# List of top-scoring protein chains for t04-100-30-bys-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 1zynA 202 2.13e-01 1dyqA 234 2.91e-01 3seb b.40.2.2,d.15.6.1 59140,59141 2rslA 140 5.23e-01 2rslA c.53.1.1 33345 1hyuA 521 8.87e-01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 2fclA 169 1.09e+00 2ewrA 170 1.23e+00 1m93A 55 1.24e+00 e.1.1.1 91235 1pbgA 468 1.61e+00 1e70M c.1.8.4 28946 2afbA 351 1.67e+00 2bg5A 324 2.02e+00 1d2oA 187 2.34e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 1a0rP 245 2.61e+00 1b9yC c.47.1.6 33054 1regX 122 3.02e+00 1regX d.58.27.1 39406 1ih8A 271 3.71e+00 2nsyA c.26.2.1 62377 1j5vA 351 4.19e+00 c.72.1.1 71585 1kqpA 271 4.32e+00 c.26.2.1 72883 1zp4A 304 4.55e+00 1qhlA 227 5.17e+00 1qhlA c.37.1.12 32382 1repC 251 5.24e+00 1repC a.4.5.10,a.4.5.10 16125,16126 2flsA 132 5.67e+00 1xwvA 129 5.84e+00 2asbA 251 6.00e+00 2g9iA 249 6.01e+00 1h72C 296 6.16e+00 d.14.1.5,d.58.26.1 60712,60713 1s55A 156 6.33e+00 1gyxA 76 6.33e+00 d.80.1.1 76387 1vr7A 142 6.78e+00 1tiqA 180 7.24e+00 d.108.1.1 107010 1h8vA 218 7.45e+00 2nlrA b.29.1.11 60795 1iqaA 160 7.80e+00 b.22.1.1 71274 2b33A 140 7.87e+00 1oa2A 218 8.40e+00 b.29.1.11 86721 1fwkA 296 8.73e+00 1fwkA d.14.1.5,d.58.26.1 37576,39398 1iz5A 249 8.95e+00 d.131.1.2,d.131.1.2 83834,83835 1c52 131 1.04e+01 1c52 a.3.1.1 15810 2pil 159 1.04e+01 2pil d.24.1.1 38376 1ycyA 71 1.07e+01 2gw6A 123 1.08e+01 1pnsC 206 1.08e+01 i.1.1.1 88170 1yb2A 275 1.17e+01 1a99A 344 1.17e+01 1pot c.94.1.1 35812 1b25A 619 1.22e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 4uagA 437 1.23e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1wmqA 147 1.28e+01 1k38A 254 1.28e+01 e.3.1.1 84303 1juvA 193 1.28e+01 c.71.1.1 90912 1sqsA 242 1.29e+01 c.23.5.5 98968 2gmqA 118 1.31e+01 2gfgA 193 1.36e+01 1u00A 227 1.37e+01 1d2rA 326 1.39e+01 1d2rB c.26.1.1 31572 1i8fA 81 1.44e+01 1i8fA b.38.1.1 61959 1larA 575 1.44e+01 1larA c.45.1.2,c.45.1.2 32693,32694 1wpuA 147 1.51e+01 2fh7A 595 1.51e+01 1k0rA 366 1.52e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 67961,67962,67963,67964 1lwjA 441 1.61e+01 b.71.1.1,c.1.8.1 74303,74304 1shsA 147 1.63e+01 1shsA b.15.1.1 23675 1x74A 360 1.68e+01 2b7eA 59 1.70e+01 1cjbA 231 1.74e+01 1qk3A c.61.1.1 34079 1qavA 90 1.75e+01 1qauA b.36.1.1 24777 1p35A 299 1.77e+01 1p35A b.28.1.1 23925 2cxcA 144 1.78e+01 1tf1A 198 1.84e+01 d.110.2.2 106826 1qlmA 316 1.86e+01 1qlmA d.147.1.1 41765 1ll2A 333 1.87e+01 c.68.1.14 74005 2myr 501 1.88e+01 1m07A 111 1.89e+01 d.5.1.1 78328 1sek 378 1.95e+01 1sek e.1.1.1 42675 1t0aA 159 2.05e+01 2adoA 196 2.06e+01 1tluA 130 2.07e+01 d.156.1.2 107139 1qi9A 556 2.14e+01 1qhbA a.111.1.2 19053 1s9rA 410 2.18e+01 d.126.1.4 98758 1y96B 85 2.20e+01 1zpvA 91 2.23e+01 1tygB 87 2.25e+01 d.15.3.2 107455 2ohxA 374 2.28e+01 2ohxA b.35.1.2,c.2.1.1 24669,29685 1hdoA 206 2.37e+01 1he2A c.2.1.2 60965 1wlyA 333 2.38e+01 1ma3A 253 2.39e+01 c.31.1.5 78883 2aefA 234 2.41e+01 1ydmA 187 2.52e+01 1fc1A 224 2.52e+01 1igtB b.1.1.2,b.1.1.2 21520,21521 1quqB 121 2.59e+01 1quqB b.40.4.3 25305 1o58A 303 2.68e+01 c.79.1.1 92491 1e9rA 437 2.73e+01 c.37.1.11 64827 1ur1A 378 2.73e+01 c.1.8.3 99804 1xdpA 687 2.73e+01 1ft5A 211 2.75e+01 1bvb a.138.1.3 19681 1wlzA 105 2.76e+01 1bg6 359 2.77e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1njhA 119 2.81e+01 b.128.1.1 85787 1b56 135 2.85e+01 1hmt b.60.1.2 27183 1ns5A 155 2.86e+01 c.116.1.3 80705 1ktjA 129 3.08e+01 b.1.18.7 72974 1m4jA 142 3.13e+01 d.109.1.2 78602 1uc7A 125 3.17e+01 c.47.1.1 99163 1duvG 333 3.18e+01 1othA c.78.1.1,c.78.1.1 35228,35229 1b5tA 275 3.21e+01 1b5tA c.1.23.1 29676 1o6dA 163 3.22e+01 c.116.1.3 92567 1a53 247 3.22e+01 1a53 c.1.2.4 28564 2etxA 209 3.23e+01 1ri7A 171 3.24e+01 a.4.5.32,d.58.4.2 97504,97505 1hqz1 141 3.30e+01 1igs 248 3.30e+01 1a53 c.1.2.4 28565 1o0yA 260 3.30e+01 c.1.10.1 80756 1wr1B 58 3.31e+01 1bn8A 420 3.37e+01 1pcl b.80.1.1 28022 1xyiA 66 3.38e+01 1e4mM 501 3.40e+01 1e70M c.1.8.4 59226 2amyA 246 3.42e+01 1bby 69 3.43e+01 2bby a.4.5.15 16149 1dkuA 317 3.50e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 2bwbA 46 3.52e+01 1zthA 258 3.62e+01 2bo4A 397 3.77e+01 2bce 581 3.80e+01 2bce c.69.1.1 34625 1vcvA 226 3.80e+01 1epwA 1290 3.81e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1o1zA 234 3.83e+01 c.1.18.3 86555 1j1vA 94 3.84e+01 a.4.12.2 83981 1mmiA 366 3.91e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1xtoA 311 3.93e+01 1p8xA 344 3.95e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1fg7A 356 3.96e+01 1gewA c.67.1.1 59819 2dfkA 402 3.97e+01 1t8qA 336 4.03e+01 c.1.18.3 106669 1n8jA 186 4.09e+01 c.47.1.10 85401 1ex0A 731 4.11e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 2a41C 32 4.22e+01 1smrA 335 4.26e+01 1smrA b.50.1.2 26878 1wrjA 156 4.27e+01 1v93A 296 4.28e+01 c.1.23.1 100532 1vpzA 73 4.29e+01 1qzgA 187 4.32e+01 b.40.4.3 96643 1v0lA 313 4.37e+01 c.1.8.3 108207 1ti6B 274 4.41e+01 b.3.5.1,d.58.1.5 106976,106977 1ydyA 356 4.41e+01 3seb 238 4.44e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1ve6A 582 4.48e+01 1f6dA 376 4.50e+01 1f6dA c.87.1.3 35467 1azpA 66 4.50e+01 1azpA b.34.13.1 37467 2cxaA 256 4.59e+01 2fcjA 119 4.61e+01 1fhgA 154 4.65e+01 1tlk b.1.1.4 21706 1evuA 731 4.68e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 2bwfA 77 4.77e+01 1xkiA 162 4.78e+01 1wcdJ 441 4.79e+01 1xkqA 280 4.79e+01 1h4gA 207 4.80e+01 b.29.1.11 70863 1wu3I 161 4.86e+01 1yr2A 741 4.90e+01 1oj4A 283 4.93e+01 d.14.1.5,d.58.26.5 93083,93084 5nul 138 4.94e+01 5nul c.23.5.1 31191 1hetA 374 4.95e+01 2ohxA b.35.1.2,c.2.1.1 60975,60976 1i6lA 328 5.00e+01 c.26.1.1 66041 1n8kA 374 5.01e+01 b.35.1.2,c.2.1.1 80298,80299 1vjpA 394 5.19e+01 c.2.1.3,d.81.1.3 100828,100829 1nijA 318 5.20e+01 c.37.1.10,d.237.1.1 85741,85742 1qh7A 207 5.22e+01 1axkA b.29.1.11 24317 1cfr 285 5.24e+01 1cfr c.52.1.7 33312 1f0cA 305 5.24e+01 1c8oA e.1.1.1 42676 1exg 110 5.24e+01 1exg b.2.2.1 22387 1f9vA 347 5.29e+01 1bg2 c.37.1.9 59745 1mixA 206 5.34e+01 a.11.2.1,b.55.1.5 79166,79167 1p6pA 125 5.35e+01 b.60.1.2 87839 1ok7A 366 5.45e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1a4yB 123 5.50e+01 7rsa d.5.1.1 37296 1vqoL 165 5.54e+01 1u3wA 374 5.55e+01 2trcP 217 5.57e+01 1b9yC c.47.1.6 33051 1r5jA 337 5.61e+01 c.77.1.5 97097 1rr7A 129 5.70e+01 a.4.1.14 105075 1xrjA 261 5.72e+01 1o57A 291 5.77e+01 a.4.5.40,c.61.1.1 92483,92484 1jy5A 212 5.79e+01 d.124.1.1 71940 1gs5A 258 5.82e+01 c.73.1.2 70395 1r64A 481 5.83e+01 b.18.1.20,c.41.1.1 97140,97141 1vicA 262 5.84e+01 c.68.1.13 100756 1tueA 212 5.85e+01 c.37.1.20 107323 2f42A 179 5.88e+01 1xn9A 101 5.88e+01 1a8q 274 5.89e+01 1brt c.69.1.12 34702 2as9A 210 5.93e+01 1s0pA 176 5.98e+01 a.192.1.1 98300 1mjc 69 6.01e+01 1mjc b.40.4.5 25319 1tlk 154 6.02e+01 1tlk b.1.1.4 21707 1uj2A 252 6.10e+01 c.37.1.6 99452 2b4rO 345 6.16e+01 2trxA 108 6.23e+01 1thx c.47.1.1 32719 1gewA 356 6.24e+01 1gewA c.67.1.1 60470 1iwmA 186 6.35e+01 b.125.1.2 83758 1idk 359 6.43e+01 1qcxA b.80.1.2 28025 1pyfA 312 6.53e+01 c.1.7.1 95334 2f6hX 419 6.56e+01 1iruK 201 6.58e+01 d.153.1.4 71362 1q3lA 69 6.59e+01 1squA 155 6.60e+01 d.252.1.1 98971 1ac5 483 6.63e+01 1ac5 c.69.1.5 34653 2pooA 355 6.78e+01 1qlgA b.68.3.1 27626 1h6lA 353 6.97e+01 b.68.3.1 60687 1wq8A 110 7.16e+01 1ptf 88 7.18e+01 1ptf d.94.1.1 40549 1snlA 103 7.24e+01 a.39.1.7 105820 2b2aA 199 7.24e+01 1ta8A 332 7.29e+01 1u46A 291 7.35e+01 d.144.1.7 107656 1txvB 440 7.35e+01 1fsgA 233 7.36e+01 1qk3A c.61.1.1 34029 1mdc 133 7.38e+01 1hmt b.60.1.2 27198 1vddA 228 7.40e+01 e.49.1.1 108519 1od8A 313 7.42e+01 c.1.8.3 86838 1ryjA 70 7.48e+01 d.15.3.2 98104 2av5A 120 7.55e+01 1i8dA 213 7.57e+01 b.43.4.3,b.43.4.3 61953,61954 1l6xA 207 7.57e+01 b.1.1.2,b.1.1.2 73642,73643 1ede 310 7.69e+01 1b6g c.69.1.8 34662 1f5jA 199 7.71e+01 1axkA b.29.1.11 24342 1tt8A 164 7.75e+01 1ygs 234 7.76e+01 1ygs b.26.1.1 23907 2gi3A 476 7.80e+01 1vm6A 228 7.82e+01 c.2.1.3,d.81.1.3 108876,108877 1svpA 161 7.84e+01 1svpA b.47.1.3 26384 1f2tB 148 7.87e+01 1f2tB 1e0tA 470 7.92e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1yq5A 144 8.05e+01 1vkuA 100 8.06e+01 a.28.1.1 108690 1i58A 189 8.10e+01 1b3qA d.122.1.3 61773 1v95A 130 8.20e+01 c.51.1.1 108435 4pfk 319 8.23e+01 3pfk c.89.1.1 35582 1xhfA 123 8.23e+01 1ve0A 134 8.24e+01 1mdwA 328 8.25e+01 d.3.1.3 84934 1o0pA 104 8.33e+01 d.58.7.1 86535 1q1oA 98 8.35e+01 d.15.2.2 95596 1ckiA 317 8.38e+01 1csn d.144.1.7 41660 1ltlA 279 8.47e+01 b.40.4.11 84701 1bxm 99 8.61e+01 1bxm a.134.1.1 19618 1y2tA 142 8.62e+01 2fn0A 437 8.70e+01 1c7qA 445 8.74e+01 2pgi c.80.1.2 35307 1qopB 396 8.77e+01 2tysB c.79.1.1 35270 1j5wA 298 8.86e+01 d.104.1.1 71589 1b6g 310 8.86e+01 1b6g c.69.1.8 34661 1r5pA 108 8.91e+01 c.47.1.15 97101 1zxxA 319 8.93e+01 1khbA 625 8.94e+01 c.91.1.1,c.109.1.1 68606,68607 1wwhA 119 8.96e+01 1mkp 144 8.98e+01 1vhrA c.45.1.1 32654