# List of top-scoring protein chains for T0264.t04-w0.5 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 1pjqA 457 9.50e-38 c.2.1.11 -5904 c.90.1.1 -8611 e.37.1.1 -12004 1pjtA 457 9.83e-38 c.2.1.11 -5908 c.90.1.1 -8615 e.37.1.1 -12008 1cbf 285 6.17e-32 1cbf c.90.1.1 35587 2cbf 234 1.80e-31 1cbf c.90.1.1 35588 1vhvA 268 1.13e-21 c.90.1.1 -8619 1fsz 372 1.44e-02 1fsz c.32.1.1 31750 d.79.2.1 39802 1oi7A 288 4.35e-02 c.2.1.8 87049 c.23.4.1 87050 4pfk 319 3.04e-01 3pfk c.89.1.1 35582 6pfkA 319 4.47e-01 3pfk c.89.1.1 35583 1mtoA 319 5.21e-01 c.89.1.1 79458 1ngvB 442 5.92e-01 c.111.1.2 85699 1r4mB 431 6.74e-01 c.111.1.2 -8268 1pvdA 555 7.89e-01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1pydA 556 7.94e-01 1zpdA c.31.1.3 31735 c.36.1.5 31773 c.36.1.9 31774 1kliH 254 8.32e-01 b.47.1.2 77435 1bg6 359 8.89e-01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1iz7A 295 1.07e+00 c.69.1.8 76982 1cv2A 296 1.07e+00 1bn6A c.69.1.8 34680 1g42A 296 1.07e+00 c.69.1.8 65139 1mj5A 302 1.07e+00 c.69.1.8 -8326 1qpbA 563 1.19e+00 1zpdA c.31.1.3 31739 c.36.1.5 31781 c.36.1.9 31782 1mtzA 293 1.30e+00 c.69.1.7 79467 1umzA 278 1.35e+00 b.29.1.2 -3398 1ofuA 320 1.39e+00 c.32.1.1 86972 d.79.2.1 86973 1hd7A 318 1.68e+00 1bix d.151.1.1 41780 1bix 287 1.68e+00 1bix d.151.1.1 41781 1dewA 279 1.73e+00 1bix d.151.1.1 41786 1de8A 276 1.76e+00 1bix d.151.1.1 41788 1frvA 264 1.91e+00 2frvA e.19.1.1 43308 1bw0A 416 2.04e+00 1bw0A c.67.1.1 34385 1d0hA 469 2.12e+00 1a8d b.29.1.6 24265 b.42.4.2 25610 1fv3A 472 2.15e+00 b.29.1.6 60038 b.42.4.2 60039 1a8d 452 2.17e+00 1a8d b.29.1.6 24262 b.42.4.2 25607 1diwA 441 2.18e+00 1a8d b.29.1.6 24264 b.42.4.2 25609 1dfqA 444 2.22e+00 1a8d b.29.1.6 24267 b.42.4.2 25612 1bd2D 204 2.24e+00 1tcrA b.1.1.1 20622 b.1.1.2 21557 1dllA 441 2.28e+00 1a8d b.29.1.6 24263 b.42.4.2 25608 1o57A 291 2.30e+00 unknown_sccs -249 c.61.1.1 -7960 1o0uA 429 2.52e+00 c.118.1.1 80743 2pfkC 320 2.85e+00 3pfk c.89.1.1 35579 1pfkA 320 2.87e+00 3pfk c.89.1.1 35575 1p4aA 285 2.88e+00 unknown_sccs -253 c.61.1.1 -7964 1a8s 273 2.92e+00 1brt c.69.1.12 34710 1mo2A 294 3.27e+00 c.69.1.22 79331 1kezA 300 3.32e+00 c.69.1.22 68546 1km6A 247 3.33e+00 c.1.2.3 72742 1vhcA 224 3.59e+00 c.1.10.1 -5488 1unkA 87 3.69e+00 1cei a.28.2.1 16935 1d1tA 373 3.76e+00 2ohxA b.35.1.2 24719 c.2.1.1 29735 1d1sA 373 3.92e+00 2ohxA b.35.1.2 24727 c.2.1.1 29743 1jk0A 419 3.98e+00 a.25.1.2 63142 1ujzA 87 4.12e+00 a.28.2.1 -735 1azzA 226 4.15e+00 5ptp b.47.1.2 26072 2frvA 264 4.54e+00 2frvA e.19.1.1 43303 1q57A 503 4.94e+00 c.37.1.11 -7131 e.13.1.2 -11987 1s1mA 545 5.10e+00 1t8hA 277 5.15e+00 1f06A 320 5.16e+00 1dapA c.2.1.3 59556 d.81.1.3 59557 1nf2A 268 5.18e+00 c.108.1.10 -6842 1va4A 279 5.57e+00 1qycA 308 5.71e+00 c.2.1.2 -5782 1hyeA 313 5.84e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1pv5A 264 5.84e+00 unknown_sccs -10182 1eudA 311 5.94e+00 2scuA c.2.1.8 30312 c.23.4.1 31140 3pmgA 561 6.07e+00 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1b5tA 275 6.32e+00 1b5tA c.1.23.1 29676 1upaA 573 6.55e+00 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1usgA 346 6.64e+00 c.93.1.1 -8635 1fueA 163 6.85e+00 c.23.5.1 65054 1pyfA 312 7.13e+00 c.1.7.1 -5251 1kzhA 555 7.29e+00 c.89.1.1 73361 1snnA 227 7.46e+00 1ufoA 238 7.57e+00 unknown_sccs -8303 1n8nA 212 8.18e+00 unknown_sccs -6830 1h2bA 359 8.21e+00 b.35.1.2 -3679 c.2.1.1 -5703 1h0oA 390 8.38e+00 a.25.1.2 70845 1pvwA 227 8.79e+00 d.115.1.2 -10934 1pwhA 327 9.01e+00 c.79.1.1 -8524 1mwmA 320 9.47e+00 c.55.1.1 79580 c.55.1.1 79581 2lbp 346 9.63e+00 2liv c.93.1.1 35709 1pxuA 131 9.64e+00 1r71A 178 9.65e+00 1jb3A 131 9.70e+00 1jc7A b.40.3.2 62833 1jc7A 131 9.76e+00 1jc7A b.40.3.2 62873 1klzA 247 1.01e+01 c.1.2.3 72731 1qydA 313 1.01e+01 c.2.1.2 -5786 1mwaA 202 1.07e+01 b.1.1.1 79558 b.1.1.2 79559 1vkmA 297 1.09e+01 1eluA 390 1.10e+01 1elqA c.67.1.3 34434 1gcxA 774 1.14e+01 1tgoA c.55.3.5 33725 e.8.1.1 43014 1st3 269 1.15e+01 1gci c.41.1.1 32504 1c0pA 363 1.16e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1n2tA 386 1.16e+01 c.67.1.3 79858 1mc3A 296 1.17e+01 c.68.1.6 78943 1m6jA 261 1.19e+01 c.1.1.1 78693 1gynA 358 1.21e+01 c.1.10.2 83385 1gpeA 587 1.22e+01 1gpeA c.3.1.2 30387 d.16.1.1 37951 1oktA 211 1.23e+01 a.45.1.1 -942 c.47.1.5 -7467 2liv 344 1.24e+01 2liv c.93.1.1 35708 1oxnA 140 1.24e+01 g.52.1.1 -12844 2kinA 238 1.28e+01 1bg2 c.37.1.9 32190 1c8uA 285 1.28e+01 1c8uA d.38.1.3 38547 d.38.1.3 38548 1jcnA 514 1.33e+01 c.1.5.1 84160 d.37.1.1 84161 d.37.1.1 84162 1hl2A 297 1.36e+01 c.1.10.1 83581 1p5jA 372 1.37e+01 1krqA 167 1.38e+01 a.25.1.1 68855 1dosA 358 1.38e+01 1dosA c.1.10.2 29175 1q1gA 276 1.38e+01 c.56.2.1 -7846 1ncqC 236 1.40e+01 b.121.4.1 -2986 1hzgA 295 1.47e+01 1hzgA d.194.1.1 61436 1ptmA 329 1.51e+01 unknown_sccs -8456 1sxjB 323 1.53e+01 1ln1A 214 1.55e+01 d.129.3.2 74038 1ps6A 328 1.55e+01 unknown_sccs -8458 1ihoA 283 1.58e+01 1ihoA c.26.1.4 62390 1cknB 330 1.59e+01 1ckmA b.40.4.6 25361 d.142.2.3 41588 1lh0A 213 1.60e+01 c.61.1.1 73896 1c9jA 269 1.63e+01 1gci c.41.1.1 32507 1fcdA 401 1.63e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1c9nA 269 1.65e+01 1gci c.41.1.1 32505 1klyA 247 1.66e+01 c.1.2.3 72730 1lq8A 346 1.66e+01 e.1.1.1 78125 1eg7A 557 1.70e+01 1eg7A c.37.1.10 32241 1km4A 247 1.72e+01 c.1.2.3 72740 1djuA 388 1.73e+01 1bjwA c.67.1.1 59116 1gdeA 389 1.74e+01 c.67.1.1 60456 1qi4A 429 1.74e+01 1jdc b.71.1.1 27791 c.1.8.1 28778 1pujA 282 1.75e+01 c.37.1.8 88294 1fp3A 402 1.77e+01 1fp3A a.102.1.3 18842 1au1A 166 1.82e+01 1ifa a.26.1.3 16889 1oroA 213 1.84e+01 1opr c.61.1.1 34093 1iukA 140 1.84e+01 c.2.1.8 83712 1ns5A 155 1.85e+01 c.116.1.3 80705 1sq6A 253 1.85e+01 c.56.2.1 -7852 1ez0A 510 1.89e+01 1eyyA c.82.1.1 35385 1izyA 283 1.94e+01 c.23.16.2 -6516 1gci 269 2.00e+01 1gci c.41.1.1 32503 1mpt 269 2.00e+01 1gci c.41.1.1 32541 1gttA 429 2.00e+01 d.177.1.1 70529 d.177.1.1 70530 1ckmA 330 2.00e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1m2jA 249 2.02e+01 c.31.1.5 84753 1ah2 269 2.02e+01 1gci c.41.1.1 32542 1qi5A 429 2.03e+01 1jdc b.71.1.1 27792 c.1.8.1 28779 1iavA 269 2.05e+01 1gci c.41.1.1 62125 1uhsA 72 2.06e+01 1sto 213 2.08e+01 1opr c.61.1.1 34092 1jfrA 262 2.09e+01 1jfrA c.69.1.16 34724 1tpvA 247 2.13e+01 1amk c.1.1.1 28443 1uepA 103 2.21e+01 b.36.1.1 -3750 1hv8A 367 2.22e+01 1hv8A c.37.1.19 32405 c.37.1.19 32406 1c9mA 269 2.25e+01 1gci c.41.1.1 32506 2amg 418 2.33e+01 1jdc b.71.1.1 27796 c.1.8.1 28783 1khdA 345 2.36e+01 a.46.2.1 77400 c.27.1.1 77401 1gcyA 527 2.38e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1plq 258 2.38e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1bq5 342 2.39e+01 1nif b.6.1.3 23110 b.6.1.3 23111 1tcdA 249 2.39e+01 1amk c.1.1.1 28497 1ci1A 251 2.40e+01 1amk c.1.1.1 28499 1qi1A 475 2.44e+01 1euhA c.82.1.1 35381 1nal1 297 2.45e+01 1nal3 1an9A 340 2.45e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1atg 231 2.45e+01 1atg c.94.1.1 35834 1ve9A 347 2.46e+01 c.4.1.2 -6056 d.16.1.3 -9214 1tpc1 247 2.47e+01 1amk 1m2gA 249 2.49e+01 c.31.1.5 84750 1m2hA 249 2.49e+01 c.31.1.5 84751 1fdyA 297 2.50e+01 1nal3 c.1.10.1 29071 1kkmA 205 2.54e+01 c.91.1.2 72654 1jdc 429 2.56e+01 1jdc b.71.1.1 27789 c.1.8.1 28776 1hq0A 295 2.60e+01 1hzgA d.194.1.1 61122 1jysA 242 2.60e+01 c.56.2.1 77216 1m6vB 382 2.60e+01 c.8.3.1 74542 c.23.16.1 74543 1onsA 282 2.61e+01 c.23.16.2 -6527 1sxjF 283 2.62e+01 1ebdA 455 2.63e+01 1lvl c.3.1.5 30577 c.3.1.5 30578 d.87.1.1 40210 1pv2A 283 2.64e+01 c.23.16.2 -6519 1n57A 291 2.64e+01 c.23.16.2 85328 1rbaA 466 2.65e+01 1burA c.1.14.1 29390 d.58.9.1 39296 1k1xA 659 2.70e+01 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1b74A 254 2.71e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1euhA 475 2.72e+01 1euhA c.82.1.1 35369 1huxA 270 2.73e+01 1huxA c.55.1.5 61278 1mx4A 168 2.84e+01 d.211.1.1 79640 1lj8A 493 2.85e+01 a.100.1.9 78033 c.2.1.6 78034 1k6mA 432 2.86e+01 c.37.1.7 77275 c.60.1.4 77276 1jtdB 273 2.87e+01 b.69.5.2 67265 1mcoL 216 2.94e+01 8fabA b.1.1.1 20563 b.1.1.2 21468 1gs6X 336 2.95e+01 b.6.1.3 65529 b.6.1.3 65530 1iciA 256 2.97e+01 1iciA c.31.1.5 62266 1a2oA 349 2.98e+01 1chd c.23.1.1 31120 c.40.1.1 32479 9rubA 466 2.99e+01 1burA c.1.14.1 29386 d.58.9.1 39292 1tpuA 247 3.00e+01 1amk c.1.1.1 28441 1s6yA 450 3.00e+01 1c30B 382 3.01e+01 c.8.3.1 30736 c.23.16.1 31413 1vpe 398 3.01e+01 16pk c.86.1.1 35453 1bhe 376 3.02e+01 1bhe b.80.1.3 28030 1qpkA 418 3.04e+01 1jdc b.71.1.1 27793 c.1.8.1 28780 1j5pA 253 3.04e+01 c.2.1.3 83092 d.81.1.3 71577 1g66A 207 3.06e+01 1bs9 unknown_sccs 31329 1p0fA 373 3.06e+01 b.35.1.2 87642 c.2.1.1 87643 5rubA 490 3.06e+01 1burA c.1.14.1 29382 d.58.9.1 39288 1q0rA 298 3.10e+01 unknown_sccs -8330 1gs7A 336 3.10e+01 b.6.1.3 65531 b.6.1.3 65532 1ur5A 309 3.12e+01 c.2.1.5 -5910 d.162.1.1 -11477 1oe2A 336 3.15e+01 b.6.1.3 86893 b.6.1.3 86894 1keeB 382 3.15e+01 c.8.3.1 68498 c.23.16.1 68499 1nriA 306 3.16e+01 c.80.1.3 86123 1gs8A 336 3.18e+01 b.6.1.3 65533 b.6.1.3 65534 1e3lA 376 3.18e+01 2ohxA b.35.1.2 24745 c.2.1.1 29761 1lfkA 398 3.20e+01 a.104.1.1 77926 1mciA 216 3.22e+01 8fabA b.1.1.1 20581 b.1.1.2 21488 4ubpC 570 3.26e+01 1ubpC b.92.1.1 28431 c.1.9.2 29053 1obdA 306 3.27e+01 d.143.1.1 86767 1mxhA 276 3.27e+01 c.2.1.2 -5803 1loqA 228 3.31e+01 c.1.2.3 74155 1ie7C 570 3.31e+01 1ubpC b.92.1.1 62315 c.1.9.2 62316 1j3vA 289 3.33e+01 a.100.1.1 -1303 c.2.1.6 -5947 1dv7A 227 3.34e+01 1dvjA c.1.2.3 28550 1cs0B 382 3.34e+01 1c3oB c.8.3.1 30740 c.23.16.1 31417 1lp9F 238 3.34e+01 b.1.1.1 -2318 b.1.1.2 -2552 1lp6A 229 3.34e+01 c.1.2.3 74171 1ag8A 499 3.36e+01 1bpwA c.82.1.1 35341 1qi3A 429 3.38e+01 1jdc b.71.1.1 27794 c.1.8.1 28781 1tpwA 247 3.39e+01 1amk c.1.1.1 28449 1e3iA 376 3.39e+01 2ohxA b.35.1.2 24741 c.2.1.1 29757 1og6A 298 3.42e+01 c.1.7.1 86984 1lw3A 657 3.43e+01 unknown_sccs -4378 unknown_sccs -7358 1tpb1 247 3.46e+01 1amk 1bh6A 274 3.46e+01 1gci c.41.1.1 32487 1dbiA 280 3.48e+01 1gci c.41.1.1 32543 1pryA 227 3.48e+01 c.66.1.3 -8050 1oe1A 336 3.48e+01 b.6.1.3 86891 b.6.1.3 86892 1km0A 247 3.57e+01 c.1.2.3 72732 1izzA 283 3.59e+01 c.23.16.2 -6518 1jdbC 382 3.64e+01 c.8.3.1 30756 c.23.16.1 31433 1ur3M 319 3.68e+01 c.1.7.1 -5248 1l0yA 236 3.70e+01 b.1.1.1 73440 b.1.1.2 73441 1bec 238 3.71e+01 1bec b.1.1.1 20627 b.1.1.2 21561 1p1jA 533 3.75e+01 c.2.1.3 87687 d.81.1.3 87688 1mioB 458 3.81e+01 1qguB c.92.2.3 35602 1b79A 119 3.83e+01 1b79A a.81.1.1 18451 1augA 215 3.86e+01 1a2zA c.56.4.1 33798 1pkfA 419 3.89e+01 a.104.1.1 -1453 1a9xB 379 3.90e+01 1c3oB c.8.3.1 30732 c.23.16.1 31409 1edg 380 3.90e+01 1edg c.1.8.3 28807 1nduA 269 3.91e+01 c.41.1.1 -7296 2mcg1 216 3.92e+01 8fabA 1dvjA 246 3.94e+01 1dvjA c.1.2.3 28546 1lf0A 166 3.98e+01 c.37.1.8 77913 2bifA 469 3.99e+01 1bif c.37.1.7 31963 c.60.1.4 34009 1km5A 247 3.99e+01 c.1.2.3 72741 1q5dA 419 3.99e+01 a.104.1.1 -1454