# 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 1j58A 385 3.07e-03 b.82.1.2 71531 2phlA 397 2.01e-02 1dgwA b.82.1.2 28082 b.82.1.2 28083 1juhA 350 4.48e-02 b.82.1.5 71884 1od5A 492 4.59e-02 b.82.1.2 86832 b.82.1.2 86833 1j1tA 233 5.66e-02 1plzA 189 2.43e-01 b.82.1.7 88160 1iscA 192 3.02e-01 1avmA a.2.11.1 15733 d.44.1.1 38726 1qxrA 189 4.22e-01 8acn 754 5.61e-01 1amj c.8.2.1 30724 c.83.1.1 35400 1c96A 753 8.54e-01 1amj c.8.2.1 30727 c.83.1.1 35403 1sdwA 314 9.79e-01 1aerA 205 9.98e-01 1aerA d.166.1.1 42249 1khbA 625 1.17e+00 c.91.1.1 68606 c.109.1.1 68607 1az9 457 1.35e+00 1az9 c.55.2.1 33547 d.127.1.1 41164 1dc1A 323 1.40e+00 1dc1A c.52.1.11 33321 1gv3A 248 1.72e+00 a.2.11.1 70585 d.44.1.1 70586 1eybA 471 1.86e+00 1ey2A b.82.1.4 28115 1mwxA 646 1.92e+00 d.17.4.5 79610 d.175.1.1 79611 e.3.1.1 79612 1phm 310 2.00e+00 1phm b.121.1.2 59015 b.121.1.2 59016 1c8zA 265 2.04e+00 1c8zA d.23.1.1 38375 1dgwY 93 2.24e+00 1caxB 1kbvA 327 2.43e+00 b.6.1.3 68395 b.6.1.3 68396 1mngA 203 2.53e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 1m6kA 251 2.58e+00 e.3.1.1 78695 1dgwA 178 2.71e+00 1dgwA b.82.1.2 28090 1e79H 146 2.76e+00 1e79H a.2.10.1 15721 b.93.1.1 28438 1jl0A 334 2.97e+00 1jenA d.156.1.1 63155 1evhA 112 3.14e+00 1evhA b.55.1.4 26997 1vcbC 160 3.27e+00 1vcbC b.3.3.1 22535 1ncwL 219 3.43e+00 b.1.1.1 85557 b.1.1.2 85558 1pqhA 143 3.48e+00 1smd 496 3.53e+00 1smd b.71.1.1 27768 c.1.8.1 28755 1lox 662 4.10e+00 1lox a.119.1.2 19238 b.12.1.1 23638 1hx0A 496 4.18e+00 b.71.1.1 61346 c.1.8.1 61347 1dyoA 160 4.28e+00 1dyoA b.18.1.7 23771 1hqz1 141 4.40e+00 1zxq 192 4.46e+00 1zxq b.1.1.3 21657 b.1.1.4 21693 1fpzA 212 4.51e+00 1fpzA c.45.1.1 59976 1fi2A 201 4.95e+00 1fi2A b.82.1.2 59845 1gw0A 559 4.98e+00 b.6.1.3 70623 b.6.1.3 70624 b.6.1.3 70625 1jhsA 188 5.02e+00 d.107.1.1 84172 3dni 260 5.09e+00 3dni d.151.1.1 41791 1smlA 269 5.10e+00 1smlA d.157.1.1 42053 1jc9A 269 5.22e+00 d.171.1.1 66490 1crzA 403 5.33e+00 1crzA b.68.4.1 27629 c.51.2.1 33211 1qnnA 191 5.82e+00 1avmA a.2.11.1 15792 d.44.1.1 38755 1jenA 267 6.18e+00 1jenA 1prxA 224 6.31e+00 1prxA c.47.1.10 33076 1q1fA 151 6.31e+00 1hd7A 318 6.55e+00 1bix d.151.1.1 41780 1nb9A 147 6.59e+00 b.43.5.1 85515 1c8uA 285 6.87e+00 1c8uA d.38.1.3 38547 d.38.1.3 38548 1mu5A 471 6.89e+00 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1pjxA 314 7.01e+00 2dnjA 260 7.24e+00 3dni d.151.1.1 41790 1kb5B 117 7.47e+00 1kb5B b.1.1.1 20632 1bebA 162 7.57e+00 1bebA b.60.1.1 27115 1pmmA 466 7.62e+00 1fs0E 138 7.72e+00 1aqt a.2.10.1 59997 b.93.1.1 59998 1ca1 370 7.97e+00 1ca1 a.124.1.1 19340 b.12.1.3 23648 1gof 639 8.14e+00 1gof b.1.18.2 21807 b.18.1.1 23709 b.69.1.1 27631 1havA 217 8.21e+00 1havA b.47.1.4 26423 2fhi 147 8.21e+00 1fit d.13.1.1 37505 1uesA 191 8.37e+00 1vheA 373 8.50e+00 1ckmA 330 8.59e+00 1ckmA b.40.4.6 25358 d.142.2.3 41585 1q33A 292 8.80e+00 1eq6A 189 9.01e+00 1eq6A d.107.1.1 40796 1hdhA 536 9.09e+00 c.76.1.2 65805 1ah6 220 9.60e+00 1yer d.122.1.1 41094 1fit 147 9.64e+00 1fit d.13.1.1 37499 1e1aA 314 9.84e+00 1e1aA b.68.6.1 59155 1ofuA 320 1.00e+01 c.32.1.1 86972 d.79.2.1 86973 1my6A 199 1.04e+01 a.2.11.1 85232 d.44.1.1 85233 1liiA 363 1.08e+01 c.72.1.1 73921 1lqtA 456 1.09e+01 c.3.1.1 74198 c.4.1.1 74199 1v3eA 431 1.09e+01 1tvdA 116 1.12e+01 1tvdA b.1.1.1 20650 1ri6A 343 1.12e+01 1lm8V 160 1.13e+01 b.3.3.1 74035 1m1zA 513 1.14e+01 c.26.2.1 78457 d.153.1.1 78458 1oj6A 151 1.14e+01 1qa7A 217 1.15e+01 1havA b.47.1.4 26425 1dgyA 363 1.19e+01 1bx4A 1itwA 741 1.19e+01 c.77.1.2 76793 1f2tB 148 1.20e+01 1f2tB 1p0iA 529 1.20e+01 1bec 238 1.21e+01 1bec b.1.1.1 20627 b.1.1.2 21561 1oo2A 119 1.21e+01 1jjeA 222 1.22e+01 1a7tA d.157.1.1 63117 1ve9A 347 1.23e+01 1aqm 453 1.26e+01 1smd b.71.1.1 27717 c.1.8.1 28704 1e3mA 800 1.26e+01 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 1fo0B 112 1.31e+01 1kb5B b.1.1.1 20631 1avmA 201 1.34e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 1bsmA 201 1.37e+01 1avmA a.2.11.1 15780 d.44.1.1 38743 1mo9A 523 1.37e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1ifrA 121 1.41e+01 b.1.16.1 71203 1rypE 242 1.42e+01 1rypE d.153.1.4 41936 1lcyA 325 1.46e+01 b.36.1.4 73834 b.47.1.1 73835 1bkb 136 1.46e+01 1bkb b.34.5.2 24609 b.40.4.5 25341 1na6A 404 1.49e+01 1ogsA 497 1.49e+01 b.71.1.2 86997 c.1.8.3 86998 1sviA 195 1.49e+01 1noyA 388 1.54e+01 1clqA c.55.3.5 33713 1acf 125 1.56e+01 3nul d.110.1.1 40882 1khiA 176 1.58e+01 b.34.5.2 77408 b.40.4.5 77409 1qqp2 218 1.59e+01 1qqp2 1ng4A 390 1.59e+01 c.3.1.2 85666 d.16.1.3 85667 1svy 114 1.59e+01 1svy d.109.1.1 40831 1k5dB 201 1.59e+01 b.55.1.3 68169 1uufA 369 1.62e+01 1hw7A 255 1.63e+01 1i7fA d.193.1.1 61297 1m8uA 173 1.63e+01 1gnd 447 1.68e+01 1gnd c.3.1.3 30423 d.16.1.6 37987 1n26A 325 1.69e+01 b.1.1.4 79850 b.1.2.1 79851 b.1.2.1 79852 1g94A 448 1.70e+01 b.71.1.1 65169 c.1.8.1 65170 1mplA 349 1.71e+01 e.3.1.1 79387 1m4jA 142 1.74e+01 d.109.1.2 78602 1vybA 238 1.75e+01 1pmi 440 1.75e+01 1pmi b.82.1.3 28114 1bs4A 168 1.76e+01 1bs4A d.167.1.1 42287 1dnlA 199 1.80e+01 1ci0A b.45.1.1 25753 1jlyA 304 1.80e+01 1jlyA b.42.3.1 25587 b.42.3.1 25588 1e5pA 151 1.80e+01 1bj7 b.60.1.1 59272 1o7nA 449 1.81e+01 b.33.1.2 81162 d.129.3.3 81163 1svpA 161 1.81e+01 1svpA b.47.1.3 26384 1kcvL 214 1.81e+01 b.1.1.1 72317 b.1.1.2 72318 1ojaA 520 1.82e+01 2eifA 136 1.83e+01 1bkb b.34.5.2 24607 b.40.4.5 25339 1hvbA 349 1.84e+01 3pte e.3.1.1 42686 1e1hA 287 1.85e+01 d.92.1.7 83167 1c0pA 363 1.85e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 2pvaA 345 1.89e+01 3pvaA d.153.1.3 41850 1d2eA 397 1.90e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1d5tA 433 1.92e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 3pte 349 1.92e+01 3pte e.3.1.1 42687 1mwmA 320 1.97e+01 c.55.1.1 79580 c.55.1.1 79581 1n6aA 259 1.98e+01 b.76.2.1 80121 b.85.7.1 80122 1m4vA 204 1.98e+01 b.40.2.2 74459 d.15.6.1 74460 1c5cL 214 2.01e+01 32c2A b.1.1.1 20474 b.1.1.2 21438 1jmcA 246 2.01e+01 1jmcA b.40.4.3 25300 b.40.4.3 25301 1jb0D 138 2.02e+01 1jb0D d.187.1.1 62823 1iwhB 146 2.03e+01 a.1.1.2 76883 1suuA 312 2.04e+01 1dgfA 497 2.06e+01 1cf9A e.5.1.1 42782 1iicA 422 2.08e+01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1mba 147 2.08e+01 2fal a.1.1.2 15149 1a2vA 655 2.09e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1eg9A 449 2.15e+01 1ndoA b.33.1.2 24443 d.129.3.3 41322 1ojjA 402 2.17e+01 1i50A 1733 2.18e+01 e.29.1.1 61754 1i3dA 146 2.19e+01 a.1.1.2 61587 1oe9A 795 2.22e+01 1npsA 88 2.24e+01 1prs b.11.1.1 23622 1soxA 466 2.30e+01 1soxA b.1.18.6 21947 d.120.1.1 41090 d.176.1.1 42563 1dymA 402 2.31e+01 1celA b.29.1.10 24304 1babB 146 2.34e+01 1abwA a.1.1.2 15414 1i4uA 181 2.34e+01 b.60.1.1 61732 1l3aA 228 2.34e+01 d.18.1.2 73531 1i7qB 193 2.34e+01 1qdlB c.23.16.1 61902 1irdB 146 2.36e+01 a.1.1.2 66287 1psuA 140 2.36e+01 d.38.1.5 88285 1s3eA 520 2.37e+01 1erxA 184 2.37e+01 1np1A b.60.1.1 27164 1ut0A 190 2.38e+01 1koiA 184 2.40e+01 b.60.1.1 68725 1h7sA 365 2.41e+01 d.14.1.3 65705 d.122.1.2 65706 1hq8A 123 2.47e+01 1b6e d.169.1.1 61127 1khdA 345 2.49e+01 a.46.2.1 77400 c.27.1.1 77401 1dxrH 258 2.49e+01 6prcH b.41.1.1 25456 f.23.10.1 43433 1f86A 115 2.53e+01 1etb1 b.3.4.1 59689 1go4A 205 2.66e+01 d.135.1.1 70292 1vpsA 289 2.67e+01 1vpsA b.121.6.1 23336 1vavA 222 2.75e+01 1okgA 373 2.77e+01 1uisA 231 2.82e+01 1sdjA 310 2.87e+01 1bu8A 452 2.88e+01 1gpl b.12.1.2 23647 c.69.1.19 34795 1dm0A 287 2.89e+01 1dm0A d.165.1.2 42227 2bltA 361 2.91e+01 1gceA e.3.1.1 42739 2pia 321 2.92e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1m33A 258 2.93e+01 c.69.1.26 78514 1qf5A 431 2.97e+01 1adeA c.37.1.10 32212 1rl2A 137 2.97e+01 1rl2A b.34.5.3 24610 b.40.4.5 25342 1pwxA 254 2.97e+01 1qwlA 505 3.03e+01 3psg 370 3.05e+01 1smrA b.50.1.2 26841 1g2aA 168 3.06e+01 d.167.1.1 65109 1ga0A 364 3.18e+01 1gceA e.3.1.1 60410 1rgzA 363 3.18e+01 1h1yA 228 3.19e+01 c.1.2.2 76506 1knvA 293 3.22e+01 c.52.1.7 68707 1ciy 590 3.25e+01 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1pbe 394 3.25e+01 1pbe c.3.1.2 30338 d.16.1.2 37869 1pguA 615 3.26e+01 b.69.4.1 88069 b.69.4.1 88070 1mrzA 293 3.28e+01 1qwoA 442 3.29e+01 1b66A 140 3.31e+01 1b66A d.96.1.2 40657 1ua4A 455 3.32e+01 1lktA 104 3.33e+01 1lktA b.90.1.1 28398 1o59A 355 3.35e+01 1obwA 175 3.40e+01 2prd b.40.5.1 25416 1k07A 263 3.42e+01 d.157.1.1 77218 1bypA 99 3.42e+01 1plc b.6.1.1 22858 1bag 425 3.49e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1qfjA 232 3.50e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 1nykA 165 3.50e+01 b.33.1.1 86408 1s5pA 235 3.51e+01 1v61A 132 3.54e+01 1jj2E 177 3.57e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1jvwA 167 3.62e+01 d.26.1.1 71907 1im8A 244 3.63e+01 c.66.1.14 66212 1oe1A 336 3.63e+01 b.6.1.3 86891 b.6.1.3 86892 1pbyB 337 3.77e+01 1gutA 68 3.78e+01 b.40.6.1 65576 1m2xA 223 3.80e+01 d.157.1.1 84764 1jeyA 609 3.81e+01 1jeqA e.31.1.1 62924 1czpA 98 3.82e+01 1awd d.15.4.1 37645 1uz5A 402 3.82e+01 1ojqA 212 3.84e+01 1ouoA 210 3.88e+01 1aozA 552 3.92e+01 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1ep0A 185 3.93e+01 1dzrA b.82.1.1 28080 1m55A 197 3.94e+01 d.89.1.3 74469 1nhs 447 3.94e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1j3mA 129 3.96e+01