# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1hx6A 394 1.53e-01 1cjdA b.121.2.1 58995 b.121.2.1 58996 1hb5A 394 1.57e-01 i.6.1.1 65752 1cjdA 394 2.18e-01 1cjdA b.121.2.1 58963 b.121.2.1 58964 1s1dA 331 3.42e-01 unknown_sccs -4566 1rifA 282 8.44e-01 unknown_sccs -7265 1bbhA 131 1.52e+00 1bbhA a.24.3.2 16546 1mejA 223 1.66e+00 c.65.1.1 79029 1evsA 187 2.23e+00 1evsA a.26.1.1 16845 1o94A 729 2.64e+00 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 2tmdA 729 2.72e+00 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1f8yA 157 2.73e+00 1f8xA c.23.14.1 31395 1trrA 107 2.77e+00 1jhgA a.4.12.1 19017 1djnA 729 2.79e+00 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1oeyA 83 3.06e+00 d.15.2.2 -9162 1f8xA 157 3.15e+00 1f8xA c.23.14.1 31397 2gar 212 3.32e+00 2gar c.65.1.1 34161 1hme 77 3.75e+00 1cktA a.21.1.1 16418 1f6yA 262 3.93e+00 1f6yA c.1.21.2 29673 1qtnA 164 4.44e+00 1pauA c.17.1.1 30999 1rypH 205 4.66e+00 d.153.1.4 41876 1fua 215 4.81e+00 2fua c.74.1.1 34973 1kq5A 159 5.00e+00 b.80.5.1 68795 1thx 115 5.02e+00 1thx c.47.1.1 32732 1jj2R 84 5.40e+00 1ffkP d.12.1.1 63103 1s72S 85 5.47e+00 1hsm 79 5.48e+00 1cktA a.21.1.1 16421 1jhgA 101 5.70e+00 1jhgA a.4.12.1 19009 2wrpR 107 5.93e+00 1jhgA a.4.12.1 19010 1garA 212 6.04e+00 2gar c.65.1.1 34162 1viaA 175 6.09e+00 c.37.1.2 -7021 1m6yA 301 6.20e+00 a.60.13.1 78716 c.66.1.23 78717 1bjx 110 6.50e+00 1bjx c.47.1.2 32774 2bjxA 110 6.51e+00 1bjx c.47.1.2 32776 1f8rA 498 6.51e+00 1f8rA c.3.1.2 30410 d.16.1.5 37974 1meoA 209 7.10e+00 c.65.1.1 79035 1sqsA 242 7.12e+00 unknown_sccs -6433 1aurA 218 7.16e+00 1auoA c.69.1.14 34718 1jkxA 212 7.18e+00 c.65.1.1 66813 1daaA 282 7.56e+00 1daaA e.17.1.1 43270 2dabA 282 7.88e+00 1daaA e.17.1.1 43274 1hce 118 8.00e+00 1hce b.42.5.2 25625 1e4cP 215 8.10e+00 2fua c.74.1.1 34969 1m3uA 264 8.73e+00 c.1.12.8 84784 1fnnA 389 8.96e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1hcd 118 9.05e+00 1hce b.42.5.2 25624 1kb9A 431 9.32e+00 d.185.1.1 77311 d.185.1.1 77312 2lgsA 468 9.57e+00 1lgr d.15.9.1 37838 d.128.1.1 41168 1rypC 244 9.76e+00 1rypC d.153.1.4 41934 1ezvA 430 9.77e+00 1be3A d.185.1.1 59541 d.185.1.1 59542 3proC 166 9.92e+00 3proC d.52.1.1 38812 d.52.1.1 38813 1lgr 468 9.94e+00 1lgr d.15.9.1 37837 d.128.1.1 41167 1us8A 147 1.00e+01 c.37.1.12 -7194 1o66A 275 1.01e+01 c.1.12.8 -5590 1a8y 367 1.03e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1rboC 123 1.05e+01 1rboC d.73.1.1 39634 2fua 215 1.05e+01 2fua c.74.1.1 34977 1ffkW 73 1.11e+01 1ffkW g.41.8.1 45315 1fzdA 201 1.14e+01 3fib d.171.1.1 42484 1o12A 376 1.18e+01 b.92.1.5 80758 c.1.9.10 80759 2glsA 470 1.19e+01 1lgr d.15.9.1 37851 d.128.1.1 41181 1k4zA 159 1.24e+01 b.80.5.1 72070 1culA 217 1.27e+01 1azsA d.58.29.1 39417 1auoA 218 1.27e+01 1auoA c.69.1.14 34716 8rucI 123 1.27e+01 1rboC d.73.1.1 39629 1gkfB 557 1.28e+01 1pnkB 557 1.30e+01 1ajqB 1ajqB 557 1.36e+01 1ajqB 1js8A 394 1.36e+01 a.86.1.1 67219 b.112.1.1 67220 1gk9B 557 1.37e+01 1cjtA 217 1.39e+01 1azsA d.58.29.1 39419 1kyoA 430 1.40e+01 d.185.1.1 73249 d.185.1.1 73250 1qhtA 775 1.61e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1f52A 468 1.63e+01 1lgr d.15.9.1 37839 d.128.1.1 41169 1to6A 371 1.64e+01 1reoA 486 1.78e+01 c.3.1.2 -5997 d.16.1.5 -9217 1ijtA 128 1.80e+01 1bfg b.42.1.1 62510 1pfo 500 1.81e+01 1pfo f.9.1.1 43826 1jj2F 119 1.84e+01 1ffkE d.79.3.1 63091 1e3aB 560 1.85e+01 1ajqB 1mngA 203 1.88e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1a2s 89 1.90e+01 1ctj a.3.1.1 15800 1sv6A 269 1.91e+01 1j3wA 163 1.94e+01 unknown_sccs -10870 1tbxA 99 1.97e+01 1ct9A 553 1.97e+01 1ct9A c.26.2.1 31616 d.153.1.1 41834 3adk 195 2.01e+01 1zin c.37.1.1 31885 1ukgA 252 2.04e+01 b.29.1.1 -3390 1jpmA 366 2.07e+01 c.1.11.2 67031 d.54.1.1 67032 1g7cB 94 2.07e+01 1b64 d.58.12.1 39308 1imoA 88 2.08e+01 1imoA c.15.1.2 62590 1xxbA 78 2.08e+01 1xxaA d.74.2.1 39706 1l6oA 95 2.11e+01 b.36.1.1 84534 1n3oA 252 2.12e+01 b.29.1.1 79967 1cr5A 189 2.13e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1ip9A 85 2.15e+01 1ip9A d.15.2.2 62638 1dyr 206 2.18e+01 1aoeA c.71.1.1 34916 2sli 679 2.19e+01 2sli b.29.1.9 24274 b.68.1.1 27611 1nwbA 124 2.20e+01 b.124.1.1 86296 1dbhA 354 2.25e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1o98A 511 2.25e+01 c.105.1.1 86684 c.76.1.3 86685 1f60B 94 2.25e+01 1b64 d.58.12.1 39307 1bc8C 93 2.27e+01 1awcA a.4.5.21 16168 1azsA 220 2.28e+01 1azsA d.58.29.1 39416 3daaA 277 2.30e+01 1daaA e.17.1.1 43272 1pa7A 130 2.32e+01 a.40.1.1 -896 1m3jA 471 2.35e+01 f.9.1.1 -12372 1nh2B 53 2.37e+01 a.32.1.1 -777 1gm7B 557 2.37e+01 1hxs2 272 2.42e+01 1aipE 405 2.43e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1uocA 289 2.48e+01 unknown_sccs -7671 1puzA 82 2.49e+01 1gm9B 557 2.55e+01 1qv1A 195 2.58e+01 a.39.1.5 -830 8acn 754 2.58e+01 1amj c.8.2.1 30724 c.83.1.1 35400 7acn 754 2.60e+01 1amj c.8.2.1 30717 c.83.1.1 35393 1us0A 316 2.60e+01 c.1.7.1 -5233 1q1oA 98 2.63e+01 d.15.2.2 -9172 1b24A 188 2.64e+01 1b24A d.95.2.1 40573 d.95.2.1 40574 2arcB 164 2.66e+01 2arcA b.82.4.1 28149 1ov9A 50 2.67e+01 a.155.1.1 -1486 1n0uA 842 2.72e+01 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1s6tA 285 2.74e+01 c.37.1.5 -7040 1vkjA 285 2.74e+01 1djxB 624 2.74e+01 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1hufA 140 2.81e+01 1hufA d.195.1.1 61272 1ky9B 448 2.82e+01 b.36.1.4 73200 b.36.1.4 73201 b.47.1.1 73202 1kb9B 352 2.84e+01 d.185.1.1 77313 d.185.1.1 77314 1pwmA 316 2.87e+01 c.1.7.1 -5232 1hm2A 700 2.99e+01 1cb8A a.102.3.2 61083 b.24.1.1 61084 b.30.5.2 61085 1bmlC 362 2.99e+01 1bmlC d.15.5.1 37729 d.15.5.1 37730 d.15.5.1 37731 1qtfA 246 3.00e+01 1agjA b.47.1.1 25830 1jj2L 194 3.17e+01 1ffkI d.12.1.2 63097 1nz0A 118 3.17e+01 d.14.1.2 86433 1q8iA 783 3.18e+01 c.55.3.5 -7635 e.8.1.1 -11885 6acn 754 3.19e+01 1amj c.8.2.1 30721 c.83.1.1 35397 1cjbA 231 3.23e+01 1qk3A c.61.1.1 34079 1htoA 477 3.28e+01 d.15.9.1 70987 d.128.1.1 70988 1awcA 110 3.29e+01 1awcA a.4.5.21 16167 1eqjA 511 3.31e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1pu6A 218 3.32e+01 unknown_sccs -1282 2aacA 177 3.34e+01 2arcA b.82.4.1 28150 1h4rA 314 3.36e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1raxA 115 3.38e+01 1lfdA d.15.1.5 37626 1qqrA 138 3.39e+01 1bmlC d.15.5.1 37721 1aw0 72 3.41e+01 1aw0 d.58.17.1 39342 4sli 679 3.44e+01 2sli b.29.1.9 24275 b.68.1.1 27612 1okiA 210 3.51e+01 b.11.1.1 -3030 b.11.1.1 -3031 1ldjB 90 3.52e+01 g.44.1.1 73850 1lddA 74 3.54e+01 a.4.5.34 73841 1ejjA 511 3.56e+01 1ejjA c.105.1.1 59422 c.76.1.3 59423 1s2kA 206 3.58e+01 unknown_sccs -3494 1mxmA 254 3.59e+01 b.38.1.3 79647 d.58.43.1 79648 f.34.1.1 79649 5bcaA 516 3.60e+01 1b9zA b.3.1.1 22529 c.1.8.1 28799 1k0iA 394 3.60e+01 c.3.1.2 67942 d.16.1.2 67943 1dgqA 188 3.63e+01 1ido c.62.1.1 34131 3psg 370 3.64e+01 1smrA b.50.1.2 26841 4icb 76 3.65e+01 4icb a.39.1.1 17145 3pgk 416 3.67e+01 16pk c.86.1.1 35451 1f2hA 169 3.69e+01 1f3vA d.58.22.1 59612 1xxcA 78 3.70e+01 1xxaA d.74.2.1 39712 1hh1A 143 3.72e+01 1gefA c.52.1.18 61036 1xxaA 78 3.76e+01 1xxaA d.74.2.1 39700 1q4rA 112 3.76e+01 d.58.4.4 -9943 1ndoB 194 3.80e+01 1ndoB d.17.4.4 38121 1k99A 99 3.81e+01 a.21.1.1 68341 1r89A 437 3.83e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1htqA 477 3.83e+01 d.15.9.1 71035 d.128.1.1 71036 3rubS 123 3.85e+01 1rboC d.73.1.1 39616 1bj7 156 3.87e+01 1bj7 b.60.1.1 27113 1nmeA 146 3.89e+01 c.17.1.1 85874 1vdwA 254 3.94e+01 e.7.1.1 -11868 1cj3A 392 3.94e+01 1pbe c.3.1.2 30347 d.16.1.2 37878 3proD 166 3.96e+01 3proC d.52.1.1 38814 d.52.1.1 38815 1o6zA 303 3.97e+01 c.2.1.5 81107 d.162.1.1 81108 1pvc2 271 3.99e+01 1aym2