# List of top-scoring protein chains for T0406.t04-w0.5 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.soe.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 2ou6A 190 3.27e-17 1rxqA 178 2.96e-16 a.213.1.1 105118 2qe9A 178 1.91e-15 2rd9A 193 7.77e-13 2hkvA 149 3.33e-12 2p1aA 154 1.11e-10 2yqyA 169 4.65e-10 2qnlA 162 8.27e-10 2f22A 144 8.57e-10 a.213.1.2 132795 1f5mA 180 4.12e-01 1f5mB d.110.2.1 40895 1opkA 495 5.91e-01 b.34.2.1,d.93.1.1,d.144.1.7 87232,87233,87234 2fo0A 495 5.98e-01 b.34.2.1,d.93.1.1,d.144.1.7 133862,133863,133864 1oplA 537 6.06e-01 b.34.2.1,d.93.1.1,d.144.1.7 87235,87236,87237 1spqA 247 6.11e-01 c.1.1.1 105878 1tpvA 247 7.37e-01 1amk c.1.1.1 28443 2oqmA 192 7.87e-01 1tpuA 247 7.89e-01 1amk c.1.1.1 28441 1tpwA 247 9.34e-01 1amk c.1.1.1 28449 1tph1 247 9.69e-01 1amk 1tpc1 247 1.01e+00 1amk 1tpb1 247 1.06e+00 1amk 1sw3A 248 1.31e+00 c.1.1.1 106065 1ssdA 247 1.33e+00 c.1.1.1 105979 1sw7A 248 1.81e+00 c.1.1.1 106073 2nsfA 261 2.00e+00 1sw0A 248 2.33e+00 c.1.1.1 106060 1sq7A 247 2.34e+00 c.1.1.1 105886 1su5A 247 3.22e+00 c.1.1.1 106020 1q20A 299 3.82e+00 c.37.1.5 95616 2hqrA 223 3.89e+00 2qymA 358 4.26e+00 1q1qA 350 4.66e+00 c.37.1.5 95599 2ixnA 310 4.80e+00 a.268.1.1 137777 1c12A 214 4.89e+00 32c2A b.1.1.1,b.1.1.2 20380,21372 1wyiA 250 4.91e+00 c.1.1.1 121446 1htiA 248 4.91e+00 1amk c.1.1.1 28455 2jo7A 224 5.94e+00 2gwhA 298 6.95e+00 2o1qA 145 7.47e+00 1timA 247 8.79e+00 1amk c.1.1.1 28453 2ewyA 383 9.20e+00 3cklA 298 9.92e+00 1mo0A 275 1.08e+01 c.1.1.1 79329 1r2rA 248 1.14e+01 c.1.1.1 96875 1zvwA 378 1.16e+01 1q8kA 308 1.18e+01 d.58.51.1,a.60.14.1,b.40.4.5 104557,111596,111597 2cf4A 332 1.20e+01 1efhA 292 1.27e+01 1aquA c.37.1.5 31948 1bsmA 201 1.30e+01 1avmA a.2.11.1,d.44.1.1 15780,38743 1ab2A 109 1.30e+01 d.93.1.1 40506 1ov4A 293 1.30e+01 c.37.1.5 93581 2g5dA 422 1.31e+01 2z5fA 298 1.38e+01 1j99A 293 1.38e+01 c.37.1.5 71618 2hj0A 519 1.45e+01 1i1cA 239 1.52e+01 1igtB b.1.1.2,b.1.1.2 21536,21537 1yvwA 115 1.54e+01 a.204.1.4 124122 1m6yA 301 1.57e+01 a.60.13.1,c.66.1.23 78716,78717 2p8eA 307 1.76e+01 2gizA 221 1.77e+01 2r6fA 972 1.83e+01 1g3mA 294 1.91e+01 c.37.1.5 83268 1hy3A 294 1.93e+01 c.37.1.5 71090 1yz6A 274 2.00e+01 2rgrA 759 2.04e+01 2rdyA 803 2.15e+01 1bjtA 793 2.15e+01 e.11.1.1 43249 1c7qA 445 2.29e+01 2pgi c.80.1.2 35307 2oi9C 121 2.33e+01 1rh5B 74 2.36e+01 f.23.28.1 97465 2p6pA 384 2.55e+01 1i0eA 381 2.83e+01 a.83.1.1,d.128.1.2 83655,83656 1b06A 210 3.01e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 2z64C 135 3.08e+01 2dfvA 347 3.18e+01 2hr9A 180 3.19e+01 b.88.1.2 136686 2zkrl 148 3.22e+01 2d8aA 348 3.34e+01 2jieA 454 3.47e+01 1fajA 175 3.75e+01 b.40.5.1 25429 1h8lA 380 3.95e+01 b.3.2.1,c.56.5.1 65737,65738 1xb7A 247 3.97e+01 a.123.1.1 109537 1mjwA 175 4.03e+01 2prd b.40.5.1 25419 1mjzA 175 4.06e+01 b.40.5.1 25433 2a7nA 380 4.20e+01 1p4cA 380 4.27e+01 c.1.4.1 94100 2bpqA 373 4.31e+01 1ryp1 222 4.50e+01 1ryp1 3cnwA 148 4.53e+01 1mjxA 175 4.54e+01 2prd b.40.5.1 25430 2o9rA 452 4.74e+01 1o9rA 162 4.75e+01 a.25.1.1 86706 2qk1A 249 4.78e+01 1g0uL 241 5.01e+01 d.153.1.4 41894 2o9pA 454 5.01e+01 2hqnA 109 5.04e+01 2po1B 277 5.04e+01 2cclA 158 5.06e+01 b.2.2.2 130248 2ew2A 316 5.12e+01 1a2xA 159 5.21e+01 1ncx a.39.1.5 17251 1i40A 175 5.25e+01 b.40.5.1 66024 2ggzA 211 5.41e+01 1uirA 314 5.42e+01 c.66.1.17 99429 2i6eA 301 5.43e+01 1cb1A 78 5.47e+01 a.39.1.1 17156 2jm1A 141 5.58e+01 2eo4A 149 5.63e+01 1w8iA 156 5.87e+01 c.120.1.1 114368 2p0iA 456 5.92e+01 2qqyA 149 5.93e+01 2qggA 182 6.02e+01 2gksA 546 6.07e+01 1xbfA 140 6.10e+01 d.273.1.1 109538 1gmvA 143 6.11e+01 b.107.1.1,d.58.38.1 65343,65344 2q3mA 326 6.14e+01 c.37.1.5 139795 1tcfA 159 6.16e+01 a.39.1.5 17250 2oqyA 391 6.17e+01 2au7A 175 6.18e+01 2ablA 163 6.25e+01 b.34.2.1,d.93.1.1 24481,40525 1mjyA 175 6.28e+01 2prd b.40.5.1 25421 1kl9A 182 6.43e+01 a.60.14.1,b.40.4.5 111574,111575 2byoA 207 6.45e+01 b.125.1.3 129497 2pv0A 386 6.50e+01 2g3aA 152 6.59e+01 d.108.1.1 134557 2dplA 308 6.63e+01 1yz1A 174 6.63e+01 b.88.1.2 124264 1gv3A 248 6.67e+01 a.2.11.1,d.44.1.1 70585,70586 2h7fX 314 6.75e+01 2fphX 165 6.77e+01 2ewfA 610 6.95e+01 1zpyA 95 7.03e+01 a.25.1.5 125479 1kqfB 294 7.21e+01 d.58.1.5,f.23.22.1 75900,75901 1ezvD 245 7.30e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 1kb9D 246 7.35e+01 a.3.1.3,f.23.11.1 77317,77318 1mjvA 96 7.45e+01 g.17.1.1 79214 2ibzD 248 7.50e+01 a.3.1.3,f.23.11.1 137221,137222 1gdeA 389 7.59e+01 c.67.1.1 60456 1djuA 388 7.59e+01 1bjwA c.67.1.1 59116 1w5cT 163 7.77e+01 i.5.1.1 114227 2jg5A 306 7.79e+01 1k1xA 659 7.91e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281