# List of top-scoring protein chains for T0302.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 1eztA 166 2.22e-26 1agrE a.91.1.1 18541 1agrE 205 2.35e-26 1agrE a.91.1.1 18538 2af0A 146 2.99e-26 2crpA 150 9.08e-26 2bv1A 145 1.99e-25 1cmzA 152 2.91e-25 1agrE a.91.1.1 18547 1zv4X 158 5.75e-25 2bt2A 161 1.12e-24 2a72A 146 2.08e-24 1fqiA 147 5.31e-24 1agrE a.91.1.1 18542 2es0A 148 8.60e-24 1dk8A 147 5.40e-20 1agrE a.91.1.1 18548 1emuA 132 2.54e-19 1agrE a.91.1.1 18549 1omwA 689 7.26e-12 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1htjF 210 1.01e-05 1htjF a.91.1.1 61254 2acxA 576 7.83e-04 1bf5A 575 2.75e-01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1ijeB 90 4.20e-01 1b64 d.58.12.1 62488 2b7cB 94 4.22e-01 1f60B 94 4.25e-01 1b64 d.58.12.1 39307 1eljA 381 4.53e-01 4mbp c.94.1.1 35791 1y3nA 490 5.46e-01 1b64 91 6.25e-01 1b64 d.58.12.1 39306 1yvlA 683 9.15e-01 1r5vB 185 2.99e+00 b.1.1.2,d.19.1.1 97118,97119 1lk3A 160 3.05e+00 a.26.1.3 73950 1kt2B 213 3.19e+00 b.1.1.2,d.19.1.1 72953,72954 1ktdB 215 3.27e+00 b.1.1.2,d.19.1.1 72966,72967 1fngB 224 3.36e+00 1iakB b.1.1.2,d.19.1.1 59906,59907 1fneB 224 3.41e+00 1iakB b.1.1.2,d.19.1.1 59898,59899 1ilk 151 3.42e+00 2ilk a.26.1.3 16886 1iebB 227 3.47e+00 1iakB b.1.1.2,d.19.1.1 21636,38210 2ilk 160 3.63e+00 2ilk a.26.1.3 16885 1ieaB 228 3.81e+00 1iakB b.1.1.2,d.19.1.1 21632,38206 1zpdA 568 4.12e+00 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 2azkA 289 6.14e+00 1shzC 233 6.89e+00 2azjA 289 7.39e+00 1jv1A 505 7.66e+00 c.68.1.5 71892 1bco 327 9.06e+00 1bco b.48.1.1,c.55.3.3 26431,33676 1c50A 830 9.92e+00 1a8i c.87.1.4 35512 1abbA 828 9.96e+00 1a8i c.87.1.4 35536 1h5uA 842 1.02e+01 1a8i c.87.1.4 60655 1noj 842 1.02e+01 1a8i c.87.1.4 35479 1xc7A 842 1.04e+01 1ft9A 222 1.04e+01 1ft9A a.4.5.4,b.82.3.1 16107,28131 1iapA 211 1.22e+01 a.91.1.1 62119 1sacA 204 1.22e+01 1sacA b.29.1.5 24237 1vjgA 218 1.31e+01 c.23.10.6 100810 1jvgA 522 1.43e+01 c.68.1.5 77185 1vzoA 355 1.44e+01 d.144.1.7 108971 1z34A 235 1.45e+01 1a06 332 1.51e+01 1tkiA d.144.1.7 41634 1y6nL 145 1.52e+01 2a0mA 316 1.53e+01 1vlk 145 1.59e+01 2ilk a.26.1.3 16888 1y4wA 518 1.82e+01 1xx4A 261 1.98e+01 1z8dA 842 2.11e+01 2asdA 360 2.16e+01 2boaA 404 2.25e+01 2d1tA 548 2.28e+01 2d1sA 548 2.28e+01 1geqA 248 2.37e+01 2tysA c.1.2.4 28589 1z5xU 262 2.43e+01 1tetL 216 2.53e+01 32c2A b.1.1.1,b.1.1.2 19902,20996 1zeaL 216 2.53e+01 1evyA 366 2.64e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1rk4A 243 3.16e+01 a.45.1.1,c.47.1.5 97592,97593 1a7tA 232 3.25e+01 1a7tA d.157.1.1 42041 1g0yR 312 3.25e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21723,21724,21725 1mnaA 298 3.26e+01 c.69.1.22 79322 1kobA 387 3.48e+01 1tkiA d.144.1.7 41640 1iraY 319 3.51e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21717,21718,21719 1ev4A 221 3.52e+01 1pgtA a.45.1.1,c.47.1.5 17693,32987 1itbB 315 3.54e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21720,21721,21722 1ev9A 221 3.56e+01 1pgtA a.45.1.1,c.47.1.5 17696,32990 2f7fA 494 3.59e+01 1wljA 189 3.72e+01 1clzL 219 3.84e+01 8fabA b.1.1.1,b.1.1.2 20104,21136 2btmA 252 3.95e+01 1amk c.1.1.1 28511 1btmA 252 4.01e+01 1amk c.1.1.1 28513 2bmiA 232 4.07e+01 1a7tA d.157.1.1 42043 1gseA 221 4.12e+01 1pgtA a.45.1.1,c.47.1.5 17667,32961 1agsA 221 4.20e+01 1pgtA a.45.1.1,c.47.1.5 17691,32985 1xszA 356 4.20e+01 1f8hA 95 4.35e+01 1eh2 a.39.1.6 17336 1k3yA 221 4.36e+01 a.45.1.1,c.47.1.5 77245,77246 1pl1A 222 4.38e+01 a.45.1.1,c.47.1.5 104178,104179 2aeuA 374 4.41e+01 2cb5A 453 4.42e+01 3gcb d.3.1.1 37035 1ydkA 222 4.51e+01 1j1nA 492 4.53e+01 c.94.1.1 83978 1hlkA 227 4.66e+01 d.157.1.1 65848 1xwgA 221 4.67e+01 1eh2 106 4.67e+01 1eh2 a.39.1.6 17339 1pl2A 222 4.69e+01 a.45.1.1,c.47.1.5 104182,104183 1usbA 225 4.72e+01 a.45.1.1,c.47.1.5 108001,108002 2agqA 341 4.83e+01 1bx2B 191 4.87e+01 1iakB b.1.1.2,d.19.1.1 21610,38184 4znbA 232 4.88e+01 1a7tA d.157.1.1 42047 1ymmB 198 4.97e+01 1z81A 229 5.03e+01 1hk3A 585 5.06e+01 a.126.1.1,a.126.1.1,a.126.1.1 83530,83531,83532 1znbA 232 5.09e+01 1a7tA d.157.1.1 42039 1un0A 443 5.12e+01 a.118.1.1 99641 1s1hJ 100 5.19e+01 i.1.1.1 105162 1lopA 164 5.20e+01 2cpl b.62.1.1 27510 1pig 496 5.24e+01 1smd b.71.1.1,c.1.8.1 27764,28751 1z1lA 345 5.36e+01 1pvtA 238 5.42e+01 c.74.1.1 95189 2c1tA 454 5.47e+01 1qo7A 394 5.50e+01 1qo7A c.69.1.11 34697 1ve6A 582 5.50e+01 2a6tA 271 5.55e+01 1v54A 514 5.56e+01 f.24.1.1 100321 2bq3A 358 5.57e+01 1eygA 116 5.58e+01 3ullA b.40.4.3 25292 1hyqA 263 5.60e+01 1hyqA c.37.1.10 61412 1cb5A 453 5.60e+01 3gcb d.3.1.1 37037 2bxkA 585 5.62e+01 1tdiA 222 5.62e+01 1n5uA 585 5.65e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 1tf0A 572 5.73e+01 a.126.1.1,a.126.1.1,a.126.1.1 106822,106823,106824 1bvnP 496 5.73e+01 1smd b.71.1.1,c.1.8.1 27767,28754 1qdlA 422 5.76e+01 1qdlA d.161.1.1 42088 1hk5A 585 5.78e+01 a.126.1.1,a.126.1.1,a.126.1.1 83536,83537,83538 1sruA 113 5.80e+01 b.40.4.3 105971 1w77A 228 5.96e+01 1ndaA 491 5.98e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30525,30526,40194 1ee4A 423 6.05e+01 1ee4A a.118.1.1 19128 2g5dA 422 6.06e+01 1ignA 246 6.09e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 2nul 164 6.18e+01 2cpl b.62.1.1 27511 1bke 581 6.18e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19387,19388,19389 1iku 202 6.24e+01 1rec a.39.1.5 17327 1omrA 201 6.27e+01 a.39.1.5 93349 1la3A 202 6.30e+01 a.39.1.5 73781 1omvA 201 6.32e+01 a.39.1.5 93353 1px6A 209 6.40e+01 a.45.1.1,c.47.1.5 88333,88334 1bk6A 422 6.44e+01 1bk5A a.118.1.1 19133 1ucbL 219 6.45e+01 32c2A b.1.1.1,b.1.1.2 20100,21132 1dhkA 496 6.47e+01 1smd b.71.1.1,c.1.8.1 27761,28748 1ose 496 6.47e+01 1smd b.71.1.1,c.1.8.1 27766,28753 1bk5A 422 6.48e+01 1bk5A a.118.1.1 19130 1jfh 496 6.56e+01 1smd b.71.1.1,c.1.8.1 27762,28749 1ppi 496 6.56e+01 1smd b.71.1.1,c.1.8.1 27763,28750 1wxrA 1048 6.57e+01 1kxqA 496 6.58e+01 b.71.1.1,c.1.8.1 73163,73164 1vahA 496 6.59e+01 1hx0A 496 6.59e+01 b.71.1.1,c.1.8.1 61346,61347 1ee5A 424 6.59e+01 1ee4A a.118.1.1 19132 1qtoA 122 6.64e+01 1bylA d.32.1.2 38494 1jx4A 352 6.70e+01 d.240.1.1,e.8.1.7 90378,90379 2b3yA 888 6.92e+01 1imuA 107 6.98e+01 d.204.1.1 66218 1qxmA 300 7.14e+01 b.42.2.1,b.42.2.1 96533,96534 2cfvA 316 7.25e+01 1p5vA 235 7.64e+01 b.1.11.1,b.7.2.1 87812,87813 1ebpA 211 7.67e+01 1eerB b.1.2.1,b.1.2.1 22023,22024 1ernA 213 7.67e+01 1eerB b.1.2.1,b.1.2.1 22019,22020 1ebaA 215 7.71e+01 1eerB b.1.2.1,b.1.2.1 22015,22016 1qexA 288 7.76e+01 1qexA b.32.1.1 24425 1vajA 214 7.76e+01 1kawA 135 7.83e+01 3ullA b.40.4.3 25288 2ac5A 316 7.91e+01 1fyxA 149 8.10e+01 1fyvA c.23.2.1 31128 1wa5B 530 8.15e+01 1nakL 219 8.38e+01 b.1.1.1,b.1.1.2 91757,91758 2ac3A 316 8.46e+01 1a6aB 187 8.59e+01 1iakB b.1.1.2,d.19.1.1 21616,38190 1uk5A 111 8.64e+01 a.7.7.1 99487 2bq0A 245 8.78e+01 1p14A 306 8.81e+01 d.144.1.7 87660 1fywA 149 8.87e+01 1fyvA c.23.2.1 31129 1h1yA 228 8.90e+01 c.1.2.2 76506 1rleA 692 8.90e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 97638,97639,97640,97641 1vjjA 692 8.91e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 2b4sB 306 8.93e+01