# List of top-scoring protein chains for t06-100-30-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 1g9oA 91 8.26e-17 1pdr b.36.1.1 60400 1tp5A 119 6.03e-16 2fe5A 94 7.25e-16 2fcfA 103 1.22e-15 2fneA 117 4.27e-15 1n7fA 97 2.15e-14 b.36.1.1 91692 1n7eA 97 2.40e-14 b.36.1.1 91691 1qavA 90 3.31e-14 1qauA b.36.1.1 24777 1q3oA 109 5.99e-14 b.36.1.1 95700 1wf7A 103 1.64e-13 2f0aA 98 2.09e-13 1kwaA 88 3.56e-13 1kwaA b.36.1.1 24772 2f5yA 91 6.02e-13 1qauA 112 7.58e-13 1qauA b.36.1.1 24779 1nf3C 128 1.79e-12 b.36.1.1 85596 1ihjA 98 2.90e-12 1pdr b.36.1.1 62382 1mfgA 95 3.86e-12 b.36.1.1 79043 1r6jA 82 5.97e-12 b.36.1.1 97151 1fc6A 388 9.75e-09 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 2.51e-06 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 1.11e-05 1y8tA 324 4.79e-05 1zn8A 180 2.90e-02 1bx4A 345 2.89e-01 1bx4A c.72.1.1 34935 1fxlA 167 2.92e-01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1qb7A 236 3.29e-01 1qb7A c.61.1.1 34087 2bw3A 534 4.66e-01 1x3mA 415 6.33e-01 1qqqA 264 1.10e+00 1bkpA d.117.1.1 40931 2g8mA 264 1.18e+00 2g8oA 264 1.18e+00 1l1qA 186 1.51e+00 c.61.1.1 77653 1h3gA 601 1.54e+00 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1vpqA 273 1.60e+00 1ypvA 313 1.96e+00 1zm8A 259 2.08e+00 2bh8A 101 2.20e+00 1g2qA 187 2.65e+00 c.61.1.1 65117 1yg9A 330 3.28e+00 1t6t1 118 3.43e+00 1xv5A 401 3.55e+00 1fsgA 233 3.62e+00 1qk3A c.61.1.1 34029 1o57A 291 4.03e+00 a.4.5.40,c.61.1.1 92483,92484 1xx6A 191 4.25e+00 1a8y 367 4.27e+00 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1cliA 345 4.42e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1i52A 236 4.67e+00 1i52A c.68.1.13 61767 2fa1A 160 4.75e+00 1vhxA 150 5.19e+00 c.55.3.8 100712 1vheA 373 5.41e+00 b.49.3.1,c.56.5.4 100669,100670 1g57A 217 5.41e+00 1g57A d.115.1.2 60253 2b4aA 138 5.55e+00 1fdr 248 5.63e+00 1fdr b.43.4.2,c.25.1.1 25653,31543 1h72C 296 5.85e+00 d.14.1.5,d.58.26.1 60712,60713 1uc2A 481 6.38e+00 d.261.1.1 99161 1i1wA 303 6.45e+00 c.1.8.3 76732 1q52A 314 6.57e+00 c.14.1.3 95846 1b25A 619 7.53e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 1yb2A 275 7.62e+00 1zq9A 285 7.69e+00 1mkmA 249 7.80e+00 a.4.5.33,d.110.2.2 79242,79243 1jalA 363 7.93e+00 c.37.1.8,d.15.10.2 84138,84139 1uarA 285 7.97e+00 c.46.1.2,c.46.1.2 107762,107763 1fjrA 195 8.20e+00 1fjrA b.102.1.1 59855 1vdmA 153 8.42e+00 1dmgA 225 8.48e+00 1dmgA c.22.1.1 31036 1fr3A 67 9.16e+00 1fr3A b.40.6.1 25436 1vkmA 297 9.22e+00 c.138.1.1 108670 1rypB 250 1.00e+01 1rypB d.153.1.4 41933 1kw4A 89 1.01e+01 a.60.1.2 73077 1ti6A 875 1.02e+01 b.52.2.2,c.81.1.1 106974,106975 1r31A 428 1.02e+01 d.58.20.1,d.179.1.1 96897,96898 1lh0A 213 1.03e+01 c.61.1.1 73896 1q1rA 431 1.05e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1vchA 175 1.07e+01 1y0bA 197 1.21e+01 1z08A 170 1.24e+01 1i6pA 220 1.24e+01 1ddzA c.53.2.1 61848 2fvgA 340 1.38e+01 2az4A 429 1.39e+01 1l0bA 229 1.41e+01 c.15.1.3,c.15.1.3 73391,73392 2evaA 307 1.45e+01 1p42A 270 1.57e+01 d.14.1.7,d.14.1.7 87754,87755 1yloA 348 1.58e+01 1gjjA 168 1.60e+01 a.140.1.1,a.140.1.1 83291,83292 1dekA 241 1.60e+01 1dekA c.37.1.1 31842 1ugmA 125 1.68e+01 d.15.1.3 107827 1ta3B 303 1.69e+01 c.1.8.3 106732 1x65A 89 1.72e+01 1zsyA 357 1.74e+01 2ghpA 292 1.81e+01 1bg4 302 1.82e+01 1taxA c.1.8.3 28806 1l7yA 94 1.88e+01 d.15.1.6 73676 1cl1A 395 2.11e+01 1cl2A c.67.1.3 34395 1w78A 422 2.21e+01 1cq3A 233 2.23e+01 1cq3A b.27.1.1 23923 1hgxA 183 2.26e+01 1tc1A c.61.1.1 34027 1u9yA 284 2.27e+01 1o3yA 166 2.27e+01 c.37.1.8 86618 1u4nA 310 2.32e+01 1y0yA 353 2.44e+01 2bw4A 340 2.46e+01 1qgdA 662 2.47e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1nepA 130 2.47e+01 b.1.18.7 80440 1zxxA 319 2.59e+01 2bsyA 278 2.63e+01 1vybA 238 2.64e+01 d.151.1.1 108897 1earA 147 2.81e+01 b.107.1.1,d.58.38.1 64875,64876 1js8A 394 2.83e+01 a.86.1.1,b.112.1.1 67219,67220 1bu6O 501 2.86e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1yphC 131 2.88e+01 2bhoA 130 2.91e+01 2cyjA 118 3.08e+01 2cc0A 195 3.12e+01 1vc3B 97 3.17e+01 1o6dA 163 3.19e+01 c.116.1.3 92567 1jhfA 202 3.22e+01 a.4.5.2,b.87.1.1 63057,63058 1eexA 554 3.23e+01 1dioA c.1.19.3 29650 1vj0A 380 3.24e+01 b.35.1.2,c.2.1.1 100786,100787 2fclA 169 3.32e+01 1uheA 97 3.33e+01 1y96A 86 3.34e+01 1g6hA 257 3.55e+01 1gajA c.37.1.12 60318 1p7tA 731 3.56e+01 c.1.13.1 94319 1qy5A 269 3.61e+01 d.122.1.1 96573 1a62 130 3.63e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1uh5A 329 3.64e+01 c.2.1.2 107840 1rurH 218 3.66e+01 b.1.1.1,b.1.1.2 97879,97880 1qzzA 374 3.73e+01 a.4.5.29,c.66.1.12 96719,96720 1z2kA 109 3.78e+01 2fvtA 135 3.82e+01 2bsjA 133 3.84e+01 1iakA 199 3.86e+01 1iakA b.1.1.2,d.19.1.1 21625,38199 1xewX 182 3.87e+01 1siqA 392 4.12e+01 a.29.3.1,e.6.1.1 105585,105586 2b8tA 223 4.15e+01 1xebA 150 4.18e+01 1wd5A 208 4.19e+01 1g8aA 227 4.20e+01 c.66.1.3 90506 1efvA 315 4.23e+01 1efvA c.26.2.3,c.31.1.2 31633,31728 2d4pA 141 4.24e+01 1wxxA 382 4.24e+01 1u04A 771 4.29e+01 b.34.14.1,c.55.3.10 107539,107540 1y791 680 4.32e+01 2anuA 255 4.36e+01 2rslA 140 4.37e+01 2rslA c.53.1.1 33345 1cs0A 1073 4.37e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1qf5A 431 4.39e+01 1adeA c.37.1.10 32212 1to2I 64 4.40e+01 1vqqA 646 4.45e+01 1xdnA 277 4.47e+01 1g0sA 209 4.47e+01 1g0sA d.113.1.1 60187 1a9xA 1058 4.54e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1mo1A 87 4.58e+01 d.94.1.1 91363 1deuA 277 4.62e+01 1theB d.3.1.1 37085 1zymA 258 4.64e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 1zh5A 195 4.64e+01 1zkpA 268 4.66e+01 1o63A 219 4.66e+01 c.94.1.1 92540 1nulA 152 4.67e+01 1nulA c.61.1.1 34011 1u5vA 273 4.78e+01 1pqhA 143 4.82e+01 b.52.2.1 95017 2ahqA 76 4.87e+01 1e7uA 961 4.88e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1vraB 215 4.90e+01 1u5hA 273 4.94e+01 1s29A 92 4.97e+01 a.4.5.46 98373 2b0jA 358 4.98e+01 2f7fA 494 5.00e+01 1dzfA 215 5.00e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 1se8A 301 5.02e+01 b.40.4.3 105448 2c9wA 169 5.03e+01 1b63A 333 5.09e+01 1b63A d.14.1.3,d.122.1.2 37566,41107 1lgpA 116 5.11e+01 b.26.1.2 73890 1evhA 112 5.18e+01 1evhA b.55.1.4 26997 1yt5A 258 5.18e+01 1v0aA 178 5.20e+01 1rwzA 245 5.27e+01 d.131.1.2,d.131.1.2 98005,98006 1rgzA 363 5.28e+01 e.3.1.1 97457 1v93A 296 5.30e+01 c.1.23.1 100532 1upiA 225 5.32e+01 b.82.1.1 99757 1vzqH 250 5.34e+01 1ecfA 504 5.36e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1p2fA 220 5.38e+01 a.4.6.1,c.23.1.1 87720,87721 1v0eA 666 5.38e+01 1o97D 320 5.43e+01 c.26.2.3,c.31.1.2 81233,81234 1zp4A 304 5.52e+01 1yy6A 155 5.59e+01 2fojA 155 5.59e+01 1ueoA 63 5.59e+01 j.107.1.1 99269 1pmi 440 5.66e+01 1pmi b.82.1.3 28114 2cw8A 537 5.69e+01 1unkA 87 5.74e+01 1cei a.28.2.1 16935 2c5qA 240 5.80e+01 1ep3B 262 5.81e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1rgyA 360 5.92e+01 e.3.1.1 97456 1vzoA 355 6.04e+01 d.144.1.7 108971 2fl4A 149 6.06e+01 1bb9 115 6.11e+01 1bb9 b.34.2.1 24554 1rf6A 427 6.14e+01 d.68.2.2 97366 1koe 172 6.16e+01 1koe d.169.1.5 42448 2ckiA 262 6.20e+01 1mi3A 322 6.23e+01 c.1.7.1 91274 1j24A 143 6.25e+01 c.52.1.20 84008 1tzfA 259 6.27e+01 c.68.1.13 107476 2a5dA 175 6.29e+01 1qkkA 155 6.30e+01 1dbwA c.23.1.1 31104 1h8dH 260 6.33e+01 5ptp 2furA 209 6.37e+01 1r2jA 366 6.39e+01 a.29.3.1,e.6.1.1 96869,96870 2bcgG 453 6.39e+01 1vcaA 202 6.46e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1y7mA 164 6.46e+01 1suuA 312 6.61e+01 b.68.10.1 99006 1h05A 146 6.70e+01 c.23.13.1 76433 1nf3A 195 6.72e+01 c.37.1.8 85594 1cbf 285 6.77e+01 1cbf c.90.1.1 35587 1fit 147 6.80e+01 1fit d.13.1.1 37499 1jihA 531 6.84e+01 d.240.1.1,e.8.1.7 90374,90375 1ppo 216 6.85e+01 1cs8A d.3.1.1 37020 1yb3A 175 6.85e+01 1idk 359 6.91e+01 1qcxA b.80.1.2 28025 1iscA 192 6.93e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 2fnjA 226 6.96e+01 1t3iA 420 7.04e+01 c.67.1.3 106354 2f6uA 234 7.22e+01 1wlsA 328 7.22e+01 1h1dA 221 7.23e+01 c.66.1.1 83452 1iukA 140 7.25e+01 c.2.1.8 83712 1w77A 228 7.26e+01 1oq1A 223 7.29e+01 b.29.1.17 93408 1eceA 358 7.30e+01 1eceA c.1.8.3 28813 1uylA 236 7.36e+01 d.122.1.1 108147 1oi2A 366 7.40e+01 c.119.1.2 103802 1mj5A 302 7.48e+01 c.69.1.8 91285 1ykdA 398 7.51e+01 1u1iA 392 7.53e+01 c.2.1.3,d.81.1.3 107582,107583 1i2mA 216 7.58e+01 1byuA c.37.1.8 61568 1wvhA 134 7.69e+01 1wexA 104 7.73e+01 1ny4A 82 7.90e+01 b.40.4.5 92316 1jnyA 435 8.22e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2a2pA 129 8.39e+01 1h65A 270 8.45e+01 c.37.1.8 65640 1qipA 183 8.54e+01 1qipA d.32.1.1 38470 1b8aA 438 8.54e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1d7oA 297 8.62e+01 1enp c.2.1.2 29907 1ogaE 252 8.72e+01 b.1.1.1,b.1.1.2 86992,86993 1nbwA 607 8.73e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 2bkfA 87 8.73e+01 1l2mA 118 8.77e+01 d.89.1.4 77657 1l2tA 235 8.78e+01 c.37.1.12 73514 1pk1B 89 8.79e+01 1g60A 260 8.82e+01 c.66.1.11 70151 1gnuA 117 8.86e+01 d.15.1.3 65403 1dcjA 81 8.88e+01 1dcjA d.68.3.3 59115 1oi7A 288 8.92e+01 c.2.1.8,c.23.4.1 87049,87050