# List of top-scoring protein chains for t04-100-30-near-backbone-11-scores 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 1xhdA 173 7.62e-02 1t3wA 148 9.29e-02 1ihp 438 5.35e-01 1ihp c.60.1.2 33993 1v3wA 173 6.16e-01 b.81.1.5 100291 1wdtA 665 6.24e-01 1lj9A 144 6.50e-01 a.4.5.28 78035 2au5A 139 7.90e-01 1ofcX 304 1.02e+00 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2beqD 48 1.04e+00 2aucA 126 1.11e+00 2fbhA 146 1.20e+00 1y96B 85 1.34e+00 1eijA 80 1.44e+00 1eijA a.5.6.1 16298 2a6sA 84 1.94e+00 2ap3A 199 2.15e+00 1l8dA 112 2.29e+00 h.4.12.1 73687 1nrlA 316 2.71e+00 a.123.1.1 92091 1mvwC 147 2.72e+00 i.15.1.1 79525 1ic8A 194 2.79e+00 a.4.1.1,a.35.1.1 76740,76741 1wy1A 172 3.18e+00 1f32A 149 3.32e+00 1f32A d.62.1.1 39539 2fu2A 102 3.44e+00 1tn4 159 3.49e+00 1ncx a.39.1.5 17248 1avsA 90 3.56e+00 1cll a.39.1.5 17226 1q6cA 495 3.90e+00 c.1.8.1 95970 1br1B 150 3.95e+00 1wdcC a.39.1.5 17309 1v3hA 495 4.64e+00 c.1.8.1 108303 1sknP 92 4.65e+00 1sknP a.37.1.1 17127 2c2aA 258 4.70e+00 1wlqC 201 4.73e+00 a.4.5.52 109400 1c3jA 351 4.78e+00 1c3jA c.87.1.1 35459 2bezF 42 4.78e+00 1hwtC 81 4.81e+00 1hwtC g.38.1.1,h.1.3.1 45085,45518 1sczA 233 4.85e+00 c.43.1.1 98802 1wmiB 67 4.89e+00 1t95A 240 4.96e+00 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1r1hA 696 5.20e+00 d.92.1.4 104756 2c5kT 95 5.52e+00 2gboA 104 5.77e+00 1o6dA 163 6.10e+00 c.116.1.3 92567 2amyA 246 6.25e+00 1byb 495 6.31e+00 1byb c.1.8.1 28790 1wdpA 495 6.36e+00 1dpsA 167 6.89e+00 1dpsA a.25.1.1 16716 1olmA 403 6.97e+00 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1o6uA 403 7.04e+00 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 2fueA 262 7.10e+00 1ijgA 309 7.16e+00 1fouA e.27.1.1 62493 1v1dA 31 7.25e+00 2es4D 332 7.28e+00 1yy7A 213 7.28e+00 1ic2A 81 7.40e+00 h.1.5.1 62247 1wmhA 89 7.43e+00 1dmtA 696 7.48e+00 1dmtA d.92.1.4 40296 2bskB 90 8.38e+00 1jixA 351 8.54e+00 1c3jA c.87.1.1 63081 2ajfE 180 9.02e+00 2es9A 115 9.28e+00 2dd8S 202 9.80e+00 1qwoA 442 1.01e+01 c.60.1.2 104620 1z5lA 285 1.01e+01 1tmxA 293 1.04e+01 1yzmA 51 1.05e+01 1pcfA 66 1.07e+01 1pcfA d.18.1.1 38142 1nmeA 146 1.15e+01 c.17.1.1 85874 1ggzA 148 1.19e+01 a.39.1.5 70176 1dp3A 55 1.19e+01 1dp3A a.55.1.2 59128 1czqA 46 1.22e+01 1czqA h.3.2.1 45720 1tgrA 52 1.35e+01 1h8eA 510 1.37e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 2aukA 190 1.40e+01 1p4cA 380 1.41e+01 c.1.4.1 94100 1top 162 1.46e+01 1ncx a.39.1.5 17223 1yruB 74 1.52e+01 1wdcC 156 1.58e+01 1wdcC a.39.1.5 17317 1winA 143 1.62e+01 1p9qC 256 1.63e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 2f3yA 148 1.63e+01 1v77A 212 1.66e+01 c.6.3.2 108402 1lt3A 240 1.67e+01 1lt3A d.166.1.1 42230 1f46A 140 1.70e+01 1f46A d.129.4.1 59643 1v30A 124 1.71e+01 1useA 45 1.74e+01 2akrA 285 1.76e+01 1r44A 202 1.76e+01 d.65.1.4 104787 1eumA 165 1.76e+01 1eumA a.25.1.1 59507 2fji1 399 1.82e+01 1qvbA 481 1.82e+01 1qvbA c.1.8.4 28983 1e79A 510 1.83e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1tdpA 111 1.94e+01 a.29.8.1 106781 1gs9A 165 2.01e+01 a.24.1.1 83313 1aj8A 371 2.06e+01 1aj8A a.103.1.1 18900 1tzyD 103 2.09e+01 a.22.1.1 107533 1fy7A 278 2.10e+01 1fy7A d.108.1.1 40817 1tjlA 151 2.11e+01 a.2.14.1,g.39.1.13 107027,107028 2fsjA 346 2.20e+01 1hfeS 123 2.21e+01 1hfeS a.137.4.1 19640 1iomA 377 2.27e+01 a.103.1.1 83698 1go3F 107 2.28e+01 a.60.8.2 65407 1eca 136 2.29e+01 1flp a.1.1.2 15209 1sfxA 109 2.29e+01 a.4.5.50 105505 1pmzA 86 2.30e+01 a.39.1.10 104195 1k5nA 276 2.30e+01 b.1.1.2,d.19.1.1 77266,77267 1xfxO 149 2.33e+01 1lnwA 147 2.34e+01 a.4.5.28 78104 2aexA 346 2.39e+01 2cq2A 114 2.44e+01 1ltsC 41 2.44e+01 1ltsC 1nkpA 88 2.46e+01 a.38.1.1 80573 1upvA 257 2.48e+01 1or3A 165 2.48e+01 1nfn a.24.1.1 16522 1b5tA 275 2.48e+01 1b5tA c.1.23.1 29676 1yzyA 413 2.50e+01 1xhnA 184 2.52e+01 2fm9A 215 2.52e+01 2erbA 125 2.57e+01 1z0pA 84 2.66e+01 1e2uA 553 2.66e+01 1e1dA e.26.1.1 43362 1pq9A 253 2.72e+01 a.123.1.1 95004 2cq8A 110 2.75e+01 1g4yR 148 2.86e+01 1cll a.39.1.5 60252 2ajrA 331 2.87e+01 1q0sA 259 2.88e+01 c.66.1.28 95509 1yz1A 174 2.90e+01 1nf3A 195 2.90e+01 c.37.1.8 85594 1hq3D 103 2.90e+01 1aoiB a.22.1.1 16464 1bj7 156 2.93e+01 1bj7 b.60.1.1 27113 1fcqA 350 2.96e+01 c.1.8.9 65006 1lghB 45 2.97e+01 1lghB f.3.1.1 43734 1siqA 392 3.00e+01 a.29.3.1,e.6.1.1 105585,105586 1w7jB 151 3.01e+01 1vd2A 89 3.03e+01 d.15.2.2 108517 2ck3A 510 3.06e+01 1sesA 421 3.11e+01 1sesA a.2.7.1,d.104.1.1 15710,40710 1m1eB 81 3.15e+01 a.161.1.1 78400 1zavU 30 3.16e+01 1q4rA 112 3.16e+01 d.58.4.4 95823 1n4kA 381 3.17e+01 a.118.22.1,b.42.6.1 79992,79993 1wq3A 322 3.21e+01 1jnmA 62 3.26e+01 h.1.3.1 84181 4xis 387 3.36e+01 4xis c.1.15.3 29421 1fjgK 129 3.36e+01 1fjfK c.55.4.1 33733 1gntA 553 3.45e+01 e.26.1.1 70290 1ockA 412 3.46e+01 c.117.1.1 86802 1n1jA 93 3.46e+01 a.22.1.3 79813 1xcrA 316 3.56e+01 2f9dP 43 3.57e+01 1afwA 393 3.58e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 2af4C 333 3.59e+01 1dd3C 32 3.62e+01 1dd3C a.108.1.1 19033 1kx5B 102 3.63e+01 a.22.1.1 77594 1b74A 254 3.63e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 2c4jA 218 3.64e+01 1mvwB 145 3.71e+01 i.15.1.1 79524 1vm8A 534 3.73e+01 3xis 387 3.77e+01 4xis c.1.15.3 29423 1tw9A 206 3.78e+01 a.45.1.1,c.47.1.5 107381,107382 1zp4A 304 3.84e+01 1n97A 389 3.84e+01 a.104.1.1 80335 1zccA 248 3.84e+01 1vd3A 217 3.86e+01 1qy6A 274 3.88e+01 b.47.1.1 96574 1s72V 71 3.90e+01 a.2.2.1 105341 1vqoV 71 3.91e+01 1qo7A 394 3.97e+01 1qo7A c.69.1.11 34697 1iuqA 367 4.02e+01 c.112.1.1 90703 1on2A 142 4.16e+01 a.4.5.24,a.76.1.1 87103,87104 1b0nB 57 4.21e+01 1b0nB a.34.1.1 17002 1xk5A 204 4.26e+01 1icxA 155 4.26e+01 d.129.3.1 71191 1fn9A 365 4.28e+01 1fn9A d.196.1.1 59894 1qtnA 164 4.32e+01 1pauA c.17.1.1 30999 2bm8A 236 4.39e+01 1em8B 112 4.40e+01 c.126.1.1 90458 1snnA 227 4.47e+01 d.115.1.2 105821 1ji8A 111 4.47e+01 d.203.1.1 66733 1wi6A 88 4.53e+01 1akhA 61 4.54e+01 1akhA a.4.1.1 15980 2b1eA 564 4.63e+01 1o5uA 101 4.66e+01 b.82.1.8 92518 2dc3A 193 4.69e+01 1j30A 144 4.71e+01 a.25.1.1 90806 1zroA 602 4.75e+01 2a26A 50 4.81e+01 1lj2A 110 4.82e+01 h.1.13.2 73926 1xzoA 174 4.82e+01 1pvyA 227 4.90e+01 d.115.1.2 95195 2occD 147 4.91e+01 1ocrD f.23.1.1 43521 1g8iA 190 4.92e+01 1rec a.39.1.5 60363 4tmkA 213 4.97e+01 5tmpA c.37.1.1 31930 1vjvA 415 4.99e+01 d.3.1.9 108632 1x54A 434 5.01e+01 2bylA 439 5.02e+01 1u5uA 374 5.05e+01 1uiuA 502 5.07e+01 c.94.1.1 99434 1z8uA 102 5.10e+01 1iwmA 186 5.11e+01 b.125.1.2 83758 1rgxA 114 5.20e+01 g.77.1.1 104932 1wlxA 129 5.26e+01 1ztpA 251 5.33e+01 1y01A 102 5.37e+01 1v5iB 76 5.39e+01 1miwA 404 5.42e+01 a.173.1.1,d.218.1.4 79162,79163 1lm4A 194 5.52e+01 d.167.1.1 84626 1u2eA 289 5.60e+01 1owfA 99 5.79e+01 a.55.1.1 87487 1vr5A 547 5.82e+01 1nt2B 258 5.87e+01 a.183.1.1 86150 1iioA 84 5.90e+01 a.39.4.1 66150 1gjwA 637 5.99e+01 b.71.1.1,c.1.8.1 60582,60583 1ykiA 217 6.07e+01 1k1vA 41 6.07e+01 a.37.1.1 71999 1f74A 293 6.09e+01 1nal3 c.1.10.1 29079 1iz5A 249 6.11e+01 d.131.1.2,d.131.1.2 83834,83835 1pi1A 185 6.16e+01 a.29.7.1 94699 1lqaA 346 6.20e+01 c.1.7.1 84674 1r13A 148 6.23e+01 d.169.1.1,h.1.1.1 96782,96783 1ukcA 522 6.24e+01 c.69.1.17 107911 1u9iA 519 6.28e+01 1fr2A 86 6.41e+01 a.28.2.1 83256 1y4oA 104 6.44e+01 1fzcA 87 6.45e+01 1fzcA h.1.8.1 45590 1doi 128 6.49e+01 1awd d.15.4.1 37676 1cpq 129 6.60e+01 1cpq a.24.3.2 16556 1zatA 250 6.71e+01 2bl0C 142 6.71e+01 1qsoA 149 6.71e+01 1qsmA d.108.1.1 40812 1okrA 123 6.74e+01 a.4.5.39 93269 1wqgA 185 6.74e+01 1souA 194 6.77e+01 c.124.1.6 105858 1oe9A 795 6.81e+01 b.34.3.1,c.37.1.9 92792,92793 1yf3A 259 6.82e+01 1txqB 86 7.00e+01 1a41 234 7.03e+01 1a41 d.163.1.2 42174 1l0bA 229 7.03e+01 c.15.1.3,c.15.1.3 73391,73392 1kilE 49 7.04e+01 h.1.15.1 72522 1a79A 171 7.04e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 1icrA 217 7.07e+01 1vfrA d.90.1.1 62274 1dpuA 99 7.08e+01 1dpuA a.4.5.16 16150 1fcdA 401 7.10e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1rkeA 262 7.18e+01 a.24.9.1,a.24.9.1 97608,97609 1allA 160 7.18e+01 1qgwC a.1.1.3 15647 2gk4A 232 7.18e+01 1xfhA 422 7.20e+01 1t7rA 269 7.21e+01 a.123.1.1 106635 1uw4A 91 7.22e+01 d.58.7.4 100071 1v54D 147 7.23e+01 f.23.1.1 100325 2ax9A 256 7.29e+01 2fikA 287 7.30e+01 1g0oA 283 7.35e+01 1ybvA c.2.1.2 60181 1zxoA 291 7.50e+01 1f02T 66 7.59e+01 1f02T j.67.1.1 46360 1a02F 56 7.63e+01 1a02F h.1.3.1 45534 1mu5A 471 7.68e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1luaA 287 7.82e+01 c.2.1.7,c.58.1.4 78216,78217 1iruK 201 7.94e+01 d.153.1.4 71362 1fltV 98 7.97e+01 1vpfA g.17.1.1 44751 2oatA 439 8.00e+01 2dkb c.67.1.4 34452 1mw9X 592 8.04e+01 e.10.1.1 91480 1wu9A 80 8.05e+01 1jboB 172 8.10e+01 a.1.1.3 84151 1enh 54 8.10e+01 2hddA a.4.1.1 15973 2ez6A 221 8.11e+01 2byjA 439 8.15e+01 2ax6A 256 8.18e+01 2be6D 37 8.19e+01 1kn1A 160 8.20e+01 a.1.1.3 77455 2madH 373 8.21e+01 2bbkH b.69.2.1 27639 1dtc 27 8.23e+01 j.7.1.1 46109 1u8xX 472 8.25e+01 c.2.1.5,d.162.1.2 107741,107742 1no4A 97 8.26e+01 h.1.24.1 85918 2fcwA 109 8.34e+01 1wphA 201 8.35e+01 1oq9A 363 8.42e+01 a.25.1.2 87257 1s9kD 53 8.45e+01 1qjtA 99 8.47e+01 1eh2 a.39.1.6 17335 1u07A 90 8.51e+01 2ax8A 256 8.58e+01 1b68A 191 8.62e+01 1nfn a.24.1.1 59076 1uz3A 102 8.63e+01 1e5pA 151 8.64e+01 1bj7 b.60.1.1 59272 1gesA 450 8.67e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1z1dA 103 8.72e+01 1n00A 321 8.77e+01 a.65.1.1 85241 1babB 146 8.79e+01 1abwA a.1.1.2 15414 1qbkB 890 8.80e+01 1qbkB a.118.1.1 19127 1m55A 197 8.81e+01 d.89.1.3 74469 1hn0A 1021 8.83e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 2ccmA 191 8.86e+01 2f6mA 65 8.89e+01 1v9nA 360 8.89e+01 2c6qA 351 8.89e+01 1wq6A 72 8.93e+01 2b95A 106 8.95e+01 1imt 80 8.95e+01 1imt g.3.10.1,g.3.10.1 44201,44202 1dekA 241 8.99e+01 1dekA c.37.1.1 31842 1tuoA 464 8.99e+01