# 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 1s72T 120 4.46e-15 1jj2S 119 5.24e-15 1ffkQ b.34.5.1 63104 1ffkQ 119 5.28e-14 1ffkQ b.34.5.1 24605 1a16 440 1.40e+00 1az9 c.55.2.1 33548 d.127.1.1 41165 1az9 457 1.45e+00 1az9 c.55.2.1 33547 d.127.1.1 41164 1iraX 152 1.56e+00 1irp b.42.1.2 25556 1ilr1 152 1.91e+00 1irp 1qa7B 217 2.53e+00 1havA b.47.1.4 26426 1hlcA 129 2.90e+00 1c1lA b.29.1.3 24208 1nhp 447 3.77e+00 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1e32A 458 3.79e+00 1e32A b.52.2.3 59183 c.37.1.20 59184 d.31.1.1 59185 1bbzA 58 3.81e+00 1bbzA b.34.2.1 24477 1bbzE 58 3.89e+00 1bbzA b.34.2.1 24479 1aboA 62 4.02e+00 1bbzA b.34.2.1 24474 1nhs 447 4.12e+00 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1bmfA 510 4.26e+00 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1qa7A 217 4.40e+00 1havA b.47.1.4 26425 1m2tA 254 4.50e+00 d.165.1.1 84761 1irp 153 4.92e+00 1irp b.42.1.2 25559 1a49A 530 4.97e+00 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1joa 447 5.45e+00 1nhp c.3.1.5 30563 c.3.1.5 30564 d.87.1.1 40203 1mxgA 435 6.37e+00 b.71.1.1 85193 c.1.8.1 85194 1ejfA 125 7.16e+00 1ejfA b.15.1.2 23683 1qmyA 167 7.45e+00 1qmyA d.3.1.2 37094 1rl6A 177 7.56e+00 1rl6A d.141.1.1 41473 d.141.1.1 41474 1vif 62 7.76e+00 1vie b.34.4.1 24593 1dynA 125 8.57e+00 1dynA b.55.1.1 26955 1l3aA 228 8.77e+00 d.18.1.2 73531 1bxvA 91 8.88e+00 1aac b.6.1.1 22875 1e79A 510 9.35e+00 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1i1jA 108 9.37e+00 1i1jA b.34.2.1 61531 1erv 105 9.38e+00 1erv c.47.1.1 32743 1oxsC 353 9.77e+00 b.40.6.3 87519 c.37.1.12 87520 1axiB 236 1.01e+01 1axiB b.1.2.1 21997 b.1.2.1 21998 1vie 62 1.01e+01 1vie b.34.4.1 24592 1havA 217 1.02e+01 1havA b.47.1.4 26423 1oxxK 353 1.05e+01 1m3sA 186 1.11e+01 c.80.1.3 78573 1dkxA 219 1.16e+01 1dkzA e.20.1.1 43315 1liuA 528 1.17e+01 b.58.1.1 77970 c.1.12.1 77971 c.49.1.1 77972 1hjdA 101 1.17e+01 b.34.2.1 65846 1h0hA 977 1.20e+01 b.52.2.2 76435 c.81.1.1 76436 2dynA 122 1.25e+01 1dynA b.55.1.1 26957 1hf2A 210 1.29e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 1h2kA 349 1.30e+01 b.82.2.6 76572 1mzeA 351 1.33e+01 b.82.2.6 79694 1czfA 362 1.37e+01 1czfA b.80.1.3 28031 1t3qB 788 1.39e+01 1dkzA 219 1.40e+01 1dkzA e.20.1.1 43314 1h8eA 510 1.40e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1opjA 293 1.43e+01 d.144.1.7 87230 1njhA 119 1.45e+01 b.128.1.1 85787 1u69A 163 1.47e+01 1i60A 278 1.48e+01 c.1.15.4 71118 1g86A 142 1.49e+01 b.29.1.3 70161 1lcl 142 1.49e+01 1lcl b.29.1.3 24216 1iwmA 186 1.51e+01 b.125.1.2 83758 1mrj 247 1.53e+01 1mrj d.165.1.1 42177 1erw 105 1.54e+01 1erv c.47.1.1 32745 1hdkA 141 1.55e+01 b.29.1.3 65807 1f89A 291 1.55e+01 d.160.1.1 64988 1g1kA 143 1.55e+01 1aohA b.2.2.2 22404 1kawA 135 1.59e+01 3ullA b.40.4.3 25288 1tuc 63 1.62e+01 1tuc b.34.2.1 24492 1hr0W 71 1.72e+01 1ah9 b.40.4.5 25329 3hhrB 203 1.83e+01 1axiB b.1.2.1 22005 b.1.2.1 22006 1aipE 405 1.87e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1h4rA 314 1.88e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1pm4A 119 1.88e+01 1se8A 301 1.92e+01 1jhfA 202 1.95e+01 a.4.5.2 63057 b.87.1.1 63058 1fzkA 274 1.96e+01 1agdA b.1.1.2 60149 d.19.1.1 60150 1fzoA 274 2.01e+01 1agdA b.1.1.2 60155 d.19.1.1 60156 1qhoA 686 2.03e+01 1cxlA b.1.18.2 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1lk2A 274 2.05e+01 1g2oA 268 2.05e+01 1b8oA c.56.2.1 60228 1bpr 191 2.08e+01 1dkzA e.20.1.1 43319 1bjx 110 2.10e+01 1bjx c.47.1.2 32774 2bjxA 110 2.10e+01 1bjx c.47.1.2 32776 1bqbA 301 2.15e+01 1hyt d.92.1.2 58962 1g7pA 274 2.19e+01 b.1.1.2 70153 d.19.1.1 70154 1kpuA 274 2.28e+01 b.1.1.2 84456 d.19.1.1 84457 1bjt 793 2.40e+01 1bjt e.11.1.1 43249 1x8mA 288 2.41e+01 1gpr 162 2.45e+01 1gpr b.84.3.1 28267 1ha3A 405 2.48e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1pkn 530 2.50e+01 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1qqjA 419 2.53e+01 1qcnA b.34.8.1 59034 d.177.1.1 59035 1hyoA 421 2.56e+01 1qcnA b.34.8.1 59001 d.177.1.1 59002 1qcnA 421 2.58e+01 1qcnA b.34.8.1 59017 d.177.1.1 59018 1kafA 108 2.61e+01 d.199.1.1 68372 1tueB 218 2.62e+01 1sfdA 105 2.62e+01 1tuaA 191 2.66e+01 1aaj 105 2.67e+01 1aac b.6.1.1 22841 1bxaA 105 2.67e+01 1aac b.6.1.1 22839 1aiu 105 2.69e+01 1erv c.47.1.1 32746 1qxhA 167 2.69e+01 1exmA 405 2.71e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1ema 236 2.78e+01 1ema d.22.1.1 38339 1mvfD 82 2.82e+01 b.129.1.1 85143 1kypA 237 2.87e+01 d.22.1.1 73280 1jnyA 435 2.87e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1rhd 293 2.92e+01 1rhs c.46.1.2 32715 c.46.1.2 32716 1gttA 429 2.95e+01 d.177.1.1 70529 d.177.1.1 70530 1kqfA 1015 3.04e+01 b.52.2.2 72871 c.81.1.1 72872 2frvA 264 3.07e+01 2frvA e.19.1.1 43303 2dpmA 284 3.09e+01 2dpmA c.66.1.28 34246 1qksA 567 3.10e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 1i7oA 429 3.12e+01 1i7oA d.177.1.1 61893 d.177.1.1 61894 1q0sA 259 3.17e+01 1g291 372 3.17e+01 1g291 1hdmB 193 3.23e+01 1hdmB b.1.1.2 21584 d.19.1.1 38158 1o97C 264 3.24e+01 c.26.2.3 81232 1aac 105 3.32e+01 1aac b.6.1.1 22838 1omiA 248 3.36e+01 a.4.5.4 87079 b.82.3.3 87080 1iz6A 138 3.39e+01 b.34.5.2 76976 b.40.4.5 76977 1i3zA 103 3.41e+01 d.93.1.1 83667 1qcoA 423 3.41e+01 1qcnA b.34.8.1 59021 d.177.1.1 59022 1nxzA 246 3.46e+01 b.122.1.2 86391 c.116.1.5 86392 1s5lO 246 3.46e+01 1mo9A 523 3.49e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1jeoA 180 3.57e+01 c.80.1.3 66611 1vfgA 390 3.62e+01 1fcdA 401 3.62e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1tbgA 340 3.66e+01 1tbgA b.69.4.1 27649 1awo 62 3.67e+01 1bbzA b.34.2.1 24482 1pse 69 3.73e+01 1pse b.34.4.2 24595 1ckaA 57 3.74e+01 1ckaA b.34.2.1 24459 1jkiA 533 3.80e+01 c.2.1.3 71704 d.81.1.3 71705 1gutA 68 3.83e+01 b.40.6.1 65576 1k7cA 233 3.89e+01 c.23.10.4 68267 1kk1A 410 3.91e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1deoA 233 3.93e+01 1deoA c.23.10.4 31345