# List of top-scoring protein chains for T0309.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 1zynA 202 2.40e+00 1d2oA 187 2.54e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 1kxd 159 3.50e+00 1svpA b.47.1.3 26392 2snv 151 3.65e+00 1svpA b.47.1.3 26394 1d2pA 373 3.68e+00 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1wykA 153 3.70e+00 1svpA b.47.1.3 26386 1kxc 159 3.74e+00 1svpA b.47.1.3 26391 2snwA 158 3.77e+00 1svpA b.47.1.3 26381 1kxa 159 3.79e+00 1svpA b.47.1.3 26383 1kxb 159 3.96e+00 1svpA b.47.1.3 26390 1svpA 161 3.99e+00 1svpA b.47.1.3 26384 1kxe 159 4.31e+00 1svpA b.47.1.3 26393 1xwvA 129 4.51e+00 1kxf 264 4.88e+00 1svpA b.47.1.3 26380 1ld4A 264 4.89e+00 i.6.1.1 77886 1ghtA 105 5.30e+00 2rslA c.53.1.1 60526 1hyuA 521 5.35e+00 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1wspA 84 5.74e+00 2rslA 140 6.40e+00 2rslA c.53.1.1 33345 1d1sA 373 6.73e+00 2ohxA b.35.1.2,c.2.1.1 24727,29743 1d1tA 373 6.75e+00 2ohxA b.35.1.2,c.2.1.1 24719,29735 1zr4A 183 7.56e+00 1repC 251 7.93e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1gdtA 183 7.94e+00 2rslA a.4.1.2,c.53.1.1 16021,33348 1sbqA 189 9.69e+00 c.124.1.6 105412 2ewrA 170 1.01e+01 2fclA 169 1.01e+01 1dyqA 234 1.24e+01 3seb b.40.2.2,d.15.6.1 59140,59141 1kqpA 271 1.27e+01 c.26.2.1 72883 1cf7B 95 1.69e+01 1cf7B a.4.5.17 16152 1pms 136 1.78e+01 1awe b.55.1.1 26966 1ge8A 249 1.83e+01 1plq d.131.1.2,d.131.1.2 41398,41399 1lo5D 233 1.84e+01 b.40.2.2,d.15.6.1 78120,78121 1iz5A 249 1.84e+01 d.131.1.2,d.131.1.2 83834,83835 1esfA 233 1.85e+01 3seb b.40.2.2,d.15.6.1 25146,37735 1iz4A 249 1.86e+01 d.131.1.2,d.131.1.2 83832,83833 1i4gA 233 1.87e+01 3seb b.40.2.2,d.15.6.1 25148,37737 1a9v 129 1.89e+01 1a9v b.1.18.7 21946 1ktjA 129 1.90e+01 b.1.18.7 72974 2d3jA 157 2.30e+01 1m93A 55 2.40e+01 e.1.1.1 91235 1snlA 103 2.48e+01 a.39.1.7 105820 2b7eA 59 2.86e+01 1ep5A 157 3.15e+01 b.47.1.3 83186 1hrkA 359 3.27e+01 1hrkA c.92.1.1 61228 2a3vA 320 3.48e+01 2bwbA 46 3.49e+01 2flsA 132 3.60e+01 2bweA 50 3.68e+01 1dkuA 317 3.80e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 2cq9A 130 3.83e+01 1c7gA 456 3.85e+01 c.67.1.2 90415 1xhfA 123 3.98e+01 5gcnA 166 4.25e+01 1yghA d.108.1.1 40807 1ma3A 253 4.41e+01 c.31.1.5 78883 2fo1E 373 4.48e+01 1tplA 456 4.55e+01 1ax4A c.67.1.2 34387 1awe 130 4.66e+01 1awe b.55.1.1 26968 1jj2K 164 4.92e+01 1ffkJ c.12.1.1 63096 1vqoL 165 4.92e+01 1pvdA 555 4.99e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1pydA 556 5.01e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31735,31773,31774 1vqoI 162 5.10e+01 2gefA 217 5.11e+01 1zctA 290 5.15e+01 1qvaA 223 5.15e+01 1qvaA c.37.1.19 32411 1rr7A 129 5.18e+01 a.4.1.14 105075 1qpbA 563 5.21e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 1sqsA 242 5.26e+01 c.23.5.5 98968 1qxpA 900 5.29e+01 a.39.1.8,a.39.1.8,b.14.1.1,d.3.1.3 96543,96544,96545,96546 1ydmA 187 5.44e+01 1a3wA 500 5.56e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 1wr1B 58 5.72e+01 1z6oA 212 5.83e+01 1cbg 490 5.85e+01 1e70M c.1.8.4 28933 1z0hA 438 6.05e+01 1wg2A 64 6.13e+01 2apsA 162 6.23e+01 1yaiA b.1.8.1 22298 1gh6A 114 6.39e+01 a.2.3.1 65191 1bby 69 6.58e+01 2bby a.4.5.15 16149 1wvoA 79 6.76e+01 1rvfL 110 6.97e+01 8fabA b.1.1.1 19990 1cf7A 76 7.62e+01 1cf7B a.4.5.17 16151 2fnpA 124 7.97e+01 2gw6A 123 8.26e+01 2pbg 468 8.50e+01 1e70M c.1.8.4 28948 1pbgA 468 8.53e+01 1e70M c.1.8.4 28946 1k9oI 378 8.61e+01 e.1.1.1 68356 1in0A 163 8.63e+01 d.58.49.1,d.58.49.1 83694,83695 2adoA 196 8.65e+01 4pbgA 468 8.82e+01 1e70M c.1.8.4 28949 2g35A 100 8.83e+01 1s3gA 217 8.84e+01 c.37.1.1,g.41.2.1 98433,98434