# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1.95e-20 1qsmA d.108.1.1 40808 1i1dA 161 8.68e-20 1i21A d.108.1.1 61526 1i12A 160 8.91e-20 1i21A d.108.1.1 61515 1i21A 159 2.19e-19 1i21A d.108.1.1 61549 1bo4B 168 2.13e-13 1bo4A d.108.1.1 40799 1b87A 181 3.55e-13 1b87A d.108.1.1 40797 1cjwA 166 4.25e-13 1cjwA d.108.1.1 40818 1bo4A 168 4.79e-13 1bo4A d.108.1.1 40798 1qstA 160 2.24e-11 1yghA d.108.1.1 40804 1yghA 164 4.24e-08 1yghA d.108.1.1 40802 1bob 320 4.13e-07 1bob d.108.1.1 40816 1nmtA 392 2.90e-06 1nmtA d.108.1.2 40823 d.108.1.2 40824 1fy7A 278 5.23e-05 1fy7A d.108.1.1 40817 1iicA 422 1.39e-04 1nmtA d.108.1.2 62422 d.108.1.2 62423 1afwA 393 1.66e-01 1afwA c.95.1.1 35900 c.95.1.1 35901 1pxtB 390 1.75e-01 1afwA c.95.1.1 35906 c.95.1.1 35907 1cmiA 85 2.34e-01 1cmiA d.39.1.1 38551 1ecfA 504 2.41e-01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1ecfB 504 2.46e-01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1gt7A 274 3.01e-01 1j6zA 376 6.46e-01 1yagA c.55.1.1 62667 c.55.1.1 62668 1ee9A 320 8.16e-01 1ee9A c.2.1.7 30288 c.58.1.2 33936 1fs0G 230 9.32e-01 1fs0G c.49.2.1 59999 1edzA 320 9.50e-01 1ee9A c.2.1.7 30287 c.58.1.2 33935 1pot 325 9.83e-01 1pot c.94.1.1 35807 1g4uS 383 1.28e+00 1g4uS a.24.11.1 16643 c.45.1.2 32691 1cjbA 231 1.29e+00 1qk3A c.61.1.1 34079 1cvrA 435 1.32e+00 1cvrA b.1.1.5 21949 c.17.1.2 31006 1dik 874 1.38e+00 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1ds1A 324 1.51e+00 1drtA b.82.2.2 28127 1drtA 324 1.54e+00 1drtA b.82.2.2 28130 1kblA 873 1.65e+00 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1bzyA 217 1.75e+00 1qk3A c.61.1.1 34071 1ju3A 583 1.98e+00 b.18.1.13 67300 c.69.1.21 67301 1d4xA 375 2.26e+00 1yagA c.55.1.1 59107 c.55.1.1 59108 1gtxA 472 2.84e+00 1gtxA c.67.1.4 34464 1dryA 324 2.93e+00 1drtA b.82.2.2 28128 1dgaA 375 2.93e+00 1yagA c.55.1.1 33441 c.55.1.1 33442 1yagA 375 3.00e+00 1yagA c.55.1.1 33449 c.55.1.1 33450 1hd8A 363 3.25e+00 b.105.1.1 65803 e.3.1.1 65804 1bdg 451 3.35e+00 1qhaA c.55.1.3 33461 c.55.1.3 33462 1dmuA 299 3.75e+00 1dmuA c.52.1.4 33294 2btfA 375 3.82e+00 1yagA c.55.1.1 33429 c.55.1.1 33430 1eulA 994 3.91e+00 1eulA f.2.1.10 43726 1bouB 302 3.95e+00 1bouB c.56.6.1 33859 1g4wR 383 4.18e+00 1g4uS a.24.11.1 16644 c.45.1.2 32692 1fc6A 388 4.27e+00 1fc6A b.36.1.3 64738 c.14.1.2 64739 1gk8I 140 4.65e+00 d.73.1.1 65242 1gsa 316 4.65e+00 1gsa c.30.1.3 31718 d.142.1.1 41477 1cg2A 393 4.83e+00 1cg2A c.56.5.4 33844 d.58.19.1 39360 1gox 370 4.84e+00 1gox c.1.4.1 28607 1h75A 81 4.84e+00 1h75A c.47.1.1 60716 1fsgA 233 5.13e+00 1qk3A c.61.1.1 34029 1b8gA 429 5.35e+00 1b8gA c.67.1.4 34499 1j8mF 297 5.76e+00 1ng1 a.24.13.1 62742 c.37.1.10 62743 1a73A 163 6.28e+00 1a73A d.4.1.3 37145 1k4jA 230 6.63e+00 1cr0A 296 7.09e+00 1cr1A c.37.1.11 32287 1evxA 162 7.12e+00 1a73A d.4.1.3 37149 1skyE 473 7.13e+00 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1pea 385 7.29e+00 1pea c.93.1.1 35662 1a8vA 121 7.48e+00 1a62 a.140.3.1 64712 b.40.4.5 64713 1mxb 383 7.70e+00 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 1jmuB 666 7.77e+00 1d5tA 433 7.86e+00 1gnd c.3.1.3 30422 d.16.1.6 37986 1l3kA 196 8.49e+00 1opr 213 8.52e+00 1opr c.61.1.1 34091 1jmmA 377 8.61e+00 1jflA 228 8.64e+00 1k9vF 201 9.03e+00 c.23.16.1 68365 1feuA 206 9.09e+00 1feuA b.53.1.1 59801 1ffkE 119 9.25e+00 1ffkE d.79.3.1 39812 1k9sA 237 9.34e+00 c.56.2.1 68359 1mxa 383 9.53e+00 1mxb d.130.1.1 41326 d.130.1.1 41327 d.130.1.1 41328 1epwA 1290 9.67e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 6prcH 258 1.01e+01 6prcH b.41.1.1 25457 f.2.1.2 43436 1yaiA 151 1.01e+01 1yaiA b.1.8.1 22289 1jp3A 253 1.02e+01 1f75A c.101.1.1 63221 2aop 497 1.03e+01 2aop d.58.36.1 39503 d.58.36.1 39504 d.134.1.1 41427 d.134.1.1 41428 1cr1A 296 1.03e+01 1cr1A c.37.1.11 32286 1h7xB 1025 1.04e+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 1.04e+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 1h7wB 1025 1.05e+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 1dxrH 258 1.05e+01 6prcH b.41.1.1 25456 f.2.1.2 43433 1h7xC 1025 1.05e+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 1aop 497 1.06e+01 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1stfI 98 1.06e+01 1stfI d.17.1.2 38006 1k2yX 463 1.07e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 c.84.1.1 68066 1gteA 1025 1.09e+01 1h7wD 1025 1.09e+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 1h7wA 1025 1.13e+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 1h6zA 913 1.15e+01 1gpwB 201 1.17e+01 c.23.16.1 65461 1ge8A 249 1.20e+01 1plq d.131.1.2 41398 d.131.1.2 41399 1dorA 311 1.20e+01 2dorA c.1.4.1 28595 1gthA 1025 1.22e+01 1gt8C 1025 1.22e+01 1hvc 203 1.28e+01 1hvc b.50.1.1 26614 1fl2A 310 1.29e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 1a58 177 1.30e+01 2cpl b.62.1.1 27495 1gthC 1025 1.36e+01 1lh0A 213 1.39e+01 1h7xD 1025 1.39e+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 1jj2F 119 1.40e+01 1ffkE d.79.3.1 63091 1jatA 155 1.43e+01 1u9aA d.20.1.1 62818 1shdA 107 1.45e+01 1fmk d.93.1.1 40440 1vkxA 273 1.47e+01 1a3qA b.1.1.5 21941 b.2.5.1 22454 1gkuB 1054 1.50e+01 c.37.1.16 65257 c.37.1.16 65258 e.10.1.1 65259 1gteD 1025 1.52e+01 1hyuA 521 1.52e+01 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1qcsA 211 1.54e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 2cpl 165 1.55e+01 2cpl b.62.1.1 27420 1cwoA 165 1.63e+01 2cpl b.62.1.1 27445 1bndA 119 1.66e+01 1bndA g.17.1.3 44793 2std 172 1.67e+01 3stdA d.17.4.1 38085 1plq 258 1.70e+01 1plq d.131.1.2 41388 d.131.1.2 41389 2minB 522 1.72e+01 1qguB c.92.2.3 35610 3minB 522 1.75e+01 1qguB c.92.2.3 35606 2gsaA 432 1.75e+01 2gsaA c.67.1.4 34446 1b8kA 119 1.77e+01 1bndA g.17.1.3 44795 1taq 832 1.78e+01 1taq a.60.7.1 18082 c.53.1.2 33352 c.55.3.5 33698 e.8.1.1 42991 1svr 114 1.79e+01 1svy d.109.1.1 40833 1gthB 1025 1.79e+01 1gt8D 1025 1.79e+01 1vaoA 560 1.80e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 1ej2A 181 1.83e+01 1f9aA c.26.1.3 59414 1gt8B 1025 1.85e+01 1awqA 164 1.88e+01 2cpl b.62.1.1 27461 1hqsA 423 1.88e+01 1iso c.77.1.1 61154 1fggA 261 1.90e+01 1fggA c.68.1.7 34576 1ha1 184 1.93e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1cvjB 190 1.93e+01 1cvjB d.58.7.1 39193 d.58.7.1 39194 1awsA 164 1.95e+01 2cpl b.62.1.1 27431 2dorA 311 1.97e+01 2dorA c.1.4.1 28593 1an9A 340 2.00e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1gt8A 1025 2.02e+01 1dar 691 2.06e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1b34B 118 2.07e+01 1b34B b.38.1.1 24797 1a0i 348 2.07e+01 1a0i b.40.4.6 25363 d.142.2.1 41577 1b7bA 310 2.08e+01 1b7bA c.73.1.1 34963 1eq6A 189 2.08e+01 1eq6A d.107.1.1 40796 1kwsA 261 2.09e+01 1gtmA 419 2.11e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1f75A 249 2.12e+01 1f75A c.101.1.1 59662 1an7A 136 2.14e+01 1seiA d.140.1.1 41465 4rnpA 883 2.15e+01 1cezA e.8.1.3 43113 1bo1A 416 2.16e+01 1bo1A d.143.1.2 41591 1qaxA 428 2.16e+01 1qaxA d.58.20.1 39376 d.179.1.1 42597 1thm 279 2.17e+01 1gci c.41.1.1 32544 1juk 248 2.19e+01 1a53 c.1.2.4 28567 3stdA 165 2.20e+01 3stdA d.17.4.1 38073 1igs 248 2.22e+01 1a53 c.1.2.4 28565 1s01 283 2.23e+01 1gci c.41.1.1 32511 1k1tA 99 2.24e+01 1jnyA 435 2.25e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1as4A 341 2.27e+01 1sek e.1.1.1 42623 1gpl 432 2.27e+01 1gpl b.12.1.2 23645 c.69.1.19 34793 1g8mA 593 2.27e+01 1g8mA c.24.1.3 60371 c.97.2.1 60372 1ck7A 631 2.30e+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 1a53 247 2.35e+01 1a53 c.1.2.4 28564 1i1iP 681 2.40e+01 1i1iP d.92.1.5 40297 1im5A 180 2.42e+01 c.33.1.2 66211 1aa8A 347 2.42e+01 1an9A c.4.1.2 30619 d.16.1.3 37906 1tahB 318 2.44e+01 1cvl c.69.1.18 34774 1gr8A 412 2.44e+01 1h7eA 245 2.46e+01 c.68.1.13 60717 1g0oA 283 2.47e+01 1ybvA c.2.1.2 60181 1bdyA 123 2.47e+01 1bdyA b.7.1.1 23190 1qcwA 410 2.51e+01 1gox c.1.4.1 28622 1molA 94 2.51e+01 1molA d.17.1.1 37988 1tahA 318 2.53e+01 1cvl c.69.1.18 34775 1i50B 1224 2.55e+01 e.29.1.2 61755 1h7zA 194 2.56e+01 1qhvA b.21.1.1 60733 1a62 130 2.58e+01 1a62 a.140.3.1 64708 b.40.4.5 64709 1hrdA 449 2.61e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1try 224 2.63e+01 5ptp b.47.1.2 26017 5hvpA 99 2.63e+01 1fmb b.50.1.1 26605 1c4kA 730 2.65e+01 1ordA c.23.7.1 31273 c.67.1.5 34502 d.125.1.1 41123 3dapA 320 2.67e+01 1dapA c.2.1.3 30051 d.81.1.3 39966 1sesA 421 2.69e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1qq4A 198 2.70e+01 1qq4A b.47.1.1 25768 1qk4A 233 2.74e+01 1qk3A c.61.1.1 34037 1plr 258 2.76e+01 1plq d.131.1.2 41390 d.131.1.2 41391 1p04A 198 2.77e+01 1qq4A b.47.1.1 25805 2alp 198 2.78e+01 1qq4A b.47.1.1 25772 1jmvA 141 2.81e+01 c.29.1.2 66897 1jb7B 260 2.84e+01 1otcB b.40.4.3 62839 1wetA 340 2.84e+01 1qpzA a.35.1.5 17093 c.93.1.1 35670 1dkuA 317 2.85e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1idk 359 2.94e+01 1qcxA b.80.1.2 28025 1ja9A 274 2.94e+01 c.2.1.2 62817 1pfkA 320 2.95e+01 3pfk c.89.1.1 35575 1iscA 192 2.97e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1isaA 192 3.03e+01 1avmA a.2.11.1 15731 d.44.1.1 38724 1hi9A 274 3.04e+01 1hi9A c.99.1.1 61063 1dywA 173 3.05e+01 2cpl b.62.1.1 27505 1cvl 319 3.06e+01 1cvl c.69.1.18 34786 1hzmA 154 3.09e+01 c.46.1.1 65975 1qltA 560 3.12e+01 1qltA d.58.32.1 39457 d.145.1.1 41720 1zfjA 491 3.12e+01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1j7lA 264 3.12e+01 d.144.1.6 62697 1smd 496 3.13e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1f0cA 305 3.14e+01 1c8oA e.1.1.1 42676 1svq 114 3.18e+01 1svy d.109.1.1 40832 1f3lA 321 3.18e+01 1g6q2 c.66.1.6 59630 1hkcA 917 3.20e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1jmtA 104 3.23e+01 d.58.7.3 63180 1fcbA 511 3.31e+01 1gox c.1.4.1 28620 d.120.1.1 41087 1rsy 152 3.33e+01 1rsy b.7.1.2 23192 1j7iA 264 3.35e+01 1j7iA d.144.1.6 62694 1uteA 313 3.35e+01 1uteA d.159.1.1 42078 1svy 114 3.36e+01 1svy d.109.1.1 40831 1f9mA 112 3.37e+01 1erv c.47.1.1 32736 1dioA 554 3.38e+01 1dioA c.1.19.3 29656 1g8yA 279 3.39e+01 1g8yA c.37.1.11 32302 1faaA 124 3.40e+01 1erv c.47.1.1 32738 1jae 471 3.41e+01 1smd b.71.1.1 27773 c.1.8.1 28760 1f60A 458 3.42e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1kzkA 99 3.42e+01 1qpzA 340 3.42e+01 1qpzA a.35.1.5 17097 c.93.1.1 35673 1eexA 554 3.45e+01 1dioA c.1.19.3 29650 1gnd 447 3.46e+01 1gnd c.3.1.3 30423 d.16.1.6 37987 1gqwA 283 3.46e+01 1qoiA 177 3.51e+01 2cpl b.62.1.1 27490 1ef1A 294 3.53e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1bawA 105 3.60e+01 1plc b.6.1.1 22868 1ghhA 81 3.62e+01 1ghhA d.57.1.1 38940 1ecsA 126 3.69e+01 1ecsA d.32.1.2 59407 1i9zA 347 3.69e+01 1i9yA d.151.1.2 62102 1b7fA 168 3.72e+01 1b7fA d.58.7.1 39169 d.58.7.1 39170 1std 172 3.73e+01 3stdA d.17.4.1 38089 1mngA 203 3.75e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1qhqA 140 3.76e+01 1qhqA b.6.1.1 63326 1i9yA 347 3.81e+01 1i9yA d.151.1.2 62101 1difA 99 3.82e+01 1fmb b.50.1.1 26503 1fxlA 167 3.83e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1ewjA 126 3.88e+01 1ecsA d.32.1.2 59526 1bib 321 3.89e+01 1bia a.4.5.1 16084 b.34.1.1 24448 d.104.1.2 40788 1jqiA 388 3.89e+01 a.29.3.1 67087 e.6.1.1 67088 1iknA 286 3.90e+01 1a3qA b.1.1.5 21936 b.2.5.1 22449 1g6q2 328 3.94e+01 1g6q2