# 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 1oj4A 283 3.35e-01 d.14.1.5 -9088 d.58.26.5 -10133 1vh5A 148 4.95e-01 d.38.1.5 -9677 1b5tA 275 8.43e-01 1b5tA c.1.23.1 29676 1ho1A 242 1.04e+00 1ho1A c.1.24.1 61097 1e44B 96 1.17e+00 1e44B b.101.1.1 59220 1lldA 319 1.22e+00 3ldh c.2.1.5 30177 d.162.1.1 42144 1qahA 136 1.45e+00 d.79.1.1 -10377 1m5wA 243 1.57e+00 c.1.24.1 84836 1sx5A 244 1.59e+00 c.52.1.2 -7551 1i0aA 466 1.78e+00 1auwA a.127.1.1 61479 1o0iA 138 2.19e+00 d.38.1.5 86532 1trkA 680 2.23e+00 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 1gpuA 680 2.38e+00 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1pqzA 238 2.42e+00 1k9uA 78 2.47e+00 a.39.1.10 84348 1gpjA 404 2.76e+00 a.151.1.1 65451 c.2.1.7 65452 d.58.39.1 65453 1eonA 245 3.07e+00 1rvaA c.52.1.2 33238 1q7fA 286 3.37e+00 unknown_sccs -4599 1gln 468 3.66e+00 1gln a.97.1.1 18752 c.26.1.1 31588 1rvaA 244 3.70e+00 1rvaA c.52.1.2 33240 1mvfD 82 3.78e+00 b.129.1.1 85143 1kutA 230 4.00e+00 d.143.1.1 73017 1ui0A 205 4.13e+00 c.18.1.2 -6328 1hh1A 143 4.26e+00 1gefA c.52.1.18 61036 1k8kC 372 4.32e+00 b.69.4.1 68308 1duvG 333 4.53e+00 1othA c.78.1.1 35228 c.78.1.1 35229 1oniA 137 4.72e+00 d.79.1.1 87144 5eau 548 4.80e+00 5eat a.102.4.1 18851 a.128.1.3 19443 1ezwA 349 4.81e+00 1ezwA c.1.16.3 29558 1s6cA 183 5.18e+00 a.39.1.5 -858 1j09A 468 5.38e+00 a.97.1.1 77025 c.26.1.1 77026 1p32A 209 5.42e+00 1p32A d.25.1.1 38379 1kk1A 410 5.79e+00 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1k0eA 453 5.92e+00 d.161.1.1 67938 1di6A 195 5.96e+00 1di6A c.57.1.1 33863 1v4eA 299 6.13e+00 a.128.1.1 -1781 1i1kA 309 6.24e+00 1daaA e.17.1.1 61533 1odmA 331 6.29e+00 b.82.2.1 86875 1jndA 420 7.12e+00 c.1.8.5 71757 d.26.3.1 71758 1ri5A 298 7.26e+00 unknown_sccs -8063 1tljA 213 7.45e+00 1rv3A 483 7.61e+00 1vjuA 309 7.98e+00 unknown_sccs -9594 1pe9A 361 7.99e+00 b.80.1.1 -4765 1o08A 221 8.19e+00 c.108.1.6 86525 1lqaA 346 8.98e+00 c.1.7.1 84674 1e8gA 560 9.18e+00 1qltA d.58.32.1 39455 d.145.1.1 41718 1edt 271 9.27e+00 2ebn c.1.8.5 28993 1b8gA 429 9.55e+00 1b8gA c.67.1.4 34499 1pf5A 131 9.64e+00 d.79.1.1 -10368 1vjzA 341 9.75e+00 c.1.8.3 -5318 1lxjA 104 9.88e+00 d.58.48.1 84736 1iyeA 309 1.01e+01 e.17.1.1 83786 1f1xA 322 1.04e+01 d.32.1.3 83208 d.32.1.3 83209 1bk0 331 1.07e+01 1bk0 b.82.2.1 28118 1aqm 453 1.09e+01 1smd b.71.1.1 27717 c.1.8.1 28704 1g94A 448 1.10e+01 b.71.1.1 65169 c.1.8.1 65170 1nq6A 302 1.14e+01 c.1.8.3 -5332 1esmA 316 1.15e+01 1esmA c.37.1.6 31953 1dpe 507 1.16e+01 1dpe c.94.1.1 35799 1jtaA 361 1.17e+01 b.80.1.1 71859 1bzyA 217 1.18e+01 1qk3A c.61.1.1 34071 1iyxA 432 1.19e+01 c.1.11.1 83815 d.54.1.1 83816 1uch 230 1.20e+01 1uch d.3.1.6 37129 1qwgA 251 1.25e+01 unknown_sccs -5678 1g55A 343 1.28e+01 1g55A c.66.1.26 34247 1azsA 220 1.31e+01 1azsA d.58.29.1 39416 1dgfA 497 1.33e+01 1cf9A e.5.1.1 42782 1j8fA 323 1.34e+01 1j8fA c.31.1.5 62738 1bouA 139 1.37e+01 1bouA a.88.1.1 18521 1cf2O 337 1.42e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1o6lA 337 1.43e+01 d.144.1.7 81092 1auiB 169 1.50e+01 1auiB a.39.1.5 17325 1jhdA 396 1.50e+01 b.122.1.3 66712 c.26.1.5 66713 1m7yA 435 1.53e+01 c.67.1.4 78761 1npiA 61 1.59e+01 g.3.7.1 80685 1hw5A 210 1.60e+01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1iioA 84 1.63e+01 a.39.4.1 66150 1eexA 554 1.69e+01 1dioA c.1.19.3 29650 1ukcA 522 1.72e+01 1phm 310 1.75e+01 1phm b.121.1.2 59015 b.121.1.2 59016 1bwzA 274 1.76e+01 1bwzA d.21.1.1 38337 d.21.1.1 38338 1oa8A 133 1.86e+01 unknown_sccs -5142 1top 162 1.88e+01 1ncx a.39.1.5 17223 1gqiA 708 1.96e+01 c.1.8.10 76279 d.92.2.2 76280 1nhs 447 2.00e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1dcoA 104 2.06e+01 1dcpA d.74.1.1 39680 1b7dA 61 2.07e+01 1aho g.3.7.1 44139 1gqzA 274 2.11e+01 d.21.1.1 83311 d.21.1.1 83312 1o0pA 104 2.12e+01 d.58.7.1 86535 1n0wA 243 2.14e+01 c.37.1.11 79772 1kamA 194 2.15e+01 c.26.1.3 72254 1ta3A 274 2.16e+01 1o5hA 214 2.17e+01 unknown_sccs -1078 1cs6A 382 2.20e+01 1cs6A b.1.1.4 21760 b.1.1.4 21761 b.1.1.4 21762 b.1.1.4 21763 1iktA 120 2.20e+01 d.106.1.1 66188 1ugiA 84 2.21e+01 1ugiA d.17.5.1 38125 1cxyA 90 2.24e+01 1cyo d.120.1.1 41085 1dljA 402 2.26e+01 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1ri6A 343 2.27e+01 unknown_sccs -4621 1jatB 138 2.34e+01 1jatB d.20.1.1 62819 1xel 338 2.35e+01 1xel c.2.1.2 29786 1f3lA 321 2.37e+01 1g6q2 c.66.1.6 59630 1xvaA 292 2.50e+01 1xvaA c.66.1.5 34183 1g0oA 283 2.52e+01 1ybvA c.2.1.2 60181 2kfnA 605 2.52e+01 1xwl c.55.3.5 33682 e.8.1.1 42975 1ne9A 335 2.53e+01 d.108.1.4 -10805 d.108.1.4 -10806 1o5kA 306 2.53e+01 c.1.10.1 -5482 1g4yR 148 2.57e+01 1cll a.39.1.5 60252 1w1kA 560 2.62e+01 1wab 232 2.64e+01 1wab c.23.10.3 31341 1vk3A 615 2.70e+01 d.79.4.1 -10416 d.79.4.1 -10417 d.139.1.1 -11154 d.139.1.1 -11155 1nhp 447 2.71e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1tj9A 121 2.72e+01 1lvwA 295 2.72e+01 c.68.1.6 84723 1exrA 148 2.72e+01 1cll a.39.1.5 17299 1mumA 295 2.78e+01 c.1.12.7 85108 1es9A 232 2.82e+01 1wab c.23.10.3 31340 1mtyB 384 2.83e+01 1mtyB a.25.1.2 16740 1g8iA 190 2.85e+01 1rec a.39.1.5 60363 1kg0C 136 2.85e+01 d.169.1.1 72445 1o20A 427 2.87e+01 c.82.1.1 86556 1kyqA 274 2.92e+01 c.2.1.11 73281 e.37.1.1 73282 1ndh 272 3.02e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 1vk4A 298 3.12e+01 c.72.1.1 -8414 1muwA 386 3.15e+01 c.1.15.3 79495 1cr1A 296 3.16e+01 1cr1A c.37.1.11 32286 1k2yX 463 3.17e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1pkoA 139 3.21e+01 b.1.1.1 88147 1khbA 625 3.24e+01 c.91.1.1 68606 c.109.1.1 68607 1tk4A 121 3.28e+01 1om4A 422 3.31e+01 d.174.1.1 87067 1pwxA 254 3.32e+01 c.2.1.2 -5858 4xis 387 3.33e+01 4xis c.1.15.3 29421 1uouA 474 3.36e+01 a.46.2.1 -951 c.27.1.1 -6642 d.41.3.1 -9715 1h6qA 168 3.38e+01 1h6qA b.88.1.2 60692 1d3vA 323 3.38e+01 1d3vA c.42.1.1 32559 1f1uA 323 3.43e+01 d.32.1.3 83200 d.32.1.3 83201 1nmeA 146 3.44e+01 c.17.1.1 85874 1g60A 260 3.49e+01 c.66.1.11 70151 1qfoA 119 3.51e+01 1qfoA b.1.1.1 19708 1ek6A 348 3.54e+01 1xel c.2.1.2 29800 1sqzA 121 3.54e+01 a.133.1.2 -1971 1oyzA 280 3.55e+01 unknown_sccs -1573 1ia8A 289 3.57e+01 1ia8A d.144.1.7 62112 1q33A 292 3.60e+01 d.113.1.1 -10901 1rm4A 337 3.61e+01 1rqlA 267 3.61e+01 c.108.1.3 -6814 1ryjA 70 3.65e+01 d.15.3.2 -9179 1lddA 74 3.65e+01 a.4.5.34 73841 5croA 66 3.65e+01 1orc a.35.1.2 17044 1b77A 228 3.67e+01 1b77A d.131.1.2 41362 d.131.1.2 41363 1om0A 274 3.67e+01 c.1.8.5 87058 1ihnA 113 3.71e+01 1ihnA c.103.1.1 62388 1pc3A 350 3.71e+01 1sgvA 316 3.74e+01 b.122.1.1 -5120 unknown_sccs -10148 1jj2I 145 3.79e+01 1ffkG c.21.1.1 63094 3xis 387 3.82e+01 4xis c.1.15.3 29423 1b6rA 355 3.83e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1r5zA 323 3.92e+01 unknown_sccs -12289 1fs0G 230 3.93e+01 1fs0G c.49.2.1 59999 1vhmA 195 3.96e+01 d.110.2.1 -10828 1ev7A 317 3.97e+01 1ev7B c.52.1.9 33315