# List of top-scoring protein chains for t2k-w0.5 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 1a16 440 1.29e+00 1az9 c.55.2.1 33548 d.127.1.1 41165 1jaw 440 1.30e+00 1az9 c.55.2.1 33549 d.127.1.1 41166 1az9 457 1.32e+00 1az9 c.55.2.1 33547 d.127.1.1 41164 1cksB 79 5.03e+00 1puc d.97.1.1 40684 1rbv 155 5.09e+00 2rn2 c.55.3.1 33553 1khhA 198 5.23e+00 c.66.1.16 68615 1goa 156 6.24e+00 2rn2 c.55.3.1 33564 1goc 156 7.33e+00 2rn2 c.55.3.1 33566 1dawA 327 7.55e+00 1a6o d.144.1.1 41668 1lpuA 332 7.57e+00 1jjoC 261 1.05e+01 1hd2A 161 1.05e+01 c.47.1.10 60962 1rbt 155 1.10e+01 2rn2 c.55.3.1 33555 1eswA 500 1.22e+01 1cwyA c.1.8.1 59500 1cwyA 500 1.22e+01 1cwyA c.1.8.1 28789 1cfb 205 1.42e+01 1cfb b.1.2.1 21991 b.1.2.1 21992 1g5tA 196 1.58e+01 1g5rA c.37.1.11 32366 1kygA 186 1.75e+01 c.47.1.10 68881 1jj2M 186 1.83e+01 1ffkK c.55.4.1 63098 1ffkK 186 1.83e+01 1ffkK c.55.4.1 33731 1kva 155 1.90e+01 2rn2 c.55.3.1 33559 1rdb 155 1.91e+01 2rn2 c.55.3.1 33561 1rbu 155 1.91e+01 2rn2 c.55.3.1 33552 1rda 155 1.92e+01 2rn2 c.55.3.1 33567 2rn2 155 1.92e+01 2rn2 c.55.3.1 33551 1f21A 155 1.93e+01 2rn2 c.55.3.1 33550 1jl1A 155 1.93e+01 c.55.3.1 66821 1kvc 155 1.95e+01 2rn2 c.55.3.1 33560 1law 155 1.99e+01 2rn2 c.55.3.1 33557 1jxbA 155 2.03e+01 1rnh 155 2.04e+01 2rn2 c.55.3.1 33563 1rdc 155 2.11e+01 2rn2 c.55.3.1 33568 1lav 155 2.14e+01 2rn2 c.55.3.1 33554 1rbr 155 2.16e+01 2rn2 c.55.3.1 33556 1rbs 155 2.17e+01 2rn2 c.55.3.1 33558 1elvA 333 2.20e+01 5ptp b.47.1.2 59454 g.18.1.1 59455 1vii 36 2.30e+01 1vii a.14.1.1 16378 1gob 155 2.31e+01 2rn2 c.55.3.1 33565 1fwhC 567 2.46e+01 1ubpC b.92.1.1 28414 c.1.9.2 29036 1fwfC 567 2.46e+01 1ubpC b.92.1.1 28406 c.1.9.2 29028 1yfm 488 2.50e+01 1furA a.127.1.1 19413 1svb 395 2.52e+01 1svb b.1.1.5 21814 f.10.1.1 43827 1a5oC 566 2.54e+01 1ubpC b.92.1.1 28430 c.1.9.2 29052 1fwgC 567 2.54e+01 1ubpC b.92.1.1 28413 c.1.9.2 29035 2kauC 567 2.55e+01 1ubpC b.92.1.1 28412 c.1.9.2 29034 1ef2A 566 2.55e+01 1ubpC b.92.1.1 28429 c.1.9.2 29051 1fwjC 567 2.55e+01 1ubpC b.92.1.1 28416 c.1.9.2 29038 1a5kC 566 2.55e+01 1ubpC b.92.1.1 28425 c.1.9.2 29047 1a5mC 566 2.56e+01 1ubpC b.92.1.1 28423 c.1.9.2 29045 1ejuC 567 2.56e+01 1ubpC b.92.1.1 28422 c.1.9.2 29044 1fwiC 567 2.56e+01 1ubpC b.92.1.1 28407 c.1.9.2 29029 1krbC 567 2.56e+01 1ubpC b.92.1.1 28418 c.1.9.2 29040 1ejtC 567 2.57e+01 1ubpC b.92.1.1 28421 c.1.9.2 29043 1ejsC 567 2.58e+01 1ubpC b.92.1.1 28424 c.1.9.2 29046 1ejvC 567 2.58e+01 1ubpC b.92.1.1 28428 c.1.9.2 29050 1ejrC 567 2.61e+01 1ubpC b.92.1.1 28420 c.1.9.2 29042 1krcC 567 2.64e+01 1ubpC b.92.1.1 28419 c.1.9.2 29041 1kvb 155 2.65e+01 2rn2 c.55.3.1 33562 1hleA 345 2.69e+01 1ovaA e.1.1.1 42618 1jebA 142 2.79e+01 a.1.1.2 66591 1a5lC 566 2.81e+01 1ubpC b.92.1.1 28426 c.1.9.2 29048 1fwcC 567 2.82e+01 1ubpC b.92.1.1 28410 c.1.9.2 29032 1imjA 210 2.87e+01 1qgnA 445 2.88e+01 1ibjA c.67.1.3 34403 1g99A 408 2.93e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1j83A 180 3.01e+01 b.18.1.12 66430 1j84A 180 3.07e+01 b.18.1.12 66432 2hdhA 293 3.12e+01 2hdhA a.100.1.3 18795 c.2.1.6 30199 1gh8A 89 3.17e+01 1gh8A d.58.12.1 39309 3ygsP 97 3.40e+01 3ygsP a.77.1.1 18435 1qqvA 67 3.41e+01 1qqvA a.14.1.1 16379 1bzg 34 3.42e+01 1bzg j.15.1.1 46166 1ffyA 917 3.83e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 3.83e+01 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 1b35C 282 3.83e+01 1b35C b.10.1.3 23335 3hdhA 302 3.99e+01 2hdhA a.100.1.3 18805 c.2.1.6 30209 1mvpA 124 4.00e+01 2rspB b.50.1.1 26775