# List of top-scoring protein chains for t04-100-30-near-backbone-11 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 1m6yA 301 4.63e-55 a.60.13.1 78716 c.66.1.23 78717 1l3iA 192 1.11e-10 c.66.1.22 77676 1ixkA 315 3.62e-09 unknown_sccs -8099 1uwvA 433 2.13e-07 unknown_sccs -3950 unknown_sccs -8107 1sqgA 429 2.62e-07 1o54A 277 1.59e-06 c.66.1.13 -8095 1i9gA 280 2.50e-06 c.66.1.13 62090 1ufkA 254 5.12e-06 unknown_sccs -8103 1xvaA 292 6.14e-06 1xvaA c.66.1.5 34183 1f3lA 321 1.36e-05 1g6q2 c.66.1.6 59630 1jg1A 235 3.00e-05 c.66.1.7 66661 1dl5A 317 4.20e-05 1dl5A c.66.1.7 64720 d.197.1.1 64721 1ej0A 180 9.07e-05 1ej0A c.66.1.2 34179 1kpgA 287 9.49e-05 c.66.1.18 68735 1ne2A 200 1.11e-04 c.66.1.32 85586 1bdb 277 1.24e-04 1bdb c.2.1.2 29874 1dusA 194 1.36e-04 1dusA c.66.1.4 34182 1qamA 244 2.24e-04 2ercA c.66.1.24 34220 1nv8A 284 2.52e-04 c.66.1.30 86224 1g38A 393 6.17e-04 2admA c.66.1.27 60235 1jvbA 347 6.34e-04 b.35.1.2 77181 c.2.1.1 77182 1ri5A 298 7.23e-04 unknown_sccs -8063 1inlA 296 7.54e-04 c.66.1.17 66220 1hnnA 282 1.57e-03 c.66.1.15 65895 1qzzA 374 1.70e-03 a.4.5.29 -277 c.66.1.12 -8045 1g60A 260 1.88e-03 c.66.1.11 70151 1h1dA 221 2.14e-03 c.66.1.1 83452 1vid 221 2.53e-03 1vid c.66.1.1 34178 1i1nA 226 2.60e-03 c.66.1.7 71102 1qyrA 252 2.85e-03 1f8fA 371 2.96e-03 b.35.1.2 83246 c.2.1.1 83247 1pjcA 361 3.08e-03 1sayA c.2.1.4 30101 c.23.12.2 31361 1h2bA 359 4.67e-03 b.35.1.2 -3679 c.2.1.1 -5703 1g8aA 227 3.16e-02 c.66.1.3 -8049 1im8A 244 3.73e-02 c.66.1.14 66212 1v3vA 333 4.07e-02 1mjfA 281 5.58e-02 c.66.1.17 79198 1jsxA 207 5.70e-02 c.66.1.20 71846 1bg6 359 5.73e-02 1bg6 a.100.1.5 18810 c.2.1.6 30214 1o9gA 250 6.71e-02 c.66.1.29 86692 1srrA 124 6.79e-02 1dz3A c.23.1.1 31110 1n8kA 374 7.06e-02 b.35.1.2 80298 c.2.1.1 80299 1fp1D 372 7.40e-02 1fpqA a.4.5.29 59939 c.66.1.12 59940 1hetA 374 7.88e-02 2ohxA b.35.1.2 60975 c.2.1.1 60976 1nw3A 416 8.48e-02 c.66.1.31 86288 1iy8A 267 8.66e-02 c.2.1.2 83774 1db3A 372 8.95e-02 1db3A c.2.1.2 29813 1uirA 314 9.59e-02 c.66.1.17 -8114 1eg2A 319 1.57e-01 1eg2A c.66.1.11 34249 2ohxA 374 1.62e-01 2ohxA b.35.1.2 24669 c.2.1.1 29685 1yub 245 2.13e-01 2ercA c.66.1.24 34219 1k2yX 463 2.51e-01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1r1dA 247 2.96e-01 unknown_sccs -8335 1p1cA 199 3.00e-01 c.66.1.16 87669 1hdcA 253 3.22e-01 1e6wA c.2.1.2 29862 1sb8A 352 4.78e-01 1jqbA 351 5.29e-01 b.35.1.2 77151 c.2.1.1 77152 1fp2A 352 6.71e-01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1ja1A 622 6.80e-01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 6mhtA 327 7.46e-01 6mhtA c.66.1.26 34226 1p5dX 463 7.50e-01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1rec 201 9.31e-01 1rec a.39.1.5 17326 1nriA 306 9.42e-01 c.80.1.3 86123 1b16A 254 9.88e-01 1b16A c.2.1.2 29875 1st9A 143 1.06e+00 c.47.1.10 -7503 1h5qA 265 1.08e+00 1cydA c.2.1.2 60643 1usgA 346 1.11e+00 c.93.1.1 -8635 1a7j 290 1.18e+00 1a7j c.37.1.6 31952 1j3vA 289 1.22e+00 a.100.1.1 -1303 c.2.1.6 -5947 1q7bA 244 1.26e+00 c.2.1.2 -5826 1s6dA 103 1.46e+00 1lsuA 147 1.53e+00 c.2.1.9 74250 1kevA 351 1.54e+00 1pedA b.35.1.2 24749 c.2.1.1 29765 1li4A 432 1.66e+00 c.2.1.4 84616 c.23.12.3 84617 1g8sA 230 1.74e+00 c.66.1.3 -8047 2reb 352 1.78e+00 2reb c.37.1.11 32282 d.48.1.1 38767 1teaA 299 1.80e+00 1fbnA 230 2.03e+00 1fbnA c.66.1.3 34181 1gegA 256 2.24e+00 1ybvA c.2.1.2 29888 1kolA 398 2.41e+00 b.35.1.2 77474 c.2.1.1 77475 1l3kA 196 2.59e+00 d.58.7.1 73539 d.58.7.1 73540 1o4vA 183 2.68e+00 c.23.8.1 86628 1q0sA 259 2.75e+00 c.66.1.28 -8110 1bmtA 246 2.78e+00 1bmtA a.46.1.1 17757 c.23.6.1 31235 1xsm 390 2.88e+00 1xsm a.25.1.2 16804 1b1cA 181 2.89e+00 1amoA c.23.5.2 31212 1hxhA 253 2.92e+00 c.2.1.2 76725 1gc5A 467 3.02e+00 1gc5A c.72.1.3 60429 1t46A 313 3.17e+00 1xel 338 3.21e+00 1xel c.2.1.2 29786 1lst 239 3.30e+00 1lst c.94.1.1 35755 1dqeA 137 3.32e+00 1dqeA a.39.2.1 17388 1rk8A 165 3.75e+00 d.58.7.1 -10018 1kepA 348 3.77e+00 c.2.1.2 68536 1fjgB 256 3.82e+00 1fjfB c.23.15.1 31400 1udc 338 3.87e+00 1xel c.2.1.2 29785 1qsgA 265 3.96e+00 1eny c.2.1.2 29935 1h0oA 390 4.13e+00 a.25.1.2 70845 1nffA 260 4.41e+00 c.2.1.2 80457 1r3sA 367 4.48e+00 c.1.22.1 -5648 1eny 268 4.57e+00 1eny c.2.1.2 29910 1oc2A 348 4.62e+00 c.2.1.2 -5753 1bn7A 294 4.63e+00 1bn6A c.69.1.8 34677 1h4pA 408 5.14e+00 c.1.8.3 -5314 1a12A 413 5.19e+00 1a12A b.69.5.1 27663 1q6cA 495 5.24e+00 c.1.8.1 -5300 1e85A 127 6.09e+00 1bbhA a.24.3.2 16549 1umdA 367 6.28e+00 c.36.1.11 -6969 1orrA 347 6.53e+00 c.2.1.2 -5776 1a4iA 301 6.92e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1d4fA 431 7.09e+00 1b3rA c.2.1.4 30110 c.23.12.3 31370 1uroA 367 7.24e+00 1uroA c.1.22.1 29675 1ox0A 430 7.28e+00 c.95.1.1 87495 c.95.1.1 87496 1agi 125 7.31e+00 7rsa d.5.1.1 37303 1l0lB 439 7.52e+00 d.185.1.1 84484 d.185.1.1 84485 1uufA 369 7.61e+00 b.35.1.2 -3706 c.2.1.1 -5730 1v3hA 495 7.97e+00 2vsgA 358 8.75e+00 2vsgA h.4.1.1 45780 1g8iA 190 8.86e+00 1rec a.39.1.5 60363 1lddA 74 9.06e+00 a.4.5.34 73841 1fipA 98 9.15e+00 1fipA unknown_sccs 18980 1fjhA 257 9.30e+00 1fjhB c.2.1.2 29870 1ciy 590 9.65e+00 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1etxA 98 9.93e+00 1fipA unknown_sccs 18978 1hkhA 279 1.01e+01 c.69.1.12 -8342 1axdA 209 1.04e+01 1gnwA a.45.1.1 17730 c.47.1.5 33024 1gz6A 319 1.12e+01 c.2.1.2 76410 1iz0A 302 1.17e+01 b.35.1.2 83821 c.2.1.1 83822 1fm4A 159 1.19e+01 1bv1 d.129.3.1 76186 1cydA 244 1.19e+01 1cydA c.2.1.2 29825 1tk9A 188 1.23e+01 1g5bA 221 1.25e+01 1g5bA d.159.1.3 60261 1hxn 219 1.26e+01 1hxn b.66.1.1 27529 1p3jA 217 1.28e+01 c.37.1.1 -6996 g.41.2.1 -12769 1ha1 184 1.32e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1o0sA 605 1.32e+01 c.2.1.7 86540 c.58.1.3 86541 1fviA 297 1.32e+01 1fviA b.40.4.6 25364 d.142.2.1 41578 1p99A 295 1.37e+01 c.94.1.1 -8697 1ppjB 439 1.38e+01 1ede 310 1.42e+01 1b6g c.69.1.8 34662 1pl8A 356 1.42e+01 b.35.1.2 -3716 c.2.1.1 -5740 1qmyA 167 1.44e+01 1qmyA d.3.1.2 37094 1jfuA 186 1.46e+01 c.47.1.10 62940 1s9rA 410 1.49e+01 unknown_sccs -10989 1lssA 140 1.49e+01 c.2.1.9 74246 1gw5A 621 1.52e+01 a.118.1.10 70629 1g8fA 511 1.58e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1uv7A 110 1.62e+01 unknown_sccs -10256 1fsz 372 1.65e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1i60A 278 1.68e+01 c.1.15.4 71118 1hruA 188 1.69e+01 1hruA d.115.1.1 40926 1eqfA 280 1.70e+01 1eqfA a.29.2.1 16972 a.29.2.1 16973 1mvoA 136 1.71e+01 c.23.1.1 79513 1eemA 241 1.77e+01 1eemA a.45.1.1 17717 c.47.1.5 33011 2lbp 346 1.80e+01 2liv c.93.1.1 35709 1nxqA 251 1.82e+01 c.2.1.2 86388 1o88A 353 1.83e+01 b.80.1.1 81178 1air 353 1.85e+01 1air b.80.1.1 28018 1byb 495 1.97e+01 1byb c.1.8.1 28790 1m4lA 307 2.09e+01 c.56.5.1 78604 1b6g 310 2.17e+01 1b6g c.69.1.8 34661 1ofdA 1520 2.17e+01 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1a04A 215 2.17e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1gca 309 2.18e+01 1gca c.93.1.1 35659 9gafA 295 2.18e+01 1apyA d.153.1.5 42008 1lk5A 229 2.18e+01 unknown_sccs 73960 d.58.40.1 73961 2ctc 307 2.19e+01 1aye c.56.5.1 33802 1adjA 421 2.23e+01 1adjA c.51.1.1 33188 d.104.1.1 40737 2cmd 312 2.29e+01 2cmd c.2.1.5 30135 d.162.1.1 42102 1c75A 71 2.29e+01 451c a.3.1.1 15796 1bd8 156 2.30e+01 1bd8 d.211.1.1 19157 1fxlA 167 2.34e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1dcfA 136 2.36e+01 1dcfA c.23.1.2 31124 1ssqA 267 2.36e+01 1khyA 148 2.37e+01 a.174.1.1 77410 1jqeA 292 2.44e+01 c.66.1.19 71789 1omrA 201 2.45e+01 a.39.1.5 -854 1gp6A 356 2.46e+01 b.82.2.1 65441 1nzhA 282 2.46e+01 d.151.1.2 -11398 2occE 109 2.48e+01 2occE a.118.11.1 19224 2ayh 214 2.51e+01 1axkA b.29.1.2 24172 1n0wA 243 2.57e+01 c.37.1.11 79772 1pvvA 315 2.61e+01 c.78.1.1 -8495 c.78.1.1 -8496 1jtvA 327 2.62e+01 c.2.1.2 84230 1ofuA 320 2.66e+01 c.32.1.1 86972 d.79.2.1 86973 1dhn 121 2.66e+01 1dhn d.96.1.3 40663 1n4xH 120 2.68e+01 b.1.1.1 85324 1l6wA 220 2.69e+01 c.1.10.1 73632 1o0xA 262 2.69e+01 d.127.1.1 80755 1v7oA 165 2.71e+01 unknown_sccs -10249 1hywA 68 2.76e+01 1hywA d.186.1.1 61425 1svpA 161 2.78e+01 1svpA b.47.1.3 26384 1c4xA 285 2.84e+01 1c4xA c.69.1.10 34684 1hdoA 206 2.87e+01 1he2A c.2.1.2 60965 1gky 187 2.91e+01 1gky c.37.1.1 31839 1id1A 153 2.91e+01 1id1A c.2.1.9 62286 1j31A 262 2.94e+01 d.160.1.2 -11473 1ubeA 349 2.94e+01 c.37.1.11 88412 d.48.1.1 88413 1m2oA 768 2.97e+01 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1awcB 153 2.99e+01 1bd8 d.211.1.1 19156 8fabA 212 3.01e+01 8fabA b.1.1.1 19772 b.1.1.2 20882 1qntA 176 3.02e+01 1sfe a.4.2.1 16074 c.55.7.1 33749 1tmy 120 3.09e+01 1dbwA c.23.1.1 31083 1lm8B 118 3.12e+01 d.15.1.1 74033 1g0oA 283 3.14e+01 1ybvA c.2.1.2 60181 2fcr 173 3.20e+01 1rcf c.23.5.1 31151 1nhyA 219 3.22e+01 a.45.1.1 80520 c.47.1.5 80521 1rpxA 230 3.23e+01 1rpxA c.1.2.2 28536 1rzfL 213 3.24e+01 b.1.1.1 -2147 b.1.1.2 -2438 1p3dA 475 3.28e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1q7zA 566 3.28e+01 c.1.21.2 -5638 c.1.26.1 -5666 1e5mA 416 3.30e+01 1dd8A c.95.1.1 58973 c.95.1.1 58974 1h4vB 421 3.35e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1j0aA 325 3.35e+01 c.79.1.1 83871 1iw7C 1119 3.37e+01 e.29.1.1 71474 1qmpA 130 3.38e+01 1dz3A c.23.1.1 31106 1d2fA 390 3.39e+01 1d2fA c.67.1.3 34411 1broA 277 3.40e+01 1brt c.69.1.12 34700 2end 138 3.59e+01 2end a.18.1.1 16400 1se9A 126 3.70e+01 d.15.1.1 -9145 1wdnA 226 3.71e+01 1lst c.94.1.1 35816 1rhs 296 3.73e+01 1rhs c.46.1.2 32703 c.46.1.2 32704 1xgsA 295 3.74e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1sw6A 327 3.75e+01 1sw6A d.211.1.1 19176 1k68A 140 3.77e+01 c.23.1.1 -6403 1v54E 109 3.80e+01 a.118.11.1 -1652 1cs1A 386 3.83e+01 1ibjA c.67.1.3 34399 1mv8A 436 3.83e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1tdtA 259 3.87e+01 3tdt b.81.1.2 28055 1spxA 278 3.87e+01 c.2.1.2 -5870 1c7nA 399 3.90e+01 1d2fA c.67.1.3 34413 1qgrA 876 3.93e+01 1qgrA a.118.1.1 19119 1k3eA 156 3.95e+01 d.198.1.1 68103 1n46A 258 3.97e+01 a.123.1.1 85315