# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1tiqA 180 2.72e-24 1vhsA 175 3.25e-22 d.108.1.1 -10794 1gheA 177 5.96e-17 d.108.1.1 76222 1qsmA 152 2.29e-16 1qsmA d.108.1.1 40808 1s3zA 165 2.75e-16 1qsoA 149 3.98e-16 1qsmA d.108.1.1 40812 1q2yA 140 4.78e-14 d.108.1.1 -10791 1i1dA 161 5.37e-14 1i21A d.108.1.1 61526 1i21A 159 6.64e-14 1i21A d.108.1.1 61549 1i12A 160 8.71e-14 1i21A d.108.1.1 61515 1p0hA 318 1.50e-13 d.108.1.1 -10802 1mk4A 157 1.68e-13 d.108.1.1 84979 1on0A 158 3.57e-13 d.108.1.1 87095 1qstA 160 4.71e-13 1yghA d.108.1.1 40804 5gcnA 166 8.71e-13 1yghA d.108.1.1 40807 1cjwA 166 1.43e-12 1cjwA d.108.1.1 40818 1kuxA 207 2.08e-12 d.108.1.1 73021 1ufhA 180 2.47e-12 d.108.1.1 88485 1n71A 180 2.75e-12 d.108.1.1 85370 1b87A 181 7.76e-12 1b87A d.108.1.1 40797 1bo4A 168 1.28e-11 1bo4A d.108.1.1 40798 1bo4B 168 2.81e-11 1bo4A d.108.1.1 40799 1nslA 184 4.45e-11 d.108.1.1 86137 1yghA 164 2.23e-09 1yghA d.108.1.1 40802 1m4iA 181 1.72e-07 d.108.1.1 74457 1sqhA 312 6.63e-07 unknown_sccs -10812 1nmtA 392 3.72e-05 1nmtA d.108.1.2 40823 d.108.1.2 40824 1bob 320 4.87e-05 1bob d.108.1.1 40816 1fy7A 278 2.80e-03 1fy7A d.108.1.1 40817 1iicA 422 3.11e-03 1nmtA d.108.1.2 62422 d.108.1.2 62423 1ne9A 335 3.60e-02 d.108.1.4 -10805 d.108.1.4 -10806 1o50A 157 4.33e-01 d.37.1.1 -9604 d.37.1.1 -9605 1pbjA 125 6.03e-01 d.37.1.1 -9608 d.37.1.1 -9609 1ihgA 370 6.04e-01 2cpl a.118.8.1 62380 b.62.1.1 62381 1hrkA 359 1.23e+00 1hrkA c.92.1.1 61228 1lrzA 426 2.55e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1j7iA 264 2.85e+00 1j7iA d.144.1.6 62694 1k8eA 345 2.87e+00 1o17A 345 2.87e+00 a.46.2.1 80765 c.27.1.1 80766 1mo7A 213 2.89e+00 d.220.1.1 85028 1j7lA 264 3.32e+00 d.144.1.6 62697 1jflA 228 4.22e+00 c.78.2.1 71656 c.78.2.1 71657 1g4uS 383 4.49e+00 1g4uS a.24.11.1 16643 c.45.1.2 32691 1i0rA 169 4.70e+00 1i0rA b.45.1.2 61489 1k9vF 201 5.00e+00 c.23.16.1 68365 1diaA 306 5.01e+00 1a4iA c.2.1.7 30280 c.58.1.2 33928 1vhmA 195 5.33e+00 d.110.2.1 -10828 1gpwB 201 5.38e+00 c.23.16.1 65461 1a4iA 301 5.72e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1vicA 262 6.21e+00 c.68.1.13 -8252 1i0sA 169 6.55e+00 1i0rA b.45.1.2 61491 1ji2A 585 7.01e+00 b.1.18.2 71672 b.71.1.1 71673 c.1.8.1 71674 1kllA 130 7.27e+00 d.32.1.2 72720 1aorA 605 7.47e+00 1b25A a.110.1.1 19042 d.152.1.1 41794 1fezA 256 7.59e+00 1fezA c.108.1.3 43343 1n3oA 252 7.86e+00 b.29.1.1 79967 1eu3A 210 7.89e+00 1an8 b.40.2.2 25206 d.15.6.1 37795 1lkdA 297 7.89e+00 d.32.1.3 78059 d.32.1.3 78060 1kzfA 230 7.95e+00 d.108.1.3 73354 1mkiA 330 7.97e+00 e.3.1.2 84994 1vjnA 220 8.03e+00 unknown_sccs -11458 1a4iB 301 8.44e+00 1a4iA c.2.1.7 30279 c.58.1.2 33927 1pvmA 184 8.49e+00 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1iu9A 111 8.91e+00 c.78.2.1 -8500 1eiwA 111 9.38e+00 1eiwA c.23.3.1 31130 1han 297 9.55e+00 1han d.32.1.3 38506 d.32.1.3 38507 1cvl 319 9.71e+00 1cvl c.69.1.18 34786 1v4vA 376 9.98e+00 c.87.1.3 -8583 1ukgA 252 1.01e+01 b.29.1.1 -3390 1ecsA 126 1.05e+01 1ecsA d.32.1.2 59407 1f1xA 322 1.07e+01 d.32.1.3 83208 d.32.1.3 83209 1taq 832 1.07e+01 1taq a.60.7.1 18082 c.120.1.2 33352 c.55.3.5 33698 e.8.1.1 42991 3rnt 104 1.09e+01 9rnt d.1.1.4 36069 1lgtA 297 1.10e+01 d.32.1.3 77956 d.32.1.3 77957 1rqlA 267 1.14e+01 c.108.1.3 -6814 1adt 356 1.15e+01 1anv a.54.1.1 17887 g.51.1.1 45362 g.51.1.1 45368 1ny1A 240 1.16e+01 c.6.2.3 86395 1nkiA 135 1.17e+01 d.32.1.2 -9544 1ewjA 126 1.22e+01 1ecsA d.32.1.2 59526 1lqpA 135 1.25e+01 d.32.1.2 78151 1i0vA 104 1.29e+01 9rnt d.1.1.4 36054 1g61A 228 1.30e+01 1g61A d.126.1.1 41126 1fs0G 230 1.31e+01 1fs0G c.49.2.1 59999 9rnt 104 1.33e+01 9rnt d.1.1.4 36055 1k4jA 230 1.37e+01 d.108.1.3 72057 1bkcE 256 1.42e+01 1bkcA d.92.1.10 40333 1bvzA 585 1.50e+01 1bvzA b.1.18.2 21856 b.71.1.1 27783 c.1.8.1 28770 1oh0A 131 1.53e+01 d.17.4.3 87004 1o0xA 262 1.58e+01 d.127.1.1 80755 1o98A 511 1.61e+01 c.105.1.1 86684 c.76.1.3 86685 1g97A 459 1.64e+01 1fwyA b.81.1.4 60394 c.68.1.5 60395 1l8qA 324 1.65e+01 a.4.12.2 77809 c.37.1.20 77810 1ml4A 308 1.69e+01 c.78.1.1 79255 c.78.1.1 79256 1iqrA 420 1.71e+01 a.99.1.1 66275 c.28.1.1 66276 1tahA 318 1.73e+01 1cvl c.69.1.18 34775 1r6fA 310 1.85e+01 unknown_sccs -11804 1tahB 318 1.86e+01 1cvl c.69.1.18 34774 1nxuA 333 1.88e+01 c.122.1.1 86389 1bqyA 234 1.89e+01 5ptp b.47.1.2 26332 1eq6A 189 2.01e+01 1eq6A d.107.1.1 40796 1khiA 176 2.03e+01 b.34.5.2 77408 b.40.4.5 77409 1bkcA 255 2.04e+01 1bkcA d.92.1.10 40331 1ju3A 583 2.11e+01 b.18.1.13 67300 c.69.1.21 67301 1f5mB 180 2.11e+01 1f5mB d.110.2.1 40896 1kczA 413 2.12e+01 c.1.11.2 68451 d.54.1.1 68452 1iznB 277 2.13e+01 e.43.1.2 83848 1j2zA 270 2.14e+01 b.81.1.1 -4797 1flcA 432 2.15e+01 1flcA b.19.1.3 23837 c.23.10.2 31337 1jsmA 325 2.16e+01 b.19.1.2 63264 1rypH 205 2.18e+01 d.153.1.4 41876 1dhpA 292 2.22e+01 1dhpA c.1.10.1 29097 1nd4A 264 2.31e+01 d.144.1.6 -11381 1dmmA 131 2.35e+01 1opy d.17.4.3 38114 1eljA 381 2.41e+01 4mbp c.94.1.1 35791 1vkdA 338 2.43e+01 1i9zA 347 2.46e+01 1i9yA d.151.1.2 62102 1uhvA 500 2.50e+01 b.71.1.2 -4683 c.1.8.3 -5354 1iezA 217 2.54e+01 d.115.1.2 66129 1hm9A 468 2.57e+01 b.81.1.4 65866 c.68.1.5 65867 1k3fA 253 2.62e+01 c.56.2.1 68105 1m7xA 617 2.64e+01 b.1.18.2 78749 b.71.1.1 78750 c.1.8.1 78751 1lh0A 213 2.66e+01 c.61.1.1 73896 1oboA 169 2.68e+01 c.23.5.1 86776 1rcf 169 2.73e+01 1rcf c.23.5.1 31170 1eqjA 511 2.74e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1gx1A 160 2.82e+01 d.79.5.1 70675 1e5kA 201 2.87e+01 1fr9A c.68.1.8 34578 1fwyA 331 2.88e+01 1fwyA b.81.1.4 28064 c.68.1.5 34522 1k8kA 418 2.96e+01 c.55.1.1 68305 c.55.1.1 68306 1shdA 107 2.99e+01 1fmk d.93.1.1 40440 1i1iP 681 2.99e+01 1i1iP d.92.1.5 40297 1ejjA 511 3.04e+01 1ejjA c.105.1.1 59422 c.76.1.3 59423 1jv2A 957 3.07e+01 b.1.15.1 67334 b.1.15.1 67335 b.1.15.1 67336 b.69.8.1 67337 1i9yA 347 3.09e+01 1i9yA d.151.1.2 62101 1ea2A 131 3.10e+01 d.17.4.3 64860 1opy 131 3.12e+01 1opy d.17.4.3 38113 1lvwA 295 3.14e+01 c.68.1.6 84723 1h4wA 224 3.21e+01 b.47.1.2 65622 1jhsA 188 3.33e+01 d.107.1.1 84172 1s14A 194 3.35e+01 d.122.1.2 -10973 1d4xA 375 3.36e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1opr 213 3.38e+01 1opr c.61.1.1 34091 2btfA 375 3.43e+01 1yagA c.55.1.1 33429 c.55.1.1 33430 1lx7A 253 3.43e+01 c.56.2.1 74329 1h4xA 117 3.44e+01 1auz c.13.2.1 60626 1t5yA 190 3.50e+01 1g4wR 383 3.50e+01 1g4uS a.24.11.1 16644 c.45.1.2 32692 1v2zA 111 3.53e+01 1gv3A 248 3.57e+01 a.2.11.1 70585 d.44.1.1 70586 1qz5A 375 3.58e+01 c.55.1.1 -7590 c.55.1.1 -7591 1bcpB 199 3.59e+01 1bcpB b.40.2.1 25120 d.169.1.2 42429 1ayx 492 3.69e+01 1ayx a.102.1.1 18825 1idk 359 3.72e+01 1qcxA b.80.1.2 28025 1p0zA 131 3.72e+01 unknown_sccs -10853 1eb7A 323 3.75e+01 1eb7A a.3.1.5 59404 a.3.1.5 59405 1bxnA 485 3.78e+01 1burA c.1.14.1 29376 d.58.9.1 39282 1eqnA 321 3.80e+01 1dd9A e.13.1.1 43256 1ie9A 259 3.81e+01 1db1A a.123.1.1 62318 1jy8A 159 3.81e+01 d.79.5.1 67452 1aj6 219 3.82e+01 1aj6 d.122.1.2 41106 1dvpA 220 3.86e+01 1dvpA a.118.9.2 19216 g.50.1.1 45358 1db1A 259 3.87e+01 1db1A a.123.1.1 19329 1k3kA 158 3.90e+01 f.1.4.1 72017 1nv8A 284 3.94e+01 c.66.1.30 86224 1gk8A 475 3.97e+01 c.1.14.1 65234 d.58.9.1 65235 1odfA 290 3.97e+01 c.37.1.6 -7045 1jyeA 349 4.00e+01 c.93.1.1 67455