# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1qsmA 152 5.24e-18 1qsmA d.108.1.1 40808 1i1dA 161 1.54e-17 1i21A d.108.1.1 61526 1i12A 160 2.63e-17 1i21A d.108.1.1 61515 1i21A 159 5.28e-17 1i21A d.108.1.1 61549 1bo4A 168 1.96e-12 1bo4A d.108.1.1 40798 1b87A 181 4.76e-12 1b87A d.108.1.1 40797 1bo4B 168 6.31e-12 1bo4A d.108.1.1 40799 1cjwA 166 1.89e-11 1cjwA d.108.1.1 40818 1qstA 160 1.50e-10 1yghA d.108.1.1 40804 1yghA 164 4.89e-08 1yghA d.108.1.1 40802 1bob 320 3.39e-06 1bob d.108.1.1 40816 1nmtA 392 4.60e-05 1nmtA d.108.1.2 40823 d.108.1.2 40824 1fy7A 278 3.45e-04 1fy7A d.108.1.1 40817 1iicA 422 2.68e-03 1nmtA d.108.1.2 62422 d.108.1.2 62423 1afwA 393 3.66e-01 1afwA c.95.1.1 35900 c.95.1.1 35901 1ecfA 504 4.61e-01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1pxtB 390 4.86e-01 1afwA c.95.1.1 35906 c.95.1.1 35907 1ecfB 504 5.70e-01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1cjbA 231 1.07e+00 1qk3A c.61.1.1 34079 1pot 325 1.35e+00 1pot c.94.1.1 35807 1fsgA 233 1.37e+00 1qk3A c.61.1.1 34029 1cmiA 85 1.42e+00 1cmiA d.39.1.1 38551 1ju3A 583 1.42e+00 b.18.1.13 67300 c.69.1.21 67301 1kblA 873 1.44e+00 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1dik 874 1.44e+00 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1gt7A 274 1.57e+00 1fs0G 230 1.73e+00 1fs0G c.49.2.1 59999 1hd8A 363 2.08e+00 b.105.1.1 65803 e.3.1.1 65804 1cvrA 435 2.14e+00 1cvrA b.1.1.5 21949 c.17.1.2 31006 1g4uS 383 2.76e+00 1g4uS a.24.11.1 16643 c.45.1.2 32691 1jmmA 377 2.83e+00 1gpwB 201 2.91e+00 c.23.16.1 65461 1dmuA 299 3.17e+00 1dmuA c.52.1.4 33294 1gsa 316 3.18e+00 1gsa c.30.1.3 31718 d.142.1.1 41477 1k9vF 201 3.43e+00 c.23.16.1 68365 1edzA 320 3.69e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1h75A 81 3.70e+00 1h75A c.47.1.1 60716 1k4jA 230 3.71e+00 1g4wR 383 4.79e+00 1g4uS a.24.11.1 16644 c.45.1.2 32692 1thm 279 5.38e+00 1gci c.41.1.1 32544 1cg2A 393 5.50e+00 1cg2A c.56.5.4 33844 d.58.19.1 39360 1epwA 1290 5.68e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1ee9A 320 5.92e+00 1ee9A c.2.1.7 30288 c.58.1.2 33936 1lh0A 213 5.97e+00 1opr 213 6.17e+00 1opr c.61.1.1 34091 1d5tA 433 6.18e+00 1gnd c.3.1.3 30422 d.16.1.6 37986 1bdg 451 6.31e+00 1qhaA c.55.1.3 33461 c.55.1.3 33462 2btfA 375 6.45e+00 1yagA c.55.1.1 33429 c.55.1.1 33430 1h6zA 913 6.60e+00 6prcH 258 6.87e+00 6prcH b.41.1.1 25457 f.2.1.2 43436 1g8mA 593 6.91e+00 1g8mA c.24.1.3 60371 c.97.2.1 60372 1eulA 994 7.50e+00 1eulA f.2.1.10 43726 1dxrH 258 7.56e+00 6prcH b.41.1.1 25456 f.2.1.2 43433 1gox 370 7.88e+00 1gox c.1.4.1 28607 1cr1A 296 7.91e+00 1cr1A c.37.1.11 32286 1feuA 206 8.06e+00 1feuA b.53.1.1 59801 1qk4A 233 8.35e+00 1qk3A c.61.1.1 34037 1bzyA 217 9.76e+00 1qk3A c.61.1.1 34071 1j6zA 376 9.85e+00 1yagA c.55.1.1 62667 c.55.1.1 62668 1e79D 482 9.86e+00 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1h8eD 482 1.03e+01 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1fc6A 388 1.08e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1gk8I 140 1.11e+01 d.73.1.1 65242 1yaiA 151 1.12e+01 1yaiA b.1.8.1 22289 1cr0A 296 1.13e+01 1cr1A c.37.1.11 32287 1skyE 473 1.13e+01 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1vkxA 273 1.22e+01 1a3qA b.1.1.5 21941 b.2.5.1 22454 1shdA 107 1.22e+01 1fmk d.93.1.1 40440 1mxb 383 1.23e+01 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 1dgaA 375 1.25e+01 1yagA c.55.1.1 33441 c.55.1.1 33442 1drtA 324 1.27e+01 1drtA b.82.2.2 28130 1g8yA 279 1.34e+01 1g8yA c.37.1.11 32302 1d4xA 375 1.36e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1a73A 163 1.41e+01 1a73A d.4.1.3 37145 1hqsA 423 1.49e+01 1iso c.77.1.1 61154 1isaA 192 1.49e+01 1avmA a.2.11.1 15731 d.44.1.1 38724 1gnd 447 1.53e+01 1gnd c.3.1.3 30423 d.16.1.6 37987 1evxA 162 1.56e+01 1a73A d.4.1.3 37149 1ffkE 119 1.57e+01 1ffkE d.79.3.1 39812 1iscA 192 1.58e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1h7wB 1025 1.66e+01 a.1.2.2 15684 c.1.4.1 28629 c.3.1.1 30325 c.4.1.1 30610 d.58.1.5 39008 1h7wA 1025 1.67e+01 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1jatA 155 1.67e+01 1u9aA d.20.1.1 62818 1agjA 242 1.71e+01 1agjA b.47.1.1 25827 1dorA 311 1.74e+01 2dorA c.1.4.1 28595 1pea 385 1.74e+01 1pea c.93.1.1 35662 1mxa 383 1.75e+01 1mxb d.130.1.1 41326 d.130.1.1 41327 d.130.1.1 41328 1b8kA 119 1.75e+01 1bndA g.17.1.3 44795 1cvl 319 1.78e+01 1cvl c.69.1.18 34786 1hkcA 917 1.81e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1stfI 98 1.82e+01 1stfI d.17.1.2 38006 1gthA 1025 1.83e+01 1gthC 1025 1.86e+01 2dorA 311 1.88e+01 2dorA c.1.4.1 28593 1gt8C 1025 1.92e+01 1gteA 1025 1.93e+01 1ndk 155 1.95e+01 1npk d.58.6.1 39118 1gpl 432 2.00e+01 1gpl b.12.1.2 23645 c.69.1.19 34793 1h7zA 194 2.01e+01 1qhvA b.21.1.1 60733 1ha1 184 2.07e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1i1iP 681 2.09e+01 1i1iP d.92.1.5 40297 1l3kA 196 2.10e+01 1g6q2 328 2.11e+01 1g6q2 1jp3A 253 2.11e+01 1f75A c.101.1.1 63221 1h7xC 1025 2.12e+01 a.1.2.2 15689 c.1.4.1 28634 c.3.1.1 30330 c.4.1.1 30615 d.58.1.5 39013 1jmuB 666 2.12e+01 1h7xB 1025 2.13e+01 a.1.2.2 15688 c.1.4.1 28633 c.3.1.1 30329 c.4.1.1 30614 d.58.1.5 39012 1h7xA 1025 2.14e+01 1h7wA a.1.2.2 15687 c.1.4.1 28632 c.3.1.1 30328 c.4.1.1 30613 d.58.1.5 39011 1tahA 318 2.25e+01 1cvl c.69.1.18 34775 1a58 177 2.29e+01 2cpl b.62.1.1 27495 1jmtA 104 2.30e+01 d.58.7.3 63180 1hvc 203 2.33e+01 1hvc b.50.1.1 26614 1qhqA 140 2.35e+01 1qhqA b.6.1.1 63326 1fl2A 310 2.38e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 1b34B 118 2.43e+01 1b34B b.38.1.1 24797 1qcsA 211 2.44e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 1bgvA 449 2.45e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1ds1A 324 2.50e+01 1drtA b.82.2.2 28127 1hrdA 449 2.50e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1idk 359 2.51e+01 1qcxA b.80.1.2 28025 3minB 522 2.51e+01 1qguB c.92.2.3 35606 1j8mF 297 2.55e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1hkbA 917 2.59e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 2minB 522 2.62e+01 1qguB c.92.2.3 35610 1h7wD 1025 2.63e+01 a.1.2.2 15686 c.1.4.1 28631 c.3.1.1 30327 c.4.1.1 30612 d.58.1.5 39010 2cpl 165 2.65e+01 2cpl b.62.1.1 27420 1ej2A 181 2.66e+01 1f9aA c.26.1.3 59414 1cwoA 165 2.73e+01 2cpl b.62.1.1 27445 1gtxA 472 2.76e+01 1gtxA c.67.1.4 34464 1s01 283 2.76e+01 1gci c.41.1.1 32511 1dar 691 2.76e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1jcxA 267 2.93e+01 c.1.10.4 66510 1ck7A 631 2.98e+01 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 1gteD 1025 3.09e+01 1fxqA 267 3.10e+01 1d9eA c.1.10.4 60108 1cvjB 190 3.14e+01 1cvjB d.58.7.1 39193 d.58.7.1 39194 1qoiA 177 3.15e+01 2cpl b.62.1.1 27490 1fwsA 267 3.21e+01 1d9eA c.1.10.4 60063 1b8gA 429 3.24e+01 1b8gA c.67.1.4 34499 1k42A 168 3.25e+01 1jnyA 435 3.26e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1h7xD 1025 3.27e+01 a.1.2.2 15690 c.1.4.1 28635 c.3.1.1 30331 c.4.1.1 30616 d.58.1.5 39014 1dryA 324 3.28e+01 1drtA b.82.2.2 28128 1b7bA 310 3.31e+01 1b7bA c.73.1.1 34963 1h77A 605 3.31e+01 1i36A 264 3.32e+01 1ecsA 126 3.35e+01 1ecsA d.32.1.2 59407 1k89 449 3.35e+01 1k89 c.2.1.7 30218 c.58.1.1 33866 1qovH 260 3.39e+01 6prcH b.41.1.1 25464 f.2.1.2 43457 1bouB 302 3.42e+01 1bouB c.56.6.1 33859 1awqA 164 3.44e+01 2cpl b.62.1.1 27461 1gt8D 1025 3.45e+01 1nhkL 144 3.48e+01 1npk d.58.6.1 39142 2std 172 3.55e+01 3stdA d.17.4.1 38085 1awsA 164 3.58e+01 2cpl b.62.1.1 27431 1k9sA 237 3.76e+01 c.56.2.1 68359 1gthB 1025 3.78e+01 1flcA 432 3.80e+01 1flcA b.19.1.3 23837 c.23.10.2 31337 1ecpA 238 3.80e+01 1ecpA c.56.2.1 33775 1gtmA 419 3.89e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1rgs 288 3.91e+01 1rgs b.82.3.2 28146 b.82.3.2 28147 1e3dB 542 3.96e+01 1h2rL e.18.1.1 59189 4rnpA 883 3.99e+01 1cezA e.8.1.3 43113