# List of top-scoring protein chains for T0366.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 2fneA 117 5.52e-11 1um7A 113 1.45e-10 b.36.1.1 99579 1rgrA 99 1.91e-10 b.36.1.1 104931 1kefA 93 2.36e-10 b.36.1.1 72369 1vj6A 102 2.41e-10 1d5gA 96 2.87e-10 b.36.1.1 70080 1gm1A 94 3.06e-10 b.36.1.1 70271 2bygA 117 3.21e-10 1iu0A 91 3.35e-10 b.36.1.1 83707 1tp5A 119 3.35e-10 1zokA 93 3.58e-10 1be9A 119 4.13e-10 1pdr b.36.1.1 24774 2fcfA 103 5.70e-10 2fe5A 94 7.03e-10 1pdr 99 7.26e-10 1pdr b.36.1.1 24771 1whaA 105 9.29e-10 2dazA 124 9.53e-10 1wfvA 103 1.08e-09 1uewA 114 1.32e-09 b.36.1.1 99281 1x5qA 110 1.35e-09 1qlcA 95 1.52e-09 1qauA b.36.1.1 24776 1gq5A 91 1.98e-09 b.36.1.1 76274 1wf8A 107 2.02e-09 1gq4A 90 2.08e-09 b.36.1.1 70340 1i92A 91 2.10e-09 1pdr b.36.1.1 61990 1g9oA 91 2.14e-09 1pdr b.36.1.1 60400 1um1A 110 2.32e-09 b.36.1.1 99578 1q7xA 108 2.45e-09 b.36.1.1 96059 1z87A 263 2.56e-09 1uhpA 107 2.92e-09 b.36.1.1 99400 1oziA 99 3.25e-09 b.36.1.1 93845 1ueqA 123 3.62e-09 b.36.1.1 99271 1qavA 90 3.96e-09 1qauA b.36.1.1 24777 1uezA 101 4.45e-09 b.36.1.1 99286 1z86A 87 4.46e-09 2csjA 117 4.76e-09 2pdzA 86 4.92e-09 1pdr b.36.1.1 24778 1uf1A 128 5.93e-09 b.36.1.1 99288 1x6dA 119 6.79e-09 1ujuA 111 7.17e-09 b.36.1.1 99469 1xz9A 101 9.23e-09 1q3oA 109 1.03e-08 b.36.1.1 95700 1ihjA 98 1.06e-08 1pdr b.36.1.1 62382 1t2mA 101 1.09e-08 1wi2A 104 1.13e-08 1n7eA 97 1.18e-08 b.36.1.1 91691 2db5A 128 1.21e-08 1i16 130 1.67e-08 1i16 b.36.1.2 24787 2f0aA 98 1.82e-08 1l6oA 95 1.84e-08 b.36.1.1 84534 1wh1A 124 2.11e-08 2d92A 108 2.85e-08 2cssA 121 3.10e-08 1b8qA 127 3.13e-08 1qauA b.36.1.1 24781 1vb7A 94 3.28e-08 b.36.1.1 108474 1uepA 103 3.50e-08 b.36.1.1 99270 1qavB 115 3.62e-08 1qauA b.36.1.1 24780 2h2cA 107 4.02e-08 2h2bA 107 4.03e-08 1qauA 112 4.14e-08 1qauA b.36.1.1 24779 1v5lA 103 4.28e-08 b.36.1.1 108378 1wf7A 103 4.45e-08 1mc7A 95 4.47e-08 b.36.1.1 91241 2h3mA 97 4.65e-08 1wg6A 127 4.88e-08 1zubA 114 4.96e-08 1rgwA 85 6.00e-08 b.36.1.1 97455 1wjlA 90 6.66e-08 1ry4A 128 8.62e-08 b.36.1.1 98085 1wfgA 131 9.21e-08 1x8sA 102 9.59e-08 1x5rA 112 1.04e-07 1uitA 117 1.08e-07 b.36.1.1 99433 1rzxA 98 1.11e-07 b.36.1.1 98236 2h3lA 103 1.19e-07 1mfgA 95 1.19e-07 b.36.1.1 79043 1kwaA 88 1.49e-07 1kwaA b.36.1.1 24772 1x5nA 114 1.49e-07 1ujdA 117 1.66e-07 b.36.1.1 99454 1va8A 113 1.69e-07 1wi4A 109 1.83e-07 1nf3C 128 1.99e-07 b.36.1.1 85596 1v5qA 122 2.36e-07 b.36.1.1 108383 1v62A 117 2.41e-07 b.36.1.1 108390 1p1dA 196 2.48e-07 b.36.1.1,b.36.1.1 93896,93897 1p1eA 101 2.63e-07 b.36.1.1 93898 2cs5A 119 2.69e-07 1w9eA 166 3.78e-07 1u37A 89 4.18e-07 1x45A 98 4.46e-07 1u3bA 185 5.47e-07 1whdA 100 1.43e-06 1ujvA 96 1.51e-06 b.36.1.1 99470 1m5zA 91 1.83e-06 b.36.1.1 78676 1ufxA 103 2.53e-06 b.36.1.1 99359 2f5yA 91 2.76e-06 1v6bA 118 3.91e-06 b.36.1.1 108394 1y7nA 90 9.54e-06 1u39A 80 1.09e-05 1wifA 126 2.66e-05 1fc6A 388 4.20e-05 1fc6A b.36.1.3,c.14.1.2 64738,64739 1fc9A 388 5.92e-05 1fc6A b.36.1.3,c.14.1.2 64742,64743 1vaeA 111 8.24e-05 b.36.1.1 108466 1r6jA 82 9.09e-05 b.36.1.1 97151 1obxA 79 1.23e-04 b.36.1.1 86783 2d8iA 114 8.16e-04 1lcyA 325 3.10e-03 b.36.1.4,b.47.1.1 73834,73835 1ky9A 448 1.03e-02 b.36.1.4,b.47.1.1 73198,73199 1sotA 320 1.54e-02 b.36.1.4,b.47.1.1 105852,105853 1sozA 314 1.54e-02 b.36.1.4,b.47.1.1 105859,105860 1te0A 318 1.54e-02 1y8tA 324 4.28e-01 1m54A 363 7.35e+00 c.79.1.1 74463 1zn8A 180 9.34e+00 1jbqA 435 9.75e+00 1oasA c.79.1.1 62850 1nvjA 140 1.39e+01 d.41.5.1 86243 1fm0E 150 1.41e+01 1fmaE d.41.5.1 38629 2bh4X 134 1.42e+01 2bgvX 134 1.44e+01 1ao0A 459 1.56e+01 1ecfB c.61.1.1,d.153.1.1 34049,41816 1gph1 465 1.58e+01 1ecfB 1bx4A 345 1.98e+01 1bx4A c.72.1.1 34935 1lnzA 342 2.05e+01 b.117.1.1,c.37.1.8 78112,78113 1db3A 372 2.09e+01 1db3A c.2.1.2 29813 1x6vA 630 2.14e+01 1eaxA 241 2.54e+01 b.47.1.2 64889 1rtwA 220 2.83e+01 a.132.1.3 97823 155c 135 2.91e+01 1ycc a.3.1.1 15900 1vorL 132 2.95e+01 1nkwI 134 3.15e+01 i.1.1.2 80594 1t6t1 118 3.19e+01 3pga1 337 3.46e+01 4pgaA 1mhsA 920 3.58e+01 i.18.1.1 79130 1rlw 126 4.01e+01 1rlw b.7.1.1 23177 1yadA 221 4.11e+01 1ojhA 65 4.18e+01 a.214.1.1 103976 1dl6A 58 4.34e+01 1dl6A g.41.3.1 45207 1rlyA 60 4.35e+01 g.41.3.1 104988 1vl8A 267 4.38e+01 c.2.1.2 108733 1bci 138 4.38e+01 1rlw b.7.1.1 23180 1djpA 330 4.40e+01 4pgaA c.88.1.1 35567 2d7uA 339 4.57e+01 4pgaA 337 4.62e+01 4pgaA c.88.1.1 35565 1dms 781 4.72e+01 1dmr b.52.2.2,c.81.1.1 26906,35314 1qb7A 236 4.72e+01 1qb7A c.61.1.1 34087 1sw2A 275 4.77e+01 c.94.1.1 106064 1sw5A 275 4.78e+01 c.94.1.1 106069 1yg9A 330 4.83e+01 1m3uA 264 4.83e+01 c.1.12.8 84784 1ss3A 50 4.85e+01 g.2.3.1 105975 1mkmA 249 4.95e+01 a.4.5.33,d.110.2.2 79242,79243 1oroA 213 5.00e+01 1opr c.61.1.1 34093 1t3qB 788 5.12e+01 d.41.1.1,d.133.1.1 106369,106370 2f69A 261 5.15e+01 1n6aA 259 5.23e+01 b.76.2.1,b.85.7.1 80121,80122 2a6tA 271 5.34e+01 1xqhA 264 5.45e+01 2d4pA 141 5.72e+01 1cot 129 5.77e+01 1ycc a.3.1.1 15899 2bhtA 303 5.78e+01 1mufA 257 5.80e+01 b.76.2.1,b.85.7.1 79483,79484 1koe 172 5.85e+01 1koe d.169.1.5 42448 1kjyB 36 5.92e+01 1dy1A 188 5.94e+01 1koe d.169.1.5 42450 1kk1A 410 5.99e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1yb2A 275 6.04e+01 1mzvA 235 6.22e+01 c.61.1.1 91502 1rfmA 344 6.38e+01 c.122.1.1 97385 1bnlA 178 6.50e+01 1koe d.169.1.5 42444 1hgu 191 6.76e+01 1huw a.26.1.1 16837 1n6cA 297 6.76e+01 b.76.2.1,b.85.7.1 80123,80124 1uc2A 481 6.77e+01 d.261.1.1 99161 1repC 251 6.86e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1zhvA 134 6.95e+01 1hkvA 453 6.99e+01 b.49.2.3,c.1.6.1 83559,83560 1hvyA 288 7.01e+01 1bkpA d.117.1.1 41049 1e6vC 258 7.02e+01 1mroC d.58.31.1 39439 1hzwA 290 7.02e+01 1bkpA d.117.1.1 61464 2d8jA 77 7.03e+01 1tis 286 7.08e+01 1bkpA d.117.1.1 41040 1mt6A 280 7.22e+01 b.76.2.1,b.85.7.1 79446,79447 1e18A 823 7.24e+01 1dmr b.52.2.2,c.81.1.1 26907,35315 1e61A 823 7.25e+01 1dmr b.52.2.2,c.81.1.1 26908,35316 1dmr 823 7.26e+01 1dmr b.52.2.2,c.81.1.1 26904,35312 4dmr 823 7.29e+01 1dmr b.52.2.2,c.81.1.1 26905,35313 1ypvA 313 7.29e+01 1ju6A 313 7.37e+01 d.117.1.1 63289 1xexB 172 7.42e+01 2hc1A 291 7.43e+01 2ahsA 295 7.54e+01 1gljO 501 7.82e+01 1glcG c.55.1.4,c.55.1.4 33525,33526 1glaG 501 7.85e+01 1glcG c.55.1.4,c.55.1.4 33507,33508 1bu6O 501 7.87e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1r13A 148 7.89e+01 d.169.1.1,h.1.1.1 96782,96783 1nylA 539 7.91e+01 b.53.1.2,c.26.1.1 80741,80742 1jalA 363 7.94e+01 c.37.1.8,d.15.10.2 84138,84139 1qrsA 553 7.99e+01 1gtrA b.53.1.2,c.26.1.1 26941,31580 1qrtA 553 8.01e+01 1gtrA b.53.1.2,c.26.1.1 26943,31582 2ag0A 563 8.06e+01 1hw4A 355 8.15e+01 1bkpA d.117.1.1 41054 1qtqA 553 8.16e+01 1gtrA b.53.1.2,c.26.1.1 26940,31579 1euyA 548 8.16e+01 1gtrA b.53.1.2,c.26.1.1 26945,31584 1o0cA 554 8.19e+01 b.53.1.2,c.26.1.1 86529,86530 1ot2A 686 8.36e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87396,87397,87398,87399 1h3iA 293 8.38e+01 b.76.2.1,b.85.7.1 76635,76636 1ot1A 686 8.41e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87392,87393,87394,87395 1xewY 172 8.42e+01 2h04A 313 8.44e+01 1l1dA 152 8.55e+01 b.88.1.3 73452 1p99A 295 8.65e+01 c.94.1.1 94384 1vjyA 303 8.81e+01 d.144.1.7 108633 1rw8A 301 8.82e+01