# 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 1q7rA 219 4.67e-01 c.23.16.1 96054 2dorA 311 2.53e+00 2dorA c.1.4.1 28593 1dorA 311 2.54e+00 2dorA c.1.4.1 28595 1xr4A 509 3.45e+00 1jubA 311 4.30e+00 c.1.4.1 90908 1kafA 108 4.86e+00 d.199.1.1 68372 1jmxB 349 4.96e+00 b.69.2.2 66906 1ps9A 671 6.06e+00 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1viwB 198 7.10e+00 1led b.29.1.1 24170 1ex1A 605 7.52e+00 1ex1A c.1.8.7,c.23.11.1 29013,31347 1x38A 602 8.68e+00 1iexA 605 1.06e+01 c.1.8.7,c.23.11.1 66127,66128 1necA 216 1.21e+01 1vfrA d.90.1.1 40249 2d2mB 142 1.26e+01 1amuA 563 1.33e+01 1amuA e.23.1.1 43351 1sflA 238 1.51e+01 2cu3A 64 2.14e+01 1a3yA 149 2.23e+01 1obpA b.60.1.1 27110 1dbtA 239 2.37e+01 1dbtA c.1.2.3 28539 1fuqA 472 2.40e+01 1furA a.127.1.1 19405 1sfjA 238 2.56e+01 1dzkA 157 2.68e+01 1obpA b.60.1.1 27096 2b06A 155 2.74e+01 2arhA 203 2.82e+01 1wwkA 307 2.97e+01 2c0nA 203 2.99e+01 1aky 221 3.00e+01 1zin c.37.1.1,g.41.2.1 31896,45197 2bkaA 242 3.03e+01 1fuoA 467 3.11e+01 1furA a.127.1.1 19411 1vizA 240 3.29e+01 c.1.4.1 100784 1ibrB 462 3.47e+01 1qgrA a.118.1.1 19120 1cp3A 277 3.50e+01 1pauA c.17.1.1 30992 1a54A 321 3.50e+01 1ixh c.94.1.1 35763 1nmeA 146 3.54e+01 c.17.1.1 85874 1e6yA 569 3.56e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 1o50A 157 3.56e+01 d.37.1.1,d.37.1.1 92478,92479 1w6tA 444 3.80e+01 1wi6A 88 3.80e+01 1oj6A 151 3.90e+01 a.1.1.2 93088 1d9eA 284 3.92e+01 1d9eA c.1.10.4 29195 1icrA 217 3.95e+01 1vfrA d.90.1.1 62274 2gfsA 372 4.01e+01 1furA 467 4.07e+01 1furA a.127.1.1 19403 1v8gA 329 4.07e+01 a.46.2.1,c.27.1.1 100505,100506 1wmiA 90 4.09e+01 1qrqA 325 4.14e+01 1qrqA c.1.7.1 28667 1w0mA 226 4.18e+01 c.1.1.1 109027 1n3kA 130 4.24e+01 a.77.1.4 79965 1hcuA 503 4.34e+01 a.102.2.1 65796 1ixh 321 4.51e+01 1ixh c.94.1.1 35761 1zkdA 387 4.56e+01 1fsfA 266 4.66e+01 c.124.1.1 65047 1dhkB 223 4.89e+01 1led b.29.1.1 24157 1yfm 488 4.96e+01 1furA a.127.1.1 19413 2ghpA 292 4.98e+01 1kn6A 90 5.00e+01 d.58.3.3 72770 1ykiA 217 5.07e+01 1pbyB 337 5.17e+01 b.69.2.2 94422 2afwA 329 5.20e+01 1u5uA 374 5.23e+01 1r30A 369 5.24e+01 c.1.28.1 96895 2a0b 125 5.40e+01 2a0b a.24.10.1 16630 1wbsA 360 5.42e+01 1y0zA 330 5.55e+01 1jjuB 337 5.61e+01 b.69.2.2 66779 1deaA 266 5.68e+01 1deaA c.124.1.1 31760 1pauA 147 5.85e+01 1pauA c.17.1.1 30994 1a40 321 5.85e+01 1ixh c.94.1.1 35767 1p42A 270 6.04e+01 d.14.1.7,d.14.1.7 87754,87755 1keeA 1073 6.24e+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 1c3oG 1073 6.43e+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 1c3oA 1073 6.50e+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 1c3oC 1073 6.57e+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 1sjqA 105 6.77e+01 d.58.7.1 105660 1a9xA 1058 6.82e+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 18550,31479,31657,31658,41502,41503 1exbA 332 6.82e+01 1qrqA c.1.7.1 28666 1ev7B 317 6.98e+01 1ev7B c.52.1.9 33316 1s1qA 145 7.04e+01 d.20.1.2 98351 1keeG 1073 7.05e+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 1cs0A 1073 7.09e+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 1ehyA 294 7.13e+01 1ehyA c.69.1.11 34693 1pbp 321 7.33e+01 1ixh c.94.1.1 35768 1kas 412 7.34e+01 1dd8A c.95.1.1,c.95.1.1 35964,35965 1h0cA 392 7.36e+01 c.67.1.3 83424 1keeE 1073 7.36e+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 1ev7A 317 7.44e+01 1ev7B c.52.1.9 33315 1sdoA 203 7.79e+01 c.52.1.21 98809 1kppA 145 7.81e+01 d.20.1.2 72846 1gv3A 248 7.81e+01 a.2.11.1,d.44.1.1 70585,70586 1ywnA 316 7.93e+01 1a45 173 7.98e+01 1amm b.11.1.1,b.11.1.1 23602,23603 1iz6A 138 8.01e+01 b.34.5.2,b.40.4.5 76976,76977 1tuzA 118 8.01e+01 1an8 208 8.06e+01 1an8 b.40.2.2,d.15.6.1 25202,37791 1lufA 343 8.07e+01 d.144.1.7 78223 1azo 232 8.12e+01 1azo c.52.1.14 33329 1yge 839 8.29e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1cs0C 1073 8.35e+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 18559,31488,31675,31676,41520,41521 1qyaA 307 8.36e+01 d.21.1.2,d.21.1.2 104653,104654 1c3oE 1073 8.45e+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 1oz9A 150 8.45e+01 d.92.1.15 93808 1o94A 729 8.48e+01 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1kmmA 424 8.54e+01 1adjA c.51.1.1,d.104.1.1 33174,40723 1ep2B 261 8.56e+01 1ep2B b.43.4.2,c.25.1.3 25666,31556 2b0aA 186 8.73e+01 1b3nA 412 8.76e+01 1dd8A c.95.1.1,c.95.1.1 35966,35967 1ursA 402 8.83e+01 c.94.1.1 99833 1iukA 140 8.89e+01 c.2.1.8 83712 1sdjA 310 8.89e+01 d.21.1.2,d.21.1.2 98807,98808 1go4A 205 8.92e+01 d.135.1.1 70292 1jdbB 1073 8.96e+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