# List of top-scoring protein chains for t04-100-30-bys 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 1jx7A 117 5.08e-03 c.114.1.1 77195 1m32A 366 4.48e-02 c.67.1.3 78508 1npk 154 1.21e-01 1npk d.58.6.1 39099 1bia 321 2.03e-01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1d7yA 408 2.35e-01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1bcpB 199 2.78e-01 1bcpB b.40.2.1 25120 d.169.1.2 42429 1l1sA 113 3.38e-01 c.114.1.1 73484 1a2vA 655 1.02e+00 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1c0pA 363 1.14e+00 1an9A c.4.1.2 30647 d.16.1.3 37934 2viuA 328 1.50e+00 1hgeA b.19.1.2 23797 2pspA 106 1.77e+00 2pspA g.16.1.1 44730 g.16.1.1 44731 1jxhA 288 1.99e+00 c.72.1.2 67415 1ypcI 64 2.05e+00 2sniI d.40.1.1 38570 1smlA 269 2.06e+00 1smlA d.157.1.1 42053 1im5A 180 2.15e+00 unknown_sccs 66211 1g38A 393 2.22e+00 2admA c.66.1.27 60235 1j3mA 129 2.36e+00 1g6oA 330 2.39e+00 1g6oA c.37.1.11 32430 1hm6A 346 3.32e+00 1avc a.65.1.1 18147 1qyrA 252 3.53e+00 1zpdA 568 3.86e+00 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1jsmA 325 4.01e+00 b.19.1.2 63264 2reb 352 4.01e+00 2reb c.37.1.11 32282 d.48.1.1 38767 3psg 370 4.16e+00 1smrA b.50.1.2 26841 1hdfA 102 4.29e+00 1ag4 b.11.1.1 23627 1fukA 165 4.42e+00 1fukA c.37.1.19 32409 1tk9A 188 4.75e+00 1qycA 308 4.98e+00 c.2.1.2 -5782 1nykA 165 5.87e+00 b.33.1.1 86408 1s98A 107 5.92e+00 1s29A 92 6.12e+00 unknown_sccs -315 1bf6A 291 6.36e+00 1pscA c.1.9.3 29065 1fmtA 314 6.39e+00 1fmtA b.46.1.1 25758 c.65.1.1 34174 1hh1A 143 6.62e+00 1gefA c.52.1.18 61036 2his 312 6.86e+00 1taxA c.1.8.3 28918 1r6xA 395 6.89e+00 b.122.1.3 -5125 c.26.1.5 -6620 1fgkA 310 7.31e+00 1fgkA d.144.1.7 41693 1mj4A 82 7.45e+00 d.120.1.1 79189 1huqA 164 7.67e+00 1byuA c.37.1.8 32020 1g8fA 511 7.67e+00 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1m5q1 130 7.76e+00 1vj1A 363 7.85e+00 b.35.1.2 -3728 c.2.1.1 -5752 1fhdA 312 8.43e+00 1taxA c.1.8.3 28915 1r2qA 170 8.68e+00 c.37.1.8 -7071 1r6dA 337 9.04e+00 c.2.1.2 -5757 1fh9A 312 9.10e+00 1taxA c.1.8.3 28913 1fdr 248 9.17e+00 1fdr b.43.4.2 25653 c.25.1.1 31543 1lw6I 64 9.27e+00 d.40.1.1 74294 1t3cA 421 9.47e+00 1b77A 228 9.85e+00 1b77A d.131.1.2 41362 d.131.1.2 41363 1lu4A 136 1.08e+01 c.47.1.10 -7509 1jb9A 316 1.20e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 1rqpA 299 1.21e+01 unknown_sccs -4411 unknown_sccs -7908 1a8rA 221 1.21e+01 1a8rA d.96.1.1 40587 1gdoA 240 1.24e+01 1gdoA d.153.1.1 41804 1pkhA 204 1.25e+01 b.85.4.1 -5053 1qydA 313 1.27e+01 c.2.1.2 -5786 2sicI 107 1.28e+01 3ssi d.84.1.1 40031 1vkfA 188 1.31e+01 1exrA 148 1.32e+01 1cll a.39.1.5 17299 1ozhA 566 1.34e+01 c.31.1.3 -6737 c.36.1.5 -6895 c.36.1.9 -6935 1ri5A 298 1.37e+01 unknown_sccs -8063 1a8y 367 1.50e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1qr0A 228 1.51e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1apxA 249 1.58e+01 1ryc a.93.1.1 18669 1qzgA 187 1.59e+01 b.40.4.3 -3920 1h7eA 245 1.60e+01 c.68.1.13 60717 1fjrA 195 1.65e+01 1fjrA b.102.1.1 59855 1oe0A 230 1.71e+01 c.37.1.1 -6976 1np6A 174 1.74e+01 c.37.1.10 85954 1ek0A 170 1.77e+01 1ctqA c.37.1.8 32076 1nkxA 348 1.77e+01 c.94.1.2 -8704 1epxA 370 1.77e+01 1fbaA c.1.10.1 29150 1h10A 125 1.79e+01 b.55.1.1 83446 1ogdA 131 1.87e+01 unknown_sccs -8007 1top 162 1.96e+01 1ncx a.39.1.5 17223 1ne7A 289 2.00e+01 unknown_sccs -6858 1th8A 145 2.02e+01 1od5A 492 2.06e+01 b.82.1.2 86832 b.82.1.2 86833 1miwA 404 2.10e+01 a.173.1.1 79162 d.218.1.4 79163 1qzzA 374 2.10e+01 a.4.5.29 -277 c.66.1.12 -8045 1d9tA 289 2.12e+01 1deaA 1apyA 162 2.13e+01 1apyA d.153.1.5 42004 1a8vA 121 2.18e+01 1a62 a.140.3.1 64712 b.40.4.5 64713 1m1fA 110 2.20e+01 b.34.6.2 78401 1yasA 257 2.25e+01 1qj4A c.69.1.20 34801 1ass 159 2.25e+01 1a6dA c.8.5.2 30818 1ufkA 254 2.30e+01 unknown_sccs -8103 1iz5A 249 2.30e+01 d.131.1.2 83834 d.131.1.2 83835 1a8p 258 2.30e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1c44A 123 2.37e+01 1qndA d.106.1.1 40795 1r94A 118 2.39e+01 b.124.1.1 -4402 1ejeA 192 2.41e+01 1ejeA b.45.1.2 25757 1huuA 90 2.42e+01 1huuA a.55.1.1 17897 1xyzA 347 2.42e+01 1taxA c.1.8.3 28804 1pjvA 32 2.44e+01 g.3.7.2 -12458 1eu1A 780 2.47e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1f37A 110 2.49e+01 1f37A c.47.1.11 33088 1jj2W 91 2.51e+01 1ffkU d.29.1.1 63108 1s72X 92 2.54e+01 1qj4A 257 2.54e+01 1qj4A c.69.1.20 34796 1ebdC 41 2.58e+01 1ebdC a.9.1.1 16355 1l1qA 186 2.64e+01 c.61.1.1 77653 1ofdA 1520 2.72e+01 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1a62 130 2.75e+01 1a62 a.140.3.1 64708 b.40.4.5 64709 1du9A 28 2.77e+01 g.3.7.2 44148 1lucA 355 2.79e+01 1lucA c.1.16.1 29547 1fy7A 278 2.83e+01 1fy7A d.108.1.1 40817 1sxrA 183 2.83e+01 4uagA 437 2.90e+01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1ejxA 100 2.94e+01 d.8.1.1 83182 1k3sA 113 2.94e+01 d.198.1.1 68120 1gnuA 117 2.97e+01 d.15.1.3 65403 1ed8A 449 3.06e+01 1b8jA c.76.1.1 34988 1ggzA 148 3.13e+01 a.39.1.5 70176 1ep3B 262 3.13e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1n3bA 216 3.22e+01 c.37.1.1 79959 1g4yR 148 3.23e+01 1cll a.39.1.5 60252 1qxyA 252 3.25e+01 d.127.1.1 -10993 1sr8A 298 3.32e+01 8dfr 189 3.33e+01 1aoeA c.71.1.1 34895 1nuuA 252 3.38e+01 c.26.1.3 86209 1ikoP 178 3.45e+01 b.6.1.5 71243 1bw0A 416 3.53e+01 1bw0A c.67.1.1 34385 1o7nB 194 3.54e+01 d.17.4.4 81164 1l3iA 192 3.58e+01 c.66.1.22 77676 1ui5A 215 3.63e+01 1h80A 464 3.63e+01 b.80.1.8 65714 1nytA 271 3.64e+01 c.2.1.7 86417 c.58.1.5 86418 1h61A 364 3.65e+01 1oyc c.1.4.1 60657 1rypG 244 3.71e+01 d.153.1.4 41938 1mplA 349 3.72e+01 e.3.1.1 79387 1o66A 275 3.72e+01 c.1.12.8 -5590 1hnf 182 3.79e+01 1qa9A b.1.1.1 19741 b.1.1.3 21680 1nhp 447 3.86e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1ee4A 423 3.87e+01 1ee4A a.118.1.1 19128 2gar 212 3.88e+01 2gar c.65.1.1 34161 1o7fA 469 3.90e+01 a.4.5.31 81131 b.82.3.2 81132 b.82.3.2 81133 1npyA 271 3.95e+01 c.2.1.7 85995 c.58.1.5 85996