# List of top-scoring protein chains for T0280.t2k-w0.5 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 1ao0A 459 9.23e-28 1ecfB c.61.1.1 34049 d.153.1.1 41816 1gph1 465 9.67e-28 1ecfB 1ecfA 504 5.34e-27 1ecfB c.61.1.1 34053 d.153.1.1 41820 1i5eA 209 1.23e-25 c.61.1.1 71116 1j7jA 178 5.03e-25 c.61.1.1 84131 1g9tA 182 1.09e-24 c.61.1.1 70166 1o5oA 221 1.56e-24 c.61.1.1 -7954 1nonA 179 8.06e-24 1ufrA 181 8.55e-24 c.61.1.1 -7949 1d6nA 214 9.02e-24 1qk3A c.61.1.1 34077 1bzyA 217 9.32e-24 1qk3A c.61.1.1 34071 1hgxA 183 1.12e-22 1tc1A c.61.1.1 34027 1a3c 181 1.82e-22 1a3c c.61.1.1 34095 1p18A 221 1.13e-21 1tc1A 220 1.79e-21 1tc1A c.61.1.1 34083 1tc2A 221 1.79e-21 1tc1A c.61.1.1 34085 1i13A 221 2.09e-21 c.61.1.1 71098 1i14A 221 4.97e-21 c.61.1.1 71100 1i0lA 221 5.97e-21 c.61.1.1 71096 1i0iA 221 5.98e-21 c.61.1.1 71094 1pzmA 211 6.06e-20 1cjbA 231 8.74e-20 1qk3A c.61.1.1 34079 1oreA 180 1.11e-19 c.61.1.1 -7947 1dkuA 317 1.54e-19 1dkuA c.61.1.2 34118 c.61.1.2 34119 1fsgA 233 7.45e-19 1qk3A c.61.1.1 34029 1dbrA 231 7.46e-19 1qk3A c.61.1.1 34041 1qk5A 233 9.93e-19 1qk3A c.61.1.1 34035 1g2qA 187 2.84e-17 c.61.1.1 65117 1mzvA 235 2.03e-15 c.61.1.1 -7945 1qb7A 236 3.42e-14 1qb7A c.61.1.1 34087 1l1qA 186 6.23e-14 c.61.1.1 77653 1upfA 224 1.07e-13 1bd3A c.61.1.1 34102 1bd3A 243 1.10e-13 1bd3A c.61.1.1 34098 1oroA 213 5.34e-12 1opr c.61.1.1 34093 1o57A 291 9.01e-12 unknown_sccs -249 c.61.1.1 -7960 1p4aA 285 9.16e-12 unknown_sccs -253 c.61.1.1 -7964 1lh0A 213 1.04e-11 c.61.1.1 73896 1sto 213 2.47e-11 1opr c.61.1.1 34092 1a97A 148 4.08e-09 1nulA c.61.1.1 34023 1a98A 152 4.21e-09 1nulA c.61.1.1 34021 1nulA 152 5.63e-09 1nulA c.61.1.1 34011 1dqpA 230 9.31e-09 1dqnA c.61.1.1 34069 1qyiA 384 1.16e-02 unknown_sccs -6836 2eiaA 206 8.05e-02 1eia a.28.3.1 16949 a.73.1.1 18329 1eia 207 8.14e-02 1eia a.28.3.1 16951 a.73.1.1 18331 1upaA 573 2.47e-01 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1j2qH 202 8.93e-01 d.153.1.4 84036 1m54A 363 1.17e+00 c.79.1.1 74463 1jbqA 435 1.27e+00 1oasA c.79.1.1 62850 1gm1A 94 1.37e+00 b.36.1.1 70271 1q7xA 108 1.49e+00 b.36.1.1 -3735 1d5gA 96 1.63e+00 b.36.1.1 70080 1vjdA 416 1.87e+00 c.86.1.1 -8570 1oziA 99 2.24e+00 b.36.1.1 -3736 1sxjA 511 2.32e+00 1ospH 218 2.81e+00 1igtB b.1.1.1 20117 b.1.1.2 21147 1cdwA 179 3.37e+00 1ytbA d.129.1.1 41212 d.129.1.1 41213 1p7yA 753 3.41e+00 c.23.16.3 -6539 e.5.1.1 -11832 1p80A 753 3.42e+00 c.23.16.3 -6547 e.5.1.1 -11840 1qwsA 753 3.42e+00 c.23.16.3 -6555 e.5.1.1 -11848 1p7zA 753 3.42e+00 c.23.16.3 -6543 e.5.1.1 -11836 1p81A 753 3.42e+00 c.23.16.3 -6551 e.5.1.1 -11844 1gghA 753 3.44e+00 1cf9A c.23.16.3 31465 e.5.1.1 42839 1c9bB 180 3.44e+00 1ytbA d.129.1.1 41216 d.129.1.1 41217 1cf9A 753 3.45e+00 1cf9A c.23.16.3 31441 e.5.1.1 42815 1ggjA 753 3.45e+00 1cf9A c.23.16.3 31457 e.5.1.1 42831 1nvpA 181 3.46e+00 d.129.1.1 -11002 d.129.1.1 -11003 1qf7A 753 3.46e+00 1cf9A c.23.16.3 31461 e.5.1.1 42835 1gg9A 753 3.47e+00 1cf9A c.23.16.3 31445 e.5.1.1 42819 1ggeA 753 3.47e+00 1cf9A c.23.16.3 31449 e.5.1.1 42823 1ggkA 753 3.49e+00 1cf9A c.23.16.3 31453 e.5.1.1 42827 1jfiC 185 3.50e+00 1ytbA d.129.1.1 62938 d.129.1.1 62939 1tghA 185 3.53e+00 1ytbA d.129.1.1 41214 d.129.1.1 41215 1uisA 231 3.57e+00 d.22.1.1 -9450 1chwA 389 3.77e+00 1bi5A c.95.1.2 35997 c.95.1.2 35998 1fztA 211 4.42e+00 1qhfA c.60.1.1 60158 1ee0A 402 4.78e+00 1bi5A c.95.1.2 36007 c.95.1.2 36008 1itxA 419 4.97e+00 c.1.8.5 71425 d.26.3.1 71426 1cmlA 389 5.37e+00 1bi5A c.95.1.2 35989 c.95.1.2 35990 1s1pA 331 5.53e+00 c.1.7.1 -5240 1o0uA 429 6.21e+00 c.118.1.1 80743 1p5jA 372 6.57e+00 1jt9A 266 7.10e+00 unknown_sccs 67259 1mmvA 419 7.13e+00 d.174.1.1 -11682 1p6iA 421 7.15e+00 d.174.1.1 -11690 1om4A 422 7.16e+00 d.174.1.1 87067 1vagA 420 7.16e+00 1fl0A 171 7.24e+00 1eujA b.40.4.4 25315 1e7zA 174 7.29e+00 1eujA b.40.4.4 25318 1eujA 166 7.30e+00 1eujA b.40.4.4 25316 1jxgA 100 7.34e+00 b.6.1.1 67413 1fs5A 266 7.57e+00 unknown_sccs 65044 1hjrA 158 8.67e+00 1hjrA c.55.3.6 33727 1jwxA 389 8.80e+00 c.95.1.2 71920 c.95.1.2 71921 1i89A 389 9.66e+00 c.95.1.2 66074 c.95.1.2 66075 1d6hA 387 9.70e+00 1bi5A c.95.1.2 36005 c.95.1.2 36006 1i88A 389 9.73e+00 c.95.1.2 66070 c.95.1.2 66071 1bq6A 388 9.76e+00 1bi5A c.95.1.2 35987 c.95.1.2 35988 1bi5A 389 9.77e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1p6kA 421 9.78e+00 d.174.1.1 -11694 1d6iA 388 9.89e+00 1bi5A c.95.1.2 36001 c.95.1.2 36002 1i8bA 389 1.01e+01 c.95.1.2 66078 c.95.1.2 66079 1mnaA 298 1.03e+01 c.69.1.22 79322 1i86A 389 1.06e+01 c.95.1.2 66068 c.95.1.2 66069 1qoqB 396 1.07e+01 2tysB c.79.1.1 35271 1k8yB 396 1.09e+01 c.79.1.1 72184 1fuyB 396 1.12e+01 2tysB c.79.1.1 35279 1kfeB 394 1.12e+01 c.79.1.1 77374 1qopB 396 1.13e+01 2tysB c.79.1.1 35270 1kfcB 397 1.13e+01 c.79.1.1 77372 1dq3A 454 1.14e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1ubsB 397 1.15e+01 2tysB c.79.1.1 35273 1beuB 397 1.15e+01 2tysB c.79.1.1 35274 2tysB 397 1.15e+01 2tysB c.79.1.1 35272 1a50B 396 1.15e+01 2tysB c.79.1.1 35280 1ttqB 397 1.15e+01 2tysB c.79.1.1 35268 1r6hA 172 1.21e+01 c.45.1.1 -7331 1n67A 359 1.35e+01 b.2.3.4 85354 b.2.3.4 85355 1qtwA 285 1.36e+01 1qumA c.1.15.1 29392 1ry2A 663 1.49e+01 e.23.1.1 -12011 1fb5A 320 1.53e+01 c.78.1.1 -8498 c.78.1.1 -8499 1kf0A 416 1.56e+01 c.86.1.1 72393 1rlgA 119 1.56e+01 1othA 321 1.57e+01 1othA c.78.1.1 35260 c.78.1.1 35261 1kn6A 90 1.62e+01 d.58.3.3 72770 1jeoA 180 1.69e+01 c.80.1.3 66611 1pvnA 376 1.70e+01 c.1.5.1 88312 1pjcA 361 1.71e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 1hdiA 413 1.72e+01 16pk c.86.1.1 60964 1kqpA 271 1.75e+01 c.26.2.1 72883 1qysA 106 1.83e+01 unknown_sccs -13432 1lrtA 376 1.86e+01 c.1.5.1 84685 1db3A 372 1.94e+01 1db3A c.2.1.2 29813 1pqwA 198 2.00e+01 c.2.1.1 88278 1g0hA 252 2.01e+01 1dk4A e.7.1.1 60171 8ohm 435 2.06e+01 1heiA c.37.1.14 32469 c.37.1.14 32470 1tk9A 188 2.07e+01 1e0uA 470 2.09e+01 1a49A b.58.1.1 27072 c.1.12.1 29300 c.49.1.1 33154 1wczA 268 2.11e+01 1li9A 263 2.14e+01 e.3.1.1 77969 1r1tA 122 2.16e+01 1kq6A 141 2.16e+01 d.189.1.1 -9926 1jzwA 140 2.21e+01 c.47.1.12 67883 1j9bA 141 2.22e+01 c.47.1.12 66459 1qy6A 274 2.22e+01 b.47.1.1 -4126 1nvtA 287 2.25e+01 c.2.1.7 86270 c.58.1.5 86271 1jwzA 263 2.27e+01 e.3.1.1 71922 1ukcA 522 2.27e+01 1a62 130 2.30e+01 1a62 a.140.3.1 64708 b.40.4.5 64709 1reqB 637 2.39e+01 1reqB c.1.19.1 29621 c.23.6.1 31248 1q7sA 117 2.42e+01 unknown_sccs -7522 2a8vA 118 2.43e+01 1a62 a.140.3.1 64752 b.40.4.5 64753 1p6gM 117 2.44e+01 i.1.1.1 87831 1a8vA 121 2.46e+01 1a62 a.140.3.1 64712 b.40.4.5 64713 1jvjA 263 2.48e+01 e.3.1.1 71896 1jq5A 370 2.48e+01 e.22.1.2 67084 1pzpA 263 2.49e+01 e.3.1.1 -11759 1jtdA 263 2.50e+01 e.3.1.1 67264 1fqgA 263 2.51e+01 1btl e.3.1.1 42699 1e0tA 470 2.51e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1m40A 263 2.51e+01 e.3.1.1 74437 1ermA 263 2.51e+01 1btl e.3.1.1 42690 1ixrC 312 2.51e+01 a.4.5.11 76930 c.37.1.20 76931 1jtgA 263 2.51e+01 e.3.1.1 67266 1pkyA 470 2.52e+01 1a49A b.58.1.1 27068 c.1.12.1 29296 c.49.1.1 33150 1ixsB 318 2.63e+01 a.4.5.11 76933 c.37.1.20 76934 1gxjA 186 2.63e+01 d.215.1.1 70707 1soxA 466 2.64e+01 1soxA b.1.18.6 21947 d.120.1.1 41090 d.176.1.1 42563 1ck3A 263 2.66e+01 1btl e.3.1.1 42698 1plc 99 2.72e+01 1plc b.6.1.1 22846 1jx4A 352 2.74e+01 unknown_sccs -10188 unknown_sccs -11898 1m7sA 484 2.81e+01 e.5.1.1 74574 1lk5A 229 2.83e+01 unknown_sccs 73960 d.58.40.1 73961 1v8aA 265 2.86e+01 c.72.1.2 -8379 1hqcA 324 2.92e+01 1hqcA a.4.5.11 16127 c.37.1.20 32424 1sq6A 253 2.92e+01 c.56.2.1 -7852 1dqwA 267 2.93e+01 1dqwA c.1.2.3 28551 1k7hA 476 2.94e+01 c.76.1.1 72101 1r22A 122 2.94e+01 1e58A 249 2.98e+01 1qhfA c.60.1.1 59262 1bxoA 323 3.03e+01 2er7E b.50.1.2 26805 1iyxA 432 3.04e+01 c.1.11.1 83815 d.54.1.1 83816 1l2tA 235 3.13e+01 c.37.1.12 73514 1ta3A 274 3.16e+01 1c25 161 3.17e+01 1c25 c.46.1.1 32698 1f3oA 235 3.17e+01 1b0uA c.37.1.12 59631 1rj9A 304 3.19e+01 a.24.13.1 -631 c.37.1.10 -7129 1gq3A 310 3.23e+01 c.78.1.1 76268 c.78.1.1 76269 1q1gA 276 3.26e+01 c.56.2.1 -7846 1mo9A 523 3.31e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1h6iA 269 3.32e+01 f.19.1.1 65682 1htzA 263 3.35e+01 1btl e.3.1.1 61262 1nw3A 416 3.36e+01 c.66.1.31 86288 1jwvA 263 3.45e+01 e.3.1.1 71918 1m1nB 522 3.49e+01 c.92.2.3 78418 1g20B 523 3.49e+01 1qguB c.92.2.3 35614 1b8gA 429 3.63e+01 1b8gA c.67.1.4 34499 1efhA 292 3.65e+01 1aquA c.37.1.5 31948 1eepA 404 3.66e+01 1ak5 c.1.5.1 28636 1m7yA 435 3.67e+01 c.67.1.4 78761 1i9dA 141 3.70e+01 c.47.1.12 66098 1jmkC 230 3.72e+01 c.69.1.22 71747 1bqcA 302 3.74e+01 1bqcA c.1.8.3 28831 1dxy 333 3.75e+01 1dxy c.2.1.4 30094 c.23.12.1 31354 1nnlA 225 3.80e+01 c.108.1.4 85906 1gpmA 525 3.81e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1nktA 922 3.82e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1s68A 249 3.86e+01 unknown_sccs -11253 1me8A 503 3.88e+01 c.1.5.1 79028 1lhyA 263 3.92e+01 e.3.1.1 77967 1us5A 314 3.96e+01 c.94.1.1 -8686 1d3uA 181 3.96e+01 1ytbA d.129.1.1 41290 d.129.1.1 41291 1lpbB 449 3.99e+01 1gpl b.12.1.2 23643 c.69.1.19 34791 1ltkA 425 4.00e+01 c.86.1.1 84698