# 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 1e19A 314 4.29e-02 1b7bA c.73.1.1 34967 1rypG 244 2.73e-01 d.153.1.4 41938 1h4pA 408 2.97e-01 c.1.8.3 -5314 1q5qA 259 3.64e-01 d.153.1.4 -11433 1odzA 386 6.36e-01 c.1.8.3 86889 1jwiB 125 6.49e-01 d.169.1.1 67384 1r62A 160 7.33e-01 1q1rA 431 8.04e-01 c.3.1.5 -6048 c.3.1.5 -6049 d.87.1.1 -10502 1jyhA 157 1.20e+00 d.60.1.3 71956 2cro 71 1.25e+00 1r69 a.35.1.2 17038 1mkmA 249 1.25e+00 a.4.5.33 79242 d.110.2.2 79243 1l1zA 274 1.30e+00 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 1r6jA 82 1.37e+00 b.36.1.1 -3732 1nteA 82 1.38e+00 b.36.1.1 86163 1e3dB 542 1.50e+00 1h2rL e.18.1.1 59189 1l7mA 211 1.53e+00 c.108.1.4 73664 1j9yA 385 1.54e+00 1j9yA c.1.8.3 62791 1kjqA 391 1.55e+00 b.84.2.1 72616 c.30.1.1 72617 d.142.1.2 72618 1j97A 211 1.65e+00 1f5sA c.108.1.4 62753 1nm8A 616 1.69e+00 c.43.1.3 85872 c.43.1.3 85873 1qd6C 240 1.72e+00 1qd5A 1mdwA 328 1.83e+00 d.3.1.3 84934 1nz0A 118 2.01e+00 d.14.1.2 86433 1j6pA 418 2.12e+00 b.92.1.4 77089 c.1.9.9 77090 1vjuA 309 2.17e+00 unknown_sccs -9594 1q7zA 566 2.36e+00 c.1.21.2 -5638 c.1.26.1 -5666 1bag 425 2.49e+00 1bag b.71.1.1 27720 c.1.8.1 28707 1r2zA 274 2.49e+00 a.156.1.2 -370 b.113.1.1 -5094 g.39.1.8 -12748 1p1mA 406 2.52e+00 b.92.1.4 87696 c.1.9.9 87697 1ryp1 222 2.74e+00 1ryp1 1cnv 299 2.75e+00 1cnv c.1.8.5 28989 1o0xA 262 2.76e+00 d.127.1.1 80755 1jw9B 249 2.87e+00 c.111.1.1 67377 1rypC 244 2.91e+00 1rypC d.153.1.4 41934 1im8A 244 2.94e+00 c.66.1.14 66212 1l3lA 234 3.38e+00 a.4.6.2 73541 d.110.5.1 73542 1lktA 104 3.55e+00 1lktA b.90.1.1 28398 3fruA 269 3.82e+00 1agdA b.1.1.2 20657 d.19.1.1 38150 1h9oA 112 3.89e+00 1qadA d.93.1.1 60837 1qd1A 325 4.34e+00 1qd1A d.58.34.1 39493 d.58.34.1 39494 1ubkL 534 4.35e+00 e.18.1.1 88422 1onxA 390 4.36e+00 b.92.1.7 87176 c.1.9.13 87177 1jm6A 407 4.58e+00 a.29.5.1 66876 d.122.1.4 66877 1xgsA 295 5.01e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 1kjvA 284 5.14e+00 b.1.1.2 77421 d.19.1.1 77422 1j1nA 492 5.51e+00 c.94.1.1 83978 1exqA 154 5.61e+00 1b9dA c.55.3.2 33646 1l7aA 318 5.98e+00 c.69.1.25 77772 1je0A 236 6.06e+00 c.56.2.1 66581 1eg9A 449 6.09e+00 1ndoA b.33.1.2 24443 d.129.3.3 41322 1j09A 468 6.18e+00 a.97.1.1 77025 c.26.1.1 77026 1rypB 250 6.53e+00 1rypB d.153.1.4 41933 1omrA 201 6.64e+00 a.39.1.5 -854 1dekA 241 6.68e+00 1dekA c.37.1.1 31842 1o50A 157 7.09e+00 d.37.1.1 -9604 d.37.1.1 -9605 1qmvA 197 7.12e+00 1qq2A c.47.1.10 33066 1gln 468 7.39e+00 1gln a.97.1.1 18752 c.26.1.1 31588 1sczA 233 7.39e+00 c.43.1.1 -7326 1euwA 152 7.46e+00 1dupA b.85.4.1 28349 1fgkA 310 7.47e+00 1fgkA d.144.1.7 41693 1ee4A 423 7.58e+00 1ee4A a.118.1.1 19128 1jv1A 505 7.59e+00 c.68.1.5 71892 1lrzA 426 7.66e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1p5jA 372 7.70e+00 1d7yA 408 7.75e+00 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1914 232 7.77e+00 1914 d.49.1.1 83028 d.49.1.1 83029 1vjzA 341 7.84e+00 c.1.8.3 -5318 1f2tB 148 8.21e+00 1f2tB 1awqA 164 8.24e+00 2cpl b.62.1.1 27461 1i5nA 146 8.56e+00 1i5nA a.24.10.3 61805 1r6wA 322 8.74e+00 c.1.11.2 -5563 d.54.1.1 -9821 1ec7A 446 8.91e+00 1bqg c.1.11.2 29218 d.54.1.1 38862 1jl2A 156 8.93e+00 c.55.3.1 66822 1h2rL 534 8.94e+00 1h2rL e.18.1.1 43298 1hyeA 313 8.98e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1vjqA 79 8.98e+00 unknown_sccs -13478 1ub0A 258 8.99e+00 c.72.1.2 88394 1deuA 277 9.35e+00 1theB d.3.1.1 37085 2cpl 165 9.39e+00 2cpl b.62.1.1 27420 1gadO 330 9.47e+00 1dssG c.2.1.3 29950 d.81.1.1 39865 1h09A 338 9.58e+00 b.109.1.1 83420 c.1.8.8 83421 1guqA 348 9.61e+00 1guqA d.13.1.2 37522 d.13.1.2 37523 1qtnA 164 1.03e+01 1pauA c.17.1.1 30999 1eyzA 392 1.07e+01 1ez1A b.84.2.1 28246 c.30.1.1 31653 d.142.1.2 41498 1eqcA 394 1.09e+01 1cz1A c.1.8.3 28811 1l2tA 235 1.09e+01 c.37.1.12 73514 1oltA 457 1.11e+01 unknown_sccs -5688 1a05A 358 1.12e+01 1cnzA c.77.1.1 35059 1lb3A 182 1.12e+01 a.25.1.1 77873 1sjwA 144 1.15e+01 unknown_sccs -9296 1q77A 138 1.16e+01 c.26.2.4 -6639 1o7nA 449 1.17e+01 b.33.1.2 81162 d.129.3.3 81163 1fvrA 327 1.19e+01 d.144.1.7 60047 1r4pB 70 1.21e+01 b.40.2.1 -3887 1m4iA 181 1.21e+01 d.108.1.1 74457 1pbgA 468 1.21e+01 1e70M c.1.8.4 28946 1eg3A 261 1.22e+01 1eg3A a.39.1.7 17376 a.39.1.7 17377 b.72.1.1 27805 1g9oA 91 1.23e+01 1pdr b.36.1.1 60400 1awsA 164 1.25e+01 2cpl b.62.1.1 27431 1euvA 221 1.25e+01 1euvA d.3.1.7 37133 1s72Q 96 1.25e+01 1jj2P 95 1.30e+01 1ffkN b.34.5.1 63101 1vdwA 254 1.30e+01 e.7.1.1 -11868 1je6A 275 1.32e+01 b.1.1.2 71638 d.19.1.1 71639 1o20A 427 1.32e+01 c.82.1.1 86556 1rec 201 1.33e+01 1rec a.39.1.5 17326 1a7tA 232 1.33e+01 1a7tA d.157.1.1 42041 1rypK 198 1.35e+01 d.153.1.4 41879 1ehiA 377 1.38e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1i7dA 659 1.38e+01 1d6mA e.10.1.1 61886 1o4tA 133 1.40e+01 b.82.1.9 86622 1b8zA 90 1.47e+01 1huuA a.55.1.1 17902 1e79H 146 1.57e+01 1e79H a.2.10.1 15721 b.93.1.1 28438 1lla 628 1.58e+01 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.18.3 21861 1gpr 162 1.59e+01 1gpr b.84.3.1 28267 3daaA 277 1.59e+01 1daaA e.17.1.1 43272 1n7kA 234 1.63e+01 c.1.10.1 85374 1f60B 94 1.64e+01 1b64 d.58.12.1 39307 1h96A 182 1.64e+01 2fha a.25.1.1 60811 1mgqA 83 1.67e+01 b.38.1.1 79099 1ivg 388 1.68e+01 2qwc b.68.1.1 27578 1es9A 232 1.72e+01 1wab c.23.10.3 31340 1gmyA 261 1.78e+01 d.3.1.1 76236 1mctA 223 1.79e+01 5ptp b.47.1.2 25961 1jk3A 158 1.81e+01 d.92.1.11 66790 1r9lA 309 1.84e+01 c.94.1.1 -8700 1rztA 331 1.86e+01 a.60.6.1 -1023 a.60.12.1 -1030 d.218.1.2 -9807 1fo4A 1332 1.87e+01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1h1nA 305 1.89e+01 c.1.8.3 70855 1nd4A 264 1.90e+01 d.144.1.6 -11381 1mv8A 436 1.95e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1wab 232 1.99e+01 1wab c.23.10.3 31341 1bqyA 234 1.99e+01 5ptp b.47.1.2 26332 1ogwA 76 2.02e+01 d.15.1.1 87001 1pkp 150 2.02e+01 1pkp d.14.1.1 37551 d.50.1.2 38787 1tiyA 164 2.13e+01 1owfA 99 2.13e+01 a.55.1.1 87487 4uagA 437 2.15e+01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1hq0A 295 2.15e+01 1hzgA d.194.1.1 61122 1nbaA 264 2.18e+01 1nbaA unknown_sccs 31753 1by2 119 2.18e+01 1by2 d.170.1.1 42452 1mp8A 281 2.21e+01 d.144.1.7 -11361 1g8pA 350 2.24e+01 1g8pA c.37.1.20 60376 1l2uA 245 2.25e+01 c.1.2.3 73516 1nmeA 146 2.28e+01 c.17.1.1 85874 1guzA 310 2.30e+01 c.2.1.5 65586 d.162.1.1 65587 1ux5A 411 2.31e+01 unknown_sccs -1768 1oejA 193 2.33e+01 unknown_sccs -4461 1i7qA 519 2.33e+01 1qdlA d.161.1.1 61901 1kafA 108 2.36e+01 d.199.1.1 68372 1v84A 253 2.40e+01 1f7zA 233 2.41e+01 5ptp b.47.1.2 59681 1f21A 155 2.42e+01 2rn2 c.55.3.1 33550 1fpzA 212 2.48e+01 1fpzA c.45.1.1 59976 1v58A 241 2.49e+01 1m7vA 363 2.49e+01 d.174.1.1 78748 1bupA 386 2.51e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1rzhM 307 2.54e+01 f.26.1.1 -12227 1theA 260 2.58e+01 1theB d.3.1.1 37056 1obbA 480 2.59e+01 c.2.1.5 86760 d.162.1.2 86761 1qlpA 394 2.60e+01 1ovaA e.1.1.1 42628 1azpA 66 2.60e+01 1azpA b.34.13.1 37467 1ufaA 520 2.62e+01 unknown_sccs -421 unknown_sccs -6065 1ekqA 272 2.64e+01 1c3qA c.72.1.2 34941 1js8A 394 2.66e+01 a.86.1.1 67219 b.112.1.1 67220 1kay 381 2.66e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1te5A 257 2.67e+01 1ozhA 566 2.71e+01 c.31.1.3 -6737 c.36.1.5 -6895 c.36.1.9 -6935 1qyaA 307 2.77e+01 1q7hA 153 2.77e+01 b.122.1.1 -5124 unknown_sccs -9313 1dypA 271 2.78e+01 1dypA b.29.1.2 24185 1f35A 162 2.84e+01 1f35A b.94.1.1 59628 1jl1A 155 2.85e+01 c.55.3.1 66821 1eu3A 210 2.86e+01 1an8 b.40.2.2 25206 d.15.6.1 37795 1sv6A 269 2.89e+01 1pwhA 327 2.96e+01 c.79.1.1 -8524 1v7nV 163 2.97e+01 a.26.1.2 -715 1ufbA 127 2.99e+01 a.24.16.3 -635 1e3pA 757 3.03e+01 1e3hA a.4.9.1 16258 b.40.4.5 25328 d.14.1.4 37574 d.14.1.4 37575 d.52.3.1 38811 d.101.1.1 40697 d.101.1.1 40698 1qauA 112 3.04e+01 1qauA b.36.1.1 24779 1qc7A 101 3.09e+01 1qc7A a.118.14.1 18456 1fiqC 763 3.10e+01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1rhfA 182 3.13e+01 b.1.1.1 -2335 b.1.1.4 -2684 1rwzA 245 3.19e+01 d.131.1.2 -11106 d.131.1.2 -11107 1mkaA 171 3.20e+01 1mkaA d.38.1.2 38543 1hp1A 516 3.25e+01 d.114.1.1 70976 d.159.1.2 70977 1pcfA 66 3.25e+01 1pcfA d.18.1.1 38142 1v74A 107 3.28e+01 unknown_sccs -9319 1enfA 212 3.30e+01 3seb b.40.2.2 25198 d.15.6.1 37787 1uiuA 502 3.31e+01 c.94.1.1 -8674 1ql0A 241 3.35e+01 1qaeA d.4.1.2 37139 1j5vA 351 3.37e+01 c.72.1.1 71585 1cl8A 276 3.49e+01 1ckqA c.52.1.1 33230 1erzA 303 3.49e+01 1erzA d.160.1.2 59498 1mtpB 43 3.51e+01 1h6zA 913 3.51e+01 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1l6oA 95 3.52e+01 b.36.1.1 84534 1molA 94 3.54e+01 1molA d.17.1.1 37988 1ko7A 314 3.57e+01 c.98.2.1 72797 c.91.1.2 72798 1n7hA 381 3.58e+01 c.2.1.2 80250 4ubpC 570 3.59e+01 1ubpC b.92.1.1 28431 c.1.9.2 29053 1ush 550 3.62e+01 1ush d.114.1.1 40923 d.159.1.2 42079 1lyqA 104 3.63e+01 b.1.18.17 78302 1d8cA 723 3.63e+01 1d8cA c.1.13.1 29325 1uf5A 303 3.65e+01 1k38A 254 3.67e+01 e.3.1.1 84303 1c24A 263 3.71e+01 1c24A d.127.1.1 41148 1b4kA 337 3.75e+01 1b4kA c.1.10.3 29184 1kuuA 202 3.77e+01 d.153.2.1 73019 1ig8A 486 3.79e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1ka2A 499 3.82e+01 d.92.1.5 77305 1hzdA 272 3.82e+01 c.14.1.3 65969 1vi4A 174 3.82e+01 c.8.7.1 -6073 7taa 478 3.85e+01 7taa b.71.1.1 27778 c.1.8.1 28765 1rypL 212 3.87e+01 d.153.1.4 41880 1uv7A 110 3.89e+01 unknown_sccs -10256 1nddA 76 3.89e+01 1ubi d.15.1.1 37599 1ktaA 365 3.93e+01 e.17.1.1 77533 1e5rA 290 3.94e+01 1e5rA b.82.2.4 59276 3ladA 476 3.98e+01 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1p42A 270 3.98e+01 d.14.1.7 87754 d.14.1.7 87755 1a2vA 655 3.98e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1b78A 193 3.99e+01 1b78A c.51.4.1 33221