# List of top-scoring protein chains for t2k-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.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 1ezwA 349 1.55e+00 1ezwA c.1.16.3 29558 2tmgA 415 1.60e+00 1hwyA c.2.1.7 30238 c.58.1.1 33886 1ukz 203 2.74e+00 1zin c.37.1.1 31840 1keyA 235 3.03e+00 1dusA 194 3.76e+00 1dusA c.66.1.4 34182 1g291 372 4.02e+00 1g291 1c2oA 539 4.17e+00 2bce c.69.1.1 34610 1c2bA 540 4.19e+00 2bce c.69.1.1 34614 1mahA 543 4.25e+00 2bce c.69.1.1 34619 1maaD 547 4.31e+00 2bce c.69.1.1 34618 1hjrA 158 4.31e+00 1hjrA c.55.3.6 33727 1kcfA 258 4.65e+00 a.140.2.1 68434 c.55.3.7 68435 1b3bA 415 4.67e+00 1hwyA c.2.1.7 30244 c.58.1.1 33892 1b26A 416 4.69e+00 1hwyA c.2.1.7 30232 c.58.1.1 33880 1c7qA 445 5.41e+00 2pgi c.80.1.2 35307 2pgi 445 5.41e+00 2pgi c.80.1.2 35308 1f07A 321 6.63e+00 1ezwA c.1.16.3 59560 1kao 167 7.47e+00 1ctqA c.37.1.8 32014 1qvaA 223 7.52e+00 1qvaA c.37.1.13 32411 1mldA 314 7.84e+00 2cmd c.2.1.5 30122 d.162.1.1 42089 1qdeA 224 7.95e+00 1qvaA c.37.1.13 32410 1dnlA 199 7.95e+00 1ci0A b.45.1.1 25753 1jnwA 218 8.81e+00 1ci0A b.45.1.1 63200 1ae1B 273 8.90e+00 1bdb c.2.1.2 29944 1dkrA 317 9.29e+00 1dkuA c.61.1.2 34114 c.61.1.2 34115 1dkuA 317 9.29e+00 1dkuA c.61.1.2 34118 c.61.1.2 34119 1hv8A 367 1.00e+01 1hv8A c.37.1.13 32405 c.37.1.13 32406 1fuuB 394 1.02e+01 1qvaA c.37.1.13 32413 c.37.1.13 32414 1ds9A 198 1.06e+01 1ds9A c.11.1.1 30879 1jbkA 195 1.06e+01 1km3A 247 1.10e+01 2ahjC 206 1.17e+01 2ahjA d.149.1.1 41773 2ahjA 206 1.17e+01 2ahjA d.149.1.1 41772 1g79A 218 1.18e+01 1ci0A b.45.1.1 25752 1f5vA 240 1.18e+01 1bkjA d.90.1.1 40255 1dctA 324 1.21e+01 6mhtA c.66.1.10 34244 3tmkA 216 1.24e+01 3tmkA c.37.1.1 31920 2tmkA 216 1.24e+01 3tmkA c.37.1.1 31928 1k35A 463 1.25e+01 c.84.1.1 68094 c.84.1.1 68095 c.84.1.1 68096 c.84.1.1 68097 1mslA 109 1.28e+01 1mslA f.2.1.11 43660 1gq6A 313 1.34e+01 1vhh 162 1.36e+01 1vhh d.65.1.2 39550 1dbp 271 1.48e+01 2dri c.93.1.1 35639 1gr0A 367 1.49e+01 1c6vA 164 1.67e+01 1b9dA c.55.3.2 33672 1ba2A 271 1.73e+01 2dri c.93.1.1 35640 1b41A 539 1.75e+01 2bce c.69.1.1 34621 1tpc1 247 1.78e+01 1amk 1fkmA 396 1.82e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1tpwA 247 1.86e+01 1amk c.1.1.1 28449 1f8uA 583 1.93e+01 2bce c.69.1.1 34620 1qf9A 194 1.99e+01 1zin c.37.1.1 31848 5ukdA 194 1.99e+01 1zin c.37.1.1 31851 1e51A 330 2.02e+01 1b4kA c.1.10.3 59254 1k2yX 463 2.05e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 c.84.1.1 68066 1fezA 256 2.08e+01 1fezA c.108.1.3 43343 1tpvA 247 2.16e+01 1amk c.1.1.1 28443 1jj7A 260 2.22e+01 c.37.1.12 63114 1j79A 347 2.22e+01 1j79A c.1.9.4 62675 1irb 123 2.35e+01 1poa a.133.1.2 19586 1g4iA 123 2.39e+01 1poa a.133.1.2 60241 1une 123 2.39e+01 1poa a.133.1.2 19583 3bp2 123 2.40e+01 1poa a.133.1.2 19599 1gwgA 174 2.49e+01 1rcf 169 2.52e+01 1rcf c.23.5.1 31170 4bp2 130 2.52e+01 1poa a.133.1.2 19584 2bp2 130 2.53e+01 1poa a.133.1.2 19600 1kvx 123 2.58e+01 1poa a.133.1.2 19597 1ceh 123 2.58e+01 1poa a.133.1.2 19591 1f0kA 364 2.62e+01 1f0kA c.87.1.2 35465 1efvB 255 2.67e+01 1efvB c.29.1.1 31634 1ezvB 352 2.72e+01 1ezvB d.185.1.1 59543 d.185.1.1 59544 2dri 271 2.75e+01 2dri c.93.1.1 35637 1kvy 123 2.76e+01 1poa a.133.1.2 19595 7mdhB 375 2.78e+01 1bmdA c.2.1.5 30131 d.162.1.1 42098 1fmcA 255 2.78e+01 1cydA c.2.1.2 29856 1jnlL 211 2.80e+01 b.1.1.1 66958 b.1.1.2 66959 1drj 271 2.80e+01 2dri c.93.1.1 35642 1mku 123 2.81e+01 1poa a.133.1.2 19590 1drk 271 2.87e+01 2dri c.93.1.1 35638 1dofA 403 2.93e+01 1c3cA a.127.1.1 19429 1ih8A 271 3.16e+01 2nsyA c.26.2.1 62377 2nsyA 271 3.16e+01 2nsyA c.26.2.1 31612 1nsyA 271 3.16e+01 2nsyA c.26.2.1 31614 1kqpA 271 3.16e+01 1dx9A 169 3.18e+01 1rcf c.23.5.1 31171 1gtmA 419 3.27e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1el6A 219 3.28e+01 1el6B d.182.1.1 42606 1el6B 219 3.28e+01 1el6B d.182.1.1 42607 1kvw 123 3.31e+01 1poa a.133.1.2 19598 1km0A 247 3.36e+01 1jpdX 324 3.36e+01 c.1.11.2 67014 d.54.1.1 67015 1f2tB 148 3.37e+01 1f2tB 1f05A 337 3.43e+01 1onrA c.1.10.1 29173 1jj2I 145 3.46e+01 1ffkG c.21.1.1 63094 1ffkG 145 3.46e+01 1ffkG c.21.1.1 31035 1bogA 214 3.47e+01 8fabA b.1.1.1 20334 b.1.1.2 21326 1dxy 333 3.47e+01 1dxy c.2.1.4 30094 c.23.12.1 31354 1hi6A 214 3.48e+01 32c2A b.1.1.1 20336 b.1.1.2 21328 1fclA 56 3.62e+01 d.15.7.1 59768 1g1yA 585 3.63e+01 1bvzA b.1.1.5 60210 b.71.1.1 60211 c.1.8.1 60212 1klyA 247 3.71e+01 1dv7A 227 3.71e+01 1dvjA c.1.2.3 28550 1jf5A 585 3.72e+01 1km2A 247 3.73e+01 1k4yA 534 3.75e+01 1km5A 247 3.76e+01 1dvjA 246 3.78e+01 1dvjA c.1.2.3 28546 1dvjC 246 3.78e+01 1dvjA c.1.2.3 28548 1ftg 168 3.78e+01 1rcf c.23.5.1 31176 1dj3A 442 3.85e+01 1adeA c.37.1.10 32239 1jl8A 585 3.94e+01 b.1.1.5 63163 b.71.1.1 63164 c.1.8.1 63165 1jztA 246 3.95e+01 c.104.1.1 63319 1jf6A 585 3.98e+01