# List of top-scoring protein chains for t04-100-30-near-backbone-11 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 1gefA 123 9.85e-03 1gefA c.52.1.18 60465 1lngA 87 1.07e-02 d.201.1.1 74045 1tiqA 180 4.63e-02 1ixkA 315 9.68e-02 unknown_sccs -8099 1kzfA 230 1.53e-01 d.108.1.3 73354 1gps 47 2.16e-01 1gpt g.3.7.5 44176 1d1gA 168 2.32e-01 1d1gA c.71.1.1 34889 1gc5A 467 2.57e-01 1gc5A c.72.1.3 60429 1hh1A 143 2.86e-01 1gefA c.52.1.18 61036 1l2lA 457 3.19e-01 c.72.1.3 77656 1uc8A 280 5.15e-01 unknown_sccs -6718 unknown_sccs -11230 1uiuA 502 5.48e-01 c.94.1.1 -8674 1bob 320 6.00e-01 1bob d.108.1.1 40816 1v8gA 329 6.65e-01 a.46.2.1 -953 c.27.1.1 -6644 1ka9H 200 6.80e-01 c.23.16.1 77308 1c1dA 355 6.84e-01 1bw9A c.2.1.7 30270 c.58.1.1 33918 1aoy 78 7.66e-01 1aoy a.4.5.3 16087 1f46A 140 7.66e-01 1f46A d.129.4.1 59643 1npk 154 8.59e-01 1npk d.58.6.1 39099 1peeA 180 9.72e-01 2pii 112 9.83e-01 2pii d.58.5.1 39071 1eexA 554 1.07e+00 1dioA c.1.19.3 29650 1mzbA 136 1.13e+00 unknown_sccs -266 1omhA 293 1.14e+00 unknown_sccs -10527 1b8aA 438 1.20e+00 1b8aA b.40.4.1 25244 d.104.1.1 40765 1v2xA 194 1.26e+00 c.116.1.1 -6704 1euoA 180 1.56e+00 1np1A b.60.1.1 27163 1bjt 793 1.57e+00 1bjt e.11.1.1 43249 1ub0A 258 1.58e+00 c.72.1.2 88394 1r44A 202 1.67e+00 1nox 205 1.74e+00 1nox d.90.1.1 40242 1f02T 66 1.79e+00 1f02T j.67.1.1 46360 1mu5A 471 1.82e+00 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1r5jA 337 1.86e+00 unknown_sccs -8471 1l7mA 211 1.96e+00 c.108.1.4 73664 1np7A 489 1.97e+00 a.99.1.1 80677 c.28.1.1 80678 1tns 76 1.99e+00 1qpmA a.6.1.7 16228 1m32A 366 2.41e+00 c.67.1.3 78508 1c24A 263 2.45e+00 1c24A d.127.1.1 41148 1isiA 265 2.47e+00 e.4.1.1 71394 3htsB 102 2.73e+00 2hts a.4.5.22 16175 1lj9A 144 3.17e+00 a.4.5.28 78035 1bgp 309 3.31e+00 1bgp a.93.1.1 18690 1pm1X 180 3.35e+00 1j9bA 141 3.39e+00 c.47.1.12 66459 1myt 146 3.45e+00 1a6m a.1.1.2 15207 1ngnA 155 3.47e+00 a.96.1.2 85697 1fbnA 230 3.52e+00 1fbnA c.66.1.3 34181 1skoA 143 3.62e+00 1vhsA 175 3.79e+00 d.108.1.1 -10794 1qj2C 285 3.84e+00 1qj2C 1g8sA 230 3.87e+00 c.66.1.3 -8047 1fgyA 127 4.07e+00 1faoA b.55.1.1 26976 1ccwA 137 4.11e+00 1be1 c.23.6.1 31238 1jg5A 83 4.15e+00 d.205.1.1 66666 1kz7A 353 4.16e+00 a.87.1.1 73333 b.55.1.1 73334 1mwyA 73 4.46e+00 d.58.17.1 79616 1t56A 216 4.69e+00 1vj1A 363 4.71e+00 b.35.1.2 -3728 c.2.1.1 -5752 1uj6A 227 4.72e+00 1lba 146 4.75e+00 1lba d.118.1.1 41062 1kafA 108 5.14e+00 d.199.1.1 68372 1q1hA 110 5.51e+00 unknown_sccs -262 1edg 380 5.82e+00 1edg c.1.8.3 28807 1b00A 127 5.84e+00 3chy c.23.1.1 31122 1v92A 46 5.94e+00 a.5.2.3 -357 1o0uA 429 5.97e+00 c.118.1.1 80743 1lmzA 187 5.99e+00 a.96.1.4 74037 1c3cA 429 6.14e+00 1c3cA a.127.1.1 19425 1vetA 124 6.16e+00 1j97A 211 6.23e+00 1f5sA c.108.1.4 62753 1seiA 130 6.60e+00 1seiA d.140.1.1 41463 1n62C 288 6.94e+00 d.87.2.1 80094 d.145.1.3 80095 1jpyA 137 6.95e+00 g.17.1.6 67065 1tidB 119 6.96e+00 1ri5A 298 6.99e+00 unknown_sccs -8063 1rfmA 344 7.01e+00 c.122.1.1 -8032 1b7yB 785 7.72e+00 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 1omiA 248 7.76e+00 a.4.5.4 87079 b.82.3.3 87080 1qwgA 251 7.89e+00 unknown_sccs -5678 1b7yA 350 7.99e+00 1pysA d.104.1.1 40776 1tbxA 99 8.06e+00 1r8sE 203 8.42e+00 a.118.3.1 -1579 1ockA 412 8.47e+00 c.117.1.1 86802 1brwA 433 8.53e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1ax4A 467 8.94e+00 1ax4A c.67.1.2 34391 1m2xA 223 8.95e+00 d.157.1.1 84764 1pbv 195 9.03e+00 1pbv a.118.3.1 19179 1otvA 259 9.06e+00 unknown_sccs -1915 1kl1A 419 9.09e+00 c.67.1.4 72663 1sfxA 109 9.46e+00 1ci4A 89 9.46e+00 1qckA a.60.5.1 17970 1ifc 132 1.01e+01 b.60.1.2 27173 1ujnA 348 1.02e+01 e.22.1.1 -11998 3chy 128 1.02e+01 3chy c.23.1.1 31038 1ebmA 317 1.04e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1trkA 680 1.05e+01 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 1t4bA 367 1.07e+01 8abp 306 1.07e+01 8abp c.93.1.1 35647 1fh0A 221 1.09e+01 1cs8A d.3.1.1 59832 1atg 231 1.11e+01 1atg c.94.1.1 35834 1smtA 122 1.11e+01 1smtA a.4.5.5 16109 1o6dA 163 1.11e+01 c.116.1.3 -6689 1jsf 130 1.12e+01 3lzt d.2.1.2 36410 1p9kA 79 1.13e+01 unknown_sccs -10238 1ddgA 374 1.13e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1rl2A 137 1.14e+01 1rl2A b.34.5.3 24610 b.40.4.5 25342 1nm2A 317 1.15e+01 c.19.1.1 80654 d.58.23.1 80655 3rubS 123 1.16e+01 1rboC d.73.1.1 39616 1ln4A 104 1.17e+01 d.68.4.1 74043 1mdbA 539 1.17e+01 e.23.1.1 79008 1nhkL 144 1.18e+01 1npk d.58.6.1 39142 1c7gA 456 1.18e+01 c.67.1.2 -8153 1aua 296 1.18e+01 1aua a.5.3.1 16290 c.13.1.1 30882 1m7vA 363 1.19e+01 d.174.1.1 78748 1mv8A 436 1.20e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1hw1A 239 1.21e+01 1e2xA a.4.5.6 16111 a.78.1.1 18441 1c44A 123 1.21e+01 1qndA d.106.1.1 40795 1pl4A 198 1.21e+01 a.2.11.1 -132 d.44.1.1 -9733 1mxiA 160 1.22e+01 c.116.1.1 79646 1lz1 130 1.25e+01 3lzt d.2.1.2 36415 1pysA 350 1.27e+01 1pysA d.104.1.1 40775 1v33A 366 1.30e+01 unknown_sccs -11384 1nthA 458 1.33e+01 c.1.25.1 80730 1r1tA 122 1.34e+01 1ap6A 198 1.36e+01 1avmA a.2.11.1 15746 d.44.1.1 38705 1d8bA 81 1.36e+01 1d8bA a.60.8.1 18094 1d9tA 289 1.40e+01 1deaA 1uumA 372 1.40e+01 c.1.4.1 -5193 1c0pA 363 1.41e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1f9zA 135 1.42e+01 1qipA d.32.1.1 38484 1t6t1 118 1.42e+01 1em8B 112 1.43e+01 unknown_sccs -6364 1kg0C 136 1.43e+01 d.169.1.1 72445 1q45A 391 1.44e+01 c.1.4.1 -5199 1f8gA 384 1.45e+01 1sayA c.2.1.4 59695 c.23.12.2 59696 1n0qA 93 1.45e+01 k.37.1.1 79754 1p5jA 372 1.46e+01 1jug 125 1.48e+01 3lzt d.2.1.2 36587 1fc4A 401 1.49e+01 1bs0A c.67.1.4 59760 1nrvA 105 1.51e+01 d.93.1.1 86126 1kdj 102 1.52e+01 1plc b.6.1.1 22864 1j3kA 280 1.53e+01 c.71.1.1 84070 1ne7A 289 1.55e+01 unknown_sccs -6858 2hts 88 1.56e+01 2hts a.4.5.22 16174 1uu1A 335 1.56e+01 c.67.1.1 -8146 1m3qA 317 1.57e+01 a.96.1.3 -1288 d.129.1.2 -11006 1i74A 309 1.58e+01 1i74A c.107.1.1 61867 1qysA 106 1.60e+01 unknown_sccs -13432 1o4sA 389 1.62e+01 c.67.1.1 86620 1k94A 165 1.63e+01 a.39.1.8 68333 2fokA 579 1.63e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1oi0A 124 1.67e+01 unknown_sccs -8782 1jbeA 128 1.69e+01 3chy c.23.1.1 62845 1vkiA 181 1.72e+01 1mjhA 162 1.78e+01 1mjhA c.26.2.4 31639 1c3gA 170 1.79e+01 1c3gA b.4.1.1 22831 b.4.1.1 22832 1i1nA 226 1.80e+01 c.66.1.7 71102 1l3iA 192 1.81e+01 c.66.1.22 77676 1d4aA 273 1.84e+01 1d4aA c.23.5.3 31219 1f61A 429 1.86e+01 1dquA c.1.12.7 29319 1dl5A 317 1.88e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1qhtA 775 1.89e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1awcB 153 1.90e+01 1bd8 d.211.1.1 19156 1kn6A 90 1.93e+01 d.58.3.3 72770 2shpA 525 1.97e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1gpuA 680 2.03e+01 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1ru8A 232 2.03e+01 c.26.2.1 -6635 1j5yA 187 2.05e+01 a.4.5.1 71592 d.94.2.1 71593 1bf6A 291 2.08e+01 1pscA c.1.9.3 29065 1lmq 129 2.11e+01 3lzt d.2.1.2 36588 1jeoA 180 2.12e+01 c.80.1.3 66611 1f4lA 551 2.15e+01 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1pvmA 184 2.18e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1ifyA 49 2.18e+01 a.5.2.1 71207 1nuuA 252 2.19e+01 c.26.1.3 86209 1ab8A 220 2.20e+01 1azsA d.58.29.1 39414 1bjwA 382 2.22e+01 1bjwA c.67.1.1 34349 1qgoA 264 2.23e+01 1qgoA c.92.1.2 35596 1pfvA 551 2.29e+01 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1cg2A 393 2.33e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1brmA 367 2.36e+01 1brmA c.2.1.3 30030 d.81.1.1 39945 1bb9 115 2.40e+01 1bb9 b.34.2.1 24554 1j24A 143 2.41e+01 c.52.1.20 84008 1hnnA 282 2.43e+01 c.66.1.15 65895 1vjfA 180 2.44e+01 d.116.1.1 -10941 1d3cA 686 2.44e+01 1cxlA b.1.18.2 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1qbjA 81 2.45e+01 1qbjA a.4.5.19 16155 1qz9A 416 2.45e+01 c.67.1.3 -8180 1uslA 170 2.45e+01 c.121.1.1 -6682 1e58A 249 2.45e+01 1qhfA c.60.1.1 59262 1v5wA 343 2.46e+01 1unkA 87 2.46e+01 1cei a.28.2.1 16935 1b04A 318 2.48e+01 1b04A d.142.2.2 41579 1vsrA 136 2.50e+01 1vsrA c.52.1.15 33332 1ej2A 181 2.52e+01 1f9aA c.26.1.3 59414 1l7dA 384 2.52e+01 c.2.1.4 77774 c.23.12.2 77775 1izmA 184 2.52e+01 unknown_sccs -1233 1jssA 224 2.54e+01 d.129.3.2 71844 1jxhA 288 2.57e+01 c.72.1.2 67415 1aq0A 306 2.58e+01 1aq0A c.1.8.3 28842 1jalA 363 2.59e+01 c.37.1.8 84138 d.15.10.2 84139 1jetA 517 2.64e+01 1jevA c.94.1.1 35718 1qjtA 99 2.64e+01 1eh2 a.39.1.6 17335 1d2mA 665 2.65e+01 1d2mA c.37.1.19 32417 c.37.1.19 32418 1dcoA 104 2.65e+01 1dcpA d.74.1.1 39680 1n0nA 199 2.65e+01 a.2.11.1 79750 d.44.1.1 79751 1ui0A 205 2.67e+01 c.18.1.2 -6328 1tmy 120 2.71e+01 1dbwA c.23.1.1 31083 1tljA 213 2.73e+01 1geeA 261 2.74e+01 c.2.1.2 -5814 1cbf 285 2.74e+01 1cbf c.90.1.1 35587 2olbA 517 2.77e+01 1jevA c.94.1.1 35721 1cei 94 2.80e+01 1cei a.28.2.1 16939 451c 82 2.83e+01 451c a.3.1.1 15904 1dxy 333 2.83e+01 1dxy c.2.1.4 30094 c.23.12.1 31354 1ou0A 207 2.84e+01 c.23.17.1 -6498 1gdeA 389 2.84e+01 c.67.1.1 60456 1v3vA 333 2.87e+01 1qkkA 155 2.90e+01 1dbwA c.23.1.1 31104 1dfoA 417 2.91e+01 1bj4A c.67.1.4 34480 1m65A 245 2.94e+01 c.6.3.1 84847 1jwgA 147 2.94e+01 a.118.9.2 71911 1tvlA 454 2.95e+01 1uwsA 489 2.96e+01 351c 82 2.97e+01 451c a.3.1.1 15905 1khyA 148 2.98e+01 a.174.1.1 77410 1ipaA 274 3.00e+01 c.116.1.1 71254 d.79.3.3 71255 1agt 38 3.04e+01 1sco g.3.7.2 44156 1e0gA 48 3.04e+01 1e01A d.7.1.1 37325 1iq8A 582 3.09e+01 b.122.1.1 83074 c.1.20.1 71270 d.17.6.1 83075 1bed 181 3.11e+01 1fvkA unknown_sccs -7444 1ujkA 147 3.12e+01 a.118.9.2 -1623 1jztA 246 3.15e+01 c.104.1.1 63319 1sdoA 203 3.18e+01 unknown_sccs -7558 1fnsA 196 3.20e+01 1auq c.62.1.1 34136 1vjhA 122 3.20e+01 d.129.3.1 -11037 1n91A 108 3.21e+01 d.206.1.1 80326 1scuA 288 3.21e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1cmbA 104 3.26e+01 1cmbA unknown_sccs 17460 2if1 126 3.26e+01 2if1 d.64.1.1 39547 1kptA 105 3.27e+01 1kptA d.70.1.1 39588 1flmA 122 3.34e+01 1axj b.45.1.1 25747 1itwA 741 3.35e+01 c.77.1.2 76793 1ig0A 319 3.37e+01 1ig0A b.82.6.1 62354 c.100.1.1 62355 1gcoA 261 3.38e+01 1ybvA c.2.1.2 29884 1v39 322 3.38e+01 3mag c.66.1.25 34206 1jdw 423 3.41e+01 1jdw d.126.1.2 41129 1uedA 406 3.42e+01 a.104.1.1 -1459 1rewA 114 3.43e+01 g.17.1.2 -12600 1fs0G 230 3.44e+01 1fs0G c.49.2.1 59999 1o20A 427 3.48e+01 c.82.1.1 86556 1d3gA 367 3.52e+01 1d3gA c.1.4.1 28600 1etxA 98 3.54e+01 1fipA unknown_sccs 18978 1oglA 283 3.56e+01 unknown_sccs -1512 1g8iA 190 3.58e+01 1rec a.39.1.5 60363 1j4aA 333 3.60e+01 c.2.1.4 71502 c.23.12.1 71503 1psdA 409 3.66e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 2hbg 147 3.66e+01 2hbg a.1.1.2 15014 1vh7A 265 3.66e+01 c.1.2.1 -5159 1nkiA 135 3.68e+01 d.32.1.2 -9544 1latA 82 3.68e+01 2nllB g.39.1.2 45122 1wdcC 156 3.73e+01 1wdcC a.39.1.5 17317 1dbfA 127 3.74e+01 2chsA d.79.1.2 39761 1muwA 386 3.78e+01 c.1.15.3 79495 1b5pA 385 3.79e+01 c.67.1.1 -8133 1l6rA 227 3.81e+01 c.108.1.10 77768 1oksA 56 3.84e+01 unknown_sccs -426 1gdoA 240 3.85e+01 1gdoA d.153.1.1 41804 1ja9A 274 3.88e+01 c.2.1.2 62817 1ub9A 100 3.89e+01 a.4.5.28 -231 1korA 400 3.90e+01 c.26.2.1 72824 d.210.1.1 72825 1r0kA 388 3.94e+01 1qh5A 260 3.96e+01 1qh5A d.157.1.2 42057 1noyA 388 3.98e+01 1clqA c.55.3.5 33713