# 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 1ihrA 76 3.01e-11 1ihrA d.212.1.2 62392 1lr0A 129 1.18e-04 d.212.1.1 74213 1f5mB 180 2.27e-01 1f5mB d.110.2.1 40896 1f5mA 180 2.27e-01 1f5mB d.110.2.1 40895 1n8jA 186 3.18e+00 c.47.1.10 85401 1b6sA 355 3.71e+00 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1dkzA 219 3.84e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1dkxA 219 4.21e+00 1dkzA unknown_sccs -446 unknown_sccs -3061 1bpr 191 4.24e+00 1dkzA unknown_sccs 43319 1h8uA 117 5.84e+00 1h8uA d.169.1.1 60793 1h12A 405 5.85e+00 a.102.1.2 83447 1b6rA 355 6.22e+00 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1iow 306 6.43e+00 1iow c.30.1.2 31713 d.142.1.1 41481 1fnoA 417 6.51e+00 c.56.5.4 75841 d.58.19.1 70145 1fjgJ 105 6.84e+00 1fjfJ d.58.15.1 39330 2dln 306 7.07e+00 1iow c.30.1.2 31715 d.142.1.1 41483 1mp9A 198 7.16e+00 a.74.1.2 -1127 a.74.1.2 -1128 1obpA 159 7.78e+00 1obpA b.60.1.1 27092 1hn2A 159 7.80e+00 b.60.1.1 65890 1gt1A 159 7.80e+00 b.60.1.1 -4436 1tuhA 156 7.98e+00 1v2yA 105 8.49e+00 d.15.1.1 -9148 1avmA 201 8.59e+00 1avmA a.2.11.1 15782 d.44.1.1 38745 1bsmA 201 8.60e+00 1avmA a.2.11.1 15780 d.44.1.1 38743 1b7fA 168 8.82e+00 1b7fA d.58.7.1 39169 d.58.7.1 39170 5croA 66 9.31e+00 1orc a.35.1.2 17044 1xgsA 295 1.06e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1fecA 490 1.15e+01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1j0fA 100 1.16e+01 unknown_sccs -7483 1o0uA 429 1.19e+01 c.118.1.1 80743 1q48A 134 1.27e+01 unknown_sccs -9776 1copD 66 1.34e+01 1orc a.35.1.2 17058 1gp1A 198 1.35e+01 1gp1A c.47.1.10 33059 1cm5A 759 1.37e+01 1cm5A c.7.1.1 30671 2pflA 759 1.37e+01 1cm5A c.7.1.1 30675 3pflA 759 1.37e+01 1cm5A c.7.1.1 30673 1quqB 121 1.40e+01 1quqB b.40.4.3 25305 1jq4A 98 1.45e+01 d.15.4.2 67083 1qmvA 197 1.45e+01 1qq2A c.47.1.10 33066 1qq2A 199 1.47e+01 1qq2A c.47.1.10 33064 1gmuA 143 1.53e+01 b.107.1.1 65335 d.58.38.1 65336 1js3A 486 1.57e+01 c.67.1.6 67215 1h16A 759 1.58e+01 c.7.1.1 76462 1esiA 262 1.62e+01 1skf e.3.1.1 42682 1gmwA 143 1.64e+01 b.107.1.1 65347 d.58.38.1 65348 3cox 507 1.65e+01 1b8sA c.3.1.2 30332 d.16.1.1 37863 1coy 507 1.66e+01 1b8sA c.3.1.2 30333 d.16.1.1 37864 1h0pA 182 1.71e+01 b.62.1.1 76450 1exqA 154 1.74e+01 1b9dA c.55.3.2 33646 1dgsA 667 1.75e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1qb5D 99 1.80e+01 b.40.2.1 88357 1orc 71 1.82e+01 1orc a.35.1.2 17054 1t1vA 93 1.82e+01 1o22A 170 1.85e+01 d.238.1.1 86557 1tiiD 99 1.89e+01 1tiiD b.40.2.1 24965 1raxA 115 1.93e+01 1lfdA d.15.1.5 37626 1bw3 125 1.98e+01 1bw4 b.52.1.2 26899 1gr8A 412 1.99e+01 1ockA 412 1.99e+01 c.117.1.1 86802 2itg 163 2.05e+01 1b9dA c.55.3.2 33669 1a0i 348 2.07e+01 1a0i b.40.4.6 25363 d.142.2.1 41577 1pjbA 361 2.14e+01 1sayA c.2.1.4 30103 c.23.12.2 31363 1s9aA 257 2.14e+01 1sayA 361 2.16e+01 1sayA c.2.1.4 30102 c.23.12.2 31362 1pjcA 361 2.16e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 1b9dA 163 2.17e+01 1b9dA c.55.3.2 33649 1avyA 74 2.18e+01 1avyB h.1.17.1 45656 1lw6E 281 2.19e+01 c.41.1.1 74293 1itg 166 2.23e+01 1b9dA c.55.3.2 33661 1avyB 74 2.27e+01 1avyB h.1.17.1 45657 1skoB 130 2.29e+01 1nt0A 286 2.38e+01 b.23.1.1 86143 b.23.1.1 86144 g.3.11.1 86145 1pj5A 830 2.38e+01 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1bl3A 160 2.40e+01 1b9dA c.55.3.2 33655 1avyC 74 2.49e+01 1avyB h.1.17.1 45658 2rgf 97 2.52e+01 1lfdA d.15.1.5 37627 1lci 550 2.53e+01 1lci e.23.1.1 43349 1aisA 182 2.57e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1hyvA 166 2.59e+01 1b9dA c.55.3.2 61424 1ei5A 520 2.61e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1cc1L 498 2.66e+01 1h2rL e.18.1.1 43301 1bag 425 2.74e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1iba 101 2.77e+01 1iba d.95.1.1 40567 1kxoA 184 2.88e+01 b.60.1.1 84475 1vk8A 106 2.93e+01 1b7yA 350 2.98e+01 1pysA d.104.1.1 40776 1pysA 350 3.05e+01 1pysA d.104.1.1 40775 1oqqA 106 3.07e+01 d.15.4.1 -9191 1pm6A 72 3.10e+01 a.6.1.7 -386 1aa0 113 3.12e+01 1aa0 h.1.17.1 45659 1ox3A 109 3.14e+01 h.1.17.1 -12938 1rh6A 55 3.16e+01 1ospO 257 3.19e+01 1ospO b.76.1.1 27971 1bbpA 173 3.21e+01 1bbpA b.60.1.1 27147 1hdmA 201 3.24e+01 1iakA b.1.1.2 21583 d.19.1.1 38157 1b04A 318 3.25e+01 1b04A d.142.2.2 41579 1bw4 125 3.46e+01 1bw4 b.52.1.2 26900 1pyaA 81 3.59e+01 1pyaA d.155.1.1 42026 1ghhA 81 3.73e+01 1ghhA d.57.1.1 38940 2pii 112 3.87e+01 2pii d.58.5.1 39071 1nozA 388 3.99e+01 1clqA c.55.3.5 33715