# List of top-scoring protein chains for t2k-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 1nf2A 268 1.36e-01 c.108.1.10 -6842 1geqA 248 3.34e-01 2tysA c.1.2.4 28589 1ka2A 499 8.71e-01 d.92.1.5 77305 1qftA 175 1.11e+00 1qftA b.60.1.1 27151 2wsyA 268 1.23e+00 2tysA c.1.2.4 28588 1qopA 268 1.68e+00 2tysA c.1.2.4 28570 1bksA 268 1.68e+00 2tysA c.1.2.4 28585 1iz0A 302 1.75e+00 b.35.1.2 83821 c.2.1.1 83822 1kgsA 225 2.09e+00 a.4.6.1 68596 c.23.1.1 68597 1nbaA 264 2.77e+00 1nbaA unknown_sccs 31753 1fzrA 138 3.26e+00 1fzrA c.52.1.17 33336 1tif 78 3.50e+00 1tif d.15.8.1 37836 2tysA 268 3.54e+00 2tysA c.1.2.4 28572 1mrzA 293 3.64e+00 b.43.5.1 -4048 c.26.1.3 -6616 1jmvA 141 3.75e+00 c.26.2.4 66897 1xyzA 347 3.83e+00 1taxA c.1.8.3 28804 1mvoA 136 4.10e+00 c.23.1.1 79513 1upaA 573 4.24e+00 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1v33A 366 4.77e+00 unknown_sccs -11384 1t35A 191 4.94e+00 unknown_sccs -7285 1odkA 235 5.39e+00 c.56.2.1 86863 1m0dA 138 5.80e+00 c.52.1.17 74354 1im5A 180 5.90e+00 unknown_sccs 66211 5ptp 223 6.32e+00 5ptp b.47.1.2 25831 1dv2A 452 6.33e+00 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 1itzA 675 6.48e+00 c.36.1.6 76798 c.36.1.10 76797 c.48.1.1 76799 1se0A 116 6.77e+00 g.52.1.1 -12841 1lci 550 7.52e+00 1lci e.23.1.1 43349 1qwgA 251 8.48e+00 unknown_sccs -5678 1m2dA 110 8.73e+00 c.47.1.11 78476 1bncA 449 8.86e+00 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1mdbA 539 8.86e+00 e.23.1.1 79008 3cla 213 8.93e+00 3cla c.43.1.1 32610 1kr4A 125 9.50e+00 d.58.5.2 72889 1rypL 212 1.03e+01 d.153.1.4 41880 1zpdA 568 1.06e+01 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1me3A 215 1.09e+01 d.3.1.1 79022 1gefA 123 1.15e+01 1gefA c.52.1.18 60465 1rvgA 305 1.21e+01 c.1.10.2 -5500 1gmxA 108 1.23e+01 c.46.1.3 65355 1h77A 605 1.23e+01 1dv1A 449 1.26e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1qi6A 475 1.28e+01 1euhA c.82.1.1 35373 1bcpA 235 1.30e+01 1bcpA d.166.1.1 42255 1gn0A 108 1.31e+01 c.46.1.3 65358 1pls 113 1.32e+01 1pls b.55.1.1 26965 1me4A 215 1.34e+01 d.3.1.1 79023 1ptoA 244 1.35e+01 1bcpA d.166.1.1 42257 1vi4A 174 1.35e+01 c.8.7.1 -6073 1mo2A 294 1.35e+01 c.69.1.22 79331 1hj9A 226 1.37e+01 b.47.1.2 65845 2fsp 124 1.40e+01 1dz3A c.23.1.1 31119 1mv8A 436 1.42e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1aim 215 1.47e+01 1cs8A d.3.1.1 37044 1omhA 293 1.47e+01 unknown_sccs -10527 1uc8A 280 1.48e+01 unknown_sccs -6718 unknown_sccs -11230 1srrA 124 1.53e+01 1dz3A c.23.1.1 31110 1dgmA 363 1.54e+01 1bx4A c.72.1.1 34936 1g2bA 62 1.56e+01 1tud b.34.2.1 24488 2scuB 388 1.56e+01 2scuB c.23.4.1 31141 d.142.1.4 41562 1pp7U 131 1.58e+01 unknown_sccs -304 1lmt 136 1.60e+01 3lzt d.2.1.2 36416 1prtA 234 1.61e+01 1bcpA d.166.1.1 42253 1id1A 153 1.61e+01 1id1A c.2.1.9 62286 1ail 73 1.67e+01 1ail a.16.1.1 16381 1ub3A 220 1.69e+01 c.1.10.1 88395 1sh1 48 1.73e+01 1sh1 g.9.1.1 44597 1ad3A 452 1.73e+01 1ad3A c.82.1.1 35335 1ns1A 73 1.77e+01 1ail a.16.1.1 16382 1dj0A 264 1.77e+01 1dj0A unknown_sccs -10141 1blu 82 1.79e+01 2fdn d.58.1.1 38948 1f2aA 215 1.79e+01 1cs8A d.3.1.1 37040 1aa8A 347 1.81e+01 1an9A 1euhA 475 1.85e+01 1euhA c.82.1.1 35369 1nar 290 1.85e+01 1nar c.1.8.5 28988 1aboA 62 1.85e+01 1bbzA b.34.2.1 24474 1vh7A 265 1.88e+01 c.1.2.1 -5159 1t5jA 313 1.92e+01 unknown_sccs -1951 1g71A 347 1.96e+01 1g71A unknown_sccs 43268 1tud 62 1.98e+01 1tud b.34.2.1 24489 1tof 112 2.01e+01 1erv c.47.1.1 32733 1q6oA 216 2.01e+01 c.1.2.3 -5162 1s3iA 310 2.02e+01 b.46.1.1 -4111 c.65.1.1 -8042 1ou8A 111 2.04e+01 unknown_sccs -3799 1bbzA 58 2.04e+01 1bbzA b.34.2.1 24477 1kv8A 216 2.05e+01 c.1.2.3 73054 1kutA 230 2.05e+01 d.143.1.1 73017 1bbzE 58 2.08e+01 1bbzA b.34.2.1 24479 1lmq 129 2.12e+01 3lzt d.2.1.2 36588 1lswA 131 2.14e+01 d.110.3.2 78181 1m2aA 110 2.16e+01 c.47.1.11 78472 1qgdA 662 2.18e+01 c.36.1.6 88367 c.36.1.10 88368 c.48.1.1 88369 1h75A 81 2.19e+01 1h75A c.47.1.1 60716 1nh9A 87 2.19e+01 d.68.6.1 -10287 1m3uA 264 2.20e+01 c.1.12.8 84784 1f3uA 118 2.24e+01 1f3uA b.65.1.1 27521 1tuc 63 2.26e+01 1tuc b.34.2.1 24492 1m2bA 110 2.26e+01 c.47.1.11 78474 1qs0A 407 2.30e+01 1qs0A c.36.1.11 31829 193l 129 2.38e+01 3lzt d.2.1.2 36247 1qbhA 101 2.39e+01 1g3fA g.52.1.1 45374 1ffkU 91 2.39e+01 1ffkU d.29.1.1 38458 1gtvA 214 2.41e+01 c.37.1.1 70537 1dhy 292 2.41e+01 1han d.32.1.3 38504 d.32.1.3 38505 1e7kA 128 2.42e+01 1ffkE d.79.3.1 39813 1i1qB 192 2.43e+01 1qdlB c.23.16.1 61544 1v2dA 381 2.47e+01 1uasA 362 2.51e+01 b.71.1.1 88388 c.1.8.1 88389 1t9kA 347 2.56e+01 1lz1 130 2.58e+01 3lzt d.2.1.2 36415 1ve9A 347 2.69e+01 c.4.1.2 -6056 d.16.1.3 -9214 1f9mA 112 2.69e+01 1erv c.47.1.1 32736 1pjr 724 2.79e+01 1pjr c.37.1.19 32391 c.37.1.19 32392 1tqnA 486 2.79e+01 1lrv 244 2.80e+01 1lrv a.118.1.5 19146 1fkmA 396 2.81e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1gdhA 320 2.83e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355 1thfD 253 2.84e+01 1thfD c.1.2.1 28535 3lzt 129 2.84e+01 3lzt d.2.1.2 36245 1jdbB 1073 2.88e+01 a.92.1.1 18574 c.24.1.1 31503 c.30.1.1 31705 c.30.1.1 31706 d.142.1.2 41550 d.142.1.2 41551 1v5xA 203 2.92e+01 c.1.2.4 -5169 1nxhA 126 2.92e+01 unknown_sccs -1239 1ecfA 504 2.95e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1f37A 110 2.97e+01 1f37A c.47.1.11 33088 1jztA 246 3.00e+01 c.104.1.1 63319 1esmA 316 3.04e+01 1esmA c.37.1.6 31953 1g3uA 214 3.05e+01 c.37.1.1 65132 1q1aA 289 3.19e+01 c.31.1.5 -6781 2act 220 3.23e+01 1cs8A d.3.1.1 37002 1gdtA 183 3.24e+01 2rslA a.4.1.2 16021 c.53.1.1 33348 1ig8A 486 3.33e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1pvgA 418 3.33e+01 d.14.1.3 -9032 d.122.1.2 -10965 1gdgA 293 3.45e+01 1eudB 396 3.50e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1rxxA 421 3.51e+01 unknown_sccs -10982 1ik9A 213 3.52e+01 b.59.1.1 66176 h.1.11.1 66177 1jsf 130 3.52e+01 3lzt d.2.1.2 36410 1ny1A 240 3.60e+01 c.6.2.3 86395 1elvA 333 3.63e+01 5ptp b.47.1.2 59454 g.18.1.1 59455 1awo 62 3.63e+01 1bbzA b.34.2.1 24482 1m7sA 484 3.66e+01 e.5.1.1 74574 1eucB 396 3.67e+01 2scuB c.23.4.1 31149 d.142.1.4 41570 5csmA 256 3.68e+01 5csmA a.130.1.2 19494 1ipiA 123 3.72e+01 c.52.1.18 66255 1g65K 211 3.72e+01 d.153.1.4 41907 1c8uA 285 3.77e+01 1c8uA d.38.1.3 38547 d.38.1.3 38548 1db3A 372 3.77e+01 1db3A c.2.1.2 29813 1c3oA 1073 3.83e+01 1c3oA a.92.1.1 18562 c.24.1.1 31491 c.30.1.1 31681 c.30.1.1 31682 d.142.1.2 41526 d.142.1.2 41527 1ecfB 504 3.86e+01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1g73C 121 3.86e+01 1g3fA g.52.1.1 45375 1akeA 214 3.86e+01 1zin c.37.1.1 31905 g.41.2.1 45185 1e4yA 214 3.91e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1fu1B 203 3.91e+01 1fu1B b.59.1.1 27077 h.1.11.1 45631 1mfgA 95 3.97e+01 b.36.1.1 79043