# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1gumA 222 1.94e-03 1pgtA a.45.1.1 17683 c.47.1.5 32977 1pd21 199 2.72e-03 1pd21 1gulA 222 3.21e-03 1pgtA a.45.1.1 17675 c.47.1.5 32969 1iyhA 198 5.59e-03 a.45.1.1 83790 c.47.1.5 83791 1oktA 211 8.81e-03 a.45.1.1 -942 c.47.1.5 -7467 1f3aA 222 8.49e-02 1pgtA a.45.1.1 17701 c.47.1.5 32995 6gsvA 217 1.03e-01 1b8xA a.45.1.1 17633 c.47.1.5 32925 1pgtA 210 1.44e-01 1pgtA a.45.1.1 17515 c.47.1.5 32809 1k3lA 221 2.14e-01 a.45.1.1 77229 c.47.1.5 77230 1k3yA 221 2.14e-01 a.45.1.1 77245 c.47.1.5 77246 1oe8A 211 2.32e-01 a.45.1.1 86905 c.47.1.5 86906 2gsq 202 2.83e-01 1pd21 a.45.1.1 17715 c.47.1.5 33009 1gseA 221 3.19e-01 1pgtA a.45.1.1 17667 c.47.1.5 32961 1b4pA 217 6.47e-01 a.45.1.1 83158 c.47.1.5 83159 1b8xA 280 7.40e-01 1b8xA a.45.1.1 17739 c.47.1.5 33033 1l2lA 457 8.96e-01 c.72.1.3 77656 1dugA 234 1.21e+00 1b8xA a.45.1.1 17718 c.47.1.5 33012 1gnd 447 1.54e+00 1gnd c.3.1.3 30423 d.16.1.6 37987 1o6zA 303 1.79e+00 c.2.1.5 81107 d.162.1.1 81108 1d5tA 433 2.12e+00 1gnd c.3.1.3 30422 d.16.1.6 37986 1augA 215 2.30e+00 1a2zA c.56.4.1 33798 1uf2A 1019 2.59e+00 unknown_sccs -12036 1m0uA 249 2.59e+00 a.45.1.1 78359 c.47.1.5 78360 1nofA 383 2.65e+00 b.71.1.2 -4668 c.1.8.3 -5339 1kid 203 2.71e+00 1derA c.8.5.1 30771 1eu8A 409 3.74e+00 1eu8A c.94.1.1 59502 1ezfA 340 3.87e+00 1ezfA a.128.1.2 19440 1qq2A 199 4.35e+00 1qq2A c.47.1.10 33064 1qmvA 197 5.05e+00 1qq2A c.47.1.10 33066 1kzhA 555 5.87e+00 c.89.1.1 73361 1cot 129 5.88e+00 1ycc a.3.1.1 15899 1fpxA 352 5.92e+00 1fpxA a.4.5.29 59950 c.66.1.12 59951 1f46A 140 6.71e+00 1f46A d.129.4.1 59643 1bp3A 191 6.82e+00 1huw a.26.1.1 16838 1aw9 216 6.84e+00 1gnwA a.45.1.1 17736 c.47.1.5 33030 1nhyA 219 7.28e+00 a.45.1.1 80520 c.47.1.5 80521 1r2rA 248 7.58e+00 c.1.1.1 -5147 1f47B 144 7.63e+00 1f46A d.129.4.1 59645 1bo1A 416 7.65e+00 1bo1A d.143.1.2 41591 1ozhA 566 7.82e+00 c.31.1.3 -6737 c.36.1.5 -6895 c.36.1.9 -6935 1f7wA 144 8.13e+00 1f46A d.129.4.1 59679 1e6bA 221 8.16e+00 1e6bA a.45.1.1 59294 c.47.1.5 59295 1fp2A 352 8.62e+00 1fpxA a.4.5.29 59941 c.66.1.12 59942 1ppa 121 8.69e+00 1poa a.133.1.2 19550 1c0aA 585 8.74e+00 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1qz9A 416 1.07e+01 c.67.1.3 -8180 1amk 251 1.08e+01 1amk c.1.1.1 28503 1s8iA 121 1.10e+01 a.133.1.2 -1968 1n55A 251 1.11e+01 c.1.1.1 80007 1n82A 331 1.14e+01 c.1.8.3 -5306 1gikA 261 1.15e+01 d.165.1.1 -11545 1iu8A 206 1.17e+01 c.56.4.1 71436 1ekfA 365 1.22e+01 1ekfA e.17.1.1 59445 1q9iA 571 1.24e+01 a.138.1.3 -2051 c.3.1.4 -6041 d.168.1.1 -11607 1j1qA 261 1.29e+01 d.165.1.1 -11546 1kssA 571 1.32e+01 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1iknD 236 1.45e+01 1iknD d.211.1.1 19171 1hyeA 313 1.51e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1rt8A 513 1.51e+01 1g61A 228 1.52e+01 1g61A d.126.1.1 41126 1im5A 180 1.60e+01 unknown_sccs 66211 1m64A 571 1.62e+01 a.138.1.3 78683 c.3.1.4 78684 d.168.1.1 78685 1e39A 571 1.64e+01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1ktaA 365 1.65e+01 e.17.1.1 77533 1kwkA 645 1.73e+01 b.71.1.1 77565 c.1.8.1 77566 c.23.16.5 77567 1kwgA 645 1.74e+01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1ksfX 758 1.89e+01 a.174.1.1 77522 c.37.1.20 77523 c.37.1.20 77524 1lj1A 571 2.00e+01 a.138.1.3 78023 c.3.1.4 78024 d.168.1.1 78025 1qjdA 571 2.05e+01 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 1ig3A 263 2.05e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1kt8A 365 2.09e+01 e.17.1.1 77531 1aurA 218 2.26e+01 1auoA c.69.1.14 34718 1i19A 561 2.32e+01 1i19A d.58.32.3 61522 d.145.1.1 61523 1aijL 281 2.42e+01 6prcL f.26.1.1 43461 1qciA 262 2.45e+01 1qi7A d.165.1.1 42201 1vaoA 560 2.47e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 1izoA 417 2.48e+01 a.104.1.1 83851 1ql3A 99 2.55e+01 1ycc a.3.1.1 15822 1auoA 218 2.73e+01 1auoA c.69.1.14 34716 1ma3A 253 2.75e+01 c.31.1.5 78883 1su8A 636 2.76e+01 e.26.1.2 -12015 1l0lK 56 2.79e+01 f.23.15.1 84497 1cd9C 175 2.89e+01 1bgc a.26.1.1 16816 8prkB 287 2.89e+01 1wgjA b.40.5.1 25396 1eh2 106 2.90e+01 1eh2 a.39.1.6 17339 1v7zA 260 2.95e+01 unknown_sccs -6353 1qvbA 481 3.02e+01 1qvbA c.1.8.4 28983 1jlvA 209 3.27e+01 a.45.1.1 71729 c.47.1.5 71730 1k2yX 463 3.29e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1e9gB 286 3.31e+01 1wgjA b.40.5.1 59394 1kao 167 3.32e+01 1ctqA c.37.1.8 32014 1mgtA 174 3.33e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1bx4A 345 3.37e+01 1bx4A c.72.1.1 34935 1rzhL 281 3.38e+01 f.26.1.1 -12215 1ivyA 452 3.38e+01 1ivyA c.69.1.5 34654 1bjoA 360 3.41e+01 1bjnA c.67.1.4 34471 1oahA 519 3.55e+01 a.138.1.3 86736 1fkmA 396 3.57e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1gc5A 467 3.61e+01 1gc5A c.72.1.3 60429 1ofcX 304 3.63e+01 a.4.1.3 -195 unknown_sccs -199 unknown_sccs -978 3pmgA 561 3.65e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1h1nA 305 3.67e+01 c.1.8.3 70855 1hu4A 288 3.79e+01 1hu4A 1n5dA 288 3.79e+01 c.2.1.2 80030 1l9mA 692 3.80e+01 b.1.18.9 73732 b.1.5.1 73733 b.1.5.1 73734 d.3.1.4 73735 1jkmB 361 3.82e+01 1jkmA c.69.1.2 34634 1j3bA 529 3.85e+01 c.91.1.1 77071 c.109.1.1 77072 1jj2Q 154 3.86e+01 1ffkO d.55.1.1 63102 1s72R 155 3.91e+01 1d6aB 262 3.97e+01 1qi7A d.165.1.1 42198