# List of top-scoring protein chains for t04-100-40-40-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 1bwzA 274 5.11e-03 1bwzA d.21.1.1,d.21.1.1 38337,38338 2gkeA 274 6.52e-03 1gqzA 274 8.87e-03 d.21.1.1,d.21.1.1 83311,83312 1w61A 414 1.23e-02 1u1wA 298 5.03e-02 1t6kA 278 9.49e-02 1xubA 298 1.05e-01 1sdjA 310 2.28e-01 d.21.1.2,d.21.1.2 98807,98808 2exrA 524 2.93e-01 1qyaA 307 3.20e-01 d.21.1.2,d.21.1.2 104653,104654 1s7jA 262 5.53e-01 d.21.1.2 98647 2g6yA 217 6.10e-01 2azpA 318 6.55e-01 1p4uA 153 1.15e+00 b.1.10.2 87780 1ym5A 300 1.17e+00 1lm4A 194 1.30e+00 d.167.1.1 84626 1tm0A 350 1.45e+00 d.21.1.3 107147 1ci3M 249 1.70e+00 1hcz b.2.6.1,b.84.2.2 22480,28266 1z0sA 278 2.36e+00 1lcl 142 2.58e+00 1lcl b.29.1.3 24216 2a7bA 120 2.58e+00 1gyvA 120 2.94e+00 b.1.10.2 70790 1suwA 249 3.45e+00 e.52.1.1 106027 1lj5A 379 3.46e+00 e.1.1.1 73928 1hdkA 141 3.78e+00 b.29.1.3 65807 1qqsA 174 3.98e+00 1nglA b.60.1.1 27143 1bs4A 168 4.01e+00 1bs4A d.167.1.1 42287 1iu1A 146 4.06e+00 b.1.10.2 71428 1xeoA 168 4.84e+00 2ghsA 326 5.85e+00 1n5nA 180 6.30e+00 d.167.1.1 85336 1b12A 248 7.93e+00 1b12A b.87.1.2 28388 2a84A 300 8.70e+00 2akaB 299 9.20e+00 1x71A 178 9.60e+00 2a6zA 222 9.83e+00 1y43B 173 1.04e+01 1cv8 174 1.05e+01 1cv8 d.3.1.1 37089 2ew2A 316 1.05e+01 1gttA 429 1.09e+01 d.177.1.1,d.177.1.1 70529,70530 1x89A 178 1.12e+01 1xe0A 114 1.23e+01 1w4tA 299 1.24e+01 1ciy 590 1.28e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1dceA 567 1.42e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 1e2wA 251 1.43e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 1ws0A 156 1.44e+01 1g2aA 168 1.46e+01 d.167.1.1 65109 1oacA 727 1.55e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1mkaA 171 1.58e+01 1mkaA d.38.1.2 38543 1ca1 370 1.58e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1v7wA 807 1.64e+01 a.102.1.4,b.30.5.3 108411,108412 1t0qC 86 1.66e+01 d.15.12.1 106222 2cfuA 658 1.77e+01 1ojjA 402 1.78e+01 b.29.1.10 93130 1aerA 205 1.83e+01 1aerA d.166.1.1 42249 1t5rA 284 1.89e+01 f.6.1.1 106465 1dhkB 223 1.91e+01 1led b.29.1.1 24157 1ys4A 354 1.99e+01 1s1dA 331 2.01e+01 b.67.3.1 98344 1xgyL 216 2.06e+01 1a02N 301 2.08e+01 1a02N b.1.18.1,b.2.5.3 21923,22440 1fsoA 139 2.09e+01 1rhoA b.1.18.8 60007 1xodA 118 2.17e+01 1xfoA 357 2.18e+01 1q2bA 434 2.18e+01 b.29.1.10 95624 1p7hL 286 2.29e+01 b.1.18.1,b.2.5.3 94271,94272 1egnA 434 2.38e+01 1celA b.29.1.10 59411 1s14A 194 2.40e+01 d.122.1.2 98329 1wgoA 123 2.57e+01 2amhA 207 2.57e+01 1cd9B 215 2.59e+01 1cto b.1.2.1,b.1.2.1 22041,22042 1grj 158 2.61e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1havA 217 2.61e+01 1havA b.47.1.4 26423 1i7oA 429 2.62e+01 1i7oA d.177.1.1,d.177.1.1 61893,61894 1feuA 206 2.65e+01 1feuA b.53.1.1 59801 1l6xA 207 2.68e+01 b.1.1.2,b.1.1.2 73642,73643 2g1lA 104 2.71e+01 1g291 372 2.81e+01 1g291 6cel 434 2.81e+01 1celA b.29.1.10 24279 1omrA 201 2.97e+01 a.39.1.5 93349 2fhzB 108 3.02e+01 2bf6A 449 3.05e+01 1w9hA 427 3.18e+01 1rec 201 3.21e+01 1rec a.39.1.5 17326 1f6fB 210 3.27e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 1noa 113 3.30e+01 2mcm b.1.7.1 22208 1n2eA 300 3.31e+01 c.26.1.4 85268 1cruA 454 3.32e+01 1c9uA b.68.2.1 27617 1z5bA 469 3.32e+01 1usyA 275 3.33e+01 2fvgA 340 3.41e+01 1kbpA 432 3.46e+01 4kbpA b.1.12.1,d.159.1.1 22349,42068 1khxA 227 3.46e+01 b.26.1.1 68631 2a8kA 108 3.49e+01 2sicI 107 3.50e+01 3ssi d.84.1.1 40031 1ghpA 258 3.66e+01 1btl e.3.1.1 60520 1kskA 234 3.76e+01 d.66.1.5,d.265.1.3 72920,90389 1gr3A 160 3.82e+01 b.22.1.1 65476 1oygA 447 3.89e+01 b.67.2.2 93726 1cojA 212 3.99e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1qa7A 217 4.14e+01 1havA b.47.1.4 26425 1wzoA 246 4.16e+01 1voqa 90 4.21e+01 1xewX 182 4.21e+01 1kcfA 258 4.23e+01 a.140.2.1,c.55.3.7 68434,68435 1kmtA 141 4.25e+01 b.1.18.8 77442 2cbuA 468 4.28e+01 2cy7A 396 4.32e+01 1n9pA 207 4.45e+01 b.1.18.16 80343 1ut9A 609 4.49e+01 a.102.1.2,b.1.18.2 99912,99913 1v61A 132 4.60e+01 b.55.1.1 108389 1h4aX 173 4.67e+01 b.11.1.1,b.11.1.1 83479,83480 1y93A 159 4.76e+01 1avbA 226 4.80e+01 1led b.29.1.1 24158 1dymA 402 4.83e+01 1celA b.29.1.10 24304 2fuqA 747 4.83e+01 2f4lA 297 4.83e+01 1vl2A 421 4.92e+01 c.26.2.1,d.210.1.1 108708,108709 1lr0A 129 4.97e+01 d.212.1.1 74213 1jk3A 158 5.22e+01 d.92.1.11 66790 1n3gA 113 5.24e+01 d.204.1.1 79962 1vqoT 120 5.24e+01 1cr1A 296 5.28e+01 1cr1A c.37.1.11 32286 1dypA 271 5.28e+01 1dypA b.29.1.2 24185 1sgwA 214 5.29e+01 c.37.1.12 105541 2cr4A 126 5.37e+01 1wnhA 225 5.49e+01 1bupA 386 5.61e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1g71A 347 5.62e+01 1g71A d.264.1.1 43268 1yqzA 438 5.62e+01 1ejfA 125 5.66e+01 1ejfA b.15.1.2 23683 2erfA 209 5.70e+01 1kay 381 5.76e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1qmyA 167 5.78e+01 1qmyA d.3.1.2 37094 2ab5A 269 5.80e+01 1wmmA 145 5.81e+01 2cxvA 219 5.82e+01 1qexA 288 5.84e+01 1qexA b.32.1.1 24425 1u0kA 288 5.95e+01 d.21.1.2,d.21.1.2 107547,107548 2bk7B 222 5.96e+01 2bo9B 222 5.96e+01 1gpmA 525 5.98e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1qwtA 255 6.04e+01 b.26.1.3 96501 1f5fA 205 6.14e+01 1d2sA b.29.1.4 24222 1i2sA 282 6.17e+01 e.3.1.1 71104 1qi9A 556 6.23e+01 1qhbA a.111.1.2 19053 1xfjA 261 6.25e+01 d.194.1.2 109585 1yhpA 212 6.37e+01 1pqhA 143 6.42e+01 b.52.2.1 95017 1klfB 279 6.52e+01 b.2.3.2,b.2.3.2 72684,72685 1vkwA 218 6.53e+01 d.90.1.2 108695 1jj2S 119 6.64e+01 1ffkQ b.34.5.1 63104 1s72T 120 6.64e+01 b.34.5.1 105339 1pamA 686 6.82e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 1x3mA 415 6.94e+01 1gbg 214 7.03e+01 1axkA b.29.1.2 24171 1u4cA 349 7.10e+01 b.69.4.2 107666 8fabA 212 7.12e+01 8fabA b.1.1.1,b.1.1.2 19772,20882 1hl9A 449 7.16e+01 b.71.1.3,c.1.8.11 90650,90651 1vzyA 291 7.17e+01 2sga 181 7.26e+01 1qq4A b.47.1.1 25808 1y0yA 353 7.55e+01 1ac5 483 7.55e+01 1ac5 c.69.1.5 34653 2fomB 185 7.67e+01 1n7eA 97 7.78e+01 b.36.1.1 91691 1jofA 365 7.87e+01 b.69.10.1 71775 1nlnA 204 7.90e+01 d.3.1.7 91962 1vr1H 261 7.96e+01 5ptp 1koiA 184 8.07e+01 b.60.1.1 68725 1crzA 403 8.13e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1mldA 314 8.15e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1v04A 355 8.23e+01 b.68.6.2 100240 1xbrA 184 8.24e+01 1xbrA b.2.5.4 22458 1nc5A 373 8.26e+01 a.102.1.6 85548 4blmA 265 8.28e+01 1btl e.3.1.1 42721 1w3jA 468 8.30e+01 c.1.8.4 109156 1c4rA 182 8.40e+01 1c4rA b.29.1.4 24229 2glzA 153 8.42e+01 1d3bA 75 8.60e+01 1d3bA b.38.1.1 24798 1xqbA 247 8.62e+01 1w6sA 599 8.68e+01 1m8uA 173 8.72e+01 b.11.1.1,b.11.1.1 91233,91234 1qwdA 177 8.77e+01 b.60.1.1 96471 1d5yA 292 8.78e+01 1d5yA a.4.1.8,a.4.1.8,d.60.1.2 16055,16056,39532 1bkzA 135 8.82e+01 1a3k b.29.1.3 24202