# List of top-scoring protein chains for T0363.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 1rwsA 77 4.90e-01 d.15.3.2 97991 1vjkA 98 5.73e-01 d.15.3.1 108631 2d04B 114 6.42e-01 2cfeA 162 1.48e+00 1wmzA 140 2.33e+00 d.169.1.1 109422 1r7sA 106 3.98e+00 d.15.4.1 97207 1xlqA 106 4.05e+00 1pdxA 106 4.13e+00 1ayfA d.15.4.1 37682 1put 106 4.52e+00 1ayfA d.15.4.1 37680 1oqqA 106 4.80e+00 d.15.4.1 93422 1gpx 106 4.91e+00 1ayfA d.15.4.1 37681 2fgtA 417 5.63e+00 1frrA 95 5.82e+00 1awd d.15.4.1 37674 1wk9A 146 5.96e+00 1wkaA 147 5.99e+00 8i1b 152 6.28e+00 2i1b b.42.1.2 25550 1i7bA 267 9.57e+00 1jenA 1jenA 267 1.06e+01 1jenA 2ghiA 260 1.11e+01 1jl0A 334 1.14e+01 1jenA d.156.1.1 63155 1f1uA 323 1.16e+01 d.32.1.3,d.32.1.3 83200,83201 1msvA 354 1.27e+01 d.156.1.1 85094 1f1xA 322 1.32e+01 d.32.1.3,d.32.1.3 83208,83209 1ekeA 230 1.39e+01 1ekeA c.55.3.1 33572 1q0cA 365 1.41e+01 d.32.1.3,d.32.1.3 88343,88344 1z3aA 168 1.46e+01 1uksA 686 1.60e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 99517,99518,99519,99520 1wf8A 107 1.78e+01 1vckA 115 2.01e+01 1ub0A 258 2.04e+01 c.72.1.2 88394 1oedE 260 2.08e+01 f.36.1.1 86915 1zba2 218 2.23e+01 2f4pA 147 2.31e+01 1d7fA 686 2.37e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21848,22517,27755,28742 1pamA 686 2.37e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 1v3jA 686 2.37e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 108305,108306,108307,108308 1v3kA 686 2.37e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 108313,108314,108315,108316 1uktA 686 2.38e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 99525,99526,99527,99528 2bbvA 363 2.55e+01 2bbvA b.121.4.4 23323 2axtZ 62 2.79e+01 1wb1A 482 2.87e+01 1qmjA 132 3.21e+01 1c1lA b.29.1.3 24210 1aq0A 306 3.25e+01 1aq0A c.1.8.3 28842 1cii 602 3.38e+01 1cii f.1.1.1,h.4.3.1 43381,45787 1mt0A 241 3.41e+01 c.37.1.12 85096 1xefA 241 3.42e+01 1bdg 451 3.48e+01 1qhaA c.55.1.3,c.55.1.3 33461,33462 1tpg 91 3.50e+01 1tpg g.3.11.1,g.27.1.1 44325,44955 2cpmA 94 3.93e+01 1u2cA 246 3.97e+01 b.1.6.2,d.272.1.1 107610,107611 1dlpA 236 3.98e+01 1b2pA b.78.1.1,b.78.1.1 28000,28001 1gaxA 862 4.02e+01 1gaxA b.51.1.1,c.26.1.1,a.2.7.3,a.27.1.1 26893,31595,75842,75843 1uwmA 106 4.18e+01 1vq2A 193 4.26e+01 1ktbA 405 4.32e+01 b.71.1.1,c.1.8.1 72960,72961 1hth 34 4.49e+01 1hth j.15.1.1 46163 1d4m3 238 4.84e+01 1aym3 1r8eA 278 4.85e+01 a.6.1.3,d.60.1.1 104843,104844 1vybA 238 5.01e+01 d.151.1.1 108897 1uasA 362 5.25e+01 b.71.1.1,c.1.8.1 88388,88389 2fcfA 103 5.42e+01 1ot1A 686 5.50e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87392,87393,87394,87395 1pvtA 238 5.50e+01 c.74.1.1 95189 1qqp2 218 5.53e+01 1qqp2 1r85A 379 5.67e+01 c.1.8.3 104839 1df9A 191 5.71e+01 1befA b.47.1.3 26420 1befA 181 5.82e+01 1befA b.47.1.3 26419 1v4tA 451 6.21e+01 c.55.1.3,c.55.1.3 100311,100312 1v4sA 455 6.26e+01 c.55.1.3,c.55.1.3 100309,100310 1zvtA 256 6.36e+01 2tecE 279 6.42e+01 1gci c.41.1.1 32545 1spbS 266 6.45e+01 1gci c.41.1.1 32532 1r86A 379 6.45e+01 1thm 279 6.52e+01 1gci c.41.1.1 32544 2agyA 361 6.74e+01 1zpuA 534 6.88e+01 1ryjA 70 6.98e+01 d.15.3.2 98104 1suaA 266 7.31e+01 1gci c.41.1.1 32531 1duiA 266 7.33e+01 1gci c.41.1.1 32530 1sue 266 7.37e+01 1gci c.41.1.1 32520 2fytA 340 7.49e+01 1cgy 686 7.51e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21823,22492,27730,28717 1dtuA 686 7.58e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21840,22509,27747,28734 2csiA 76 7.70e+01 2fcr 173 7.83e+01 1rcf c.23.5.1 31151 1eo5A 686 7.84e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21828,22497,27735,28722 1e1oA 504 7.86e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1cgv 686 7.91e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21820,22489,27727,28714 2bcjQ 353 7.98e+01 1ot2A 686 8.03e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87396,87397,87398,87399 1lj8A 493 8.07e+01 a.100.1.9,c.2.1.6 90392,90393 1cdg 686 8.11e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21816,22485,27723,28710 1tme2 267 8.14e+01 1aym2 1ualA 274 8.17e+01 c.116.1.4 88383 1r5lA 262 8.17e+01 a.5.3.1,c.13.1.1 97099,97100 1tcmA 686 8.19e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21833,22502,27740,28727 1r53A 382 8.19e+01 d.258.1.1 97063 1pezA 686 8.22e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 94600,94601,94602,94603 2mev2 256 8.25e+01 1aym2 1k4uS 62 8.25e+01 b.34.2.1 72065 1d3cA 686 8.26e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1fovA 82 8.29e+01 1qfnA c.47.1.1 32770 1cxlA 686 8.31e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21829,22498,27736,28723 3grx 82 8.32e+01 1aba c.47.1.1 32769 1oizA 278 8.32e+01 a.5.3.1,c.13.1.1 93079,93080 1cjaA 342 8.36e+01 1cjaA d.144.1.3 41708 1i2rA 316 8.47e+01 1onrA c.1.10.1 61580 1i2nA 316 8.51e+01 1onrA c.1.10.1 61572 1i2qA 316 8.55e+01 1onrA c.1.10.1 61578 1sj1A 66 8.55e+01 d.58.1.4 105595 1i2pA 316 8.55e+01 1onrA c.1.10.1 61576 1i2oA 316 8.56e+01 1onrA c.1.10.1 61574 1bbuA 504 8.60e+01 1lylA b.40.4.1,d.104.1.1 25254,40721 1onrA 316 8.62e+01 1onrA c.1.10.1 29169 1cgx 686 8.63e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21832,22501,27739,28726 1ucwA 317 8.65e+01 1onrA c.1.10.1 29171 1ivzA 132 8.70e+01 d.58.41.1 76863 1fmd2 218 8.72e+01 1qqp2 2cb6A 291 8.72e+01 1npx 447 8.95e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30557,30558,40200 1d5gA 96 8.99e+01 b.36.1.1 70080