# List of top-scoring protein chains for t2k-100-30-str 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 1i50A 1733 3.19e-01 e.29.1.1 61754 6tmnE 316 3.68e-01 1hyt d.92.1.2 59071 2tmnE 316 3.98e-01 1hyt d.92.1.2 59055 8tlnE 316 4.26e-01 1hyt d.92.1.2 59075 1hyt 316 4.34e-01 1hyt d.92.1.2 59005 1k28A 584 1.02e+00 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 2ts1 419 1.04e+00 2ts1 c.26.1.1 31564 1fgs 428 1.41e+00 1fgs c.59.1.2 33959 c.72.2.2 34962 1jbwA 428 1.50e+00 c.59.1.2 62860 c.72.2.2 62861 1qdbA 473 1.63e+00 1qdbA a.138.1.3 19688 2bidA 197 1.68e+00 2bidA f.1.4.1 43398 1e6qM 501 2.63e+00 1e70M c.1.8.4 28920 1h54A 754 3.12e+00 a.102.1.4 60634 b.30.4.1 60635 1e70M 501 3.30e+00 1e70M c.1.8.4 28926 1e4mM 501 3.30e+00 1e70M c.1.8.4 59226 1f6dA 376 3.30e+00 1f6dA c.87.1.3 35467 1b9hA 388 3.85e+00 1b9hA c.67.1.4 34488 1cb8A 678 3.98e+00 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.3.1 24422 1jeoA 180 4.10e+00 c.80.1.3 66611 1hm2A 700 4.39e+00 1cb8A a.102.3.2 61083 b.24.1.1 61084 b.30.3.1 61085 4ts1A 319 4.44e+00 2ts1 c.26.1.1 31565 1jgcA 161 4.92e+00 a.25.1.1 66673 16vpA 366 4.96e+00 16vpA d.180.1.1 42601 1sqc 631 5.18e+00 2sqcA a.102.4.2 18858 a.102.4.2 18859 5eau 548 5.52e+00 5eat a.102.4.1 18851 a.128.1.3 19443 5eat 548 5.84e+00 5eat a.102.4.1 18853 a.128.1.3 19445 1h54B 754 7.50e+00 a.102.1.4 60636 b.30.4.1 60637 1gvfA 286 8.57e+00 119l 164 8.68e+00 1l92 d.2.1.3 36622 1l92 164 9.48e+00 1l92 d.2.1.3 36629 1jilA 420 9.89e+00 c.26.1.1 66745 1eexA 554 1.01e+01 1dioA c.1.19.3 29650 1chkA 238 1.01e+01 1chkA d.2.1.7 36999 1cc1L 498 1.01e+01 1h2rL e.18.1.1 43301 1ej6B 1275 1.04e+01 i.7.1.1 45968 1qgrA 876 1.10e+01 1qgrA a.118.1.1 19119 2sqcA 631 1.27e+01 2sqcA a.102.4.2 18854 a.102.4.2 18855 1dg3A 592 1.38e+01 1dg3A a.114.1.1 19078 c.37.1.8 32153 1m0kA 262 1.42e+01 1e5rA 290 1.49e+01 1e5rA b.82.2.4 59276 1de4C 640 1.56e+01 1cx8B a.48.2.1 17779 c.8.4.1 30760 c.56.5.5 33848 1f5nA 592 1.57e+01 1dg3A a.114.1.1 19077 c.37.1.8 32152 1bvwA 360 1.58e+01 1bvwA c.6.1.1 30668 1lmzA 187 1.62e+01 1hnoA 280 1.63e+01 1hnoA c.14.1.3 61095 1arzC 273 1.66e+01 1drw c.2.1.3 30061 d.81.1.3 39976 1drw 273 1.72e+01 1drw c.2.1.3 30057 d.81.1.3 39972 2bvwA 362 1.77e+01 1bvwA c.6.1.1 30666 1kwfA 363 1.81e+01 1hxkA 1015 1.83e+01 e.33.1.1 65951 1htyA 1015 1.83e+01 e.33.1.1 65948 2at9 247 1.85e+01 1c3wA f.2.1.1 43427 1lt3A 240 1.85e+01 1lt3A d.166.1.1 42230 1bu7A 455 1.88e+01 1bu7A a.104.1.1 18937 1jpzA 473 1.93e+01 a.104.1.1 67069 1d5tA 433 1.93e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1jt7A 146 1.94e+01 b.42.1.1 67255 1hnuA 280 1.94e+01 1hnoA c.14.1.3 61096 1fce 629 2.02e+01 1fce a.102.1.2 18836 1aoa 275 2.03e+01 1aoa a.40.1.1 17396 a.40.1.1 17397 1hwwA 1015 2.04e+01 e.33.1.1 65949 1kgbA 231 2.06e+01 f.2.1.1 68581 1dioA 554 2.14e+01 1dioA c.1.19.3 29656 2bmhA 455 2.16e+01 1bu7A a.104.1.1 18941 1jfkA 134 2.17e+01 a.39.1.5 66639 1dih 273 2.18e+01 1drw c.2.1.3 30056 d.81.1.3 39971 1ek9A 428 2.27e+01 1ek9A f.5.1.1 43809 1eqnA 321 2.27e+01 1dd9A e.13.1.1 43256 1dmtA 696 2.29e+01 1dmtA d.92.1.4 40296 1e6yA 569 2.34e+01 1mroA a.89.1.1 18529 d.58.31.2 39447 1cqxA 403 2.37e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1eypA 222 2.37e+01 1eypA d.36.1.1 38536 2nmbA 160 2.40e+01 2nmbA b.55.1.2 26994 1h77A 605 2.43e+01 1ldfA 281 2.48e+01 1floA 422 2.50e+01 1floA a.60.9.1 18106 d.163.1.1 42166 1ev0A 58 2.51e+01 1ev0A d.71.1.1 39594 1fx8A 281 2.52e+01 f.2.1.5 43651 1f75A 249 2.56e+01 1f75A c.101.1.1 59662 1jepA 222 2.58e+01 d.36.1.1 66612 1kmmA 424 2.60e+01 1adjA c.51.1.1 33174 d.104.1.1 40723 1hw8A 467 2.62e+01 1dqaA d.58.20.1 61298 d.179.1.1 61299 1eyqA 222 2.64e+01 1eypA d.36.1.1 38534 1fzrA 138 2.68e+01 1fzrA c.52.1.17 33336 1l58 164 2.75e+01 1l92 d.2.1.3 36635 1a6cA 513 2.75e+01 1a6cA b.10.1.2 23296 b.10.1.2 23297 b.10.1.2 23298 2glsA 470 2.80e+01 1lgr d.15.9.1 37851 d.128.1.1 41181 1in6A 334 2.84e+01 1hqcA a.4.5.11 62601 c.37.1.13 62602 1qbkB 890 2.85e+01 1qbkB a.118.1.1 19127 1dqaA 467 2.86e+01 1dqaA d.58.20.1 39364 d.179.1.1 42585 1f0xA 571 2.90e+01 1f0xA d.58.32.2 39483 d.145.1.1 41746 1gthA 1025 2.90e+01 1dqaC 467 2.95e+01 1dqaA d.58.20.1 39366 d.179.1.1 42587 1gmlA 178 2.98e+01 1epwA 1290 2.99e+01 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1h96A 182 3.01e+01 2fha a.25.1.1 60811 1bob 320 3.02e+01 1bob d.108.1.1 40816 1hx0A 496 3.05e+01 b.71.1.1 61346 c.1.8.1 61347 1h7xA 1025 3.11e+01 1h7wA a.1.2.2 15687 c.1.4.1 28632 c.3.1.1 30328 c.4.1.1 30613 d.58.1.5 39011 1gthC 1025 3.12e+01 1ehiA 377 3.15e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1ekeA 230 3.26e+01 1ekeA c.55.3.1 33572 1dd9A 338 3.26e+01 1dd9A e.13.1.1 43254 1rmi 160 3.29e+01 1ifa a.26.1.3 16891 1pmi 440 3.30e+01 1pmi b.82.1.3 28114 1evsA 187 3.34e+01 1evsA a.26.1.1 16845 1ek6A 348 3.35e+01 1xel c.2.1.2 29800 1gt8C 1025 3.42e+01 2afgA 140 3.48e+01 1bfg b.42.1.1 25514 1qk8A 146 3.54e+01 1ewxA c.47.1.10 33061 1cem 363 3.61e+01 1cem a.102.1.2 18826 2fokA 579 3.79e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1be3C 379 3.80e+01 1be3C f.2.1.8 43665 1a04A 215 3.91e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1ewxA 146 3.93e+01 1ewxA c.47.1.10 33062 1i3kA 348 4.00e+01 1xel c.2.1.2 61595