# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-scores 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 2fe5A 94 9.00e-20 2fcfA 103 4.87e-19 2fneA 117 6.67e-19 1g9oA 91 7.99e-19 1pdr b.36.1.1 60400 1i92A 91 3.98e-18 1pdr b.36.1.1 61990 1tp5A 119 5.97e-18 1be9A 119 9.05e-18 1pdr b.36.1.1 24774 1bfeA 119 9.45e-18 1pdr b.36.1.1 24775 1pdr 99 1.36e-17 1pdr b.36.1.1 24771 1qavA 90 1.44e-17 1qauA b.36.1.1 24777 1n7eA 97 2.09e-17 b.36.1.1 91691 1n7fA 97 2.27e-17 b.36.1.1 91692 1q3oA 109 6.14e-17 b.36.1.1 95700 1qavB 115 2.46e-16 1qauA b.36.1.1 24780 2f0aA 98 2.54e-16 1l6oA 95 3.46e-16 b.36.1.1 84534 1ihjA 98 3.61e-16 1pdr b.36.1.1 62382 1qauA 112 6.34e-16 1qauA b.36.1.1 24779 1b8qA 127 6.98e-16 1qauA b.36.1.1 24781 2h2bA 107 8.47e-16 2h3lA 103 1.89e-15 1mfgA 95 2.53e-15 b.36.1.1 79043 1i16 130 3.53e-15 1i16 b.36.1.2 24787 1kwaA 88 5.80e-15 1kwaA b.36.1.1 24772 1n99A 166 6.22e-15 b.36.1.1,b.36.1.1 85459,85460 1nf3C 128 8.80e-15 b.36.1.1 85596 1wf7A 103 1.05e-14 1kwaB 88 1.42e-14 1kwaA b.36.1.1 24773 2f5yA 91 1.40e-13 1v5lA 103 2.77e-13 b.36.1.1 108378 1m5zA 91 2.98e-12 b.36.1.1 78676 1nteA 82 6.57e-12 b.36.1.1 86163 1r6jA 82 6.57e-12 b.36.1.1 97151 1fc6A 388 4.33e-11 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 6.48e-08 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 2.37e-07 1ky9B 448 8.00e-06 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 1y8tA 324 2.32e-05 1sotA 320 1.99e-04 b.36.1.4,b.47.1.1 105852,105853 1ky9A 448 5.41e-03 b.36.1.4,b.47.1.1 73198,73199 1zn8A 180 2.26e-02 1qb7A 236 3.79e-02 1qb7A c.61.1.1 34087 1ao0A 459 6.96e-02 1ecfB c.61.1.1,d.153.1.1 34049,41816 1db3A 372 1.94e-01 1db3A c.2.1.2 29813 1x3mA 415 6.38e-01 1gph1 465 7.46e-01 1ecfB 2g8oA 264 1.04e+00 1tys 265 1.06e+00 1bkpA d.117.1.1 40937 1evfA 264 1.07e+00 1bkpA d.117.1.1 40932 1qqqA 264 1.08e+00 1bkpA d.117.1.1 40931 1axwA 265 1.08e+00 1bkpA d.117.1.1 40938 2g8mA 264 1.09e+00 1bx4A 345 1.61e+00 1bx4A c.72.1.1 34935 1aiqA 264 1.72e+00 1bkpA d.117.1.1 40967 1t6t1 118 1.85e+00 1glaF 168 1.90e+00 1gpr b.84.3.1 28274 1zm8A 259 2.09e+00 2tscA 264 2.15e+00 1bkpA d.117.1.1 40952 1yg9A 330 2.20e+00 2bh8A 101 2.21e+00 2d4pA 141 2.32e+00 1g2qA 187 2.59e+00 c.61.1.1 65117 1jalA 363 2.91e+00 c.37.1.8,d.15.10.2 84138,84139 1o57A 291 3.65e+00 a.4.5.40,c.61.1.1 92483,92484 2fe7A 166 3.80e+00 1f3z 161 4.04e+00 1gpr b.84.3.1 28273 1opr 213 4.18e+00 1opr c.61.1.1 34091 2gwnA 452 5.02e+00 1ggrA 168 5.13e+00 1gpr b.84.3.1 28279 1fxlA 167 5.39e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 2fvgA 340 6.56e+00 1cliA 345 7.20e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1eb0A 147 7.54e+00 b.107.1.1,d.58.38.1 64890,64891 1fxrA 64 7.63e+00 1fxd d.58.1.4 38993 1fdr 248 7.73e+00 1fdr b.43.4.2,c.25.1.1 25653,31543 1vpqA 273 7.90e+00 1vqqA 646 8.12e+00 1dfd 64 8.40e+00 1fxd d.58.1.4 38995 1xx6A 191 8.66e+00 1mwrA 646 8.86e+00 d.17.4.5,d.175.1.1,e.3.1.1 79586,79587,79588 1oroA 213 9.16e+00 1opr c.61.1.1 34093 1uc2A 481 9.34e+00 d.261.1.1 99161 1y0bA 197 9.42e+00 1d8cA 723 9.72e+00 1d8cA c.1.13.1 29325 1d4vB 163 9.88e+00 1d4vB b.22.1.1 23884 2sxl 88 1.07e+01 1b7fA d.58.7.1 39179 2cc0A 195 1.09e+01 1lckA 175 1.14e+01 1lckA b.34.2.1,d.93.1.1 24552,40421 1p7tA 731 1.28e+01 c.1.13.1 94319 1zsyA 357 1.29e+01 1kw4A 89 1.30e+01 a.60.1.2 73077 1tsm 316 1.35e+01 1bkpA d.117.1.1 41024 1w30A 201 1.36e+01 1i52A 236 1.36e+01 1i52A c.68.1.13 61767 1dax 64 1.45e+01 1fxd d.58.1.4 38996 2f7fA 494 1.49e+01 1t3qB 788 1.50e+01 d.41.1.1,d.133.1.1 106369,106370 1mwsA 646 1.50e+01 d.17.4.5,d.175.1.1,e.3.1.1 79592,79593,79594 1q52A 314 1.61e+01 c.14.1.3 95846 1ad3A 452 1.63e+01 1ad3A c.82.1.1 35335 1jv2B 692 1.64e+01 b.1.15.1,c.62.1.1,d.200.1.1,g.3.11.6,g.3.11.6 67338,67339,67340,67341,67342 2b4aA 138 1.69e+01 1g57A 217 1.69e+01 1g57A d.115.1.2 60253 1xv5A 401 1.70e+01 1earA 147 1.71e+01 b.107.1.1,d.58.38.1 64875,64876 1ciqA 40 1.73e+01 2sniI d.40.1.1 38576 1ecfA 504 1.83e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1wvcA 259 1.84e+01 2fa1A 160 1.86e+01 1ecfB 504 1.97e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 1hvyA 288 1.98e+01 1bkpA d.117.1.1 41049 1kcbA 340 2.01e+01 b.6.1.3,b.6.1.3 90951,90952 2ckiA 262 2.05e+01 1u9yA 284 2.18e+01 1fsgA 233 2.19e+01 1qk3A c.61.1.1 34029 1lh0A 213 2.23e+01 c.61.1.1 73896 1p99A 295 2.25e+01 c.94.1.1 94384 2bw3A 534 2.26e+01 1uisA 231 2.27e+01 d.22.1.1 99431 1fmaE 150 2.27e+01 1fmaE d.41.5.1 38630 1vheA 373 2.29e+01 b.49.3.1,c.56.5.4 100669,100670 3sxlA 184 2.37e+01 1b7fA d.58.7.1,d.58.7.1 39173,39174 2c9wA 169 2.37e+01 1uh5A 329 2.38e+01 c.2.1.2 107840 1iezA 217 2.39e+01 d.115.1.2 66129 2f69A 261 2.49e+01 1tzfA 259 2.51e+01 c.68.1.13 107476 1vkmA 297 2.51e+01 c.138.1.1 108670 1txvB 440 2.57e+01 1mkmA 249 2.60e+01 a.4.5.33,d.110.2.2 79242,79243 1dg6A 191 2.65e+01 1d4vB b.22.1.1 23883 2bw4A 340 2.66e+01 1n6aA 259 2.71e+01 b.76.2.1,b.85.7.1 80121,80122 1l1qA 186 2.71e+01 c.61.1.1 77653 1fwkA 296 2.72e+01 1fwkA d.14.1.5,d.58.26.1 37576,39398 1ueoA 63 2.76e+01 j.107.1.1 99269 2az4A 429 2.77e+01 1r13A 148 2.89e+01 d.169.1.1,h.1.1.1 96782,96783 1o63A 219 2.90e+01 c.94.1.1 92540 1sw5A 275 2.90e+01 c.94.1.1 106069 1zq9A 285 2.92e+01 1gjjA 168 2.92e+01 a.140.1.1,a.140.1.1 83291,83292 1st0A 337 3.02e+01 d.13.1.3,d.246.1.1 98979,98980 1w78A 422 3.07e+01 1vj0A 380 3.08e+01 b.35.1.2,c.2.1.1 100786,100787 1v76A 96 3.09e+01 1vraB 215 3.12e+01 1g7tA 594 3.13e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25714,25715,31033,32148 1ti6A 875 3.17e+01 b.52.2.2,c.81.1.1 106974,106975 1mjc 69 3.18e+01 1mjc b.40.4.5 25319 1csp 67 3.26e+01 1mjc b.40.4.5 25321 1g7rA 594 3.29e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25716,25717,31034,32149 1oi7A 288 3.33e+01 c.2.1.8,c.23.4.1 87049,87050 1ugmA 125 3.41e+01 d.15.1.3 107827 2adcA 229 3.47e+01 1bfi 112 3.47e+01 1qadA d.93.1.1 40499 1x65A 89 3.48e+01 1avaC 181 3.56e+01 1avaC b.42.4.1 25604 1gzqA 300 3.61e+01 b.1.1.2,d.19.1.1 70818,70819 2abwA 227 3.72e+01 2bb3A 221 3.84e+01 1fm0E 150 3.90e+01 1fmaE d.41.5.1 38629 1xdnA 277 3.94e+01 1mlcB 218 3.96e+01 1igtB b.1.1.1,b.1.1.2 20053,21095 1lcjA 109 3.97e+01 1qadA d.93.1.1 40414 2agcA 162 4.01e+01 1vc3B 97 4.03e+01 1h3iA 293 4.06e+01 b.76.2.1,b.85.7.1 76635,76636 1viuA 203 4.11e+01 d.113.1.1 100771 1lvoA 302 4.11e+01 b.47.1.4 74284 1mt6A 280 4.14e+01 b.76.2.1,b.85.7.1 79446,79447 1a04A 215 4.23e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1jnyA 435 4.36e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2c5qA 240 4.41e+01 2ahqA 76 4.45e+01 1g7sA 594 4.51e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 2cyjA 118 4.51e+01 1fr3A 67 4.53e+01 1fr3A b.40.6.1 25436 1b7fA 168 4.56e+01 1b7fA d.58.7.1,d.58.7.1 39169,39170 1wmiA 90 4.56e+01 1ypvA 313 4.64e+01 1iscA 192 4.70e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1isaA 192 4.71e+01 1avmA a.2.11.1,d.44.1.1 15731,38724 1r62A 160 4.75e+01 d.122.1.3 104816 1koe 172 4.91e+01 1koe d.169.1.5 42448 2pcfB 250 4.97e+01 1hcz i.4.1.1 45911 1p9uA 302 4.97e+01 b.47.1.4 88001 1i6pA 220 5.34e+01 1ddzA c.53.2.1 61848 1aurA 218 5.44e+01 1auoA c.69.1.14 34718 1jzxK 205 5.45e+01 i.1.1.2 67885 1auoA 218 5.48e+01 1auoA c.69.1.14 34716 1ppfE 218 5.51e+01 1a7s b.47.1.2 26234 1mngA 203 5.57e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1hcz 252 5.61e+01 1hcz b.2.6.1,b.84.2.2 22464,28250 1ag8A 499 5.61e+01 1bpwA c.82.1.1 35341 1wvhA 134 5.65e+01 1iyu 79 5.68e+01 1iyu b.84.1.1 28227 1cis 66 5.71e+01 2sniI k.1.1.1 46375 1knb 196 5.75e+01 1qhvA b.21.1.1 23841 1nif 340 5.76e+01 1nif b.6.1.3,b.6.1.3 23048,23049 1yioA 208 5.78e+01 1p2fA 220 5.83e+01 a.4.6.1,c.23.1.1 87720,87721 1fa8A 135 5.88e+01 1qipA d.32.1.1 38486 1vkcA 158 5.89e+01 1js8A 394 5.99e+01 a.86.1.1,b.112.1.1 67219,67220 1vf7A 369 6.09e+01 f.46.1.1 108557 1poiA 317 6.14e+01 1poiA c.124.1.2 34153 1to2I 64 6.18e+01 1d7oA 297 6.29e+01 1enp c.2.1.2 29907 1enp 312 6.30e+01 1enp c.2.1.2 29906 1h05A 146 6.31e+01 c.23.13.1 76433 2bsyA 278 6.31e+01 1q1rA 431 6.34e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1b0fA 218 6.36e+01 1a7s b.47.1.2 26237 1vchA 175 6.37e+01 1xfoA 357 6.43e+01 1y1uA 585 6.46e+01 1p7gA 222 6.46e+01 a.2.11.1,d.44.1.1 94223,94224 1lkkA 105 6.53e+01 1lckA d.93.1.1 40412 1lghB 45 6.67e+01 1lghB f.3.1.1 43734 1eno 312 6.67e+01 1enp c.2.1.2 29905 1s3iA 310 6.68e+01 b.46.1.1,c.65.1.1 98435,98436 1z4eA 153 6.70e+01 1ksr 100 6.74e+01 1qfhA b.1.18.10 21897 1nwaA 203 6.78e+01 d.58.28.1 86295 1rutX 188 6.80e+01 1gv3A 248 6.95e+01 a.2.11.1,d.44.1.1 70585,70586 2gm5A 139 7.00e+01 1azeA 56 7.08e+01 b.34.2.1 24536 1gky 187 7.09e+01 1gky c.37.1.1 31839 1ialA 453 7.18e+01 1bk5A a.118.1.1 19116 1y7mA 164 7.20e+01 1coaI 64 7.25e+01 2sniI d.40.1.1 38574 1pqzA 238 7.26e+01 b.1.1.2,d.19.1.1 104297,104298 1lw6I 64 7.26e+01 d.40.1.1 74294 1h9oA 112 7.37e+01 1qadA d.93.1.1 60837 1vm8A 534 7.38e+01 1lnzA 342 7.51e+01 b.117.1.1,c.37.1.8 78112,78113 1vdmA 153 7.52e+01 1jxmA 301 7.60e+01 b.34.2.1,c.37.1.1 67420,67421 1c8pA 102 7.73e+01 1c8pA b.1.2.1 22040 1aje 194 7.75e+01 1ctqA c.37.1.8 32071 1t5eA 360 7.79e+01 f.46.1.1 106436 1efvA 315 7.85e+01 1efvA c.26.2.3,c.31.1.2 31633,31728 1xmrA 243 7.89e+01 1qk4A 233 7.92e+01 1qk3A c.61.1.1 34037 1l0bA 229 7.95e+01 c.15.1.3,c.15.1.3 73391,73392 1y5eA 169 8.16e+01 2b8tA 223 8.16e+01 1jhfA 202 8.21e+01 a.4.5.2,b.87.1.1 63057,63058 1c9oA 66 8.35e+01 1mjc b.40.4.5 25325 1mq7A 154 8.36e+01 b.85.4.1 79404 1shwA 138 8.41e+01 b.6.1.5 105562 1rurH 218 8.47e+01 b.1.1.1,b.1.1.2 97879,97880 2ampA 304 8.60e+01 1se8A 301 8.64e+01 b.40.4.3 105448 1n3jA 119 8.82e+01 b.85.7.2 79963 1npuA 117 8.90e+01 b.1.1.1 92038