# 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 1rfeA 162 3.86e-16 2asfA 137 1.03e-13 2fg9A 178 1.32e-10 1xxoA 147 1.75e-10 2aq6A 147 1.79e-10 1w9aA 147 2.25e-10 2fhqA 141 4.39e-10 1dnlA 199 1.08e-08 1ci0A b.45.1.1 25753 1g79A 218 1.20e-08 1ci0A b.45.1.1 25752 2furA 209 3.60e-08 1t9mA 214 1.33e-07 1vl7A 157 8.14e-07 b.45.1.1 108732 2arzA 247 1.24e-06 1w3oA 216 1.27e-06 1nrgA 261 1.45e-06 b.45.1.1 80694 1ty9A 222 2.56e-06 1axj 122 3.76e-06 1axj b.45.1.1 25749 1flmA 122 5.27e-06 1axj b.45.1.1 25747 1ci0A 228 3.99e-04 1ci0A b.45.1.1 25750 1ejeA 192 8.11e-03 1ejeA b.45.1.2 25757 1xhnA 184 4.75e-02 1pvtA 238 2.91e-01 c.74.1.1 95189 1ecl 597 4.64e-01 1ecl e.10.1.1 43238 1ko3A 230 6.78e-01 d.157.1.1 90974 1mw9X 592 1.45e+00 e.10.1.1 91480 1cy9A 264 3.57e+00 1ecl e.10.1.1 43236 1qm4A 396 4.77e+00 1mxb d.130.1.1,d.130.1.1,d.130.1.1 41350,41351,41352 1tmcA 175 4.95e+00 1agdA d.19.1.1 38258 1k3eA 156 5.06e+00 d.198.1.1 68103 1d7pM 159 5.18e+00 1cztA b.18.1.2 23718 1tr8A 102 5.35e+00 1widA 130 5.86e+00 1i2mA 216 6.52e+00 1byuA c.37.1.8 61568 2bitX 165 6.76e+00 1azqA 66 6.80e+00 1azpA b.34.13.1 37469 2bgiA 272 6.87e+00 2cxaA 256 7.00e+00 1qbeA 132 7.36e+00 1qbeA d.85.1.1 40138 1qi6A 475 8.55e+00 1euhA c.82.1.1 35373 1euhA 475 8.62e+00 1euhA c.82.1.1 35369 1j5yA 187 1.04e+01 a.4.5.1,d.94.2.1 71592,71593 1qs1A 462 1.15e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 1qs2A 401 1.22e+01 1qs1A d.166.1.1,d.166.1.1 42268,42269 1faoA 126 1.33e+01 1faoA b.55.1.1 26974 2au3A 407 1.33e+01 1g2oA 268 1.34e+01 1b8oA c.56.2.1 60228 2fsqA 243 1.39e+01 2g0qA 173 1.49e+01 1fybA 111 1.59e+01 4sgbI g.69.1.1,g.69.1.1 44726,44727 1bolA 222 1.68e+01 1bolA d.124.1.1 41120 1azpA 66 1.69e+01 1azpA b.34.13.1 37467 1ds9A 198 1.77e+01 1ds9A c.10.3.1 30879 1c8cA 64 1.88e+01 1azpA b.34.13.1 59084 2d93A 134 1.94e+01 1yo8A 634 2.05e+01 1obpA 159 2.05e+01 1obpA b.60.1.1 27092 1xsjA 778 2.14e+01 1bf4A 63 2.23e+01 1azpA b.34.13.1 37461 1fivA 113 2.32e+01 1fmb b.50.1.1 26764 4fiv 113 2.32e+01 1fmb b.50.1.1 26762 1a8d 452 2.42e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1jkmA 358 2.43e+01 1jkmA c.69.1.2 34633 1pjjA 271 2.49e+01 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1nnjA 271 2.49e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1tdzA 272 2.49e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1qr4B 186 2.53e+01 1qr4B b.1.2.1,b.1.2.1 21988,21989 1yemA 179 2.55e+01 1f6fB 210 2.55e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 1sso 62 2.61e+01 1azpA b.34.13.1 37463 1x82A 190 2.67e+01 2cmwA 310 2.69e+01 1qr4A 186 2.73e+01 1qr4B b.1.2.1,b.1.2.1 21986,21987 2f2hA 773 2.82e+01 1egaA 301 2.87e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 1jic 62 2.97e+01 1azpA b.34.13.1 37462 1j5kA 89 3.02e+01 d.51.1.1 71565 1ti6A 875 3.06e+01 b.52.2.2,c.81.1.1 106974,106975 1ivd 388 3.07e+01 2qwc b.68.1.1 27568 1qxrA 189 3.27e+01 b.82.1.7 96552 1gmlA 178 3.28e+01 c.8.5.2 70273 2bgcA 238 3.33e+01 1am2 199 3.33e+01 1am2 b.86.1.2 28381 1diwA 441 3.41e+01 1a8d b.29.1.6,b.42.4.2 24264,25609 1ihgA 370 3.44e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 2bvpA 276 3.46e+01 1m40A 263 3.55e+01 e.3.1.1 74437 1fxtA 149 3.56e+01 d.20.1.1 65055 1btl 263 3.56e+01 1btl e.3.1.1 42691 1fqgA 263 3.57e+01 1btl e.3.1.1 42699 1uurA 473 3.60e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1gci 269 3.61e+01 1gci c.41.1.1 32503 1n71A 180 3.66e+01 d.108.1.1 85370 1xh3A 276 3.69e+01 3fivA 116 3.76e+01 1fmb b.50.1.1 26768 2fivA 116 3.77e+01 1fmb b.50.1.1 26766 1cjxA 357 3.86e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1a9cA 221 3.92e+01 1a8rA d.96.1.1 40602 2f5vA 595 3.97e+01 1vq0A 302 4.02e+01 1m2xA 223 4.04e+01 d.157.1.1 84764 1wxaA 116 4.06e+01 1a9eA 277 4.13e+01 1agdA b.1.1.2,d.19.1.1 20757,38268 1tuaA 191 4.21e+01 d.51.1.1,d.51.1.1 107321,107322 1wd5A 208 4.26e+01 1jenB 67 4.41e+01 1jenB d.156.1.1 42029 2gibA 103 4.47e+01 1cvrA 435 4.50e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1ylnA 252 4.56e+01 1a8rA 221 4.57e+01 1a8rA d.96.1.1 40587 2bw0A 329 4.67e+01 1d0hA 469 4.68e+01 1a8d b.29.1.6,b.42.4.2 24265,25610 1nr4A 71 4.74e+01 d.9.1.1 92077 1xyiA 66 4.79e+01 1hilB 220 4.83e+01 1igtB b.1.1.1,b.1.1.2 19787,20897 1byuA 216 4.87e+01 1byuA c.37.1.8 32032 1h7xB 1025 4.92e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15688,28633,30329,30614,39012 1gthA 1025 4.92e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70483,70484,70485,70486,70487 1kskA 234 4.94e+01 d.66.1.5,d.265.1.3 72920,90389 1b7yA 350 4.95e+01 1pysA d.104.1.1 40776 1gthC 1025 4.96e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70493,70494,70495,70496,70497 1fxlA 167 5.00e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1h7xA 1025 5.01e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1h7xC 1025 5.03e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15689,28634,30330,30615,39013 1g8kB 133 5.07e+01 1g8jB b.33.1.1 24435 1g1kA 143 5.10e+01 1aohA b.2.2.2 22404 1z7dA 433 5.12e+01 1wmmA 145 5.13e+01 1zzkA 82 5.16e+01 1zy9A 564 5.22e+01 1ermA 263 5.23e+01 1btl e.3.1.1 42690 1vm6A 228 5.27e+01 c.2.1.3,d.81.1.3 108876,108877 1bnzA 64 5.28e+01 1azpA b.34.13.1 37468 1dd5A 185 5.33e+01 1dd5A d.67.3.1 39564 1a1nA 276 5.36e+01 1agdA b.1.1.2,d.19.1.1 20755,38267 1cawB 184 5.37e+01 1caxB b.82.1.2 28113 1af6A 421 5.44e+01 2mprA f.4.3.2 43772 2gvaA 87 5.47e+01 1gvp b.40.4.7 25389 1wmsA 177 5.48e+01 c.37.1.8 109414 1mg4A 113 5.57e+01 d.15.11.1 84953 1a1oA 276 5.57e+01 1agdA b.1.1.2,d.19.1.1 20751,38265 1sap 66 5.62e+01 1azpA b.34.13.1 37472 1gteA 1025 5.73e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1obbA 480 5.73e+01 c.2.1.5,d.162.1.2 86760,86761 1uirA 314 5.74e+01 c.66.1.17 99429 1h7wB 1025 5.76e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15684,28629,30325,30610,39008 1h7wA 1025 5.77e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1mal 421 5.77e+01 2mprA f.4.3.2 43784 2a6hC 1119 5.78e+01 1wduA 245 5.80e+01 d.151.1.1 109286 1ew3A 159 5.86e+01 1mup b.60.1.1 27114 1u4nA 310 5.88e+01 1sr4A 206 5.89e+01 b.42.2.1 105948 1h7xD 1025 5.93e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15690,28635,30331,30616,39014 1s8fA 177 5.99e+01 c.37.1.8 105370 1h4rA 314 6.00e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1uteA 313 6.00e+01 1uteA d.159.1.1 42078 2bgzA 299 6.01e+01 1wlgA 299 6.04e+01 2fe7A 166 6.09e+01 1yjdC 140 6.10e+01 2a4nA 182 6.12e+01 1wj9A 211 6.14e+01 1jlxA 304 6.14e+01 1jlyA b.42.3.1,b.42.3.1 25583,25584 1jo8A 58 6.14e+01 b.34.2.1 71774 1oi0A 124 6.20e+01 c.97.3.1 93045 1vk8A 106 6.21e+01 d.58.48.1 108636 1tt0A 623 6.31e+01 1omiA 248 6.37e+01 b.82.3.3,a.4.5.4 87079,87080 1nb9A 147 6.41e+01 b.43.5.1 85515 1rg9A 383 6.51e+01 d.130.1.1,d.130.1.1,d.130.1.1 97427,97428,97429 2bjrA 368 6.51e+01 1snzA 344 6.57e+01 b.30.5.4 98930 1cmxA 236 6.58e+01 1uch d.3.1.6 37130 1b87A 181 6.59e+01 1b87A d.108.1.1 40797 1a1mA 278 6.74e+01 1agdA b.1.1.2,d.19.1.1 20753,38266 2b5oA 402 6.77e+01 1gt8C 1025 6.77e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70428,70429,70430,70431,70432 1fzyA 149 6.78e+01 d.20.1.1 65072 1e88A 160 6.83e+01 g.14.1.2,g.14.1.2,g.27.1.1 44669,44670,44950 1d3uA 181 6.87e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 1h7wD 1025 6.94e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15686,28631,30327,30612,39010 1j9aA 184 6.97e+01 c.55.3.5 84135 1qmyA 167 7.02e+01 1qmyA d.3.1.2 37094 1fgyA 127 7.02e+01 1faoA b.55.1.1 26976 1iw7C 1119 7.10e+01 e.29.1.1 71474 1cauB 184 7.14e+01 1caxB b.82.1.2 28103 2cbzA 237 7.29e+01 1s3iA 310 7.30e+01 b.46.1.1,c.65.1.1 98435,98436 1zmyA 142 7.31e+01 1jkxA 212 7.36e+01 c.65.1.1 66813 1bj7 156 7.36e+01 1bj7 b.60.1.1 27113 1kbvA 327 7.39e+01 b.6.1.3,b.6.1.3 68395,68396 2glfA 450 7.45e+01 1xreA 217 7.48e+01 1jlyA 304 7.56e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1mqkH 127 7.57e+01 b.1.1.1 85053 1tzlA 622 7.66e+01 1zarA 282 7.73e+01 1zcxA 178 7.74e+01 1gt8D 1025 7.82e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70433,70434,70435,70436,70437 1duzA 275 7.85e+01 1agdA b.1.1.2,d.19.1.1 20670,38224 1aisA 182 7.89e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 2av1A 275 7.91e+01 2f06A 144 7.96e+01 1btkB 169 8.00e+01 1btkA b.55.1.1 26960 1gt8A 1025 8.13e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70418,70419,70420,70421,70422 1gt8B 1025 8.19e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70423,70424,70425,70426,70427 1ihvA 52 8.24e+01 1ihvA b.34.7.1 24629 2c5uA 375 8.35e+01 1ztcA 221 8.39e+01 1mwsA 646 8.42e+01 d.17.4.5,d.175.1.1,e.3.1.1 79592,79593,79594 1jkmB 361 8.42e+01 1jkmA c.69.1.2 34634 1pex 207 8.55e+01 1gen b.66.1.1 27540 1e8bA 160 8.57e+01 1e8bA g.14.1.2,g.14.1.2,g.27.1.1 44671,44672,44951 1ukuA 102 8.62e+01 d.58.5.2 99533 1qhqA 140 8.64e+01 1qhqA b.6.1.1 63326 1gteD 1025 8.71e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70455,70456,70457,70458,70459 1pzwA 80 8.78e+01 g.39.1.10 95483 1gnhA 206 8.87e+01 1sacA b.29.1.5 24252 1ivg 388 8.98e+01 2qwc b.68.1.1 27578 1n9lA 109 8.99e+01 d.110.3.6 85468