# List of top-scoring protein chains for t2k-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 1kzlA 208 6.63e-02 b.43.4.3 77635 b.43.4.3 77636 1rz1A 161 1.36e-01 b.45.1.2 -4088 1gt1A 159 1.68e-01 b.60.1.1 -4436 1i8dA 213 1.85e-01 b.43.4.3 61953 b.43.4.3 61954 1hn2A 159 1.87e-01 b.60.1.1 65890 1r64A 481 6.86e-01 b.18.1.20 -3151 c.41.1.1 -7297 1vjuA 309 8.02e-01 unknown_sccs -9594 1rqwA 207 8.74e-01 b.25.1.1 -3313 1ejeA 192 8.92e-01 1ejeA b.45.1.2 25757 1i0sA 169 9.17e-01 1i0rA b.45.1.2 61491 1vybA 238 9.23e-01 1obpA 159 9.48e-01 1obpA b.60.1.1 27092 1thv 207 9.73e-01 1thv b.25.1.1 23904 1thw 207 1.11e+00 1thv b.25.1.1 23903 1qs1A 462 1.11e+00 1qs1A d.166.1.1 42260 d.166.1.1 42261 1ot5A 477 1.21e+00 b.18.1.20 87409 c.41.1.1 87410 1i0rA 169 1.26e+00 1i0rA b.45.1.2 61489 1qs2A 401 1.65e+00 1qs1A d.166.1.1 42268 d.166.1.1 42269 1kwnA 207 1.96e+00 b.25.1.1 77568 1jeqB 565 2.23e+00 1jeqB unknown_sccs -4432 unknown_sccs -7996 1bj7 156 2.25e+00 1bj7 b.60.1.1 27113 1nls 237 2.39e+00 1nls b.29.1.1 23928 1j0wA 103 2.50e+00 b.55.1.2 -4364 1jeyB 565 2.52e+00 1jeqB unknown_sccs -4431 unknown_sccs -7995 1oz2A 331 2.52e+00 b.34.9.3 -3597 b.34.9.3 -3598 b.34.9.3 -3599 1aisA 182 2.64e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1oxsC 353 2.93e+00 b.40.6.3 87519 c.37.1.12 87520 1oxxK 353 3.09e+00 b.40.6.3 -3969 c.37.1.12 -7187 1te5A 257 3.13e+00 1hcz 252 3.15e+00 1hcz b.2.6.1 22464 b.84.2.2 28250 1v7oA 165 3.79e+00 unknown_sccs -10249 1i9bA 217 4.07e+00 1i9bA b.96.1.1 62084 1ex0A 731 4.50e+00 b.1.18.9 -2754 b.1.5.1 -2778 b.1.5.1 -2779 d.3.1.4 -8889 1uscA 178 4.75e+00 b.45.1.2 -4074 1f13A 731 4.76e+00 1f13A b.1.18.9 21877 b.1.5.1 22163 b.1.5.1 22164 d.3.1.4 37107 1gpc 218 4.95e+00 1gpc b.40.4.7 25393 1oi1A 221 5.25e+00 b.34.9.3 87037 b.34.9.3 87038 1ac5 483 5.57e+00 1ac5 c.69.1.5 34653 2rhe 114 5.81e+00 8fabA b.1.1.1 20523 2ptd 298 6.35e+00 2plc c.1.18.2 29605 1s3iA 310 6.39e+00 b.46.1.1 -4111 c.65.1.1 -8042 1g24A 211 6.52e+00 1g24A d.166.1.1 42270 1qy1A 174 6.52e+00 b.60.1.1 -4445 1lckA 175 6.54e+00 1lckA b.34.2.1 24552 d.93.1.1 40421 1l3aA 228 6.79e+00 d.18.1.2 73531 1f4pA 147 6.83e+00 5nul c.23.5.1 59651 1scs 237 6.84e+00 1nls b.29.1.1 23930 1htwA 158 7.06e+00 c.37.1.18 71083 1hcl 298 7.16e+00 1hcl d.144.1.7 41593 1agjA 242 7.57e+00 1agjA b.47.1.1 25827 1aun 208 7.75e+00 1thv b.25.1.1 23900 1v2bA 177 7.86e+00 1bu5A 147 8.10e+00 5nul c.23.5.1 31155 1b88A 114 8.11e+00 1tcrA b.1.1.1 20608 1gm6A 175 8.18e+00 b.60.1.1 70272 1j9eA 147 8.35e+00 c.23.5.1 62756 1v6fA 151 8.48e+00 1uw6A 211 9.03e+00 b.96.1.1 -3077 1dghB 498 9.50e+00 1cf9A e.5.1.1 42791 2fx2 147 9.50e+00 1rcf c.23.5.1 31158 1b35C 282 9.57e+00 1b35C 1k0rA 366 9.91e+00 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1pxvA 183 1.02e+01 d.3.1.1 -8881 1i05A 180 1.03e+01 1mup b.60.1.1 27130 2pcfB 250 1.04e+01 1hcz i.4.1.1 45911 1kb5A 115 1.11e+01 1tvdA b.1.1.1 20611 1gnhA 206 1.12e+01 1sacA b.29.1.5 24252 1oo0B 110 1.13e+01 d.58.7.1 87183 1bkb 136 1.16e+01 1bkb b.34.5.2 24609 b.40.4.5 25341 1rpmA 278 1.17e+01 2shpA c.45.1.2 32679 1fo0B 112 1.19e+01 1kb5B b.1.1.1 20631 1akr 147 1.21e+01 1rcf c.23.5.1 31152 1yge 839 1.22e+01 1yge a.119.1.1 19234 b.12.1.1 23634 1dlfH 124 1.23e+01 1igtB b.1.1.1 20383 1dppA 507 1.23e+01 1dpe c.94.1.1 35800 1o0pA 104 1.25e+01 d.58.7.1 86535 1dzfA 215 1.25e+01 1dzfA c.52.3.1 33344 d.78.1.1 39753 2dnjA 260 1.26e+01 3dni d.151.1.1 41790 1mqkH 127 1.28e+01 b.1.1.1 85053 1khiA 176 1.30e+01 b.34.5.2 77408 b.40.4.5 77409 1bebA 162 1.31e+01 1bebA b.60.1.1 27115 1jm1A 204 1.33e+01 b.33.1.1 71745 1giqA 413 1.35e+01 d.166.1.1 76224 d.166.1.1 76225 3dni 260 1.36e+01 3dni d.151.1.1 41791 1naqA 112 1.37e+01 d.58.5.2 -9984 1dgfA 497 1.38e+01 1cf9A e.5.1.1 42782 1q6hA 224 1.40e+01 d.26.1.1 -9487 1se8A 301 1.41e+01 1e5pA 151 1.41e+01 1bj7 b.60.1.1 59272 1gl4A 285 1.41e+01 d.22.1.2 65286 g.3.11.5 65287 1s72Q 96 1.43e+01 1evuA 731 1.47e+01 1f13A b.1.18.9 21883 b.1.5.1 22175 b.1.5.1 22176 d.3.1.4 37113 1i06A 180 1.47e+01 1mup b.60.1.1 27131 1s8fA 177 1.48e+01 1cof 143 1.48e+01 1cof d.109.1.2 40860 1q2wA 308 1.52e+01 b.47.1.4 88355 1fm4A 159 1.54e+01 1bv1 d.129.3.1 76186 1b7fA 168 1.60e+01 1b7fA d.58.7.1 39169 d.58.7.1 39170 1b35A 260 1.61e+01 1b35A b.121.4.1 23333 1a1x 108 1.63e+01 1a1x b.63.1.1 27514 1v84A 253 1.65e+01 1s98A 107 1.67e+01 1gz8A 299 1.70e+01 d.144.1.7 83405 1jj2P 95 1.75e+01 1ffkN b.34.5.1 63101 1qttA 117 1.76e+01 1a1x b.63.1.1 27516 1hh2P 344 1.76e+01 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1kb5B 117 1.77e+01 1kb5B b.1.1.1 20632 1q8bA 105 1.78e+01 unknown_sccs -9958 1v9kA 228 1.79e+01 1a7s 221 1.80e+01 1a7s b.47.1.2 26284 1iciA 256 1.81e+01 1iciA c.31.1.5 62266 1e1xA 299 1.82e+01 1hcl d.144.1.7 59157 1mup 166 1.82e+01 1mup b.60.1.1 27133 1qasA 622 1.84e+01 1djxB a.39.1.7 17340 b.7.1.1 23157 c.1.18.1 29585 1ciy 590 1.87e+01 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 2u2fA 85 1.92e+01 2u2fA d.58.7.1 39167 1jmoA 480 1.93e+01 e.1.1.1 77138 1jdqA 98 1.97e+01 d.68.3.3 66559 2fcr 173 1.97e+01 1rcf c.23.5.1 31151 1jvpP 298 2.00e+01 d.144.1.7 67371 1vhoA 346 2.04e+01 unknown_sccs -4283 c.56.5.4 -7893 3pbgA 468 2.04e+01 1e70M c.1.8.4 28951 1koiA 184 2.05e+01 b.60.1.1 68725 1qrkA 731 2.05e+01 1f13A b.1.18.9 21889 b.1.5.1 22187 b.1.5.1 22188 d.3.1.4 37119 1bv1 159 2.07e+01 1bv1 d.129.3.1 41313 1hl6A 165 2.08e+01 d.58.7.1 83609 1i1b 153 2.12e+01 2i1b b.42.1.2 25537 1nxzA 246 2.18e+01 b.122.1.2 86391 c.116.1.5 86392 1i18A 97 2.19e+01 b.43.4.3 61520 1b35B 255 2.19e+01 1b35B b.121.4.1 23334 1eg5A 384 2.19e+01 1ecxA c.67.1.3 34429 1jhsA 188 2.23e+01 d.107.1.1 84172 7catA 506 2.25e+01 1cf9A e.5.1.1 42781 1h9jA 145 2.30e+01 1h9jA b.40.6.2 60829 b.40.6.2 60830 1t95A 240 2.34e+01 1mp9A 198 2.37e+01 a.74.1.2 -1127 a.74.1.2 -1128 1jv4A 162 2.40e+01 b.60.1.1 67343 1h9mA 145 2.41e+01 1h9jA b.40.6.2 60833 b.40.6.2 60834 1b7yA 350 2.41e+01 1pysA d.104.1.1 40776 1bywA 110 2.42e+01 1bywA d.110.3.6 40912 3sxlA 184 2.42e+01 1b7fA d.58.7.1 39173 d.58.7.1 39174 2bopA 85 2.42e+01 2bopA d.58.8.1 39217 1ecxA 384 2.45e+01 1ecxA c.67.1.3 34431 7taa 478 2.47e+01 7taa b.71.1.1 27778 c.1.8.1 28765 1uhgA 385 2.47e+01 e.1.1.1 88491 1jenA 267 2.48e+01 1jenA 1kzqA 289 2.53e+01 b.6.2.1 73374 b.6.2.1 73375 1elvA 333 2.54e+01 5ptp b.47.1.2 59454 g.18.1.1 59455 1jf9A 408 2.56e+01 1c0nA c.67.1.3 62931 1r9gA 216 2.57e+01 c.23.16.1 -6504 1dpe 507 2.57e+01 1dpe c.94.1.1 35799 1c0nA 406 2.59e+01 1c0nA c.67.1.3 34433 1sfp 114 2.60e+01 1sfp b.23.1.1 23895 1erxA 184 2.61e+01 1np1A b.60.1.1 27164 1oi0A 124 2.62e+01 unknown_sccs -8782 1kwhA 492 2.66e+01 c.94.1.1 68876 1wba 175 2.68e+01 1wba b.42.4.1 25591 1wejH 223 2.68e+01 1igtB b.1.1.1 20361 b.1.1.2 21353 1imvA 398 2.69e+01 e.1.1.1 62591 1d09B 153 2.70e+01 8atcB d.58.2.1 39015 g.41.7.1 45267 1oboA 169 2.77e+01 c.23.5.1 86776 1rjdA 334 2.77e+01 unknown_sccs -8079 1dqnA 230 2.77e+01 1dqnA c.61.1.1 34067 1ggtB 731 2.79e+01 1f13A b.1.18.9 21882 b.1.5.1 22173 b.1.5.1 22174 d.3.1.4 37112 1tag 324 2.81e+01 1cipA a.66.1.1 18197 c.37.1.8 32080 1ex2A 189 2.82e+01 1ex2A c.51.4.2 33225 1nepA 130 2.82e+01 b.1.18.7 80440 1pyfA 312 2.83e+01 c.1.7.1 -5251 1pysA 350 2.87e+01 1pysA d.104.1.1 40775 1p9qC 256 2.88e+01 1d2sA 170 2.91e+01 1d2sA b.29.1.4 24221 1sy3A 184 2.94e+01 1pmlA 86 2.97e+01 5hpgA g.14.1.1 44632 1eq6A 189 3.01e+01 1eq6A d.107.1.1 40796 1nqjA 119 3.04e+01 b.23.2.1 86031 1ckv 141 3.05e+01 1ckv d.137.1.1 41452 1nofA 383 3.06e+01 b.71.1.2 -4668 c.1.8.3 -5339 1r8sA 164 3.08e+01 c.37.1.8 -7082 1h4xA 117 3.13e+01 1auz c.13.2.1 60626 1bjoA 360 3.15e+01 1bjnA c.67.1.4 34471 1kezA 300 3.16e+01 c.69.1.22 68546 1nrjB 218 3.20e+01 c.37.1.8 86125 1ia9A 280 3.23e+01 1ia9A d.144.1.5 62113 1mhnA 59 3.26e+01 b.34.9.1 84964 1luzA 88 3.26e+01 b.40.4.5 74271 1jovA 270 3.27e+01 b.30.5.7 84192 1kkcA 221 3.32e+01 a.2.11.1 68660 d.44.1.1 68661 1ct9A 553 3.42e+01 1ct9A c.26.2.1 31616 d.153.1.1 41834 2hnp 321 3.44e+01 1pty c.45.1.2 32678 1cnuA 137 3.45e+01 1cof d.109.1.2 40862 1rovA 857 3.50e+01 a.119.1.1 -1656 b.12.1.1 -3034 1uahA 431 3.53e+01 1ug6A 431 3.53e+01 c.1.8.4 88490 1uv0A 149 3.54e+01 d.169.1.1 -11610 1qmrA 159 3.56e+01 1bv1 d.129.3.1 41314 2sfa 191 3.56e+01 1qq4A b.47.1.1 25815 9atcB 146 3.56e+01 8atcB d.58.2.1 39057 g.41.7.1 45309 1cznA 169 3.57e+01 1rcf c.23.5.1 31181 1ri6A 343 3.60e+01 unknown_sccs -4621 1inlA 296 3.61e+01 c.66.1.17 66220 1r0pA 312 3.61e+01 d.144.1.7 -11377 1h6zA 913 3.68e+01 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1kxrA 339 3.68e+01 d.3.1.3 73175 1vfaB 116 3.70e+01 1gc1H b.1.1.1 19929 1s72E 178 3.71e+01 1j1nA 492 3.71e+01 c.94.1.1 83978 1ixmB 192 3.71e+01 1ixmA d.123.1.1 41115 2sxl 88 3.73e+01 1b7fA d.58.7.1 39179 1i1jA 108 3.80e+01 1i1jA b.34.2.1 61531 1m2kA 249 3.82e+01 c.31.1.5 84754 2i1b 153 3.82e+01 2i1b b.42.1.2 25538 1ow1A 195 3.82e+01 unknown_sccs -4422 1p57B 255 3.89e+01 b.47.1.2 -4248 1nglA 179 3.89e+01 1nglA b.60.1.1 27146 31bi 153 3.94e+01 2i1b b.42.1.2 25541