# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 5.88e-27 b.45.1.2 -4088 1i0rA 169 5.00e-21 1i0rA b.45.1.2 61489 1i0sA 169 5.00e-21 1i0rA b.45.1.2 61491 1uscA 178 1.15e-20 b.45.1.2 -4074 1ejeA 192 7.73e-20 1ejeA b.45.1.2 25757 1d1gA 168 1.36e-01 1d1gA c.71.1.1 34889 1cz3A 168 1.40e-01 1d1gA c.71.1.1 34891 1fhgA 154 4.67e-01 1tlk b.1.1.4 21706 1tlk 154 7.04e-01 1tlk b.1.1.4 21707 1ne2A 200 1.07e+00 c.66.1.32 85586 1pda 315 1.13e+00 1pda c.94.1.1 35751 d.50.2.1 38794 1uaqA 158 1.27e+00 c.97.1.2 88386 1p6oA 161 1.28e+00 c.97.1.2 -8774 1cjsA 219 1.46e+00 1cjsA e.24.1.1 43354 1i2aA 219 1.55e+00 e.24.1.1 -12012 1ig8A 486 1.75e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 1zpdA 568 2.48e+00 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1h6hA 143 3.18e+00 d.189.1.1 65681 1gr3A 160 3.21e+00 b.22.1.1 65476 1o91A 178 3.31e+00 b.22.1.1 -3282 1nktA 922 3.50e+00 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1ivg 388 3.65e+00 2qwc b.68.1.1 27578 1rxxA 421 3.75e+00 unknown_sccs -10982 1i58A 189 4.99e+00 1b3qA d.122.1.3 61773 1asx 159 6.15e+00 1a6dA c.8.5.2 30821 1kwmA 402 6.28e+00 c.56.5.1 73079 d.58.3.1 73080 1fthA 122 6.30e+00 d.150.1.2 60028 1smvA 260 6.33e+00 1smvA b.121.4.7 23288 1i3cA 149 6.41e+00 c.23.1.1 71112 1vavA 222 6.49e+00 1axj 122 6.67e+00 1axj b.45.1.1 25749 1nscA 390 6.71e+00 2qwc b.68.1.1 27591 1gtkA 313 6.92e+00 c.94.1.1 76346 d.50.2.1 76347 1k9sA 237 7.38e+00 c.56.2.1 68359 1qhfA 240 7.82e+00 1qhfA c.60.1.1 33960 1l4sA 112 7.97e+00 d.204.1.1 77693 1iq6A 134 7.99e+00 d.38.1.4 76755 1r9hA 135 8.09e+00 d.26.1.1 -9482 1fzoB 99 8.22e+00 1agdB b.1.1.2 60157 1fzkB 99 8.22e+00 1agdB b.1.1.2 60151 1kpuB 99 8.22e+00 b.1.1.2 84458 1lk2B 99 8.22e+00 b.1.1.2 -2576 1g7pB 99 8.43e+00 b.1.1.2 70155 1f7lA 121 8.88e+00 1f7lA d.150.1.2 59666 1dcfA 136 9.18e+00 1dcfA c.23.1.2 31124 1j8hD 212 9.38e+00 b.1.1.1 71606 b.1.1.2 71607 1bq3B 246 9.99e+00 1qhfA c.60.1.1 33979 1fx3B 169 1.14e+01 1fx3B d.33.1.1 38525 1fjgL 135 1.15e+01 1fjfL b.40.4.5 25346 1flmA 122 1.19e+01 1axj b.45.1.1 25747 1ecpA 238 1.20e+01 1ecpA c.56.2.1 33775 1pk9A 237 1.24e+01 c.56.2.1 -7734 1qynA 153 1.30e+01 d.33.1.1 -9585 1krhA 338 1.35e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1vcaA 202 1.38e+01 1vcaA b.1.1.3 21649 b.1.1.4 21685 1cknA 330 1.44e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1al3 324 1.52e+01 1al3 c.94.1.1 35835 1iuhA 198 1.54e+01 d.61.1.2 83711 3hmgA 328 1.55e+01 1hgeA b.19.1.2 23825 1p7gA 222 1.58e+01 a.2.11.1 -108 d.44.1.1 -9742 1juk 248 1.59e+01 1a53 c.1.2.4 28567 3dapA 320 1.61e+01 1dapA c.2.1.3 30051 d.81.1.3 39966 1igs 248 1.67e+01 1a53 c.1.2.4 28565 1b1cA 181 1.84e+01 1amoA c.23.5.2 31212 1a53 247 1.85e+01 1a53 c.1.2.4 28564 1ckmA 330 1.90e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1pxvA 183 1.91e+01 d.3.1.1 -8881 1et7A 341 1.93e+01 1nif b.6.1.3 23070 b.6.1.3 23071 1fztA 211 1.95e+01 1qhfA c.60.1.1 60158 1ejjA 511 1.99e+01 1ejjA c.105.1.1 59422 c.76.1.3 59423 1v5xA 203 2.00e+01 c.1.2.4 -5169 3nn9 388 2.02e+01 2qwc b.68.1.1 27566 5nn9 388 2.03e+01 2qwc b.68.1.1 27563 1pba 81 2.07e+01 1pytA d.58.3.1 39067 1f1xA 322 2.08e+01 d.32.1.3 83208 d.32.1.3 83209 1i8kA 107 2.11e+01 b.1.1.1 71130 1ass 159 2.12e+01 1a6dA c.8.5.2 30818 1gsa 316 2.23e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1f06A 320 2.32e+01 1dapA c.2.1.3 59556 d.81.1.3 59557 1bihA 395 2.38e+01 1bihA b.1.1.4 21752 b.1.1.4 21753 b.1.1.4 21754 b.1.1.4 21755 1eqjA 511 2.45e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1t62A 166 2.45e+01 1mhcB 99 2.49e+01 1agdB b.1.1.2 20832 1whsA 255 2.57e+01 1ivyA c.69.1.5 34649 1eqkA 102 2.60e+01 1eqkA d.17.1.2 37998 1euvB 86 2.60e+01 1a5r d.15.1.1 37598 1uj6A 227 2.62e+01 1dapA 320 2.75e+01 1dapA c.2.1.3 30053 d.81.1.3 39968 1yts 278 2.76e+01 1ytw c.45.1.2 32690 1ytw 306 2.76e+01 1ytw c.45.1.2 32689 1ytn 306 2.77e+01 1ytw c.45.1.2 32688 1bv1 159 2.77e+01 1bv1 d.129.3.1 41313 1fm4A 159 2.90e+01 1bv1 d.129.3.1 76186 1b3qA 379 2.99e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1q8iA 783 3.12e+01 c.55.3.5 -7635 e.8.1.1 -11885 1bx2B 191 3.12e+01 1iakB b.1.1.2 21610 d.19.1.1 38184 1whtA 256 3.16e+01 1ivyA c.69.1.5 34646 1n3gA 113 3.25e+01 d.204.1.1 79962 1ri6A 343 3.26e+01 unknown_sccs -4621 1bcsA 263 3.26e+01 1ivyA c.69.1.5 34647 1as8A 343 3.29e+01 1nif b.6.1.3 23074 b.6.1.3 23075 1s9rA 410 3.32e+01 unknown_sccs -10989 1pzdA 322 3.33e+01 unknown_sccs -2848 unknown_sccs -10778 1yptA 305 3.37e+01 1ytw c.45.1.2 32686 1lxyA 409 3.37e+01 unknown_sccs -10987 1d5yA 292 3.39e+01 1d5yA a.4.1.8 16055 a.4.1.8 16056 d.60.1.2 39532 1dlhB 188 3.42e+01 1iakB b.1.1.2 21598 d.19.1.1 38172 1o98A 511 3.42e+01 c.105.1.1 86684 c.76.1.3 86685 1jv2A 957 3.44e+01 b.1.15.1 67334 b.1.15.1 67335 b.1.15.1 67336 b.69.8.1 67337 1mal 421 3.45e+01 2mprA f.4.3.2 43784 1ek8A 185 3.47e+01 1ek8A d.67.3.1 59444 1f1uA 323 3.56e+01 d.32.1.3 83200 d.32.1.3 83201 1kvdB 77 3.63e+01 1kveB 1kveB 77 3.63e+01 1kveB 1dnlA 199 3.64e+01 1ci0A b.45.1.1 25753 1kb9A 431 3.64e+01 d.185.1.1 77311 d.185.1.1 77312 1kjvB 100 3.69e+01 b.1.1.2 77423 1sefA 274 3.78e+01 1lyvA 306 3.78e+01 c.45.1.2 74348 1f8eA 388 3.82e+01 2qwc b.68.1.1 59694 2qwc 388 3.83e+01 2qwc b.68.1.1 27547 1j1yA 136 3.98e+01 d.38.1.5 -9671 1mqsA 671 3.99e+01 e.25.1.1 79414