# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1g79A 218 3.57e-36 1ci0A b.45.1.1 25752 1dnlA 199 5.66e-36 1ci0A b.45.1.1 25753 1nrgA 261 6.08e-30 b.45.1.1 80694 1t9mA 214 1.44e-25 1ci0A 228 1.04e-24 1ci0A b.45.1.1 25750 1ty9A 222 2.06e-24 1rfeA 162 1.37e-13 2fhqA 141 1.59e-13 1vl7A 157 1.81e-09 b.45.1.1 108732 2fg9A 178 3.65e-09 2asfA 137 3.98e-08 2aq6A 147 6.04e-08 1w9aA 147 6.66e-08 1xxoA 147 1.28e-07 2arzA 247 1.57e-05 2furA 209 1.80e-05 1xhnA 184 6.98e-05 1flmA 122 8.32e-04 1axj b.45.1.1 25747 1axj 122 9.05e-04 1axj b.45.1.1 25749 1w3oA 216 1.39e-03 1ejeA 192 3.27e-02 1ejeA b.45.1.2 25757 1m1hA 248 1.38e-01 b.114.1.1,d.58.42.1 78415,78416 1nar 290 5.56e-01 1nar c.1.8.5 28988 1wcdJ 441 1.19e+00 1g0uE 234 1.27e+00 d.153.1.4 41950 1jdqA 98 1.69e+00 d.68.3.3 66559 2bgiA 272 1.71e+00 1ygtA 111 2.95e+00 1y4tA 322 3.18e+00 1qp2A 70 3.25e+00 1pse b.34.4.2 24596 1r2zA 274 3.25e+00 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1l1zA 274 3.28e+00 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1qba 858 3.44e+00 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21810,22406,29009,40408 1ywxA 102 3.46e+00 1ujmA 342 3.61e+00 1a7j 290 4.16e+00 1a7j c.37.1.6 31952 1v6fA 151 4.28e+00 d.109.1.2 108395 1c7sA 858 4.37e+00 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1td5A 202 4.43e+00 d.110.2.2 106767 1cauB 184 4.98e+00 1caxB b.82.1.2 28103 1k68A 140 4.98e+00 c.23.1.1 90943 1y1pA 342 5.01e+00 1vkkA 154 5.83e+00 d.109.1.2 108669 2bh8A 101 5.84e+00 1zt3A 80 7.30e+00 1b7yA 350 7.38e+00 1pysA d.104.1.1 40776 1p9bA 442 7.92e+00 c.37.1.10 94385 2ag5A 246 8.11e+00 1pysA 350 8.14e+00 1pysA d.104.1.1 40775 2f15A 96 9.31e+00 2bgzA 299 9.51e+00 1pyaB 228 1.00e+01 1pyaB 1ibvB 229 1.02e+01 2fp8A 322 1.02e+01 1wj9A 211 1.03e+01 1wlgA 299 1.03e+01 1ryp2 233 1.05e+01 1ryp2 1a1aA 107 1.06e+01 1fmk d.93.1.1 40449 1widA 130 1.07e+01 1d8hA 311 1.08e+01 1d8iA d.63.1.1 39544 2f6kA 307 1.10e+01 1d2dA 59 1.14e+01 1r1bA a.16.1.3 16397 1r1bA 59 1.14e+01 1r1bA a.16.1.3 16396 2a6sA 84 1.16e+01 1m40A 263 1.16e+01 e.3.1.1 74437 1fqgA 263 1.17e+01 1btl e.3.1.1 42699 1btl 263 1.17e+01 1btl e.3.1.1 42691 1ermA 263 1.17e+01 1btl e.3.1.1 42690 1nmeA 146 1.20e+01 c.17.1.1 85874 1prs 173 1.20e+01 1prs b.11.1.1,b.11.1.1 23625,23626 1hyhA 309 1.22e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1hwwA 1015 1.25e+01 a.8.3.1,b.30.5.6,c.6.2.1 83067,83068,83069 1qwnA 1045 1.25e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1hxkA 1015 1.26e+01 a.8.3.1,b.30.5.6,c.6.2.1 83070,83071,83072 1htyA 1015 1.26e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 1bcpC 199 1.28e+01 1bcpB b.40.2.1,d.169.1.2 25121,42430 1ubdC 124 1.33e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1,g.37.1.1 45053,45054,45055,45056 1bax 94 1.34e+01 1bax a.61.1.3 18133 1ut7A 171 1.34e+01 b.143.1.1 99906 1pauA 147 1.35e+01 1pauA c.17.1.1 30994 2ddrA 306 1.37e+01 1mjc 69 1.38e+01 1mjc b.40.4.5 25319 1vc1A 110 1.43e+01 c.13.2.1 108493 1prr 173 1.57e+01 1prs b.11.1.1,b.11.1.1 23623,23624 1sacA 204 1.58e+01 1sacA b.29.1.5 24237 1j5yA 187 1.61e+01 a.4.5.1,d.94.2.1 71592,71593 1si6X 282 1.66e+01 1y21A 282 1.72e+01 1ntfA 282 1.75e+01 d.151.1.2 92104 1pse 69 1.81e+01 1pse b.34.4.2 24595 1ewqA 765 1.82e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 2ebn 289 1.82e+01 2ebn c.1.8.5 28990 1zkpA 268 1.83e+01 2a1fA 247 1.91e+01 1d8iA 311 1.92e+01 1d8iA d.63.1.1 39541 1ye8A 178 1.94e+01 1d2fA 390 1.99e+01 1d2fA c.67.1.3 34411 1at0 145 1.99e+01 1at0 b.86.1.1 28374 1qfjA 232 2.00e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 1dgrN 79 2.05e+01 1caxB 2evwX 166 2.06e+01 1zx5A 300 2.09e+01 1q3iA 214 2.12e+01 d.220.1.1 104524 1dgrV 79 2.14e+01 1caxB b.82.1.2 28099 2c60A 111 2.15e+01 1caxB 184 2.22e+01 1caxB b.82.1.2 28105 1o4rA 108 2.46e+01 d.93.1.1 92469 1wb9A 800 2.48e+01 1vlyA 338 2.58e+01 b.44.2.1,d.250.1.1 108871,108872 2f9dA 125 2.60e+01 2bwrA 401 2.63e+01 1oz9A 150 2.66e+01 d.92.1.15 93808 1shdA 107 2.71e+01 1fmk d.93.1.1 40440 1f0iA 504 2.74e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1v0wA 506 2.75e+01 d.136.1.2,d.136.1.2 108220,108221 1am2 199 2.80e+01 1am2 b.86.1.2 28381 1cawB 184 2.87e+01 1caxB b.82.1.2 28113 2bitX 165 2.92e+01 1rypE 242 3.10e+01 1rypE d.153.1.4 41936 3mefA 69 3.11e+01 1mjc b.40.4.5 25320 1qcxA 359 3.26e+01 1qcxA b.80.1.2 28028 1d02A 202 3.30e+01 1d02A c.52.1.8 33313 1uf2C 421 3.38e+01 a.115.1.3,b.19.1.1 99291,99292 1nrkA 328 3.39e+01 b.44.2.1,d.250.1.1 92089,92090 1tr8A 102 3.40e+01 1aquA 297 3.42e+01 1aquA c.37.1.5 31942 1x88A 359 3.56e+01 1w0pA 781 3.66e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1rm6A 769 3.71e+01 1gnwA 211 3.85e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1rz3A 201 3.94e+01 c.37.1.6 98132 1ollA 188 3.95e+01 b.1.1.4,b.1.1.4 93313,93314 1jyoE 105 3.99e+01 d.184.1.2 67487 1shaA 104 4.00e+01 1fmk d.93.1.1 40424 1ei1A 391 4.03e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1h7zA 194 4.05e+01 1qhvA b.21.1.1 60733 1rypF 233 4.08e+01 1rypF d.153.1.4 41937 1npsA 88 4.09e+01 1prs b.11.1.1 23622 1a0rB 340 4.10e+01 1tbgA b.69.4.1 27658 1shbA 104 4.16e+01 1fmk d.93.1.1 40425 1kit 757 4.18e+01 1kit b.29.1.8,b.29.1.8,b.68.1.1 24272,24273,27616 1hxn 219 4.25e+01 1hxn b.66.1.1 27529 1j5kA 89 4.29e+01 d.51.1.1 71565 1ywsA 82 4.30e+01 1zc1A 208 4.39e+01 1aotF 106 4.44e+01 1lckA d.93.1.1 40458 1f2fA 104 4.47e+01 1fmk d.93.1.1 40455 1ivd 388 4.48e+01 2qwc b.68.1.1 27568 1rocA 155 4.71e+01 b.1.22.1 97673 1aazA 87 4.78e+01 1aba c.47.1.1 32761 1xdfA 157 4.82e+01 1g0u1 266 4.82e+01 1t8tA 271 4.82e+01 c.37.1.5 106685 1enxA 190 4.84e+01 1axkA b.29.1.11 24325 2ghrA 302 4.90e+01 1v25A 541 4.94e+01 e.23.1.1 108275 2avtA 378 4.94e+01 1b8aA 438 4.99e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1xypA 190 5.00e+01 1axkA b.29.1.11 24327 2fvgA 340 5.03e+01 1b04A 318 5.05e+01 1b04A d.142.2.2 41579 1ln1A 214 5.11e+01 d.129.3.2 74038 1ihjA 98 5.17e+01 1pdr b.36.1.1 62382 1fmk 452 5.22e+01 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24511,40436,41690 1wi1A 126 5.26e+01 2c3nA 247 5.28e+01 1aba 87 5.31e+01 1aba c.47.1.1 32760 1ockA 412 5.37e+01 c.117.1.1 86802 1rypA 243 5.51e+01 1pmaA d.153.1.4 41932 1pbyA 489 5.57e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 2cwpA 112 5.62e+01 1suuA 312 5.66e+01 b.68.10.1 99006 1cp3A 277 5.67e+01 1pauA c.17.1.1 30992 1g0uG 252 5.74e+01 d.153.1.4 41952 1mxgA 435 5.74e+01 b.71.1.1,c.1.8.1 85193,85194 1gxuA 91 5.79e+01 d.58.10.1 76378 1ay2 159 5.95e+01 2pil d.24.1.1 38377 2pil 159 6.03e+01 2pil d.24.1.1 38376 1r0wA 286 6.04e+01 c.37.1.12 96754 1qyaA 307 6.04e+01 d.21.1.2,d.21.1.2 104653,104654 1wsrA 375 6.07e+01 2eifA 136 6.14e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1ylnA 252 6.15e+01 1i3cA 149 6.23e+01 c.23.1.1 71112 1gm6A 175 6.24e+01 b.60.1.1 70272 1qrrA 394 6.27e+01 1qrrA c.2.1.2 29824 1bypA 99 6.28e+01 1plc b.6.1.1 22858 1s5jA 847 6.31e+01 1bkb 136 6.33e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 1jfmA 174 6.40e+01 d.19.1.1 66640 2bjdA 101 6.42e+01 1t77A 414 6.45e+01 1d1gA 168 6.47e+01 1d1gA c.71.1.1 34889 1wi6A 88 6.50e+01 1i24A 404 6.53e+01 c.2.1.2 83663 1cz3A 168 6.54e+01 1d1gA c.71.1.1 34891 1t8sA 484 6.64e+01 c.56.2.1 106679 1rl6A 177 6.68e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1ctqA 166 6.69e+01 1ctqA c.37.1.8 31965 1h5yA 253 6.71e+01 c.1.2.1 65638 1fofA 246 6.73e+01 1fofA e.3.1.1 42763 1bc8C 93 6.74e+01 1awcA a.4.5.21 16168 1tvjA 166 6.74e+01 1llwA 1520 6.82e+01 b.80.4.1,c.1.4.1,d.153.1.1 74017,74018,74019 1e3uA 246 6.83e+01 1fofA e.3.1.1 42755 1agp 166 6.86e+01 1ctqA c.37.1.8 31985 1k55A 246 6.87e+01 e.3.1.1 68156 2ffeA 311 6.89e+01 1wlyA 333 6.92e+01 1ukvG 453 6.92e+01 c.3.1.3,c.3.1.3,d.16.1.6 107915,107916,107917 2c07A 285 6.93e+01 1txyA 104 6.94e+01 1wcqA 601 6.94e+01 1azwA 313 6.96e+01 1qtrA c.69.1.7 34658 1tplA 426 6.96e+01 1ax4A c.67.1.2 34387 1di2A 69 6.97e+01 1di2A d.50.1.1 38780 1w3fA 315 7.02e+01 1tdzA 272 7.04e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1vdnA 162 7.19e+01 1xhfA 123 7.24e+01 1eujA 166 7.37e+01 1eujA b.40.4.4 25316 1msaA 109 7.44e+01 1b2pA b.78.1.1 27987 1mwsA 646 7.44e+01 d.17.4.5,d.175.1.1,e.3.1.1 79592,79593,79594 1ga0A 364 7.49e+01 1gceA e.3.1.1 60410 1rgzA 363 7.51e+01 e.3.1.1 97457 1oflA 481 7.54e+01 b.80.1.4 103934 1zybA 232 7.58e+01 1h30A 422 7.67e+01 b.29.1.4,b.29.1.4 76604,76605 2gukA 120 7.69e+01 1onhA 364 7.70e+01 e.3.1.1 93357 1h3fA 432 7.74e+01 c.26.1.1,d.66.1.4 76631,76632 1c7gA 456 7.75e+01 c.67.1.2 90415 1fvaA 217 7.77e+01 1fvaA d.58.28.1 39409 2axoA 270 7.78e+01 1r17A 343 7.82e+01 b.2.3.4,b.2.3.4 96796,96797 1ewxA 146 7.82e+01 1ewxA c.47.1.10 33062 2atfA 200 7.82e+01 1qk8A 146 7.84e+01 1ewxA c.47.1.10 33061 1dzrA 183 7.86e+01 1dzrA b.82.1.1 28076 8ohm 435 7.89e+01 1heiA c.37.1.14,c.37.1.14 32469,32470 1dgwX 79 7.90e+01 1caxB b.82.1.2 28091 1fvgA 199 8.14e+01 1fvaA d.58.28.1 39408 2bltA 361 8.16e+01 1gceA e.3.1.1 42739 1gk8I 140 8.28e+01 d.73.1.1 65242 1wd6A 123 8.29e+01 1drw 273 8.36e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1dih 273 8.46e+01 1drw c.2.1.3,d.81.1.3 30056,39971 1vljA 407 8.54e+01 e.22.1.2 108832 1gceA 364 8.74e+01 1gceA e.3.1.1 42738 1rfbA 119 8.74e+01 1d9cA a.26.1.3 16905 2asbA 251 8.89e+01 1pgvA 197 8.94e+01 c.10.1.1 88073