# List of top-scoring protein chains for T0316.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 1xngA 268 1.78e-01 1eal 127 1.32e+00 1hmt b.60.1.2 27227 1b7yB 785 1.33e+00 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1ok0A 74 4.54e+00 b.5.1.1 93191 2ff4A 388 6.37e+00 1xrtA 467 7.01e+00 1t2xA 639 7.55e+00 b.1.18.2,b.18.1.1,b.69.1.1 106292,106293,106294 1gof 639 7.59e+00 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1k3iA 656 7.63e+00 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1ux6A 350 7.91e+00 b.29.1.16,g.75.1.1 100145,100146 1wh0A 134 8.37e+00 1v6fA 151 1.00e+01 d.109.1.2 108395 1o1uA 127 1.10e+01 b.60.1.2 81076 1d2eA 397 1.21e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1xb2A 409 1.22e+01 1pswA 348 1.24e+01 c.87.1.7 88287 1pmzA 86 1.30e+01 a.39.1.10 104195 1po5A 476 1.44e+01 a.104.1.1 94963 1bkf 107 1.50e+01 1fkj d.26.1.1 38382 2azqA 311 1.52e+01 1mioA 533 1.66e+01 1qguA c.92.2.3 35601 1nfdE 212 1.71e+01 8fabA b.1.1.1,b.1.1.2 20186,21202 1suoA 476 1.74e+01 a.104.1.1 106026 1zn8A 180 1.87e+01 1hm7A 336 1.87e+01 a.128.1.4 76719 1awcB 153 1.91e+01 1bd8 d.211.1.1 19156 1n8pA 393 1.95e+01 c.67.1.3 80304 1bn7A 294 2.02e+01 1bn6A c.69.1.8 34677 2a2pA 129 2.03e+01 1fkj 107 2.04e+01 1fkj d.26.1.1 38384 1tcoC 107 2.09e+01 1fkj d.26.1.1 38426 1fkl 107 2.18e+01 1fkj d.26.1.1 38423 1ntyA 311 2.20e+01 a.87.1.1,b.55.1.1 103873,103874 1iq4A 179 2.30e+01 1iq4A d.77.1.1 62641 1g13A 162 2.31e+01 1g13A b.95.1.1 60194 1es7A 116 2.31e+01 2tgi g.17.1.2 44786 1rewA 114 2.33e+01 g.17.1.2 97334 1eymA 107 2.33e+01 1fkj d.26.1.1 38403 1yo8A 634 2.34e+01 1dq3A 454 2.36e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1cqwA 295 2.42e+01 1b6g c.69.1.8 34679 2dg4A 107 2.46e+01 1bl4A 107 2.48e+01 1fkj d.26.1.1 38393 1dl7L 109 2.54e+01 1mfa b.1.1.1 20498 1zv1A 65 2.63e+01 2dg9A 107 2.65e+01 1yhfA 115 2.73e+01 2ag9A 164 2.74e+01 1gpmA 525 2.79e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1xjdA 345 2.90e+01 1jvkA 216 2.94e+01 b.1.1.1,b.1.1.2 71897,71898 2ag4A 164 2.94e+01 1s1iH 191 3.32e+01 i.1.1.1 105182 1nezG 128 3.32e+01 b.1.1.1 85592 1bqhG 129 3.37e+01 1cd8 b.1.1.1 19715 2cokA 113 3.43e+01 2atpA 122 3.46e+01 1fyvA 161 3.47e+01 1fyvA c.23.2.1 31127 2aamA 309 3.59e+01 1vckA 115 3.77e+01 1ps1A 337 3.83e+01 1ps1A a.128.1.4 19450 4xiaA 393 3.84e+01 4xis c.1.15.3 29439 1xlaA 394 3.86e+01 4xis c.1.15.3 29445 1cicA 214 3.88e+01 8fabA b.1.1.1,b.1.1.2 19964,21024 1xmxA 385 4.02e+01 1yc1A 264 4.09e+01 1yixA 265 4.23e+01 1j3gA 187 4.35e+01 d.118.1.1 77075 1frn 314 4.37e+01 1fnc b.43.4.2,c.25.1.1 25631,31521 1wlfA 179 4.59e+01 b.52.2.3,d.31.1.1 109396,109397 1tv5A 443 4.62e+01 1j83A 180 4.63e+01 b.18.1.12 66430 2ajfE 180 4.67e+01 1hey 128 4.70e+01 3chy c.23.1.1 31061 1lbvA 252 4.93e+01 e.7.1.1 73813 2fb4L 216 5.21e+01 8fabA b.1.1.1,b.1.1.2 19846,20950 1sg0A 230 5.26e+01 1zx1A 231 5.28e+01 1oqlB 263 5.37e+01 b.42.2.1,b.42.2.1 87307,87308 2bzsA 236 5.40e+01 1pg7W 210 5.45e+01 b.1.1.1,b.1.1.2 94682,94683 2dd8S 202 5.66e+01 2aw4F 178 5.74e+01 2g8yA 385 6.02e+01 1ocwL 120 6.33e+01 b.1.1.1 92780 1ue9A 80 6.36e+01 b.34.2.1 99255 1kn1A 160 6.44e+01 a.1.1.3 77455 6cgt 684 6.51e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21837,22506,27744,28731 5cgt 684 6.57e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21824,22493,27731,28718 1dn0B 232 6.61e+01 1igtB b.1.1.1,b.1.1.2 19831,20935 4cgt 678 6.62e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21825,22494,27732,28719 1cgt 684 6.63e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21815,22484,27722,28709 8cgtA 684 6.63e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21831,22500,27738,28725 1qlrB 232 6.68e+01 1igtB b.1.1.1,b.1.1.2 19835,20939 1v7pA 134 6.72e+01 d.169.1.1 108406 1zmaA 118 6.82e+01 1cc1L 498 6.86e+01 1h2rL e.18.1.1 43301 1a6wL 109 6.88e+01 1mfa b.1.1.1 20252 1a6vL 110 6.94e+01 1mfa b.1.1.1 20256 1cjbA 231 6.97e+01 1qk3A c.61.1.1 34079 1a6uL 108 7.02e+01 1mfa b.1.1.1 20254 1oaqL 120 7.10e+01 b.1.1.1 92708 1mkeA 152 7.17e+01 b.55.1.4 79231 1gkpA 458 7.21e+01 b.92.1.3,c.1.9.6 70231,70232 1yaaA 412 7.23e+01 1ajsA c.67.1.1 34280 1yuhA 211 7.28e+01 1mfa b.1.1.1,b.1.1.2 20098,21130 1wkvA 389 7.51e+01 1ydxA 406 7.55e+01 1n0wA 243 7.57e+01 c.37.1.11 79772 1lf1A 308 7.67e+01 c.1.8.3 73877 1sm3L 215 7.72e+01 8fabA b.1.1.1,b.1.1.2 20368,21360 1r43A 463 7.83e+01 c.56.5.4,d.58.19.1 96969,96970 1r3nA 462 7.83e+01 c.56.5.4,d.58.19.1 96945,96946 2bjmL 110 7.86e+01 1oauL 110 7.88e+01 b.1.1.1 92721 1wznA 252 8.10e+01 1f89A 291 8.30e+01 d.160.1.1 64988 1rzfL 213 8.58e+01 b.1.1.1,b.1.1.2 98152,98153 1flgA 582 8.58e+01 4aahA b.70.1.1 27682 1gigL 210 8.59e+01 1mfa b.1.1.1,b.1.1.2 19910,21004 1ngqL 215 8.68e+01 1mfa b.1.1.1,b.1.1.2 20092,21124 1j3mA 129 8.73e+01 d.129.7.1 103836 1vdzA 588 8.83e+01 1oayL 110 8.83e+01 b.1.1.1 92737 1ndaA 491 8.84e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30525,30526,40194 1aogA 485 8.93e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 1bzlA 486 8.94e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30521,30522,40192 1gxfA 492 9.00e+01 c.3.1.5,c.3.1.5,d.87.1.1 90527,90528,90529