# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1rz1A 161 3.57e-27 b.45.1.2 -4088 1i0rA 169 1.78e-21 1i0rA b.45.1.2 61489 1i0sA 169 1.78e-21 1i0rA b.45.1.2 61491 1uscA 178 2.39e-20 b.45.1.2 -4074 1ejeA 192 5.99e-20 1ejeA b.45.1.2 25757 1cz3A 168 5.35e-02 1d1gA c.71.1.1 34891 1d1gA 168 5.42e-02 1d1gA c.71.1.1 34889 1pda 315 7.84e-02 1pda c.94.1.1 35751 d.50.2.1 38794 1ne2A 200 4.78e-01 c.66.1.32 85586 1fhgA 154 5.56e-01 1tlk b.1.1.4 21706 1tlk 154 8.64e-01 1tlk b.1.1.4 21707 1gtkA 313 9.88e-01 c.94.1.1 76346 d.50.2.1 76347 1uaqA 158 1.69e+00 c.97.1.2 88386 1p6oA 161 1.71e+00 c.97.1.2 -8774 1ig8A 486 2.33e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 1zpdA 568 2.58e+00 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1gr3A 160 4.12e+00 b.22.1.1 65476 1iuhA 198 4.48e+00 d.61.1.2 83711 1r9hA 135 4.57e+00 d.26.1.1 -9482 1i58A 189 5.05e+00 1b3qA d.122.1.3 61773 1lyvA 306 5.26e+00 c.45.1.2 74348 1ytw 306 5.36e+00 1ytw c.45.1.2 32689 1ytn 306 5.36e+00 1ytw c.45.1.2 32688 1h6hA 143 5.43e+00 d.189.1.1 65681 1yts 278 5.50e+00 1ytw c.45.1.2 32690 1axj 122 5.78e+00 1axj b.45.1.1 25749 1hywA 68 5.82e+00 1hywA d.186.1.1 61425 1yptA 305 6.00e+00 1ytw c.45.1.2 32686 1o91A 178 6.42e+00 b.22.1.1 -3282 1flmA 122 6.45e+00 1axj b.45.1.1 25747 1eqkA 102 9.29e+00 1eqkA d.17.1.2 37998 1kwmA 402 9.88e+00 c.56.5.1 73079 d.58.3.1 73080 1qynA 153 1.01e+01 d.33.1.1 -9585 1fthA 122 1.23e+01 d.150.1.2 60028 1smvA 260 1.24e+01 1smvA b.121.4.7 23288 1p7gA 222 1.28e+01 a.2.11.1 -108 d.44.1.1 -9742 1b3qA 379 1.31e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1tvfA 369 1.45e+01 1ix9A 205 1.49e+01 a.2.11.1 76899 d.44.1.1 76900 1i0hA 205 1.49e+01 1avmA a.2.11.1 15760 d.44.1.1 38685 1kb9A 431 1.49e+01 d.185.1.1 77311 d.185.1.1 77312 1kyoA 430 1.51e+01 d.185.1.1 73249 d.185.1.1 73250 1i2aA 219 1.51e+01 e.24.1.1 -12012 1cjsA 219 1.61e+01 1cjsA e.24.1.1 43354 1i3cA 149 1.64e+01 c.23.1.1 71112 1fjgL 135 1.64e+01 1fjfL b.40.4.5 25346 1s9aA 257 1.65e+01 1fx3B 169 1.65e+01 1fx3B d.33.1.1 38525 1k6dA 220 1.65e+01 unknown_sccs 72082 1k9sA 237 1.67e+01 c.56.2.1 68359 1pbyA 489 1.69e+01 a.3.1.7 -178 a.3.1.7 -179 b.1.18.14 -2762 b.1.18.14 -2763 b.61.4.1 -4528 1ezvA 430 1.70e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 1d5nA 205 1.73e+01 1avmA a.2.11.1 15762 d.44.1.1 38687 1yer 228 1.73e+01 1yer d.122.1.1 41101 1jjuA 489 1.74e+01 a.3.1.7 66774 a.3.1.7 66775 b.1.18.14 66776 b.1.18.14 66777 b.61.4.1 66778 1l4sA 112 1.96e+01 d.204.1.1 77693 3hmgA 328 2.11e+01 1hgeA b.19.1.2 23825 1byqA 228 2.13e+01 1yer d.122.1.1 41100 1t62A 166 2.14e+01 1uylA 236 2.19e+01 1dcfA 136 2.41e+01 1dcfA c.23.1.2 31124 1mkyA 439 2.45e+01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1h7mA 102 2.71e+01 d.79.3.1 83485 1rdj1 113 2.76e+01 1rtm1 1rdo1 113 2.76e+01 1rtm1 1ecpA 238 2.87e+01 1ecpA c.56.2.1 33775 1bv1 159 2.92e+01 1bv1 d.129.3.1 41313 1havA 217 2.92e+01 1havA b.47.1.4 26423 1pba 81 3.10e+01 1pytA d.58.3.1 39067 1tgoA 773 3.13e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1qhfA 240 3.24e+01 1qhfA c.60.1.1 33960 1al3 324 3.24e+01 1al3 c.94.1.1 35835 1rxxA 421 3.24e+01 unknown_sccs -10982 1pk9A 237 3.35e+01 c.56.2.1 -7734 1fm4A 159 3.45e+01 1bv1 d.129.3.1 76186 1dnlA 199 3.59e+01 1ci0A b.45.1.1 25753 1mqsA 671 3.61e+01 e.25.1.1 79414 1qtsA 247 3.66e+01 1qtsA b.1.10.1 22313 d.105.1.1 40789 1nktA 922 3.74e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1go3E 187 3.74e+01 b.40.4.5 83054 d.230.1.1 83055 1fzkB 99 3.85e+01 1agdB b.1.1.2 60151 1fzoB 99 3.85e+01 1agdB b.1.1.2 60157 1g7pB 99 3.85e+01 b.1.1.2 70155 1kpuB 99 3.85e+01 b.1.1.2 84458 1lk2B 99 3.85e+01 b.1.1.2 -2576 1qmrA 159 3.91e+01 1bv1 d.129.3.1 41314 1kyfA 247 3.98e+01 b.1.10.1 73220 d.105.1.1 73221