# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-scores 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 1w1kA 560 1.64e-02 1e8gA 560 3.44e-02 1qltA d.58.32.1 39455 d.145.1.1 41718 1vaoA 560 4.84e-02 1qltA d.58.32.1 39461 d.145.1.1 41724 1qltA 560 9.96e-02 1qltA d.58.32.1 39457 d.145.1.1 41720 1souA 194 7.64e-01 1rlr 761 1.60e+00 1rlr a.98.1.1 18753 c.7.1.2 30679 1gz2A 142 1.67e+00 d.169.1.1 83392 1hi9A 274 1.67e+00 1hi9A c.99.1.1 61063 1kuxA 207 1.94e+00 d.108.1.1 73021 1cjwA 166 2.33e+00 1cjwA d.108.1.1 40818 1r89A 437 2.35e+00 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1p27B 106 2.44e+00 d.58.7.1 -10020 1jj2L 194 2.76e+00 1ffkI d.12.1.2 63097 1ml4A 308 2.93e+00 c.78.1.1 79255 c.78.1.1 79256 1ffkS 70 2.95e+00 1ffkS a.2.2.1 15692 1g24A 211 3.05e+00 1g24A d.166.1.1 42270 1j6wA 175 3.10e+00 1j98A d.185.1.2 62663 1oo0B 110 3.23e+00 d.58.7.1 87183 1nbaA 264 3.30e+00 1nbaA unknown_sccs 31753 1i5gA 144 3.35e+00 1ewxA c.47.1.10 61784 1s72M 194 3.49e+00 1vizA 240 3.63e+00 c.1.4.1 -5212 1c0aA 585 3.71e+00 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1o6jA 150 3.83e+00 c.47.1.10 81089 1s72V 71 4.12e+00 1pal 108 4.29e+00 1a75A a.39.1.4 17209 1rpl 251 4.60e+00 1bpyA a.60.12.1 75933 d.218.1.2 75934 1bpb 248 4.78e+00 1bpyA a.60.12.1 75811 d.218.1.2 75812 1jj2U 70 4.82e+00 1ffkS a.2.2.1 63106 1ur1A 378 4.89e+00 c.1.8.3 -5311 1tvlA 454 5.85e+00 1hl6A 165 6.05e+00 d.58.7.1 83609 1bpyA 335 6.07e+00 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1i4nA 251 6.08e+00 c.1.2.4 71114 1b54 257 6.12e+00 1ct5A c.1.6.2 28664 1rlkA 117 6.37e+00 unknown_sccs -7526 1edzA 320 6.39e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 1lay 256 6.45e+00 1lay b.57.1.1 27014 1f0yA 302 6.56e+00 2hdhA a.100.1.3 18793 c.2.1.6 30197 1dbtA 239 6.76e+00 1dbtA c.1.2.3 28539 1nom 248 6.78e+00 1bpyA a.60.12.1 75929 d.218.1.2 75930 1wpoB 256 6.98e+00 1lay b.57.1.1 27013 2pvbA 107 7.42e+00 1a75A a.39.1.4 17205 1senA 164 7.60e+00 1914 232 8.15e+00 1914 d.49.1.1 83028 d.49.1.1 83029 1n0uA 842 8.38e+00 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1m2oA 768 9.09e+00 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1qyaA 307 9.15e+00 1bowA 159 9.64e+00 1bowA d.60.1.1 39528 1p99A 295 1.03e+01 c.94.1.1 -8697 1rro 108 1.04e+01 1a75A a.39.1.4 17195 1lrzA 426 1.08e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1ap8 213 1.09e+01 1ap8 d.86.1.1 40151 1qs2A 401 1.12e+01 1qs1A d.166.1.1 42268 d.166.1.1 42269 1m4jA 142 1.15e+01 d.109.1.2 78602 1i1qA 520 1.18e+01 1qdlA d.161.1.1 61543 1ct5A 256 1.18e+01 1ct5A c.1.6.2 28663 1iawA 317 1.19e+01 c.52.1.9 62126 1qs1A 462 1.23e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1r13A 148 1.28e+01 d.169.1.1 -11646 h.1.1.1 -12895 1uuqA 440 1.32e+01 c.1.8.3 -5321 1i0lA 221 1.33e+01 c.61.1.1 71096 2olbA 517 1.36e+01 1jevA c.94.1.1 35721 1l8qA 324 1.38e+01 a.4.12.2 77809 c.37.1.20 77810 2hdhA 293 1.40e+01 2hdhA a.100.1.3 18795 c.2.1.6 30199 1sz9A 144 1.40e+01 1uetA 437 1.44e+01 unknown_sccs -1144 unknown_sccs -9798 unknown_sccs -10058 1sbp 310 1.45e+01 1sbp c.94.1.1 35760 1iq4A 179 1.47e+01 1iq4A d.77.1.1 62641 1ejhA 190 1.48e+01 1ejhA d.86.1.1 40147 1j98A 157 1.49e+01 1j98A d.185.1.2 62755 1o8xA 146 1.50e+01 c.47.1.10 86681 1kekA 1231 1.54e+01 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1atg 231 1.55e+01 1atg c.94.1.1 35834 1b8zA 90 1.64e+01 1huuA a.55.1.1 17902 1ewxA 146 1.65e+01 1ewxA c.47.1.10 33062 1a1s 314 1.67e+01 1othA c.78.1.1 35258 c.78.1.1 35259 1josA 128 1.67e+01 d.52.7.1 84191 1n82A 331 1.68e+01 c.1.8.3 -5306 1uj2A 252 1.71e+01 c.37.1.6 -7061 1ipcA 217 1.76e+01 d.86.1.1 71257 1ev7B 317 1.79e+01 1ev7B c.52.1.9 33316 1jayA 212 1.79e+01 c.2.1.6 66478 1o0pA 104 1.86e+01 d.58.7.1 86535 1sedA 117 1.93e+01 1p9vA 310 1.99e+01 1sdjA 310 1.99e+01 d.21.1.2 -9420 d.21.1.2 -9421 4cpv 109 2.04e+01 1a75A a.39.1.4 17198 1qpzA 340 2.10e+01 1qpzA a.35.1.5 17097 c.93.1.1 35673 1m5sA 297 2.18e+01 d.58.33.1 74511 d.58.33.1 74512 1rlhA 173 2.20e+01 unknown_sccs -10786 1j7nA 776 2.23e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1o4uA 285 2.24e+01 c.1.17.1 86624 d.41.2.1 86625 1ig8A 486 2.26e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1o7kA 131 2.33e+01 d.189.1.1 81144 1pvaA 110 2.35e+01 1a75A a.39.1.4 17207 2ezl 99 2.36e+01 2ezk a.4.1.2 16026 1ow1A 195 2.37e+01 unknown_sccs -4422 1ev7A 317 2.37e+01 1ev7B c.52.1.9 33315 1wpoA 256 2.38e+01 1lay b.57.1.1 27012 1m41A 380 2.42e+01 c.1.16.4 78595 1te5A 257 2.43e+01 1fua 215 2.44e+01 2fua c.74.1.1 34973 1rk8A 165 2.48e+01 d.58.7.1 -10018 1b5tA 275 2.53e+01 1b5tA c.1.23.1 29676 1g8lA 411 2.57e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1cdp 109 2.62e+01 1a75A a.39.1.4 17197 1o6zA 303 2.69e+01 c.2.1.5 81107 d.162.1.1 81108 1nfp 228 2.71e+01 1nfp c.1.16.2 29555 1sk4A 163 2.75e+01 1ifqA 138 2.82e+01 1ifqA d.110.4.1 62350 1vg0A 650 2.83e+01 1i39A 225 2.84e+01 1ekeA c.55.3.1 61585 1at3A 247 2.87e+01 1at3A b.57.1.1 27021 1p65A 73 2.90e+01 unknown_sccs -10331 1eucA 311 2.90e+01 2scuA c.2.1.8 30311 c.23.4.1 31139 1rwyA 109 2.91e+01 a.39.1.4 -825 1ee9A 320 2.91e+01 1ee9A c.2.1.7 30288 c.58.1.2 33936 1k4nA 192 2.92e+01 d.32.1.5 72059 1g71A 347 2.93e+01 1g71A unknown_sccs 43268 1qasA 622 2.95e+01 1djxB a.39.1.7 17340 b.7.1.1 23157 c.1.18.1 29585 1hfc 169 2.95e+01 1hfc d.92.1.11 40335 2fua 215 2.97e+01 2fua c.74.1.1 34977 1nnfA 309 3.04e+01 c.94.1.1 85903 1v4vA 376 3.07e+01 c.87.1.3 -8583 1eudA 311 3.14e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1e5mA 416 3.16e+01 1dd8A c.95.1.1 58973 c.95.1.1 58974 1amuA 563 3.17e+01 1amuA e.23.1.1 43351 1wetA 340 3.34e+01 1qpzA a.35.1.5 17093 c.93.1.1 35670 1dcnD 436 3.49e+01 1auwA a.127.1.1 19423 1o5kA 306 3.50e+01 c.1.10.1 -5482 1ii7A 333 3.51e+01 1ii7A d.159.1.4 62415 1uanA 227 3.53e+01 unknown_sccs -8129 1sdoA 203 3.56e+01 unknown_sccs -7558 1kanA 253 3.58e+01 1knyA a.24.16.1 75878 d.218.1.1 75879 1mpyA 307 3.64e+01 1mpyA d.32.1.3 38508 d.32.1.3 38509 1uumA 372 3.67e+01 c.1.4.1 -5193 1nxiA 132 3.67e+01 d.58.47.1 86381 1qatB 622 3.68e+01 1djxB a.39.1.7 17355 b.7.1.1 23172 c.1.18.1 29600 2ay1A 394 3.69e+01 1ajsA c.67.1.1 34357 1hnnA 282 3.72e+01 c.66.1.15 65895 1oe4A 247 3.77e+01 c.18.1.3 86895 1eiwA 111 3.79e+01 1eiwA c.23.3.1 31130 1jetA 517 3.80e+01 1jevA c.94.1.1 35718 1ryp1 222 3.84e+01 1ryp1 1cqmA 101 3.87e+01 1ris d.58.14.1 39321 1djxB 624 3.87e+01 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1v33A 366 3.91e+01 unknown_sccs -11384 1uqrA 154 3.92e+01 c.23.13.1 -6455 1f76A 336 3.96e+01 c.1.4.1 76160 1fvuB 125 3.97e+01 1ixxB d.169.1.1 42346 2ezk 99 3.99e+01 2ezk a.4.1.2 16027