# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1t62A 166 3.14e-05 1azeA 56 1.53e+00 b.34.2.1 24536 1ov3A 138 2.44e+00 b.34.2.1 87451 b.34.2.1 87452 1olzA 663 3.97e+00 b.1.1.4 -2678 unknown_sccs -4626 unknown_sccs -12590 1jksA 294 4.24e+00 d.144.1.7 71710 1jb7B 260 4.45e+00 1otcB b.40.4.3 62839 1dptA 117 4.61e+00 1dptA d.80.1.3 39862 3tmkA 216 4.66e+00 3tmkA c.37.1.1 31920 1at0 145 4.77e+00 1at0 b.86.1.1 28374 1cr5A 189 4.78e+00 1cr5A b.52.2.3 26931 d.31.1.1 38465 1otcB 260 4.78e+00 1otcB b.40.4.3 25310 2tmkA 216 4.84e+00 3tmkA c.37.1.1 31928 1a62 130 4.86e+00 1a62 a.140.3.1 64708 b.40.4.5 64709 1pysA 350 4.92e+00 1pysA d.104.1.1 40775 1ng2A 193 5.16e+00 b.34.2.1 85660 b.34.2.1 85661 1kzfA 230 6.26e+00 d.108.1.3 73354 1hfeL 421 6.27e+00 1fehA c.96.1.1 36018 d.58.1.5 39001 1gnyA 153 6.28e+00 b.18.1.11 65404 1lvl 458 6.30e+00 1lvl c.3.1.5 30567 c.3.1.5 30568 d.87.1.1 40205 1fx3B 169 6.77e+00 1fx3B d.33.1.1 38525 1b7yA 350 7.07e+00 1pysA d.104.1.1 40776 1hxpA 348 7.28e+00 1guqA d.13.1.2 37530 d.13.1.2 37531 1guqA 348 7.31e+00 1guqA d.13.1.2 37522 d.13.1.2 37523 1gupA 348 7.37e+00 1guqA d.13.1.2 37534 d.13.1.2 37535 1oi1A 221 7.65e+00 b.34.9.3 87037 b.34.9.3 87038 1oz9A 150 8.19e+00 unknown_sccs -10588 1utiA 58 8.59e+00 b.34.2.1 -3552 1oebA 62 8.73e+00 b.34.2.1 86909 1qcsA 211 9.03e+00 1qcsA b.52.2.3 26927 d.31.1.1 38461 1ckaA 57 9.81e+00 1ckaA b.34.2.1 24459 1gcqA 61 9.85e+00 1ckaA b.34.2.1 60434 1oz2A 331 9.94e+00 b.34.9.3 -3597 b.34.9.3 -3598 b.34.9.3 -3599 1fx3A 169 1.03e+01 1fx3B d.33.1.1 38524 1ir6A 424 1.15e+01 c.107.1.2 71342 1su4A 994 1.15e+01 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1vdkA 466 1.21e+01 a.127.1.1 -1752 1mxa 383 1.23e+01 1mxb d.130.1.1 41326 d.130.1.1 41327 d.130.1.1 41328 1kb9B 352 1.25e+01 d.185.1.1 77313 d.185.1.1 77314 1td5A 202 1.31e+01 1gh8A 89 1.34e+01 1gh8A d.58.12.1 39309 1dpjA 329 1.37e+01 1smrA b.50.1.2 26828 1g2lA 235 1.51e+01 b.47.1.2 65112 1kamA 194 1.53e+01 c.26.1.3 72254 1kp9B 287 1.67e+01 c.66.1.18 68734 1ezvB 352 1.68e+01 1ezvB d.185.1.1 59543 d.185.1.1 59544 1rg9A 383 1.69e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1aboA 62 1.69e+01 1bbzA b.34.2.1 24474 1o0xA 262 1.71e+01 d.127.1.1 80755 1bbzA 58 1.73e+01 1bbzA b.34.2.1 24477 1bbzE 58 1.74e+01 1bbzA b.34.2.1 24479 1tplA 426 1.78e+01 1ax4A c.67.1.2 34387 1mxb 383 1.94e+01 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 7catA 506 2.00e+01 1cf9A e.5.1.1 42781 1fjsA 234 2.02e+01 1ucyE b.47.1.2 26336 1k20A 310 2.03e+01 c.107.1.1 68027 1k2yX 463 2.06e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 3fruA 269 2.08e+01 1agdA b.1.1.2 20657 d.19.1.1 38150 1p5dX 463 2.12e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1k9uA 78 2.15e+01 a.39.1.10 84348 1e4fT 419 2.18e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1qyaA 307 2.19e+01 1o0wA 252 2.20e+01 a.149.1.1 80751 d.50.1.1 80752 1ghhA 81 2.25e+01 1ghhA d.57.1.1 38940 1nrkA 328 2.30e+01 unknown_sccs -4071 unknown_sccs -10176 1earA 147 2.44e+01 b.107.1.1 64875 d.58.38.1 64876 1i0cA 60 2.45e+01 1aojA b.34.2.1 61485 1e2aA 105 2.46e+01 1e2aA a.7.2.1 16322 1jxmA 301 2.47e+01 b.34.2.1 67420 c.37.1.1 67421 1v2bA 177 2.50e+01 1f5mA 180 2.59e+01 1f5mB d.110.2.1 40895 1s72H 171 2.59e+01 1f5mB 180 2.59e+01 1f5mB d.110.2.1 40896 1aqt 138 2.60e+01 1aqt a.2.10.1 15718 b.93.1.1 28435 1mfiA 114 2.61e+01 1dptA d.80.1.3 39856 1mbyA 88 2.63e+01 d.223.1.1 78931 1dxjA 242 2.67e+01 1cnsA d.2.1.1 36244 1c5mD 255 2.69e+01 5ptp b.47.1.2 26338 1aojA 60 2.70e+01 1aojA b.34.2.1 24555 1eb0A 147 2.71e+01 b.107.1.1 64890 d.58.38.1 64891 1griA 217 2.78e+01 1griA b.34.2.1 24531 b.34.2.1 24532 d.93.1.1 40473 1nwzA 125 2.80e+01 d.110.3.1 86370 3pyp 125 2.80e+01 3pyp d.110.3.1 40897 1qcxA 359 2.82e+01 1qcxA b.80.1.2 28028 1a5r 103 2.84e+01 1a5r d.15.1.1 37597 2phy 125 2.85e+01 3pyp d.110.3.1 40901 1oqvA 192 2.85e+01 d.24.1.2 87320 1j6qA 136 2.90e+01 b.40.9.1 77091 1g99A 408 2.92e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1i50B 1224 2.93e+01 e.29.1.1 61755 1ri9A 102 2.98e+01 b.34.2.1 -3579 1eulA 994 3.04e+01 1eulA 1dxgA 36 3.16e+01 1dxgA g.41.5.2 45247 2dynA 122 3.31e+01 1dynA b.55.1.1 26957 1gfc 59 3.34e+01 1griA b.34.2.1 24537 1b37A 472 3.36e+01 1b37B c.3.1.2 30389 d.16.1.5 37953 1l4dB 122 3.40e+01 d.15.5.1 77684 3phy 125 3.40e+01 3pyp d.110.3.1 40904 1lckA 175 3.54e+01 1lckA b.34.2.1 24552 d.93.1.1 40421 1jhdA 396 3.59e+01 b.122.1.3 66712 c.26.1.5 66713 1v74A 107 3.63e+01 unknown_sccs -9319 1dp7P 76 3.66e+01 1dp7P a.4.5.20 16159 1pcxA 810 3.83e+01 a.71.2.1 -1098 b.2.8.1 -2910 c.62.1.2 -7984 d.109.2.1 -10823 g.41.10.1 -12792 1aua 296 3.88e+01 1aua a.5.3.1 16290 c.13.1.1 30882 1lj2C 28 3.91e+01 2dln 306 3.99e+01 1iow c.30.1.2 31715 d.142.1.1 41483