# List of top-scoring protein chains for t04-100-30-alpha 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 1f7sA 139 4.51e-23 1cof d.109.1.2 40857 1v6fA 151 8.16e-23 1m4jA 142 3.54e-17 d.109.1.2 78602 1hqz1 141 8.57e-17 1udmA 149 1.31e-11 1p1cA 199 8.02e-02 c.66.1.16 87669 1mai 131 1.39e-01 1mai b.55.1.1 26951 1qcxA 359 1.85e-01 1qcxA b.80.1.2 28028 1qfmA 710 2.25e-01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1qy5A 269 2.86e-01 d.122.1.1 -10958 1h2wA 710 3.59e-01 b.69.7.1 76596 c.69.1.4 76597 1fe0A 68 5.56e-01 1cc8A d.58.17.1 39345 1p8xA 344 5.63e-01 d.109.1.1 -10813 d.109.1.1 -10814 d.109.1.1 -10815 1pvgA 418 6.21e-01 d.14.1.3 -9032 d.122.1.2 -10965 1jkgA 140 7.80e-01 d.17.4.2 66795 1eg2A 319 8.37e-01 1eg2A c.66.1.11 34249 1acc 735 1.00e+00 1acc f.11.1.1 43828 1nm1G 125 1.01e+00 d.109.1.1 80653 1cc8A 73 1.05e+00 1cc8A d.58.17.1 39343 1idk 359 1.10e+00 1qcxA b.80.1.2 28025 1ucdA 190 1.19e+00 1ucaA 190 1.26e+00 d.124.1.1 88462 1bk7A 190 1.27e+00 1bk7A d.124.1.1 41121 1o58A 303 1.32e+00 c.79.1.1 -8503 1a99A 344 1.39e+00 1pot c.94.1.1 35812 1ivnA 190 1.69e+00 c.23.10.5 83719 1jb0D 138 1.77e+00 1jb0D d.187.1.1 62823 1ah6 220 1.82e+00 1yer d.122.1.1 41094 1d4xG 126 1.84e+00 1d0nA d.109.1.1 59109 1gtmA 419 1.87e+00 1hwyA c.2.1.7 30223 c.58.1.1 33871 1qqp2 218 1.89e+00 1qqp2 1ovnA 248 2.00e+00 a.71.1.1 -1096 c.47.1.7 -7477 1a88A 275 2.06e+00 1brt c.69.1.12 34707 1mo7A 213 2.07e+00 d.220.1.1 85028 1fy7A 278 2.20e+00 1fy7A d.108.1.1 40817 1rwzA 245 2.32e+00 d.131.1.2 -11106 d.131.1.2 -11107 1l2tA 235 2.37e+00 c.37.1.12 73514 1lhpA 312 2.54e+00 c.72.1.5 77960 1j1qA 261 2.90e+00 d.165.1.1 -11546 1lnsA 763 3.68e+00 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 1pg4A 652 3.78e+00 e.23.1.1 88067 1p2fA 220 3.83e+00 a.4.6.1 87720 c.23.1.1 87721 1i4wA 353 4.00e+00 c.66.1.24 66028 1ehiA 377 4.04e+00 1iow c.30.1.2 31716 d.142.1.1 41484 1om1A 332 4.19e+00 d.144.1.7 -11318 1pud 386 4.36e+00 1pud c.1.20.1 29658 1ex2A 189 4.39e+00 1ex2A c.51.4.2 33225 1im8A 244 4.52e+00 c.66.1.14 66212 1r5yA 386 4.54e+00 c.1.20.1 -5626 1atlA 202 4.57e+00 1atlA d.92.1.9 40322 1o6dA 163 4.72e+00 c.116.1.3 -6689 1g60A 260 4.76e+00 c.66.1.11 70151 1ll8A 114 4.76e+00 d.110.3.5 78089 1q7zA 566 4.80e+00 c.1.21.2 -5638 c.1.26.1 -5666 1qtnA 164 4.84e+00 1pauA c.17.1.1 30999 1nmeA 146 4.85e+00 c.17.1.1 85874 1qciA 262 4.95e+00 1qi7A d.165.1.1 42201 1pxgA 382 5.08e+00 c.1.20.1 -5616 1el5A 389 5.12e+00 1b3mA c.3.1.2 30369 d.16.1.3 37937 2hgsA 474 5.28e+00 2hgsA c.30.1.4 31722 d.142.1.6 75997 1gjjA 168 5.44e+00 a.140.1.1 83291 a.140.1.1 83292 1vsd 152 5.89e+00 1cxqA c.55.3.2 33625 1a6o 332 6.01e+00 1a6o 1hjrA 158 6.03e+00 1hjrA c.55.3.6 33727 1ef8A 261 6.15e+00 1ef8A c.14.1.3 30921 1g291 372 6.17e+00 1g291 1j8bA 112 6.23e+00 d.222.1.1 77101 1cxqA 162 6.66e+00 1cxqA c.55.3.2 33621 1mml 265 6.69e+00 1mml e.8.1.2 43015 1i58A 189 6.70e+00 1b3qA d.122.1.3 61773 1obwA 175 6.83e+00 2prd b.40.5.1 25416 1rqwA 207 6.87e+00 b.25.1.1 -3313 1opc 110 7.81e+00 1opc a.4.6.1 16231 1i40A 175 7.81e+00 b.40.5.1 66024 1odfA 290 7.93e+00 c.37.1.6 -7045 1qd1A 325 7.94e+00 1qd1A d.58.34.1 39493 d.58.34.1 39494 1b00A 127 8.23e+00 3chy c.23.1.1 31122 1odzA 386 8.32e+00 c.1.8.3 86889 1o1xA 155 8.39e+00 c.121.1.1 86553 1pvc1 301 8.46e+00 1pov1 1f9aA 168 8.53e+00 1f9aA c.26.1.3 31602 1m2rA 327 8.60e+00 d.144.1.7 84760 1mhnA 59 8.68e+00 b.34.9.1 84964 1t8hA 277 8.79e+00 1kwnA 207 9.07e+00 b.25.1.1 77568 1io2A 213 9.24e+00 1ekeA c.55.3.1 62612 1bbt1 213 9.28e+00 1qqp1 1ixmA 192 9.50e+00 1ixmA d.123.1.1 41114 1k32A 1045 9.58e+00 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1jl0A 334 9.73e+00 1jenA d.156.1.1 63155 1o8xA 146 9.81e+00 c.47.1.10 86681 1jbeA 128 9.93e+00 3chy c.23.1.1 62845 1lxnA 99 9.94e+00 d.58.48.1 84737 1btl 263 1.03e+01 1btl e.3.1.1 42691 1o5zA 442 1.05e+01 c.59.1.2 -7939 c.72.2.2 -8418 1oq1A 223 1.06e+01 unknown_sccs -3455 1oc2A 348 1.06e+01 c.2.1.2 -5753 1byqA 228 1.09e+01 1yer d.122.1.1 41100 1m40A 263 1.10e+01 e.3.1.1 74437 1ermA 263 1.14e+01 1btl e.3.1.1 42690 1pytA 94 1.18e+01 1pytA d.58.3.1 39064 1k66A 149 1.19e+01 c.23.1.1 -6406 1r0wA 286 1.20e+01 c.37.1.12 -7158 1bjwA 382 1.21e+01 1bjwA c.67.1.1 34349 1j7lA 264 1.22e+01 d.144.1.6 62697 1svy 114 1.23e+01 1svy d.109.1.1 40831 3chy 128 1.23e+01 3chy c.23.1.1 31038 1s4kA 120 1.24e+01 3bamA 213 1.24e+01 1bam c.52.1.3 33288 1kepA 348 1.30e+01 c.2.1.2 68536 1uufA 369 1.34e+01 b.35.1.2 -3706 c.2.1.1 -5730 1rifA 282 1.34e+01 unknown_sccs -7265 1gyxA 76 1.34e+01 d.80.1.1 76387 1qqp1 213 1.37e+01 1qqp1 1j9yA 385 1.38e+01 1j9yA c.1.8.3 62791 1qh5A 260 1.39e+01 1qh5A d.157.1.2 42057 2mev1 277 1.40e+01 2mev1 1mu5A 471 1.40e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1kjnA 157 1.43e+01 c.115.1.1 72614 1b5pA 385 1.43e+01 c.67.1.1 -8133 1dz3A 130 1.45e+01 1dz3A c.23.1.1 31105 1onc 104 1.47e+01 1onc d.5.1.1 37278 1qqqA 264 1.54e+01 1bkpA d.117.1.1 40931 1qk8A 146 1.59e+01 1ewxA c.47.1.10 33061 1v9dA 340 1.60e+01 unknown_sccs -1762 1ddmA 135 1.60e+01 2nmbA b.55.1.2 26993 1hv9A 456 1.60e+01 1fwyA b.81.1.4 28060 c.68.1.5 34518 1h2eA 207 1.61e+01 c.60.1.1 70857 1esgA 213 1.61e+01 1bam c.52.1.3 33286 1gxqA 106 1.63e+01 a.4.6.1 70721 1eo6A 117 1.68e+01 1eo6A d.15.1.3 37609 1ggxA 223 1.70e+01 1ggxA d.22.1.1 38367 1b5tA 275 1.73e+01 1b5tA c.1.23.1 29676 1ns5A 155 1.74e+01 c.116.1.3 80705 1t95A 240 1.76e+01 2plc 274 1.76e+01 2plc c.1.18.2 29614 1aq0A 306 1.89e+01 1aq0A c.1.8.3 28842 1vjqA 79 1.91e+01 unknown_sccs -13478 1rkqA 282 1.92e+01 c.108.1.10 -6847 3cla 213 1.92e+01 3cla c.43.1.1 32610 1pieA 419 1.93e+01 d.14.1.5 -9075 unknown_sccs -10120 1lgpA 116 1.95e+01 b.26.1.2 73890 1thv 207 1.97e+01 1thv b.25.1.1 23904 1lx7A 253 1.98e+01 c.56.2.1 74329 1j96A 323 2.01e+01 c.1.7.1 71616 1orc 71 2.02e+01 1orc a.35.1.2 17054 5croA 66 2.02e+01 1orc a.35.1.2 17044 1goiA 499 2.04e+01 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1e4yA 214 2.04e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1ecfA 504 2.09e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1bmqB 88 2.13e+01 1pauB 1r4xA 275 2.13e+01 unknown_sccs -2846 unknown_sccs -10776 1fmjA 351 2.14e+01 c.37.1.5 59879 1p9qC 256 2.16e+01 1j0hA 588 2.18e+01 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 1qh3A 260 2.19e+01 1qh5A d.157.1.2 42059 1kpgA 287 2.21e+01 c.66.1.18 68735 1s96A 219 2.24e+01 c.37.1.1 -6972 1pyoA 167 2.25e+01 c.17.1.1 -7932 1evfA 264 2.26e+01 1bkpA d.117.1.1 40932 1rxyA 253 2.27e+01 c.56.2.1 -7834 1e6pA 499 2.27e+01 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1ufbA 127 2.34e+01 a.24.16.3 -635 1mjfA 281 2.34e+01 c.66.1.17 79198 1latA 82 2.35e+01 2nllB g.39.1.2 45122 1qauA 112 2.39e+01 1qauA b.36.1.1 24779 1b25A 619 2.44e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1qmvA 197 2.45e+01 1qq2A c.47.1.10 33066 1j58A 385 2.50e+01 b.82.1.2 71531 1qsmA 152 2.52e+01 1qsmA d.108.1.1 40808 1hxhA 253 2.53e+01 c.2.1.2 76725 1j5sA 463 2.54e+01 c.1.9.8 71580 1ukuA 102 2.57e+01 d.58.5.2 -9992 1v2xA 194 2.59e+01 c.116.1.1 -6704 1sviA 195 2.60e+01 1a48 306 2.63e+01 1a48 d.143.1.1 41590 1uwzA 136 2.63e+01 1qmeA 702 2.64e+01 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 2pth 193 2.68e+01 2pth c.56.3.1 33793 1ja9A 274 2.69e+01 c.2.1.2 62817 1s72T 120 2.71e+01 1jyhA 157 2.72e+01 d.60.1.3 71956 1a79A 171 2.74e+01 1a79A c.52.2.1 33340 d.75.1.1 39739 1jj2S 119 2.75e+01 1ffkQ b.34.5.1 63104 1g38A 393 2.76e+01 2admA c.66.1.27 60235 1jtkA 136 2.78e+01 c.97.1.1 71862 1bdmA 327 2.78e+01 1bmdA c.2.1.5 30137 d.162.1.1 42104 1obr 326 2.79e+01 1aye c.56.5.2 33828 1s1pA 331 2.80e+01 c.1.7.1 -5240 1jenA 267 2.81e+01 1jenA 1ufoA 238 2.84e+01 unknown_sccs -8303 1p3wA 404 2.85e+01 c.67.1.3 87752 2ae2A 260 2.88e+01 1bdb c.2.1.2 29945 1hh1A 143 2.88e+01 1gefA c.52.1.18 61036 1fsu 492 2.92e+01 1auk c.76.1.2 35032 1iujA 106 2.93e+01 unknown_sccs -9953 1fs0G 230 2.93e+01 1fs0G c.49.2.1 59999 1s9uA 207 2.94e+01 1ei1A 391 2.94e+01 1aj6 d.14.1.3 37570 d.122.1.2 41104 1m1hA 248 2.94e+01 b.114.1.1 78415 d.58.42.1 78416 1h6kZ 98 2.95e+01 d.58.7.1 60686 1pjjA 271 2.98e+01 1eyqA 222 2.99e+01 1eypA d.36.1.1 38534 1jmcA 246 3.00e+01 1jmcA b.40.4.3 25300 b.40.4.3 25301 1fcjA 322 3.00e+01 1oasA c.79.1.1 35289 1d8dA 377 3.08e+01 1ft1A a.118.6.1 19185 1bmdA 327 3.12e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1p3jA 217 3.16e+01 c.37.1.1 -6996 g.41.2.1 -12769 1elt 236 3.26e+01 5ptp b.47.1.2 26281 1kl9A 182 3.30e+01 b.40.4.5 72681 1pkhA 204 3.32e+01 b.85.4.1 -5053 1nf3C 128 3.36e+01 b.36.1.1 85596 1pyfA 312 3.38e+01 c.1.7.1 -5251 1ayfA 105 3.38e+01 1ayfA d.15.4.1 37684 1bkzA 135 3.38e+01 1a3k b.29.1.3 24202 1f0xA 571 3.38e+01 1f0xA d.58.32.2 39483 d.145.1.1 41746 1qi9A 556 3.42e+01 1qhbA a.111.1.2 19053 1mf7A 194 3.42e+01 c.62.1.1 84937 1fmtA 314 3.47e+01 1fmtA b.46.1.1 25758 c.65.1.1 34174 1moq 368 3.48e+01 1moq c.80.1.1 35302 1go4A 205 3.53e+01 d.135.1.1 70292 1gv3A 248 3.54e+01 a.2.11.1 70585 d.44.1.1 70586 1jofA 365 3.58e+01 b.69.10.1 71775 1j8fA 323 3.65e+01 1j8fA c.31.1.5 62738 1ly1A 181 3.66e+01 c.37.1.1 74334 1id0A 152 3.67e+01 d.122.1.3 66111 1dciA 275 3.69e+01 1dciA c.14.1.3 30918 1igs 248 3.70e+01 1a53 c.1.2.4 28565 1qmpA 130 3.76e+01 1dz3A c.23.1.1 31106 1a53 247 3.76e+01 1a53 c.1.2.4 28564 1ptmA 329 3.79e+01 unknown_sccs -8456 1iam 185 3.79e+01 1zxq b.1.1.3 21653 b.1.1.4 21689 1lcyA 325 3.83e+01 b.36.1.4 73834 b.47.1.1 73835 8rucI 123 3.83e+01 1rboC d.73.1.1 39629 1e3dA 266 3.85e+01 2frvA e.19.1.1 59188 1f2rI 100 3.88e+01 1c9fA d.15.2.1 37641 1n6jG 35 3.92e+01 1b24A 188 3.93e+01 1b24A d.95.2.1 40573 d.95.2.1 40574 1n0wA 243 3.93e+01 c.37.1.11 79772 1plzA 189 3.95e+01 b.82.1.7 88160 1aoeA 192 3.99e+01 1aoeA c.71.1.1 34923 1kk1A 410 4.00e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636