# 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 1d5wC 126 1.31e+00 1dbwA c.23.1.1 31101 1qfwM 108 1.44e+00 32c2A b.1.1.1 20436 1pex 207 2.15e+00 1gen b.66.1.1 27540 1at3A 247 2.31e+00 1at3A b.57.1.1 27021 1kcuL 214 3.85e+00 1jt2A 268 4.22e+00 1jjfA 268 4.24e+00 c.69.1.2 66765 1g5jA 175 4.48e+00 1maz f.1.4.1 43394 1bxlA 181 4.61e+00 1maz f.1.4.1 43396 1pcfA 66 4.97e+00 1pcfA d.18.1.1 38142 1dbwA 126 5.76e+00 1dbwA c.23.1.1 31095 1dckA 126 5.76e+00 1dbwA c.23.1.1 31097 6fabL 214 6.55e+00 8fabA b.1.1.1 19908 b.1.1.2 21002 1jfqL 215 6.60e+00 b.1.1.1 66648 b.1.1.2 66649 1di1A 300 6.82e+00 1di1A a.128.1.4 19446 1cjeB 127 8.04e+00 1ayfA d.15.4.1 37687 1efqA 114 8.08e+00 32c2A b.1.1.1 20548 1e6eB 128 8.11e+00 1ayfA d.15.4.1 59300 1l6vA 128 8.11e+00 1l6uA 128 8.12e+00 1ayfB 105 8.12e+00 1ayfA d.15.4.1 37685 1ayfA 105 8.12e+00 1ayfA d.15.4.1 37684 1dc8A 124 9.20e+00 1dbwA c.23.1.1 31094 1tgoA 773 9.72e+00 1tgoA c.55.3.5 33721 e.8.1.1 43010 1sbsL 220 9.92e+00 8fabA b.1.1.1 20366 b.1.1.2 21358 1egjL 215 1.02e+01 32c2A b.1.1.1 20500 b.1.1.2 21456 1d6mA 653 1.07e+01 1d6mA e.10.1.1 43248 1i7dA 659 1.07e+01 1d6mA e.10.1.1 61886 1fskB 214 1.13e+01 32c2A b.1.1.1 20466 b.1.1.2 21430 43c9A 113 1.17e+01 8fabA b.1.1.1 20386 1lte 239 1.19e+01 1led b.29.1.1 24047 1c1kA 217 1.20e+01 1c1kA a.120.1.1 19239 1foaA 348 1.20e+01 1foaA c.68.1.10 59929 1bouB 302 1.28e+01 1bouB c.56.6.1 33859 1fo8A 343 1.31e+01 1foaA c.68.1.10 59927 1ezvY 107 1.32e+01 32c2A b.1.1.1 59555 1b4jL 214 1.35e+01 8fabA b.1.1.1 20308 b.1.1.2 21300 1ihnA 113 1.37e+01 1ihnA c.103.1.1 62388 1af3 196 1.38e+01 1maz f.1.4.1 43397 1ef8A 261 1.40e+01 1ef8A c.14.1.3 30921 1maz 221 1.42e+01 1maz f.1.4.1 43393 1mf2L 215 1.44e+01 32c2A b.1.1.1 20174 b.1.1.2 21198 2hrpL 218 1.45e+01 8fabA b.1.1.1 20170 b.1.1.2 21194 1d5aA 733 1.53e+01 1tgoA c.55.3.5 33723 e.8.1.1 43012 3lve 114 1.53e+01 8fabA b.1.1.1 20552 2aaa 484 1.54e+01 7taa b.71.1.1 27777 c.1.8.1 28764 2lve 114 1.60e+01 8fabA b.1.1.1 20556 1ax0 239 1.73e+01 1led b.29.1.1 24042 5lveA 114 1.74e+01 8fabA b.1.1.1 20551 1fyuA 255 1.80e+01 1led b.29.1.1 24048 1lve 122 1.81e+01 8fabA b.1.1.1 20553 6paxA 133 1.84e+01 6paxA a.4.1.5 64758 a.4.1.5 64759 1qqcA 773 1.89e+01 1tgoA c.55.3.5 33724 e.8.1.1 43013 1kcrL 213 1.98e+01 1dpfA 180 2.07e+01 1ctqA c.37.1.8 32046 1ggbL 215 2.10e+01 8fabA b.1.1.1 19874 b.1.1.2 20970 1ggiL 218 2.10e+01 8fabA b.1.1.1 19876 b.1.1.2 20972 1kcvL 214 2.30e+01 2imn 113 2.35e+01 8fabA b.1.1.1 19856 1e25A 282 2.38e+01 1e25A e.3.1.1 42731 1jz8A 1023 2.53e+01 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.1.1 67833 c.1.8.3 67834 1hwnA 254 2.69e+01 1mrj d.165.1.1 42224 1jz7A 1023 2.69e+01 b.1.4.1 67810 b.1.4.1 67811 b.18.1.5 67812 b.30.1.1 67813 c.1.8.3 67814 1pdnC 128 2.70e+01 6paxA a.4.1.5 16047 1jpdX 324 2.79e+01 c.1.11.2 67014 d.54.1.1 67015 4lveA 114 2.83e+01 8fabA b.1.1.1 20554 1f49A 1023 2.83e+01 b.1.4.1 22113 b.1.4.1 22114 b.18.1.5 23742 b.30.1.1 24366 c.1.8.3 28865 1eeqA 114 2.85e+01 32c2A b.1.1.1 20544 1bglA 1023 2.88e+01 1bglA b.1.4.1 22097 b.1.4.1 22098 b.18.1.5 23734 b.30.1.1 24358 c.1.8.3 28857 1f4aA 1021 2.88e+01 b.1.4.1 22145 b.1.4.1 22146 b.18.1.5 23758 b.30.1.1 24382 c.1.8.3 28881 1a14L 104 2.89e+01 8fabA b.1.1.1 20060 1dp0A 1023 2.89e+01 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.1.1 24346 c.1.8.3 28845 1eeuA 114 2.98e+01 32c2A b.1.1.1 20546 1ei1A 391 3.03e+01 1aj6 d.14.1.3 37570 d.122.1.2 41104 1nmbL 109 3.05e+01 1mfa b.1.1.1 20062 1lb1B 192 3.06e+01 1iufA 144 3.09e+01 1dvfC 107 3.11e+01 8fabA b.1.1.1 20106 1nmcC 109 3.16e+01 8fabA b.1.1.1 20059 2tecE 279 3.23e+01 1gci c.41.1.1 32545 1igyA 213 3.26e+01 8fabA b.1.1.1 19768 b.1.1.2 20874 1tmo 829 3.31e+01 1dmr b.52.2.2 26919 c.81.1.1 35327 1thm 279 3.38e+01 1gci c.41.1.1 32544 1vpfA 102 3.44e+01 1vpfA g.17.1.1 44767 1jl5A 454 3.46e+01 c.10.2.6 66830 1g9uA 454 3.46e+01 c.10.2.6 65172 1qgc4 438 3.63e+01 1igtB 1ab4 477 3.65e+01 1ab4 e.11.1.1 43251 1l6wA 220 3.75e+01 1fjrA 195 3.77e+01 1fjrA b.102.1.1 59855 1il1B 219 3.89e+01 32c2A b.1.1.1 62541 b.1.1.2 62542 1cxzA 182 3.95e+01 1ctqA c.37.1.8 32048 1c3gA 170 3.95e+01 1c3gA b.4.1.1 22831 b.4.1.1 22832 2ap2A 115 3.96e+01 8fabA b.1.1.1 20178 1ap2C 113 3.97e+01 8fabA b.1.1.1 20184 1fltV 98 3.98e+01 1vpfA g.17.1.1 44751