# 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 2gaeA 346 1.64e-01 2ae0X 345 2.74e-01 1v1qA 134 1.85e+00 1uheA 97 2.25e+00 1wocA 103 2.26e+00 1n67A 359 2.71e+00 b.2.3.4,b.2.3.4 85354,85355 1g0uI 205 4.90e+00 d.153.1.4 41891 1cqyA 99 4.94e+00 1b9zA b.3.1.1 22527 2ghsA 326 5.27e+00 1rypJ 204 6.79e+00 d.153.1.4 41878 1b9zA 516 6.85e+00 1b9zA b.3.1.1,c.1.8.1 22528,28798 1vemA 516 7.05e+00 1qy5A 269 7.10e+00 d.122.1.1 96573 1tc6A 236 7.62e+00 d.122.1.1 106756 1aw8E 91 8.42e+00 1aw8B 2c3mA 1231 8.50e+00 1kekA 1231 8.58e+00 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1aw8B 91 8.91e+00 1aw8B 1itcA 516 9.49e+00 b.3.1.1,c.1.8.1 83705,83706 1z5hA 780 9.71e+00 1pt1A 143 1.00e+01 b.52.2.1 95084 5bcaA 516 1.04e+01 1b9zA b.3.1.1,c.1.8.1 22529,28799 1b0pA 1231 1.07e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 2g5dA 422 1.08e+01 1h3gA 601 1.10e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1wucA 250 1.13e+01 1sqrA 95 1.29e+01 1a97A 148 1.40e+01 1nulA c.61.1.1 34023 1nulA 152 1.42e+01 1nulA c.61.1.1 34011 1pqhA 143 1.45e+01 b.52.2.1 95017 1who 96 1.51e+01 1who b.7.3.1 23215 2a74A 643 1.52e+01 1vjhA 122 1.54e+01 d.129.3.1 100811 1h9sA 140 1.60e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 1g0u1 266 1.65e+01 2fnbA 95 1.78e+01 2fnbA b.1.2.1 21979 1miuA 738 1.99e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 1d0hA 469 2.06e+01 1a8d b.29.1.6,b.42.4.2 24265,25610 1jpc 109 2.12e+01 1b2pA b.78.1.1 27986 1hxmA 229 2.13e+01 1hxmA b.1.1.1,b.1.1.2 61367,61368 1wi1A 126 2.14e+01 2pth 193 2.16e+01 2pth c.56.3.1 33793 1diwA 441 2.17e+01 1a8d b.29.1.6,b.42.4.2 24264,25609 1y0bA 197 2.17e+01 1vkxA 273 2.27e+01 1a3qA b.1.18.1,b.2.5.3 21941,22454 1ef1A 294 2.30e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1a8d 452 2.36e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1vc3B 97 2.47e+01 1cbjA 151 2.64e+01 1mfmA b.1.8.1 22213 1a34A 159 2.91e+01 1a34A b.121.7.1 23286 1k3tA 359 2.95e+01 c.2.1.3,d.81.1.1 72022,72023 1s5uA 138 3.12e+01 d.38.1.1 98573 1n62B 809 3.13e+01 d.41.1.1,d.133.1.1 80092,80093 1epnE 330 3.32e+01 2er7E b.50.1.2 26780 2er7E 330 3.32e+01 2er7E b.50.1.2 26779 2ey4C 82 3.33e+01 5er2E 330 3.34e+01 2er7E b.50.1.2 26783 1msaA 109 3.39e+01 1b2pA b.78.1.1 27987 1g0sA 209 3.40e+01 1g0sA d.113.1.1 60187 1xyfA 436 3.63e+01 1taxA b.42.2.1,c.1.8.3 25577,28909 1gupA 348 3.71e+01 1guqA d.13.1.2,d.13.1.2 37534,37535 1rypL 212 3.74e+01 d.153.1.4 41880 1zboA 210 3.90e+01 1ton 235 3.96e+01 5ptp b.47.1.2 26307 1ryp2 233 4.16e+01 1ryp2 1coy 507 4.19e+01 1b8sA c.3.1.2,d.16.1.1 30333,37864 3cox 507 4.39e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1guqA 348 4.39e+01 1guqA d.13.1.2,d.13.1.2 37522,37523 1nh9A 87 4.44e+01 d.68.6.1 91878 1i0lA 221 4.49e+01 c.61.1.1 71096 2fdbM 164 4.73e+01 1ixmB 192 4.87e+01 1ixmA d.123.1.1 41115 1q6oA 216 4.94e+01 c.1.2.3 95986 1kv8A 216 4.98e+01 c.1.2.3 73054 1a7qH 116 5.11e+01 1gc1H b.1.1.1 19955 1g65K 211 5.18e+01 d.153.1.4 41907 1bmv1 198 5.27e+01 1bmv1 1deuA 277 5.29e+01 1theB d.3.1.1 37085 1zxiB 809 5.34e+01 1oewA 329 5.35e+01 b.50.1.2 86924 1gvuA 329 5.36e+01 b.50.1.2 70619 2cwzA 141 5.39e+01 1wit 93 5.68e+01 1wit b.1.1.4 21714 1y2tA 142 5.92e+01 1knlA 130 5.99e+01 b.42.2.1 72780 1v0jA 399 6.04e+01 1ixmA 192 6.20e+01 1ixmA d.123.1.1 41114 1knmA 130 6.21e+01 b.42.2.1 72781 1gpc 218 6.25e+01 1gpc b.40.4.7 25393 1g0uL 241 6.34e+01 d.153.1.4 41894 1qj2B 809 6.50e+01 1qj2B 1ryp1 222 6.50e+01 1ryp1 1grvB 182 6.53e+01 c.61.1.1 76322 1xniA 118 6.66e+01 1vr8A 142 6.73e+01 1ti6B 274 6.78e+01 b.3.5.1,d.58.1.5 106976,106977 2byoA 207 6.85e+01 1aly 146 6.87e+01 1aly b.22.1.1 23856 1a7oH 116 6.88e+01 1gc1H b.1.1.1 19943 1jb0E 75 6.92e+01 1pse b.34.4.2 62824 1f3rB 257 6.93e+01 1f3rB b.1.1.1,b.1.1.1 20416,20417 1efdN 266 7.12e+01 1efdN c.92.2.1 35597 1vqvA 306 7.36e+01 1h4rA 314 7.40e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1amoA 615 7.46e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 25669,31210,31557 1sgjA 284 7.60e+01 c.1.12.5 105535 1r94A 118 7.74e+01 b.124.1.1 97251 1t9mA 214 7.84e+01 1dyoA 160 7.88e+01 1dyoA b.18.1.7 23771 1ro7A 259 7.90e+01 c.130.1.1 97667 1b9mA 265 7.96e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1ppfE 218 7.97e+01 1a7s b.47.1.2 26234 1nvpD 108 8.10e+01 a.32.1.1,b.56.1.1 92213,92214 1zupA 315 8.13e+01 1vlyA 338 8.23e+01 b.44.2.1,d.250.1.1 108871,108872 1zd0A 150 8.26e+01 1vpjA 192 8.29e+01 1iyjB 817 8.32e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 76948,76949,76950,76951,76952 2bbkH 355 8.33e+01 2bbkH b.69.2.1 27634 1u5xA 140 8.35e+01 1vm7A 311 8.36e+01 c.72.1.1 108884 1b8sA 504 8.43e+01 1b8sA c.3.1.2,d.16.1.1 30335,37866 1b4vA 504 8.51e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 1qpxA 218 8.56e+01 1qpxA b.1.11.1,b.7.2.1 22318,23200 1b0fA 218 8.60e+01 1a7s b.47.1.2 26237 2awpA 198 8.67e+01 1lzlA 323 8.87e+01 c.69.1.2 78306 1n99A 166 8.94e+01 b.36.1.1,b.36.1.1 85459,85460 1ms9A 648 8.96e+01 b.29.1.15,b.68.1.1 85088,85089