# 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 1b47A 304 9.87e-02 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 2cblA 305 1.20e-01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1g1eB 89 4.13e-01 1g1eB a.59.1.1 17931 1aisB 200 1.61e+00 1aisB a.74.1.2 18384 a.74.1.2 18385 1lvwA 295 2.00e+00 c.68.1.6 84723 1k5nA 276 2.01e+00 b.1.1.2 77266 d.19.1.1 77267 1hkhA 279 2.24e+00 c.69.1.12 -8342 1ehkC 33 2.36e+00 1ehkC f.23.9.1 43626 1v54J 59 2.60e+00 f.23.4.1 -12112 2occJ 59 2.66e+00 2occJ f.23.4.1 43524 1tkaA 678 2.90e+00 1trkA c.36.1.6 31816 c.36.1.10 31815 c.48.1.1 33096 1kaeA 434 2.95e+00 c.82.1.2 72247 1nozA 388 3.32e+00 1clqA c.55.3.5 33715 1gpuA 680 3.50e+00 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1trkA 680 3.54e+00 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 1mun 225 4.02e+00 1mun a.96.1.2 18744 1k75A 434 4.63e+00 c.82.1.2 68253 1keyA 235 4.96e+00 a.118.16.1 72389 1noyA 388 5.03e+00 1clqA c.55.3.5 33713 1muyA 225 5.23e+00 1mun a.96.1.2 18745 1ei9A 279 5.30e+00 1ei9A c.69.1.13 34713 1s9aA 257 5.73e+00 1b7bA 310 5.75e+00 1b7bA c.73.1.1 34963 1ekeA 230 5.96e+00 1ekeA c.55.3.1 33572 1ll7A 392 6.04e+00 c.1.8.5 78085 d.26.3.1 78086 1gr8A 412 6.12e+00 1ockA 412 6.12e+00 c.117.1.1 86802 1ehyA 294 6.31e+00 1ehyA c.69.1.11 34693 2cro 71 6.72e+00 1r69 a.35.1.2 17038 1jggA 60 7.19e+00 2hddA a.4.1.1 62950 1g4yR 148 7.21e+00 1cll a.39.1.5 60252 1aew 174 7.22e+00 2fha a.25.1.1 16676 1il6 185 7.23e+00 1alu a.26.1.1 16827 1e0cA 271 7.27e+00 1e0cA c.46.1.2 32717 c.46.1.2 32718 1top 162 7.33e+00 1ncx a.39.1.5 17223 1d2kA 392 7.51e+00 1d2kA c.1.8.5 29008 d.26.3.1 38442 1brt 277 7.62e+00 1brt c.69.1.12 34699 1dat 174 7.78e+00 2fha a.25.1.1 16677 1bgf 124 7.98e+00 1bgf a.90.1.1 18537 1b7eA 420 8.00e+00 1b7eA c.55.3.4 33680 1alu 186 8.14e+00 1alu a.26.1.1 16826 1gs5A 258 8.15e+00 c.73.1.2 70395 1broA 277 8.22e+00 1brt c.69.1.12 34700 1nubA 229 8.52e+00 1sra a.39.1.3 17191 g.3.11.3 44330 unknown_sccs 44715 1zug 71 8.64e+00 1r69 a.35.1.2 17041 1foeA 377 8.87e+00 1foeA a.87.1.1 18517 b.55.1.1 26969 1j1jA 240 9.43e+00 a.118.16.1 -1637 1j03A 102 9.63e+00 unknown_sccs -10954 1ithA 141 9.71e+00 1ithA a.1.1.2 15623 1cx4A 305 9.80e+00 b.82.3.2 59099 b.82.3.2 59100 1m1eB 81 9.82e+00 a.161.1.1 78400 1b72B 87 9.99e+00 1akhA a.4.1.1 16001 1dguA 183 1.05e+01 1dguA a.39.1.5 17333 1fzkA 274 1.05e+01 1agdA b.1.1.2 60149 d.19.1.1 60150 1ad6 185 1.06e+01 1guxA a.74.1.3 18390 1d3uB 201 1.10e+01 1aisB a.74.1.2 18386 a.74.1.2 18387 1ncx 162 1.13e+01 1ncx a.39.1.5 17222 2pvbA 107 1.14e+01 1a75A a.39.1.4 17205 1crl 534 1.15e+01 1thg c.69.1.17 34765 1kepA 348 1.15e+01 c.2.1.2 68536 2fha 183 1.16e+01 2fha a.25.1.1 16674 1jdqA 98 1.18e+01 d.68.3.3 66559 1ucpA 91 1.25e+01 unknown_sccs -1193 1e5eA 404 1.27e+01 1ibjA c.67.1.3 59265 1ca1 370 1.29e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1fha 183 1.30e+01 2fha a.25.1.1 16675 1b22A 114 1.31e+01 1b22A a.60.4.1 17969 1p7gA 222 1.31e+01 a.2.11.1 -108 d.44.1.1 -9742 1bvp1 349 1.31e+01 1bvp1 1dxrM 323 1.33e+01 6prcM f.26.1.1 43432 1ee8A 266 1.34e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1huxA 270 1.38e+01 1huxA c.55.1.5 61278 1ibvB 229 1.43e+01 1rxqA 178 1.45e+01 1oc2A 348 1.53e+01 c.2.1.2 -5753 1sv7A 109 1.53e+01 1od2A 805 1.54e+01 c.14.1.4 86821 c.14.1.4 86822 1kpuA 274 1.55e+01 b.1.1.2 84456 d.19.1.1 84457 1sra 151 1.56e+01 1sra a.39.1.3 17190 6prcM 323 1.56e+01 6prcM f.26.1.1 43435 1bxlA 181 1.58e+01 1maz f.1.4.1 43396 1dioB 224 1.58e+01 1dioB c.51.3.1 33219 1eexB 224 1.59e+01 1dioB c.51.3.1 33213 1ac5 483 1.60e+01 1ac5 c.69.1.5 34653 1pq1B 33 1.61e+01 1lbeA 258 1.62e+01 1lbeA e.4.1.1 42773 1lk2A 274 1.68e+01 b.1.1.2 -2610 d.19.1.1 -9365 1fzoA 274 1.69e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1fpoA 171 1.69e+01 1fpoA a.2.3.1 15693 a.23.1.1 16487 1agdA 276 1.69e+01 1agdA b.1.1.2 20741 d.19.1.1 38260 1p65A 73 1.70e+01 unknown_sccs -10331 1pyaB 228 1.72e+01 1pyaB 1e9lA 377 1.72e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 1lvfA 110 1.73e+01 a.47.2.1 74280 1ax4A 467 1.78e+01 1ax4A c.67.1.2 34391 1qddA 144 1.79e+01 1qddA d.169.1.1 42324 1jkw 323 1.79e+01 1jkw a.74.1.1 18356 a.74.1.1 18357 1pal 108 1.81e+01 1a75A a.39.1.4 17209 1g7pA 274 1.83e+01 b.1.1.2 70153 d.19.1.1 70154 1rprA 63 1.85e+01 1nkd a.30.1.1 16989 1ggwA 140 1.85e+01 1ggwA a.39.1.5 60490 1pufA 77 1.85e+01 a.4.1.1 -191 1aj8A 371 1.87e+01 1aj8A a.103.1.1 18900 1izmA 184 1.94e+01 unknown_sccs -1233 1tph1 247 2.06e+01 1amk 1pprM 312 2.06e+01 1pprM a.131.1.1 19502 a.131.1.1 19503 1kv9A 668 2.07e+01 a.3.1.6 73056 b.70.1.1 73057 1pufB 73 2.10e+01 a.4.1.1 -192 1ijyA 130 2.16e+01 1ijxA a.141.1.1 62517 1dd3A 128 2.20e+01 1dd3C a.108.1.1 19031 d.45.1.1 38760 1odoA 408 2.23e+01 a.104.1.1 -1463 1rl4A 188 2.29e+01 d.167.1.1 -11593 1v54C 261 2.34e+01 f.25.1.1 -12239 1neyA 247 2.36e+01 c.1.1.1 80449 1b79A 119 2.38e+01 1b79A a.81.1.1 18451 1f46A 140 2.38e+01 1f46A d.129.4.1 59643 1f5xA 208 2.39e+01 1f5xA a.87.1.1 18516 1h8aC 128 2.39e+01 a.4.1.3 65731 a.4.1.3 65732 1g7oA 215 2.41e+01 1g7oA a.45.1.1 60332 c.47.1.5 60333 1us7B 265 2.42e+01 unknown_sccs -1518 1lit 144 2.42e+01 1qddA d.169.1.1 42325 1sqgA 429 2.49e+01 1f7wA 144 2.49e+01 1f46A d.129.4.1 59679 1t0gA 109 2.50e+01 unknown_sccs -10955 1ui7A 638 2.54e+01 b.30.2.1 -3523 d.17.2.1 -9268 d.17.2.1 -9269 1h96A 182 2.57e+01 2fha a.25.1.1 60811 1lb3A 182 2.57e+01 a.25.1.1 77873 1thg 544 2.59e+01 1thg c.69.1.17 34763 1e3dB 542 2.67e+01 1h2rL e.18.1.1 59189 2occC 261 2.68e+01 1ocrC f.25.1.1 43520 1ui8A 638 2.70e+01 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 1ivwA 638 2.71e+01 b.30.2.1 71456 d.17.2.1 71457 d.17.2.1 71458 1r12A 258 2.73e+01 e.4.1.1 -11807 1q8iA 783 2.74e+01 c.55.3.5 -7635 e.8.1.1 -11885 1a6m 151 2.75e+01 1a6m a.1.1.2 15018 1pioA 257 2.76e+01 1btl e.3.1.1 42719 1j30A 144 2.77e+01 a.25.1.1 -650 1i45A 248 2.80e+01 1amk c.1.1.1 61665 1g8iA 190 2.80e+01 1rec a.39.1.5 60363 1rylA 167 2.83e+01 1bxsA 501 2.83e+01 1bpwA c.82.1.1 35357 1ng1 294 2.83e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1n55A 251 2.85e+01 c.1.1.1 80007 1oivA 191 2.86e+01 c.37.1.8 -7074 2udpA 338 2.87e+01 1xel c.2.1.2 29791 1ocrC 261 2.87e+01 1ocrC f.25.1.1 43540 1udc 338 2.87e+01 1xel c.2.1.2 29785 1jpnA 296 2.94e+01 a.24.13.1 67039 c.37.1.10 67040 1pq1A 196 2.94e+01 f.1.4.1 -12055 1v54M 46 2.95e+01 f.23.7.1 -12124 1jo0A 98 2.96e+01 d.68.4.1 77140 1hvbA 349 2.99e+01 3pte e.3.1.1 42686 2spo 154 2.99e+01 1a6m a.1.1.2 15053 1fpzA 212 3.02e+01 1fpzA c.45.1.1 59976 1oe9A 795 3.03e+01 b.34.3.1 -3581 c.37.1.9 -7103 3pte 349 3.03e+01 3pte e.3.1.1 42687 1i39A 225 3.04e+01 1ekeA c.55.3.1 61585 1mplA 349 3.05e+01 e.3.1.1 79387 1jf2A 195 3.09e+01 1ej3A a.39.1.5 62930 1ls1A 295 3.11e+01 a.24.13.1 78170 c.37.1.10 78171 1f47B 144 3.11e+01 1f46A d.129.4.1 59645 1dk8A 147 3.11e+01 1agrE a.91.1.1 18548 1rpo 65 3.17e+01 1nkd a.30.1.1 16975 1k8kE 178 3.19e+01 a.148.1.1 68311 1r2rA 248 3.23e+01 c.1.1.1 -5147 2ng1 293 3.23e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1r4pA 297 3.25e+01 d.165.1.2 -11560 1bak 119 3.27e+01 1bak b.55.1.1 26973 1pwgA 349 3.27e+01 1musA 477 3.29e+01 c.55.3.4 79494 1ln4A 104 3.33e+01 d.68.4.1 74043 1alq 266 3.33e+01 1btl e.3.1.1 42707 1elkA 157 3.34e+01 1dvpA a.118.9.2 19217 1amk 251 3.34e+01 1amk c.1.1.1 28503 1q2wA 308 3.39e+01 b.47.1.4 88355 7timA 247 3.41e+01 1amk c.1.1.1 28457 3blm 257 3.43e+01 1btl e.3.1.1 42709 1fx4A 231 3.45e+01 1fx2A d.58.29.1 39431 1aje 194 3.46e+01 1ctqA c.37.1.8 32071 1mbd 153 3.47e+01 1a6m a.1.1.2 15033 1bupA 386 3.53e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 2plc 274 3.54e+01 2plc c.1.18.2 29614 1rmi 160 3.62e+01 1ifa a.26.1.3 16891 1afwA 393 3.67e+01 1afwA c.95.1.1 35900 c.95.1.1 35901 1duzA 275 3.71e+01 1agdA b.1.1.2 20670 d.19.1.1 38224 2btvA 901 3.73e+01 2btvA e.28.1.1 43376 1b37A 472 3.73e+01 1b37B c.3.1.2 30389 d.16.1.5 37953 1hybA 181 3.78e+01 1f9aA c.26.1.3 61399 1jssA 224 3.78e+01 d.129.3.2 71844 1i50A 1733 3.78e+01 e.29.1.2 61754 1qcrF 103 3.85e+01 1be3F f.27.1.1 43676 1bzpA 153 3.88e+01 1a6m a.1.1.2 15020 1esmA 316 3.94e+01 1esmA c.37.1.6 31953