# List of top-scoring protein chains for T0302.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 2af0A 146 4.91e-22 1eztA 166 5.77e-22 1agrE a.91.1.1 18541 1agrE 205 5.95e-22 1agrE a.91.1.1 18538 2bv1A 145 9.85e-22 2crpA 150 1.15e-21 1zv4X 158 3.97e-21 1cmzA 152 4.62e-21 1agrE a.91.1.1 18547 2bt2A 161 7.26e-21 2a72A 146 1.24e-20 1fqiA 147 1.53e-20 1agrE a.91.1.1 18542 2es0A 148 3.32e-20 1dk8A 147 3.41e-17 1agrE a.91.1.1 18548 1emuA 132 8.91e-17 1agrE a.91.1.1 18549 1omwA 689 4.07e-08 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1htjF 210 8.82e-07 1htjF a.91.1.1 61254 1bf5A 575 2.51e-01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1yvlA 683 2.86e-01 2acxA 576 4.89e-01 1r5vB 185 1.30e+00 b.1.1.2,d.19.1.1 97118,97119 1iebB 227 1.54e+00 1iakB b.1.1.2,d.19.1.1 21636,38210 1kt2B 213 1.64e+00 b.1.1.2,d.19.1.1 72953,72954 1fneB 224 1.68e+00 1iakB b.1.1.2,d.19.1.1 59898,59899 1fngB 224 1.69e+00 1iakB b.1.1.2,d.19.1.1 59906,59907 1ktdB 215 1.77e+00 b.1.1.2,d.19.1.1 72966,72967 2a0mA 316 1.80e+00 1ieaB 228 1.82e+00 1iakB b.1.1.2,d.19.1.1 21632,38206 1lk3A 160 2.86e+00 a.26.1.3 73950 1f8hA 95 3.06e+00 1eh2 a.39.1.6 17336 1eh2 106 3.29e+00 1eh2 a.39.1.6 17339 1shzC 233 3.37e+00 1qdlA 422 3.41e+00 1qdlA d.161.1.1 42088 1ilk 151 4.40e+00 2ilk a.26.1.3 16886 2ilk 160 4.55e+00 2ilk a.26.1.3 16885 2g5dA 422 5.75e+00 1a06 332 5.78e+00 1tkiA d.144.1.7 41634 2ce7A 476 6.62e+00 1a0dA 440 6.81e+00 1a0cA c.1.15.3 29533 1b64 91 7.74e+00 1b64 d.58.12.1 39306 1y3nA 490 8.90e+00 1iapA 211 8.94e+00 a.91.1.1 62119 1ds9A 198 9.51e+00 1ds9A c.10.3.1 30879 1m9lA 199 9.54e+00 c.10.3.1 84903 4znbA 232 1.12e+01 1a7tA d.157.1.1 42047 1qtoA 122 1.13e+01 1bylA d.32.1.2 38494 1mnaA 298 1.14e+01 c.69.1.22 79322 1a0cA 438 1.20e+01 1a0cA c.1.15.3 29529 1vjgA 218 1.31e+01 c.23.10.6 100810 1y6nL 145 1.32e+01 2b3yA 888 1.38e+01 1ndaA 491 1.41e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30525,30526,40194 1vlk 145 1.44e+01 2ilk a.26.1.3 16888 1tetL 216 1.47e+01 32c2A b.1.1.1,b.1.1.2 19902,20996 1zeaL 216 1.50e+01 2bmiA 232 1.57e+01 1a7tA d.157.1.1 42043 2boaA 404 1.58e+01 1znbA 232 1.65e+01 1a7tA d.157.1.1 42039 1ucbL 219 1.65e+01 32c2A b.1.1.1,b.1.1.2 20100,21132 1a7tA 232 1.74e+01 1a7tA d.157.1.1 42041 1hlkA 227 1.86e+01 d.157.1.1 65848 1l3iA 192 2.18e+01 c.66.1.22 77676 1stzA 338 2.32e+01 a.4.5.51,d.110.2.3 106009,106010 1clzL 219 2.37e+01 8fabA b.1.1.1,b.1.1.2 20104,21136 1l7tL 219 2.58e+01 b.1.1.1,b.1.1.2 77801,77802 1v8kA 410 2.66e+01 c.37.1.9 100510 1xszA 356 2.66e+01 1zpdA 568 2.81e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1px6A 209 2.82e+01 a.45.1.1,c.47.1.5 88333,88334 1qkzL 217 2.89e+01 8fabA b.1.1.1,b.1.1.2 20136,21166 1dq3A 454 2.92e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1bco 327 3.06e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1ijeB 90 3.10e+01 1b64 d.58.12.1 62488 2b7cB 94 3.15e+01 1f60B 94 3.21e+01 1b64 d.58.12.1 39307 1hwxA 501 3.25e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 1nr1A 496 3.38e+01 c.2.1.7,c.58.1.1 86080,86081 1gzjA 304 3.53e+01 c.1.8.3 70813 1l1fA 505 3.54e+01 c.2.1.7,c.58.1.1 73456,73457 1cl7L 216 3.61e+01 8fabA b.1.1.1,b.1.1.2 20418,21388 1ks8A 433 3.62e+01 a.102.1.2 77519 1wa5B 530 3.78e+01 1ad5A 438 3.79e+01 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24505,40491,41681 1qcfA 454 3.80e+01 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24498,40490,41680 1jv1A 505 3.82e+01 c.68.1.5 71892 1pz5A 215 3.86e+01 b.1.1.1,b.1.1.2 95401,95402 1nr7A 496 3.89e+01 c.2.1.7,c.58.1.1 86095,86096 1jvgA 522 3.97e+01 c.68.1.5 77185 1lo4L 217 4.24e+01 b.1.1.1,b.1.1.2 74141,74142 1eljA 381 4.33e+01 4mbp c.94.1.1 35791 1un0A 443 4.38e+01 a.118.1.1 99641 1c7nA 399 4.58e+01 1d2fA c.67.1.3 34413 1fptL 219 4.61e+01 32c2A b.1.1.1,b.1.1.2 20030,21084 1z5xU 262 4.91e+01 2c1tA 454 4.96e+01 1nakL 219 4.98e+01 b.1.1.1,b.1.1.2 91757,91758 1wixA 164 5.01e+01 1h1nA 305 5.16e+01 c.1.8.3 70855 1qxmA 300 5.27e+01 b.42.2.1,b.42.2.1 96533,96534 1wljA 189 5.30e+01 1eluA 390 5.33e+01 1elqA c.67.1.3 34434 1vajA 214 5.53e+01 1a6aB 187 5.54e+01 1iakB b.1.1.2,d.19.1.1 21616,38190 1j0eA 341 5.70e+01 c.79.1.1 83906 1hk3A 585 5.72e+01 a.126.1.1,a.126.1.1,a.126.1.1 83530,83531,83532 1n2tA 386 5.73e+01 c.67.1.3 79858 1tf0A 572 5.77e+01 a.126.1.1,a.126.1.1,a.126.1.1 106822,106823,106824 1md4A 209 5.79e+01 a.45.1.1,c.47.1.5 74632,74633 1n5uA 585 5.83e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 2bxkA 585 5.84e+01 1hk5A 585 5.87e+01 a.126.1.1,a.126.1.1,a.126.1.1 83536,83537,83538 1f2dA 341 5.95e+01 1f2dA c.79.1.1 35298 1bx2B 191 6.01e+01 1iakB b.1.1.2,d.19.1.1 21610,38184 1sr4B 261 6.12e+01 d.151.1.1 105949 1wvfA 520 6.21e+01 1ymmB 198 6.25e+01 1diiA 521 6.25e+01 1qltA d.58.32.1,d.145.1.1 39481,41744 1xruA 282 6.29e+01 1x8mA 288 6.29e+01 b.82.1.13 109516 1v06A 142 6.32e+01 4thiA 362 6.35e+01 2thiA c.94.1.1 35793 1a4jA 217 6.39e+01 8fabA b.1.1.1,b.1.1.2 20232,21244 3thiA 371 6.39e+01 2thiA c.94.1.1 35792 1q32A 544 6.39e+01 d.136.1.3,d.136.1.3 104507,104508 1bke 581 6.48e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19387,19388,19389 1j0dA 341 6.59e+01 c.79.1.1 83902 1wt5C 122 6.59e+01 2thiA 379 6.62e+01 2thiA c.94.1.1 35794 1dsfL 112 6.85e+01 8fabA b.1.1.1 20246 1v9hA 197 6.97e+01 2b4sB 306 7.03e+01 2beiA 170 7.05e+01 1j1gA 190 7.08e+01 d.124.1.1 83976 1j1fA 191 7.18e+01 d.124.1.1 83975 1ir3A 306 7.26e+01 1fmk d.144.1.7 41702 1qfuL 217 7.28e+01 8fabA b.1.1.1,b.1.1.2 20292,21284 2h1pL 219 7.45e+01 8fabA b.1.1.1,b.1.1.2 20190,21206 1md3A 209 7.56e+01 a.45.1.1,c.47.1.5 74628,74629 1kelL 217 7.60e+01 8fabA b.1.1.1,b.1.1.2 20112,21142 1h1yA 228 7.72e+01 c.1.2.2 76506 1p14A 306 7.81e+01 d.144.1.7 87660 2asdA 360 7.89e+01 1q8rA 120 7.94e+01 d.79.6.1 96225 1eogA 208 8.06e+01 1pgtA a.45.1.1,c.47.1.5 17560,32854 1qpdA 279 8.23e+01 1fmk d.144.1.7 41687 3lck 271 8.30e+01 1fmk d.144.1.7 41686 1mnuL 219 8.32e+01 8fabA b.1.1.1,b.1.1.2 20358,21350 1bk5A 422 8.32e+01 1bk5A a.118.1.1 19130 1lbkA 208 8.39e+01 a.45.1.1,c.47.1.5 73809,73810 4gssA 209 8.41e+01 1pgtA a.45.1.1,c.47.1.5 17570,32864 1flrL 219 8.44e+01 8fabA b.1.1.1,b.1.1.2 19904,20998 17gsA 210 8.46e+01 1pgtA a.45.1.1,c.47.1.5 17524,32818 1qpcA 279 8.47e+01 1fgkA d.144.1.7 41685 1pgtA 210 8.59e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 1bk6A 422 8.63e+01 1bk5A a.118.1.1 19133 1irk 306 8.65e+01 1fmk d.144.1.7 41703 1z0hA 438 8.69e+01 1aqwA 209 8.82e+01 1pgtA a.45.1.1,c.47.1.5 17517,32811 18gsA 210 8.82e+01 1pgtA a.45.1.1,c.47.1.5 17528,32822