# List of top-scoring protein chains for t06-100-40-40-str2+CB_burial_14_7-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 1z9lA 128 1.57e-01 1qwtA 255 2.62e-01 b.26.1.3 96501 1udxA 416 3.51e-01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1on0A 158 7.32e-01 d.108.1.1 87095 1ifqA 138 9.22e-01 1ifqA d.110.4.1 62350 1kaeA 434 1.02e+00 c.82.1.2 72247 1bywA 110 1.34e+00 1bywA d.110.3.6 40912 1xeeA 91 1.47e+00 1x47A 98 1.54e+00 1xaoA 121 1.77e+00 1gg4A 452 1.87e+00 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1k3yA 221 2.73e+00 a.45.1.1,c.47.1.5 77245,77246 1k4nA 192 3.11e+00 d.32.1.5 72059 1rypB 250 3.44e+00 1rypB d.153.1.4 41933 1ze3D 125 3.54e+00 1vpkA 378 3.70e+00 1yb3A 175 3.90e+00 2cxaA 256 4.12e+00 1vkcA 158 4.34e+00 1msk 331 4.36e+00 1msk d.173.1.1 42495 8fabB 224 4.43e+00 1igtB b.1.1.1,b.1.1.2 19773,20883 1nrgA 261 5.54e+00 b.45.1.1 80694 1x4rA 99 5.86e+00 2gaiA 633 5.97e+00 1x0oA 119 6.15e+00 1zcjA 463 6.18e+00 1ho8A 480 6.34e+00 1ho8A a.118.1.9 61107 1r77A 103 6.67e+00 3daaA 277 6.70e+00 1daaA e.17.1.1 43272 1yk3A 210 6.88e+00 1tiqA 180 6.96e+00 d.108.1.1 107010 1rlmA 271 7.04e+00 1dykA 394 7.05e+00 1dykA b.29.1.4,b.29.1.4 24223,24224 1go4E 100 7.21e+00 h.1.22.1 70296 1u20A 212 7.45e+00 1lzlA 323 7.46e+00 c.69.1.2 78306 1ze3H 122 7.49e+00 1g79A 218 7.64e+00 1ci0A b.45.1.1 25752 1wcuA 153 7.85e+00 1rybA 212 8.44e+00 c.56.3.1 98098 1lqtA 456 8.46e+00 c.3.1.1,c.4.1.1 74198,74199 2af6A 258 8.66e+00 1k3bA 119 8.84e+00 b.61.5.1 72016 1uacH 114 9.04e+00 b.1.1.1 99132 2bjfA 329 9.32e+00 1rylA 167 9.57e+00 d.276.1.1 105124 1aquA 297 9.79e+00 1aquA c.37.1.5 31942 1x6oA 174 9.95e+00 b.34.5.2,b.40.4.5 109493,109494 2c4jA 218 1.06e+01 1suwA 249 1.07e+01 e.52.1.1 106027 1wguA 136 1.07e+01 1rgxA 114 1.07e+01 g.77.1.1 104932 2b8eA 273 1.07e+01 1zvhA 134 1.11e+01 1z0sA 278 1.14e+01 1s3zA 165 1.19e+01 d.108.1.1 105250 1nt2A 210 1.21e+01 c.66.1.3 86149 1l3lA 234 1.23e+01 a.4.6.2,d.110.5.1 73541,73542 1g3mA 294 1.23e+01 c.37.1.5 83268 1vd3A 217 1.25e+01 1t0yA 122 1.26e+01 d.15.1.1 99066 1n0lA 224 1.32e+01 b.1.11.1,b.7.2.1 79744,79745 1zkcA 197 1.35e+01 1oktA 211 1.37e+01 a.45.1.1,c.47.1.5 93272,93273 1uu1A 335 1.39e+01 c.67.1.1 99993 1otgA 125 1.40e+01 1otgA d.80.1.2 39831 1r4xA 275 1.40e+01 b.1.10.3,d.105.1.2 97054,97055 1vj1A 363 1.44e+01 b.35.1.2,c.2.1.1 100794,100795 1mqkH 127 1.45e+01 b.1.1.1 85053 1z4rA 168 1.47e+01 1rtqA 299 1.47e+01 c.56.5.4 97819 1rypC 244 1.47e+01 1rypC d.153.1.4 41934 2bpsA 81 1.47e+01 1vf1A 229 1.50e+01 1s6bA 119 1.52e+01 a.133.1.2 98592 1rloA 271 1.56e+01 2hrvA 142 1.59e+01 2hrvA b.47.1.4 26429 1hyxH 224 1.60e+01 1igtB b.1.1.1,b.1.1.2 20167,21191 1tkjA 284 1.62e+01 1v32A 101 1.65e+01 a.42.1.1 100277 1wr2A 238 1.69e+01 1ctqA 166 1.73e+01 1ctqA c.37.1.8 31965 1e3dB 542 1.79e+01 1h2rL e.18.1.1 59189 1t0tV 248 1.80e+01 d.58.4.10 106229 2ajuH 219 1.82e+01 2bh1A 250 1.84e+01 1mkyA 439 1.86e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1bbzA 58 1.87e+01 1bbzA b.34.2.1 24477 2a6tA 271 1.87e+01 1xmbA 418 1.88e+01 1fsgA 233 1.88e+01 1qk3A c.61.1.1 34029 1rowA 109 1.90e+01 b.1.11.2 97676 1a2yB 116 1.95e+01 1gc1H b.1.1.1 19927 2g39A 497 1.96e+01 1ugjA 141 1.97e+01 b.41.1.3 107826 1jmtA 104 1.98e+01 d.58.7.3 63180 2msbA 115 2.00e+01 1rtm1 d.169.1.1 42355 1lfpA 249 2.01e+01 e.39.1.1 73885 1l7aA 318 2.11e+01 c.69.1.25 77772 1lj2A 110 2.15e+01 h.1.13.2 73926 1squA 155 2.24e+01 d.252.1.1 98971 1ncwH 222 2.25e+01 b.1.1.1,b.1.1.2 85555,85556 2ge3A 170 2.28e+01 1x82A 190 2.29e+01 2fckA 181 2.30e+01 1gkmA 509 2.30e+01 a.127.1.2 70228 1nh0A 99 2.33e+01 b.50.1.1 91869 1i8kB 124 2.34e+01 b.1.1.1 71131 1uvqA 197 2.36e+01 b.1.1.2,d.19.1.1 100062,100063 1u5kA 244 2.38e+01 1dnlA 199 2.47e+01 1ci0A b.45.1.1 25753 1jyaA 130 2.48e+01 d.198.1.1 67453 2fbyA 205 2.55e+01 1z8gA 372 2.55e+01 1tu7A 208 2.58e+01 1txlA 215 2.61e+01 b.60.1.4 107429 1io7A 368 2.62e+01 1f4tA a.104.1.1 18971 1lam 484 2.63e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1b5eA 246 2.68e+01 1b5eA d.117.1.1 41056 1oaqH 121 2.68e+01 b.1.1.1 92707 1qhqA 140 2.69e+01 1qhqA b.6.1.1 63326 1qq9A 284 2.72e+01 1xjo c.56.5.4 33841 1a5t 334 2.75e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1wgrA 100 2.76e+01 1wurA 220 2.78e+01 1mvuB 121 2.79e+01 b.1.1.1 91475 2g3aA 152 2.81e+01 2aawA 222 2.81e+01 1q0xH 221 2.88e+01 b.1.1.1,b.1.1.2 95517,95518 1rzfH 235 2.88e+01 b.1.1.1,b.1.1.2 98150,98151 1iruK 201 2.92e+01 d.153.1.4 71362 1u69A 163 2.97e+01 d.32.1.7 107699 2bmeA 186 3.04e+01 1h5bA 113 3.11e+01 1tvdA b.1.1.1 60638 1dlfH 124 3.18e+01 1igtB b.1.1.1 20383 1t3uA 104 3.19e+01 d.244.1.1 99120 1alu 186 3.25e+01 1alu a.26.1.1 16826 1zx5A 300 3.27e+01 1zanH 224 3.27e+01 1m70A 190 3.32e+01 a.3.1.4,a.3.1.4 91200,91201 2asfA 137 3.41e+01 1p2fA 220 3.45e+01 a.4.6.1,c.23.1.1 87720,87721 1pz4A 116 3.46e+01 d.106.1.1 95400 1t2jA 116 3.52e+01 1fc6A 388 3.52e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1vqoZ 83 3.55e+01 1b4pA 217 3.59e+01 a.45.1.1,c.47.1.5 83158,83159 1f08A 148 3.62e+01 1f08A d.89.1.2 59564 1v54B 227 3.65e+01 b.6.1.2,f.17.2.1 100322,100323 1cbs 137 3.67e+01 1hmt b.60.1.2 27201 1iyeA 309 3.68e+01 e.17.1.1 83786 1q7lA 198 3.69e+01 c.56.5.4 96044 1tyjA 170 3.74e+01 1he7A 126 3.74e+01 1wwcA b.1.1.4 60970 1tw7A 99 3.75e+01 1m0uA 249 3.76e+01 a.45.1.1,c.47.1.5 78359,78360 1qo7A 394 3.81e+01 1qo7A c.69.1.11 34697 1wwpA 119 3.85e+01 1mg4A 113 3.85e+01 d.15.11.1 84953 1j05B 121 3.85e+01 b.1.1.1 90736 1j6rA 214 3.89e+01 d.173.1.2 71598 1mkfA 382 3.96e+01 b.116.1.1 79232 1gz2A 142 3.98e+01 d.169.1.1 83392 1mslA 109 4.00e+01 1mslA f.16.1.1 43660 1orvA 728 4.01e+01 b.70.3.1,c.69.1.24 87354,87355 2aheA 267 4.01e+01 2gqrA 237 4.15e+01 1p5vA 235 4.18e+01 b.1.11.1,b.7.2.1 87812,87813 1yarA 233 4.21e+01 1y74A 57 4.26e+01 1p9eA 331 4.28e+01 d.157.1.5 104088 1x31D 99 4.28e+01 1gjwA 637 4.29e+01 b.71.1.1,c.1.8.1 60582,60583 2bl9A 238 4.31e+01 1vqoN 187 4.31e+01 1iyhA 198 4.34e+01 a.45.1.1,c.47.1.5 83790,83791 1g55A 343 4.34e+01 1g55A c.66.1.26 34247 2gmyA 153 4.35e+01 1oe8A 211 4.38e+01 a.45.1.1,c.47.1.5 86905,86906 2b4vA 468 4.43e+01 1ejxB 101 4.46e+01 b.85.3.1 83183 1g5tA 196 4.54e+01 1g5rA c.37.1.11 32366 2fji1 399 4.59e+01 1spvA 184 4.59e+01 c.50.1.2 98957 1r5iD 216 4.60e+01 a.202.1.1 97091 1r8sA 164 4.62e+01 c.37.1.8 97247 1wucA 250 4.63e+01 1xzpB 150 4.63e+01 1xrkA 124 4.63e+01 1trb 320 4.72e+01 1trb c.3.1.5,c.3.1.5 30529,30530 1gheA 177 4.76e+01 d.108.1.1 76222 1qh5A 260 4.78e+01 1qh5A d.157.1.2 42057 1k2xA 177 4.81e+01 d.153.1.5 90929 1dyoA 160 4.87e+01 1dyoA b.18.1.7 23771 1go4A 205 5.01e+01 d.135.1.1 70292 1y08A 323 5.03e+01 1vmfA 145 5.04e+01 1axiB 236 5.11e+01 1axiB b.1.2.1,b.1.2.1 21997,21998 1kutA 230 5.11e+01 d.143.1.1 73017 1rw1A 114 5.18e+01 1jhjA 171 5.19e+01 b.18.1.9 66714 1yn4A 99 5.19e+01 2cvdA 198 5.20e+01 1pvl 301 5.28e+01 1pvl f.6.1.1 43819 1rklA 36 5.34e+01 f.23.30.1 97615 1d3vA 323 5.38e+01 1d3vA c.42.1.1 32559 2fikA 287 5.47e+01 1g5aA 628 5.56e+01 b.71.1.1,c.1.8.1 65152,65153 2ex0A 399 5.61e+01 1sffA 426 5.74e+01 c.67.1.4 105482 1mnaA 298 5.79e+01 c.69.1.22 79322 2bhgA 209 5.82e+01 2aebA 322 5.83e+01 1stfI 98 5.93e+01 1stfI d.17.1.2 38006 1xfpA 142 5.94e+01 b.1.1.1 109587 1ka8A 100 5.97e+01 a.4.5.20 72241 1h12A 405 6.04e+01 a.102.1.2 83447 2fdbM 164 6.07e+01 1s2oA 244 6.18e+01 2f9lA 199 6.42e+01 1m1hA 248 6.44e+01 b.114.1.1,d.58.42.1 78415,78416 2amdA 311 6.49e+01 1ne9A 335 6.51e+01 d.108.1.4,d.108.1.4 91839,91840 1yd9A 193 6.56e+01 4ubpB 126 6.58e+01 1ubpB b.85.3.1 28345 3thiA 371 6.61e+01 2thiA c.94.1.1 35792 1uesA 191 6.62e+01 a.2.11.1,d.44.1.1 107798,107799 1s6bB 119 6.66e+01 a.133.1.2 98593 1uz8B 212 6.71e+01 b.1.1.1,b.1.1.2 108168,108169 1ozjA 144 6.73e+01 d.164.1.1 93846 1pz5B 220 6.80e+01 b.1.1.1,b.1.1.2 95403,95404 1w0hA 204 6.81e+01 1a99A 344 6.85e+01 1pot c.94.1.1 35812 1tu1A 148 6.89e+01 d.107.1.3 107316 1whuA 104 6.92e+01 1lnsA 763 7.00e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 2f4iA 197 7.01e+01 1rl6A 177 7.06e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1wz9A 375 7.11e+01 1bbhA 131 7.11e+01 1bbhA a.24.3.2 16546 1vhyA 257 7.13e+01 b.122.1.2,c.116.1.5 100714,100715 1q2yA 140 7.13e+01 d.108.1.1 95655 1psyA 125 7.13e+01 a.52.1.3 95081 1lfdA 87 7.16e+01 1lfdA d.15.1.5 37622 2bjqA 345 7.19e+01 1z4eA 153 7.24e+01 2awgA 118 7.27e+01 1fit 147 7.27e+01 1fit d.13.1.1 37499 1zd3A 555 7.30e+01 1lrzA 426 7.32e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1lk2A 274 7.33e+01 b.1.1.2,d.19.1.1 91056,91057 1y9lA 115 7.38e+01 1wjxA 122 7.40e+01 1z7lA 276 7.42e+01 1m6iA 493 7.49e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1kuuA 202 7.50e+01 d.153.2.1 73019 1svmA 377 7.52e+01 1u0qA 125 7.57e+01 1ppjJ 62 7.58e+01 f.23.14.1 104266 3pviA 157 7.58e+01 3pviA c.52.1.6 33300 1d2oA 187 7.60e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1npsA 88 7.61e+01 1prs b.11.1.1 23622 1h65A 270 7.65e+01 c.37.1.8 65640 1q2zA 120 7.69e+01 a.118.19.1 95656 1qc7A 101 7.71e+01 1qc7A a.118.14.1 18456 1o3yA 166 7.77e+01 c.37.1.8 86618 1avoA 60 7.79e+01 1avoA a.24.8.1 16619 1my7A 114 7.80e+01 b.1.18.1 79675 1ql0A 241 7.83e+01 1qaeA d.4.1.2 37139 2aplA 157 7.84e+01 1zxq 192 7.92e+01 1zxq b.1.1.3,b.1.1.4 21657,21693 1mvfA 135 7.92e+01 b.1.1.1 85141 1vqvA 306 7.93e+01 2al3A 90 8.07e+01 1jz8A 1023 8.16e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 2a5jA 191 8.17e+01 1svdM 110 8.19e+01 2bcqA 335 8.19e+01 1e9pA 151 8.22e+01 1mfmA b.1.8.1 22215 1dugA 234 8.29e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1jb9A 316 8.37e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1v74A 107 8.40e+01 d.243.1.1 100442 1iqqA 200 8.43e+01 d.124.1.1 66274 1oe4A 247 8.47e+01 c.18.1.3 86895 1qveA 126 8.56e+01 d.24.1.1 104594 1jndA 420 8.61e+01 c.1.8.5,d.26.3.1 71757,71758 1ry3A 64 8.62e+01 j.106.1.1 98084 1opc 110 8.62e+01 1opc a.4.6.1 16231 1te0A 318 8.62e+01 2gimA 106 8.64e+01 1t0qC 86 8.70e+01 d.15.12.1 106222 2fs3A 282 8.78e+01 1q0eA 152 8.90e+01 b.1.8.1 95504 1ew0A 130 8.90e+01 1drmA d.110.3.2 40905