# List of top-scoring protein chains for T0327.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 1xdmA 365 2.79e-01 1yyvA 131 2.82e-01 1i1gA 141 3.10e-01 a.4.5.32,d.58.4.2 65982,65983 1fdjA 363 4.41e-01 1fbaA c.1.10.1 59772 1qo5A 363 4.48e-01 1fbaA c.1.10.1 29102 1tbxA 99 1.02e+00 a.4.5.48 106748 1fbaA 361 1.49e+00 1fbaA c.1.10.1 29120 2a61A 145 2.40e+00 1un0A 443 2.57e+00 a.118.1.1 99641 2c1tA 454 2.60e+00 1wa5B 530 2.61e+00 1bk5A 422 2.65e+00 1bk5A a.118.1.1 19130 1ee5A 424 2.75e+00 1ee4A a.118.1.1 19132 1ee4A 423 2.83e+00 1ee4A a.118.1.1 19128 1bk6A 422 3.20e+00 1bk5A a.118.1.1 19133 1zuoA 186 3.68e+00 1i94H 138 3.74e+00 1seiA d.140.1.1 61999 4rubS 123 3.95e+00 1rboC d.73.1.1 39621 1fjgH 138 4.39e+00 1seiA d.140.1.1 41468 1an7A 136 4.41e+00 1seiA d.140.1.1 41465 3rubS 123 4.49e+00 1rboC d.73.1.1 39616 1pdnC 128 5.70e+00 6paxA a.4.1.5 16047 1xmaA 145 5.92e+00 2c1hA 328 6.14e+00 1p4xA 250 7.11e+00 a.4.5.28,a.4.5.28 87784,87785 2fswA 107 7.53e+00 2f2eA 146 8.64e+00 1v1hA 103 8.84e+00 b.83.1.1,h.1.17.1 108243,108244 1nar 290 9.97e+00 1nar c.1.8.5 28988 1zbfA 142 1.02e+01 2cg4A 152 1.11e+01 1zblA 139 1.14e+01 2g8fA 142 1.15e+01 2g8iA 142 1.15e+01 1xfbA 365 1.20e+01 1rduA 116 1.22e+01 c.55.5.1 104890 1v30A 124 1.28e+01 1vyhC 410 1.30e+01 1mxhA 276 1.30e+01 c.2.1.2 91490 1ku9A 152 1.33e+01 a.4.5.36 77544 1hw1A 239 1.47e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1s1hH 129 1.47e+01 i.1.1.1 105160 1e2xA 243 1.47e+01 1e2xA a.4.5.6,a.78.1.1 16113,18443 1sxrA 183 1.51e+01 d.118.1.1 106101 1bxnI 139 1.57e+01 1rboC d.73.1.1 39666 1k78A 149 1.59e+01 a.4.1.5,a.4.1.5 68255,68256 1ub9A 100 1.60e+01 a.4.5.28 99159 1u9pA 120 1.60e+01 1s2jA 209 1.64e+01 d.118.1.1 105227 1aipC 196 1.69e+01 1tfe a.5.2.2,d.43.1.1 58930,58931 1d9uA 154 1.80e+01 1am7A d.2.1.4 59111 1am7A 158 1.82e+01 1am7A d.2.1.4 36981 1efnB 152 1.87e+01 1efnB d.102.1.1 40699 1avv 151 1.91e+01 1efnB d.102.1.1 40703 2nef 136 1.97e+01 1efnB d.102.1.1 40704 1nyrA 645 2.12e+01 c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 92354,92355,92356,92357 1w9yA 319 2.19e+01 1lucA 355 2.30e+01 1lucA c.1.16.1 29547 1x1gA 129 2.51e+01 2g7uA 257 2.65e+01 1fq3A 227 2.74e+01 5ptp b.47.1.2 26376 1iauA 227 2.75e+01 5ptp b.47.1.2 62124 1y2qA 143 2.81e+01 1ur4A 399 2.97e+01 2bgcA 238 3.04e+01 1yfkA 262 3.05e+01 1s95A 333 3.08e+01 d.159.1.3 105375 1ja3A 127 3.15e+01 d.169.1.1 71621 1jzoA 216 3.21e+01 c.47.1.9,d.17.3.1 84267,84268 1jzdA 220 3.22e+01 c.47.1.9,d.17.3.1 84257,84258 1ln4A 104 3.27e+01 d.68.4.1 74043 1wa3A 205 3.33e+01 1bouB 302 3.34e+01 1bouB c.56.6.1 33859 1eejA 216 3.37e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1xx4A 261 3.56e+01 1uzdC 134 3.83e+01 1d2dA 59 3.91e+01 1r1bA a.16.1.3 16397 1vlwA 217 3.91e+01 c.1.10.1 108868 1uktA 686 3.91e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 99525,99526,99527,99528 1v3jA 686 3.98e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 108305,108306,108307,108308 1pamA 686 3.98e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 1v3kA 686 3.98e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 108313,108314,108315,108316 1d7fA 686 3.98e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21848,22517,27755,28742 1qhtA 775 4.04e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1v1iA 109 4.13e+01 b.83.1.1,h.1.17.1 108255,108256 1h1yA 228 4.18e+01 c.1.2.2 76506 1s2oA 244 4.34e+01 1gxrA 337 4.42e+01 b.69.4.1 70722 1sd6A 123 4.52e+01 a.4.5.39 98803 2fbiA 142 4.54e+01 1s05A 129 4.76e+01 a.24.3.2 98254 1okrA 123 4.79e+01 a.4.5.39 93269 1x4zA 121 4.88e+01 1cxvA 164 4.89e+01 1ck7A d.92.1.11 40404 1stzA 338 4.89e+01 a.4.5.51,d.110.2.3 106009,106010 1uksA 686 5.32e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 99517,99518,99519,99520 1omiA 248 5.33e+01 b.82.3.3,a.4.5.4 87079,87080 1egxA 115 5.34e+01 1evhA b.55.1.4 27000 2beoA 236 5.34e+01 1zhvA 134 5.51e+01 1wao1 477 5.55e+01 1z7uA 112 5.65e+01 1zin 217 5.65e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1l7pA 211 5.68e+01 c.108.1.4 73670 1kf6A 602 5.72e+01 a.7.3.1,c.3.1.4,d.168.1.1 72394,72395,72396 1l7mA 211 5.72e+01 c.108.1.4 73664 2b76A 602 5.73e+01 1j97A 211 5.75e+01 1f5sA c.108.1.4 62753 1ulzA 451 5.80e+01 b.84.2.1,c.30.1.1,d.142.1.2 99575,99576,99577 1sqjA 789 6.00e+01 b.69.13.1,b.69.13.1 105918,105919 1bg1A 596 6.07e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 2aw4T 100 6.25e+01 1ydpA 275 6.26e+01 2aqeA 90 6.33e+01 1mnmC 87 6.43e+01 1akhB a.4.1.1 15983 1z7gA 217 6.59e+01 1y0uA 96 6.67e+01 1ztqA 165 6.75e+01 1ztqD 165 6.75e+01 2b0lA 102 6.76e+01 1gxgA 85 6.78e+01 a.28.2.1 70705 1k61A 60 7.00e+01 a.4.1.1 77270 1s03G 129 7.06e+01 d.140.1.1 105144 830cA 168 7.18e+01 1ck7A d.92.1.11 40400 1r7jA 95 7.19e+01 a.4.5.49 104836 1xucA 171 7.36e+01 1t47A 381 7.42e+01 d.32.1.3,d.32.1.3 106398,106399 1xewY 172 7.43e+01 1iomA 377 7.45e+01 a.103.1.1 83698 1xexB 172 7.52e+01 1sig 339 7.54e+01 1sig a.177.1.1 19068 1ub3A 220 7.56e+01 c.1.10.1 88395 1iyxA 432 7.69e+01 c.1.11.1,d.54.1.1 83815,83816 1lrzA 426 7.70e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1ju2A 536 7.71e+01 c.3.1.2,d.16.1.1 77169,77170 1rniA 216 7.71e+01 d.264.1.2 97663 2cujA 108 7.92e+01 1t68X 180 7.96e+01 1cojA 212 7.98e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1ro2A 216 8.01e+01 d.264.1.2 97665 1zy9A 564 8.08e+01 1pj9A 686 8.19e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 94754,94755,94756,94757 1mgtA 174 8.21e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1pm1X 180 8.23e+01 b.60.1.1 104189 1c9wA 315 8.40e+01 1frb c.1.7.1 28699 1f3hA 142 8.43e+01 1f3hA g.52.1.1 45381 1dpuA 99 8.44e+01 1dpuA a.4.5.16 16150 1q8kA 308 8.48e+01 b.40.4.5,d.58.51.1 104556,104557 1d5aA 733 8.65e+01 1tgoA c.55.3.5,e.8.1.1 33723,43012 1z1dA 103 8.66e+01 1seiA 130 8.70e+01 1seiA d.140.1.1 41463 1t0qA 498 8.81e+01 a.25.1.2 106220 1cgw 686 8.96e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21822,22491,27729,28716 1pezA 686 8.97e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 94600,94601,94602,94603 1h4pA 408 8.98e+01 c.1.8.3 90617 1kclA 686 8.99e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 68445,68446,68447,68448