# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1gumA 222 1.73e-02 1pgtA a.45.1.1,c.47.1.5 17683,32977 1gulA 222 3.15e-02 1pgtA a.45.1.1,c.47.1.5 17675,32969 1rybA 212 9.83e-01 c.56.3.1 98098 1vhmA 195 1.16e+00 d.110.2.1 100691 1womA 271 1.27e+00 2ae6A 166 2.69e+00 1gzqA 300 6.02e+00 b.1.1.2,d.19.1.1 70818,70819 1lj2A 110 6.43e+00 h.1.13.2 73926 2ashA 381 6.79e+00 1i1qA 520 8.41e+00 1qdlA d.161.1.1 61543 1ituA 369 8.47e+00 c.1.9.7 71423 1zemA 262 9.67e+00 1b5sA 242 1.38e+01 1eaf c.43.1.1 32626 1u69A 163 1.42e+01 d.32.1.7 107699 1rw2A 152 1.46e+01 a.118.19.1 97961 2bmeA 186 1.48e+01 2f9lA 199 1.49e+01 1m70A 190 1.53e+01 a.3.1.4,a.3.1.4 91200,91201 1vlpA 441 1.54e+01 d.41.2.2,d.41.2.3 108840,108841 1ho8A 480 1.59e+01 1ho8A a.118.1.9 61107 1oejA 193 1.67e+01 b.60.1.4 92798 1plq 258 1.71e+01 1plq d.131.1.2,d.131.1.2 41388,41389 1wwpA 119 1.73e+01 1h9sA 140 1.73e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 1etpA 190 1.78e+01 1etpA a.3.1.4,a.3.1.4 15962,15963 1txlA 215 1.88e+01 b.60.1.4 107429 1tag 324 1.98e+01 1cipA a.66.1.1,c.37.1.8 18197,32080 1gw0A 559 2.04e+01 b.6.1.3,b.6.1.3,b.6.1.3 70623,70624,70625 2f02A 323 2.28e+01 1y9lA 115 2.43e+01 2fuqA 747 2.65e+01 1r9dA 787 2.69e+01 c.7.1.1 104865 1mun 225 2.79e+01 1mun a.96.1.2 18744 1uunA 184 2.85e+01 f.6.1.2 100012 1wyuB 474 2.86e+01 1gy9A 283 2.90e+01 b.82.2.5 70742 1y74A 57 2.90e+01 2awdA 323 2.96e+01 1muyA 225 3.03e+01 1mun a.96.1.2 18745 1plr 258 3.04e+01 1plq d.131.1.2,d.131.1.2 41390,41391 1aroL 151 3.07e+01 1lba d.118.1.1 41063 1n4kA 381 3.25e+01 a.118.22.1,b.42.6.1 79992,79993 2f8mA 244 3.27e+01 1vpkA 378 3.36e+01 2b33A 140 3.40e+01 1otjA 283 3.56e+01 b.82.2.5 93517 1p9bA 442 3.66e+01 c.37.1.10 94385 1l3lA 234 3.67e+01 a.4.6.2,d.110.5.1 73541,73542 3phy 125 3.68e+01 3pyp d.110.3.1 40904 1fjrA 195 3.75e+01 1fjrA b.102.1.1 59855 3pyp 125 3.84e+01 3pyp d.110.3.1 40897 2blkA 122 3.87e+01 1e85A 127 3.93e+01 1bbhA a.24.3.2 16549 1ps9A 671 3.98e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1e3dB 542 4.10e+01 1h2rL e.18.1.1 59189 1tadA 324 4.12e+01 1cipA a.66.1.1,c.37.1.8 18194,32077 1knvA 293 4.18e+01 c.52.1.7 68707 1xrkA 124 4.19e+01 1lba 146 4.21e+01 1lba d.118.1.1 41062 1wvfA 520 4.24e+01 1nwzA 125 4.26e+01 d.110.3.1 86370 2phy 125 4.31e+01 3pyp d.110.3.1 40901 1ep3B 262 4.31e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1jogA 146 4.34e+01 a.24.16.2 77142 1a5t 334 4.37e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1df7A 159 4.37e+01 3dfr c.71.1.1 34885 1mf7A 194 4.55e+01 c.62.1.1 84937 1n3gA 113 4.56e+01 d.204.1.1 79962 1avqA 228 4.66e+01 1avqA c.52.1.13 33326 1e32A 458 4.69e+01 1e32A b.52.2.3,c.37.1.20,d.31.1.1 59183,59184,59185 2gaiA 633 4.70e+01 1cf4B 44 4.78e+01 1cf4B 1ukvY 206 4.82e+01 c.37.1.8 107918 1apc 106 4.83e+01 256bA a.24.3.1 16543 1q53A 112 4.87e+01 d.58.4.4 95858 1eijA 80 4.93e+01 1eijA a.5.6.1 16298 1glv 303 5.05e+01 1gsa c.30.1.3,d.142.1.1 31721,41480 2aioA 269 5.15e+01 1b9mA 265 5.16e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 2bcgY 206 5.16e+01 2c0cA 362 5.18e+01 1smlA 269 5.34e+01 1smlA d.157.1.1 42053 1jb1A 205 5.39e+01 1jb1A c.91.1.2 62832 1mkp 144 5.58e+01 1vhrA c.45.1.1 32654 1voqa 90 5.58e+01 1z84A 351 5.61e+01 2f62A 161 5.68e+01 1v7cA 351 5.78e+01 c.79.1.1 100446 2gmyA 153 5.94e+01 1yarA 233 6.06e+01 1vf1A 229 6.09e+01 1rktA 205 6.10e+01 a.4.1.9,a.121.1.1 97623,97624 1l4sA 112 6.17e+01 d.204.1.1 77693 1lk5A 229 6.27e+01 c.124.1.4,d.58.40.1 73960,73961 1q2zA 120 6.36e+01 a.118.19.1 95656 1fmjA 351 6.57e+01 c.37.1.5 59879 256bA 106 6.71e+01 256bA a.24.3.1 16539 1j8yF 297 6.72e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1wucA 250 6.79e+01 1mjhA 162 6.86e+01 1mjhA c.26.2.4 31639 1fpkA 335 6.98e+01 1frpA e.7.1.1 42930 1hg4A 279 7.04e+01 1lbd a.123.1.1 19333 1t3lA 337 7.15e+01 b.34.2.1,c.37.1.1 106358,106359 1ido 192 7.16e+01 1ido c.62.1.1 34139 1jpaA 312 7.21e+01 d.144.1.7 67011 1dk2A 86 7.24e+01 1bpyA a.60.6.1 18078 1ug8A 87 7.31e+01 d.68.7.1 107825 1plfA 72 7.36e+01 1tvxA d.9.1.1 37373 1bbzA 58 7.45e+01 1bbzA b.34.2.1 24477 1g55A 343 7.46e+01 1g55A c.66.1.26 34247 1e4fT 419 7.50e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1souA 194 7.51e+01 c.124.1.6 105858 1ep2B 261 7.53e+01 1ep2B b.43.4.2,c.25.1.3 25666,31556 1pmaA 233 7.58e+01 1pmaA d.153.1.4 41918 1fs0G 230 7.60e+01 1fs0G c.49.2.1 59999 2f2tA 161 7.62e+01 2fd5A 180 7.64e+01 1t56A 216 7.66e+01 a.4.1.9,a.121.1.1 106428,106429 1cgo 127 7.79e+01 1cpq a.24.3.2 16550 1xd7A 145 7.82e+01 a.4.5.55 109566 2a0kA 161 7.84e+01 1bno 87 7.85e+01 1bpyA a.60.6.1 18079 1w0hA 204 7.97e+01 1ogiA 303 8.01e+01 b.43.4.2,c.25.1.1 92914,92915 1fuxA 166 8.03e+01 1fjjA b.17.1.2 60034 2a33A 215 8.06e+01 5fbpA 335 8.07e+01 1frpA e.7.1.1 42873 1ny9A 143 8.07e+01 a.181.1.1 86401 1t35A 191 8.16e+01 c.129.1.1 99108 1b7yB 785 8.23e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1j8mF 297 8.35e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 2bsaA 303 8.38e+01 1aqt 138 8.44e+01 1aqt a.2.10.1,b.93.1.1 15718,28435 1b8xA 280 8.63e+01 1b8xA a.45.1.1,c.47.1.5 17739,33033 1qqeA 292 8.73e+01 1qqeA a.118.8.1 19210 1kezA 300 8.75e+01 c.69.1.22 68546 1ftt 68 8.83e+01 2hddA a.4.1.1 15997 1wyuA 438 8.83e+01 1gsa 316 8.86e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1mdwA 328 8.95e+01 d.3.1.3 84934