# List of top-scoring protein chains for T0309.t2k-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 1.99e+00 1d2oA 187 2.15e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 1xwvA 129 3.02e+00 1d2pA 373 3.19e+00 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1kxd 159 3.55e+00 1svpA b.47.1.3 26392 2snv 151 4.09e+00 1svpA b.47.1.3 26394 1wykA 153 4.14e+00 1svpA b.47.1.3 26386 1kxc 159 4.16e+00 1svpA b.47.1.3 26391 2snwA 158 4.21e+00 1svpA b.47.1.3 26381 1kxa 159 4.22e+00 1svpA b.47.1.3 26383 1wspA 84 4.34e+00 1ghtA 105 4.69e+00 2rslA c.53.1.1 60526 1kxb 159 4.70e+00 1svpA b.47.1.3 26390 1svpA 161 4.74e+00 1svpA b.47.1.3 26384 1hyuA 521 4.82e+00 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1kxe 159 5.02e+00 1svpA b.47.1.3 26393 1kxf 264 5.33e+00 1svpA b.47.1.3 26380 1ld4A 264 5.35e+00 i.6.1.1 77886 2rslA 140 5.61e+00 2rslA c.53.1.1 33345 1d1sA 373 7.00e+00 2ohxA b.35.1.2,c.2.1.1 24727,29743 1d1tA 373 7.01e+00 2ohxA b.35.1.2,c.2.1.1 24719,29735 1gdtA 183 7.06e+00 2rslA a.4.1.2,c.53.1.1 16021,33348 1repC 251 7.15e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1zr4A 183 7.21e+00 1dyqA 234 8.83e+00 3seb b.40.2.2,d.15.6.1 59140,59141 1sbqA 189 9.84e+00 c.124.1.6 105412 2fclA 169 9.99e+00 2ewrA 170 1.00e+01 1kqpA 271 1.25e+01 c.26.2.1 72883 1ktjA 129 1.34e+01 b.1.18.7 72974 1a9v 129 1.34e+01 1a9v b.1.18.7 21946 1lo5D 233 1.34e+01 b.40.2.2,d.15.6.1 78120,78121 1esfA 233 1.35e+01 3seb b.40.2.2,d.15.6.1 25146,37735 1i4gA 233 1.36e+01 3seb b.40.2.2,d.15.6.1 25148,37737 1cf7B 95 1.59e+01 1cf7B a.4.5.17 16152 1pms 136 1.64e+01 1awe b.55.1.1 26966 1ge8A 249 1.87e+01 1plq d.131.1.2,d.131.1.2 41398,41399 1iz5A 249 1.88e+01 d.131.1.2,d.131.1.2 83834,83835 1iz4A 249 1.90e+01 d.131.1.2,d.131.1.2 83832,83833 2d3jA 157 2.42e+01 1snlA 103 2.44e+01 a.39.1.7 105820 1m93A 55 2.46e+01 e.1.1.1 91235 2apsA 162 2.47e+01 1yaiA b.1.8.1 22298 2fo1E 373 2.92e+01 1hrkA 359 3.27e+01 1hrkA c.92.1.1 61228 2flsA 132 3.32e+01 2a3vA 320 3.41e+01 2bwbA 46 3.46e+01 2cq9A 130 3.50e+01 2b7eA 59 3.52e+01 1ep5A 157 3.61e+01 b.47.1.3 83186 2bweA 50 3.68e+01 1kevA 351 3.82e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1dkuA 317 3.86e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1xhfA 123 3.87e+01 1ma3A 253 3.94e+01 c.31.1.5 78883 1pvdA 555 4.04e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1pydA 556 4.05e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31735,31773,31774 5gcnA 166 4.13e+01 1yghA d.108.1.1 40807 1vq3A 94 4.17e+01 1qpbA 563 4.20e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 1c7gA 456 4.33e+01 c.67.1.2 90415 1awe 130 4.37e+01 1awe b.55.1.1 26968 1sqsA 242 4.70e+01 c.23.5.5 98968 1vqoI 162 4.72e+01 1tplA 456 4.81e+01 1ax4A c.67.1.2 34387 1wvoA 79 4.90e+01 1zctA 290 4.94e+01 1jj2K 164 5.01e+01 1ffkJ c.12.1.1 63096 1vqoL 165 5.02e+01 2gefA 217 5.03e+01 1rr7A 129 5.04e+01 a.4.1.14 105075 1z0hA 438 5.16e+01 1ydmA 187 5.36e+01 1qvaA 223 5.46e+01 1qvaA c.37.1.19 32411 1a3wA 500 5.57e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 1qxpA 900 5.73e+01 a.39.1.8,a.39.1.8,b.14.1.1,d.3.1.3 96543,96544,96545,96546 1z6oA 212 5.75e+01 2br9A 234 5.81e+01 1cbg 490 5.84e+01 1e70M c.1.8.4 28933 1wr1B 58 6.04e+01 1bby 69 6.18e+01 2bby a.4.5.15 16149 1wg2A 64 6.35e+01 1do0A 442 6.38e+01 1do0A c.37.1.20 32432 1g4aE 443 6.40e+01 1do0A c.37.1.20 32444 1e94E 449 6.49e+01 1do0A c.37.1.20 32442 1gh6A 114 6.55e+01 a.2.3.1 65191 2f08A 129 6.88e+01 2fnpA 124 7.32e+01 1rvfL 110 7.60e+01 8fabA b.1.1.1 19990 1qmdA 370 8.08e+01 1ca1 a.124.1.1,b.12.1.3 19341,23649 1in0A 163 8.32e+01 d.58.49.1,d.58.49.1 83694,83695 1ca1 370 8.34e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1cf7A 76 8.44e+01 1cf7B a.4.5.17 16151 1k9oI 378 8.44e+01 e.1.1.1 68356 1qdlB 195 8.49e+01 1qdlB c.23.16.1 31437 1yshC 104 8.51e+01 2adoA 196 8.60e+01 2gw6A 123 8.76e+01 1xubA 298 8.88e+01 1ll2A 333 8.97e+01 c.68.1.14 74005