# 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 1qvcA 145 5.31e-21 3ullA b.40.4.3 25284 1kawA 135 2.88e-18 3ullA b.40.4.3 25288 3ullA 132 1.01e-15 3ullA b.40.4.3 25282 1a8p 258 5.95e-02 1fdr b.43.4.2 25654 c.25.1.1 31544 1ndoB 194 9.80e-02 1ndoB d.17.4.4 38121 1pdr 99 1.09e-01 1pdr b.36.1.1 24771 1bfeA 119 1.22e-01 1pdr b.36.1.1 24775 1be9A 119 2.69e-01 1pdr b.36.1.1 24774 1eg9B 194 2.75e-01 1ndoB d.17.4.4 38120 1je5A 206 3.72e-01 1je5A b.40.4.7 62909 1jb7A 495 6.59e-01 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1j8mF 297 9.42e-01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1otcA 495 9.87e-01 1otcA b.40.4.3 25307 b.40.4.3 25308 b.40.4.3 25309 1ecsA 126 1.01e+00 1ecsA d.32.1.2 59407 1qg0A 308 1.26e+00 1fnc b.43.4.2 25639 c.25.1.1 31529 1que 303 1.40e+00 1fnc b.43.4.2 25647 c.25.1.1 31537 1ewjA 126 1.63e+00 1ecsA d.32.1.2 59526 1d1nA 99 2.31e+00 1d1nA b.43.3.1 25718 1gm5A 780 2.62e+00 a.29.4.1 65298 b.40.4.9 65299 c.37.1.13 65300 c.37.1.13 65301 1fnc 314 2.74e+00 1fnc b.43.4.2 25627 c.25.1.1 31517 1fnd 314 3.27e+00 1fnc b.43.4.2 25626 c.25.1.1 31516 1fdr 248 3.35e+00 1fdr b.43.4.2 25653 c.25.1.1 31543 1dw9A 156 3.39e+00 1dw9A a.35.1.4 17065 d.72.1.1 39596 1dwkA 156 3.39e+00 1dw9A a.35.1.4 17075 d.72.1.1 39606 1be1 137 3.47e+00 1be1 c.23.6.1 31237 1j7xA 302 3.71e+00 c.14.1.2 66425 1at0 145 4.77e+00 1at0 b.86.1.1 28374 1b8zA 90 5.47e+00 1huuA a.55.1.1 17902 1d5yA 292 5.59e+00 1d5yA a.4.1.8 16055 a.4.1.8 16056 d.60.1.2 39532 1f9zA 135 5.62e+00 1qipA d.32.1.1 38484 1ir6A 424 5.87e+00 1a7cA 379 6.15e+00 1sek e.1.1.1 42660 1huuA 90 6.47e+00 1huuA a.55.1.1 17897 2tdt 274 6.74e+00 3tdt b.81.1.2 28054 1lj5A 379 6.83e+00 1ep3B 262 6.86e+00 1ep2B b.43.4.2 25664 c.25.1.3 31554 3tdt 274 7.04e+00 3tdt b.81.1.2 28053 1ep2B 261 7.56e+00 1ep2B b.43.4.2 25666 c.25.1.3 31556 2tnfA 156 8.12e+00 2tnfA b.22.1.1 23880 1fvzA 271 8.64e+00 1fvzA d.129.3.4 60050 1i36A 264 8.95e+00 1jh2A 99 8.96e+00 b.35.1.1 63038 1al3 324 9.20e+00 1al3 c.94.1.1 35835 1cjwA 166 9.32e+00 1cjwA d.108.1.1 40818 1kcmA 270 1.03e+01 1gmuA 143 1.04e+01 b.107.1.1 65335 d.58.38.1 65336 2hvm 273 1.05e+01 1cnv c.1.8.5 28985 1fa8A 135 1.06e+01 1qipA d.32.1.1 38486 1qczA 169 1.06e+01 1qczA c.23.8.1 31276 1k7cA 233 1.07e+01 c.23.10.4 68267 1mjhB 162 1.08e+01 1mjhA c.29.1.2 31640 1deoA 233 1.08e+01 1deoA c.23.10.4 31345 1mjhA 162 1.12e+01 1mjhA c.29.1.2 31639 1eu3A 210 1.16e+01 1an8 b.40.2.2 25206 d.15.6.1 37795 1b8aA 438 1.20e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1aw5 326 1.24e+01 1b4kA c.1.10.3 29181 1gaxA 862 1.25e+01 1gaxA a.27.1.1 16928 b.51.1.1 26893 c.26.1.1 31595 1tdtA 259 1.27e+01 3tdt b.81.1.2 28055 1pfo 500 1.40e+01 1pfo f.9.1.1 43826 1f28A 297 1.41e+01 1bkpA d.117.1.1 59608 1a8vA 121 1.44e+01 1a62 a.140.3.1 64712 b.40.4.5 64713 1sesA 421 1.49e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1ucyH 150 1.49e+01 1ucyH 1ndh 272 1.50e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 1bmlC 362 1.52e+01 1bmlC d.15.5.1 37729 d.15.5.1 37730 d.15.5.1 37731 1f46A 140 1.57e+01 1f46A d.129.4.1 59643 1e3mA 800 1.66e+01 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 2bpa1 426 1.74e+01 2bpa1 1cqqA 180 1.75e+01 1cqqA b.47.1.4 26422 1uxy 340 1.76e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1b33N 67 1.78e+01 1b33N d.30.1.1 38459 2mbr 340 1.81e+01 2mbr d.145.1.2 41749 d.146.1.1 41762 1h8dH 260 1.91e+01 5ptp 1a62 130 1.94e+01 1a62 a.140.3.1 64708 b.40.4.5 64709 1i7pA 274 1.97e+01 b.43.4.2 66048 c.25.1.1 66049 1ds6B 180 1.99e+01 1rhoA b.1.1.5 21898 1j8rA 196 2.04e+01 1j8rA b.2.3.3 62745 1jb3A 131 2.07e+01 1jc7A b.40.3.2 62833 1jg8A 347 2.09e+01 1jg8A c.67.1.1 62946 1l9mA 692 2.11e+01 1c0nA 406 2.12e+01 1c0nA c.67.1.3 34433 1b1a 137 2.14e+01 1be1 c.23.6.1 31242 1hcb 260 2.14e+01 2cba b.74.1.1 27814 2ebn 289 2.17e+01 2ebn c.1.8.5 28990 1jmcA 246 2.33e+01 1jmcA b.40.4.3 25300 b.40.4.3 25301 1toaA 313 2.35e+01 1toaA c.92.2.2 35598 1fljA 260 2.39e+01 2cba b.74.1.1 27954 1g2iA 166 2.40e+01 1g2iA c.23.16.2 31438 1bykA 255 2.41e+01 1bykA c.93.1.1 35706 1ihjA 98 2.41e+01 1pdr b.36.1.1 62382 1hh1A 143 2.43e+01 1gefA c.52.1.18 61036 1e79A 510 2.44e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1fs7A 485 2.48e+01 1qdbA a.138.1.3 19691 1jc7A 131 2.49e+01 1jc7A b.40.3.2 62873 1jf9A 408 2.50e+01 1c0nA c.67.1.3 62931 1qhxA 178 2.59e+01 1qhsA c.37.1.3 31936 2cab 261 2.65e+01 2cba b.74.1.1 27906 2dynA 122 2.66e+01 1dynA b.55.1.1 26957 1jvnA 555 2.69e+01 c.1.2.1 67355 c.23.16.1 67356 1qhsA 178 2.69e+01 1qhsA c.37.1.3 31938 1qpxA 218 2.76e+01 1qpxA b.1.11.1 22318 b.7.2.1 23200 1c5lH 259 2.82e+01 5ptp 1bbzA 58 2.84e+01 1bbzA b.34.2.1 24477 1h70A 255 2.86e+01 1h70A d.126.1.3 60711 1qqjA 419 2.87e+01 1qcnA b.34.8.1 59034 d.177.1.1 59035 1bmfA 510 2.87e+01 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1hyoA 421 2.88e+01 1qcnA b.34.8.1 59001 d.177.1.1 59002 1qcnA 421 2.88e+01 1qcnA b.34.8.1 59017 d.177.1.1 59018 1ahtH 259 2.89e+01 5ptp 1ft9A 222 2.92e+01 1ft9A a.4.5.4 16107 b.82.3.1 28131 1cne 270 2.95e+01 1ndh b.43.4.2 25661 c.25.1.1 31551 1f15B 218 2.97e+01 1f15B b.10.1.2 23321 1jb9A 316 2.97e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 1d6mA 653 3.16e+01 1d6mA e.10.1.1 43248 1qd1A 325 3.16e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1srvA 145 3.17e+01 1derA c.8.5.1 30817 1jj2I 145 3.34e+01 1ffkG c.21.1.1 63094 1rtu 114 3.36e+01 9rnt d.1.1.1 36139 1aboA 62 3.36e+01 1bbzA b.34.2.1 24474 1e19A 314 3.38e+01 1b7bA c.73.1.1 34967 1a7s 221 3.39e+01 1a7s b.47.1.2 26284 1a78A 134 3.39e+01 1c1lA b.29.1.3 24212 1h8eA 510 3.46e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1hwxA 501 3.46e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1qdbA 473 3.48e+01 1qdbA a.138.1.3 19688 1b0pA 1231 3.50e+01 c.36.1.4 31831 c.36.1.4 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1hf2A 210 3.54e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 1dy9A 187 3.55e+01 1jxpA b.47.1.3 26400 1cf2O 337 3.57e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1jj2N 115 3.57e+01 1ffkL c.12.1.1 63099 1dc1A 323 3.57e+01 1dc1A c.52.1.11 33321 1an8 208 3.59e+01 1an8 b.40.2.2 25202 d.15.6.1 37791 1g57A 217 3.60e+01 1g57A d.115.1.2 60253 1qbiA 454 3.62e+01 1c9uA b.68.2.1 27619 3hmgA 328 3.69e+01 1hgeA b.19.1.2 23825 1a12A 413 3.74e+01 1a12A b.69.5.1 27663 1je0A 236 3.83e+01 c.56.2.1 66581 1rlw 126 3.86e+01 1rlw b.7.1.1 23177