# 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 1je0A 236 6.23e-02 c.56.2.1 66581 1e39A 571 1.13e-01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1qjdA 571 1.16e-01 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 1bouB 302 1.92e-01 1bouB c.56.6.1 33859 1lx7A 253 3.04e-01 1jeqB 565 3.74e-01 1jeqB e.31.1.2 62922 1jeyB 565 4.29e-01 1jeqB e.31.1.2 62925 1k3fA 253 4.63e-01 c.56.2.1 68105 1hdhA 536 5.06e-01 c.76.1.2 65805 1b57A 358 9.61e-01 1dosA c.1.10.2 29177 1drw 273 1.05e+00 1drw c.2.1.3 30057 d.81.1.3 39972 2cevA 299 1.08e+00 1d3vA c.42.1.1 32576 1ex2A 189 1.11e+00 1ex2A c.51.4.2 33225 1prxB 224 1.23e+00 1prxA c.47.1.10 33077 1prxA 224 1.24e+00 1prxA c.47.1.10 33076 1qopA 268 1.33e+00 2tysA c.1.2.4 28570 1fcjA 322 1.62e+00 1oasA c.79.1.1 35289 1d5yA 292 1.69e+00 1d5yA a.4.1.8 16055 a.4.1.8 16056 d.60.1.2 39532 1arzC 273 1.84e+00 1drw c.2.1.3 30061 d.81.1.3 39976 1ex1A 605 1.85e+00 1ex1A c.1.8.7 29013 c.23.11.1 31347 1a8h 500 1.91e+00 1a8h a.27.1.1 16922 c.26.1.1 31589 1jmkC 230 2.03e+00 1d3vA 323 2.10e+00 1d3vA c.42.1.1 32559 1oasA 322 2.20e+00 1oasA c.79.1.1 35293 1iexA 605 2.21e+00 c.1.8.7 66127 c.23.11.1 66128 1qd1A 325 2.45e+00 1qd1A d.58.34.1 39493 d.58.34.1 39494 2tysA 268 2.48e+00 2tysA c.1.2.4 28572 1dosA 358 2.75e+00 1dosA c.1.10.2 29175 1j97A 211 2.76e+00 1f5sA c.108.1.4 62753 1dih 273 3.06e+00 1drw c.2.1.3 30056 d.81.1.3 39971 1jmxA 494 3.13e+00 a.3.1.7 66901 a.3.1.7 66902 b.1.1.6 66903 b.1.1.6 66904 b.61.4.1 66905 1f5sA 211 3.14e+00 1f5sA c.108.1.4 59656 1l7mA 211 3.15e+00 1rlaA 323 3.19e+00 1d3vA c.42.1.1 32561 1bksA 268 3.38e+00 2tysA c.1.2.4 28585 1erw 105 3.38e+00 1erv c.47.1.1 32745 1dkgA 197 3.69e+00 1dkgA b.73.1.1 27812 h.1.9.1 45626 2pth 193 3.72e+00 2pth c.56.3.1 33793 1dctA 324 3.86e+00 6mhtA c.66.1.10 34244 1geqA 248 4.01e+00 2tysA c.1.2.4 28589 1hyeA 313 4.33e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1jf8A 131 4.67e+00 c.44.1.1 66621 1iae 200 4.68e+00 1iae d.92.1.8 40311 1ast 200 4.68e+00 1iae d.92.1.8 40310 1iab 200 4.69e+00 1iae d.92.1.8 40312 1erv 105 4.82e+00 1erv c.47.1.1 32743 1huxA 270 4.95e+00 1huxA c.55.1.5 61278 1jfvA 131 5.35e+00 c.44.1.1 66654 2act 220 5.43e+00 1cs8A d.3.1.1 37002 1dr8B 344 5.61e+00 1cnzA c.77.1.1 35052 1hw7A 255 6.11e+00 1i7fA d.193.1.1 61297 1aa8A 347 7.47e+00 1an9A c.4.1.2 30619 d.16.1.3 37906 1dquA 538 8.19e+00 1dquA c.1.12.6 29314 1hnuA 280 8.50e+00 1hnoA c.14.1.3 61096 1jk7A 323 8.54e+00 1auiA d.159.1.3 63144 1jj7A 260 8.78e+00 c.37.1.12 63114 1fu1A 203 8.97e+00 1fu1B b.59.1.1 27076 h.1.11.1 45630 1g7eA 122 9.47e+00 1g7eA c.47.1.7 33055 1b87A 181 9.55e+00 1b87A d.108.1.1 40797 1cp2A 269 9.62e+00 1cp2A c.37.1.10 32269 1bf6A 291 9.69e+00 1pscA c.1.9.3 29065 1trb 320 9.69e+00 1trb c.3.1.5 30529 c.3.1.5 30530 1ap8 213 9.79e+00 1ap8 d.86.1.1 40151 1ig3A 263 9.80e+00 1ig3A b.82.6.1 62358 c.100.1.1 62359 1qoiA 177 1.00e+01 2cpl b.62.1.1 27490 1rgs 288 1.03e+01 1rgs b.82.3.2 28146 b.82.3.2 28147 1dkgB 197 1.07e+01 1dkgA b.73.1.1 27813 h.1.9.1 45627 1jq3A 296 1.11e+01 c.66.1.17 67079 1inlA 296 1.12e+01 c.66.1.17 66220 1eqjA 511 1.13e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1c3pA 375 1.13e+01 1c3pA c.42.1.2 32606 1ejjA 511 1.15e+01 1ejjA c.105.1.1 59422 c.76.1.3 59423 1jsrA 327 1.21e+01 c.88.1.1 67237 1qmpA 130 1.23e+01 1dz3A c.23.1.1 31106 1fu1B 203 1.25e+01 1fu1B b.59.1.1 27077 h.1.11.1 45631 1gt91 357 1.26e+01 1jepA 222 1.27e+01 d.36.1.1 66612 1eyqA 222 1.29e+01 1eypA d.36.1.1 38534 1mjhA 162 1.31e+01 1mjhA c.29.1.2 31639 1io2A 213 1.32e+01 1ekeA c.55.3.1 62612 1brmA 367 1.33e+01 1brmA c.2.1.3 30030 d.81.1.1 39945 1fjgI 128 1.34e+01 1fjfI d.14.1.1 37559 1dywA 173 1.34e+01 2cpl b.62.1.1 27505 1g97A 459 1.35e+01 1fwyA b.81.1.4 60394 c.68.1.5 60395 1g5pA 289 1.40e+01 1cp2A c.37.1.10 32253 1brwA 433 1.40e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1bdfA 235 1.41e+01 1bdfA d.74.3.1 39727 d.181.1.1 42602 1hm9A 468 1.43e+01 b.81.1.4 65866 c.68.1.5 65867 1e3mA 800 1.44e+01 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 1ffk1 177 1.48e+01 1ffk1 1eypA 222 1.49e+01 1eypA d.36.1.1 38536 1fzaB 328 1.49e+01 3fib d.171.1.1 42480 h.1.8.1 45621 1fp6A 289 1.55e+01 1cp2A c.37.1.10 32243 1sup 275 1.58e+01 1gci c.41.1.1 32510 1aiu 105 1.60e+01 1erv c.47.1.1 32746 1bs9 207 1.63e+01 1bs9 c.23.9.1 31330 1dg9A 157 1.66e+01 1dg9A c.44.1.1 32637 1azwA 313 1.66e+01 1qtrA c.69.1.7 34658 1dz3A 130 1.67e+01 1dz3A c.23.1.1 31105 1phr 157 1.70e+01 1dg9A c.44.1.1 32635 1edg 380 1.72e+01 1edg c.1.8.3 28807 1i7fA 292 1.77e+01 1i7fA d.193.1.1 61888 1ihvA 52 1.77e+01 1ihvA b.34.7.1 24629 1g66A 207 1.78e+01 1bs9 c.23.9.1 31329 1qtrA 317 1.81e+01 1qtrA c.69.1.7 34660 1aa2 108 1.84e+01 1bkrA a.40.1.1 17395 1brt 277 1.85e+01 1brt c.69.1.12 34699 1ipd 345 1.88e+01 1cnzA c.77.1.1 35038 1dcjA 81 1.88e+01 1dcjA d.68.3.1 59115 1dcfA 136 1.89e+01 1dcfA c.23.1.2 31124 1e69B 322 1.92e+01 1e69B c.37.1.12 32377 3cox 507 1.97e+01 1b8sA c.3.1.2 30332 d.16.1.1 37863 1idm 343 1.98e+01 1cnzA c.77.1.1 35035 1igwA 434 1.98e+01 c.1.12.6 62370 1j79A 347 2.04e+01 1j79A c.1.9.4 62675 3lck 271 2.08e+01 1fmk d.144.1.2 41686 1korA 400 2.09e+01 1a8q 274 2.10e+01 1brt c.69.1.12 34702 1agi 125 2.13e+01 7rsa d.5.1.1 37303 1lvl 458 2.16e+01 1lvl c.3.1.5 30567 c.3.1.5 30568 d.87.1.1 40205 1gnd 447 2.18e+01 1gnd c.3.1.3 30423 d.16.1.6 37987 1uteA 313 2.26e+01 1uteA d.159.1.1 42078 1bkrA 109 2.26e+01 1bkrA a.40.1.1 17394 1ir6A 424 2.27e+01 1broA 277 2.30e+01 1brt c.69.1.12 34700 1k6wA 426 2.34e+01 b.92.1.2 68236 c.1.9.5 68237 1ffkI 194 2.38e+01 1ffkI d.12.1.2 37494 3pmgA 561 2.41e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1g291 372 2.42e+01 1g291 1tgoA 773 2.48e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1qumA 285 2.49e+01 1qumA c.1.15.1 29393 1af7 274 2.50e+01 1af7 a.58.1.1 17928 c.66.1.8 34203 1hyqA 263 2.51e+01 1hyqA c.37.1.10 61412 1dfuP 94 2.53e+01 1dfuP b.53.1.1 26936 1ds6B 180 2.54e+01 1rhoA b.1.1.5 21898 1d02A 202 2.54e+01 1d02A c.52.1.8 33313 1f61A 429 2.57e+01 1dquA c.1.12.6 29319 1i58A 189 2.58e+01 1b3qA d.122.1.3 61773 1fjmA 330 2.59e+01 1auiA d.159.1.3 42082 1c1yB 77 2.59e+01 1c1yB d.15.1.5 37618 1qh4A 380 2.62e+01 1qh4A a.83.1.1 18462 d.128.1.2 41197 1ik9A 213 2.63e+01 b.59.1.1 66176 h.1.11.1 66177 1f8mA 429 2.65e+01 1dquA c.1.12.6 29315 1yrgA 385 2.66e+01 1yrgA c.10.1.2 30854 1cqxA 403 2.68e+01 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1dxy 333 2.74e+01 1dxy c.2.1.4 30094 c.23.12.1 31354 1b4kA 337 2.76e+01 1b4kA c.1.10.3 29184 1ig0A 319 2.81e+01 1ig0A b.82.6.1 62354 c.100.1.1 62355 1qfxA 460 2.88e+01 1qfxA c.60.1.3 33994 1ad3A 452 2.91e+01 1ad3A c.82.1.1 35335 1gosA 520 2.91e+01 c.3.1.2 65425 d.16.1.5 65426 1g3qA 237 2.96e+01 1hyqA c.37.1.10 60237 1gesA 450 2.96e+01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 1jilA 420 2.97e+01 c.26.1.1 66745 1hwxA 501 3.00e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1lxtA 561 3.09e+01 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1gh2A 107 3.13e+01 1erv c.47.1.1 60515 1jj2E 177 3.15e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1avpA 204 3.17e+01 1avpA d.3.1.7 37132 1bc5A 269 3.18e+01 1af7 a.58.1.1 17929 c.66.1.8 34204 1an9A 340 3.21e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1b63A 333 3.25e+01 1b63A d.14.1.3 37566 d.122.1.2 41107 1fthA 122 3.27e+01 d.150.1.2 60028 1lldA 319 3.27e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 1wab 232 3.27e+01 1wab c.23.10.3 31341 1es9A 232 3.29e+01 1wab c.23.10.3 31340 1j7nA 776 3.30e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1cozA 129 3.31e+01 1cozA c.26.1.2 31598 1fqiA 147 3.32e+01 1agrE a.91.1.1 18542 1faaA 124 3.37e+01 1erv c.47.1.1 32738 1npsA 88 3.44e+01 1prs b.11.1.1 23622 1lehA 364 3.46e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1sftA 388 3.50e+01 1bd0A b.49.2.1 26482 c.1.6.1 28644 1ehyA 294 3.53e+01 1ehyA c.69.1.11 34693 1k9sA 237 3.55e+01 c.56.2.1 68359 1qtwA 285 3.56e+01 1qumA c.1.15.1 29392 1fbaA 361 3.56e+01 1fbaA c.1.10.1 29120 1bd0A 388 3.57e+01 1bd0A b.49.2.1 26480 c.1.6.1 28642 1f9mA 112 3.61e+01 1erv c.47.1.1 32736 2reb 352 3.68e+01 2reb c.37.1.11 32282 d.48.1.1 38767 8abp 306 3.68e+01 8abp c.93.1.1 35647 1dzoA 123 3.70e+01 1dzoA d.24.1.1 38378 1chuA 540 3.73e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1mjhB 162 3.79e+01 1mjhA c.29.1.2 31640 1whsB 153 3.80e+01 1whtB 1yrgB 385 3.83e+01 1yrgA c.10.1.2 30855 1ehiA 377 3.85e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1whtB 153 3.91e+01 1whtB 1ejhA 190 3.93e+01 1ejhA d.86.1.1 40147 1jjuA 489 3.99e+01 a.3.1.7 66774 a.3.1.7 66775 b.1.1.6 66776 b.1.1.6 66777 b.61.4.1 66778