d.92.1.5 77305 1vkxA 273 6.10e+01 1a3qA b.1.18.1,b.2.5.3 21941,22454 1odd 118 6.23e+01 1opc a.4.6.1 16232 1keeE 1073 6.26e+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 68508,68509,68510,68511,68512,68513 1nfiA 301 6.30e+01 1a3qA b.1.18.1,b.2.5.3 21942,22455 1aj8A 371 6.30e+01 1aj8A a.103.1.1 18900 1xppA 115 6.33e+01 1b5m 84 6.41e+01 1cyo d.120.1.1 41073 1pm4A 119 6.48e+01 b.135.1.1 94891 1b8rA 108 6.60e+01 1a75A a.39.1.4 17201 5pal 109 6.67e+01 1a75A a.39.1.4 17215 1nfiC 301 6.70e+01 b.1.18.1,b.2.5.3 21943,22456 1cs0A 1073 6.77e+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 1rcf 169 6.83e+01 1rcf c.23.5.1 31170 1iknA 286 6.96e+01 1a3qA b.1.18.1,b.2.5.3 21936,22449 1opc 110 6.96e+01 1opc a.4.6.1 16231 1puoA 170 7.00e+01 a.101.1.1,a.101.1.1 95134,95135 2bkdN 134 7.01e+01 1d3bB 91 7.05e+01 1d3bB b.38.1.1 24804 2c9wA 169 7.12e+01 1oacA 727 7.16e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1rz2A 254 7.33e+01 b.100.1.1 105130 1jxmA 301 7.43e+01 b.34.2.1,c.37.1.1 67420,67421 1dfuP 94 7.54e+01 1dfuP b.53.1.1 26936 1nt2A 210 7.69e+01 c.66.1.3 86149 1keeG 1073 7.78e+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 68516,68517,68518,68519,68520,68521 1x1fA 149 7.81e+01 1cdp 109 7.89e+01 1a75A a.39.1.4 17197 1bm4A 32 7.94e+01 1bm4A j.47.1.1 46325 2a1kA 233 8.06e+01 2pvbA 107 8.08e+01 1a75A a.39.1.4 17205 1fqvA 336 8.11e+01 1fqvA a.158.1.1,c.10.1.3 19254,30856 1za0A 275 8.13e+01 1w8xM 83 8.19e+01 1i0cA 60 8.22e+01 1aojA b.34.2.1 61485 1ayoA 130 8.33e+01 1ayoA b.2.4.1 22431 1egxA 115 8.36e+01 1evhA b.55.1.4 27000 2bikB 313 8.87e+01 1b07A 59 8.90e+01 1ckaA b.34.2.1 24461 1jilA 420 8.94e+01 c.26.1.1 66745 1uj0A 62 8.99e+01 b.34.2.1 99449