# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 3rabA 169 2.48e-01 1ctqA c.37.1.8 32018 1sjyA 159 1.40e+00 d.113.1.1 -10908 1k8hA 133 1.95e+00 b.111.1.1 72176 1fxlA 167 3.09e+00 1b7fA d.58.7.1 39183 d.58.7.1 39184 1f3aA 222 3.21e+00 1pgtA a.45.1.1 17701 c.47.1.5 32995 1g2yA 32 4.99e+00 unknown_sccs 17003 1dn1B 267 5.10e+00 1dn1B a.47.2.1 17771 1h9mA 145 5.73e+00 1h9jA b.40.6.2 60833 b.40.6.2 60834 1uu1A 335 5.91e+00 c.67.1.1 -8146 1s72P 149 6.03e+00 1uqrA 154 6.29e+00 c.23.13.1 -6455 1jj2O 148 6.33e+00 1ffkM a.94.1.1 63100 1oqjA 97 6.98e+00 d.217.1.1 -9412 1n3yA 198 7.01e+00 c.62.1.1 79976 3adk 195 7.10e+00 1zin c.37.1.1 31885 1ek0A 170 8.14e+00 1ctqA c.37.1.8 32076 1pyoA 167 8.84e+00 c.17.1.1 -7932 6rxn 46 9.13e+00 1rb9 g.41.5.1 45222 1kw4A 89 9.53e+00 a.60.1.2 73077 1vkmA 297 1.00e+01 1ky3A 182 1.01e+01 c.37.1.8 73193 1gmwA 143 1.18e+01 b.107.1.1 65347 d.58.38.1 65348 1pmaA 233 1.20e+01 1pmaA d.153.1.4 41918 1gmuA 143 1.20e+01 b.107.1.1 65335 d.58.38.1 65336 1k4wA 252 1.21e+01 a.123.1.1 72068 1pbtA 244 1.21e+01 unknown_sccs -6866 1lhpA 312 1.24e+01 c.72.1.5 77960 1uxy 340 1.33e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1id0A 152 1.33e+01 d.122.1.3 66111 2mbr 340 1.59e+01 2mbr d.145.1.2 41749 d.146.1.1 41762 2cbp 96 1.60e+01 2cbp b.6.1.1 22895 1i4wA 353 1.71e+01 c.66.1.24 66028 1h9jA 145 1.72e+01 1h9jA b.40.6.2 60829 b.40.6.2 60830 1cseI 71 1.73e+01 1egpA d.40.1.1 38559 1nddD 76 1.74e+01 1ubi d.15.1.1 37602 1pg6A 243 1.76e+01 unknown_sccs -4997 1nq7A 244 1.86e+01 a.123.1.1 -1682 1ggzA 148 1.88e+01 a.39.1.5 70176 1qf9A 194 2.07e+01 1zin c.37.1.1 31848 1ej2A 181 2.12e+01 1f9aA c.26.1.3 59414 1m46A 148 2.12e+01 a.39.1.5 78599 5ukdA 194 2.28e+01 1zin c.37.1.1 31851 1ema 236 2.30e+01 1ema d.22.1.1 38339 1dgmA 363 2.36e+01 1bx4A c.72.1.1 34936 1jx4A 352 2.38e+01 unknown_sccs -10188 unknown_sccs -11898 1csh 435 2.41e+01 1csh a.103.1.1 18880 1nddA 76 2.42e+01 1ubi d.15.1.1 37599 1liiA 363 2.48e+01 c.72.1.1 73921 1iloA 77 2.55e+01 c.47.1.1 66205 1ftt 68 2.57e+01 2hddA a.4.1.1 15997 1cll 148 2.78e+01 1cll a.39.1.5 17263 3cln 148 2.81e+01 1cll a.39.1.5 17286 1hqcA 324 2.81e+01 1hqcA a.4.5.11 16127 c.37.1.20 32424 1f93E 32 2.83e+01 1f93E unknown_sccs 17013 1kgdA 180 2.86e+01 c.37.1.1 68582 1o0wA 252 2.96e+01 a.149.1.1 80751 d.50.1.1 80752 1sphA 88 3.01e+01 1ptf d.94.1.1 40544 1amz 435 3.01e+01 1csh a.103.1.1 18884 1mfqC 129 3.06e+01 a.36.1.1 79046 1bjwA 382 3.09e+01 1bjwA c.67.1.1 34349 1r29A 127 3.31e+01 d.42.1.1 -9726 1nbfD 76 3.35e+01 d.15.1.1 80390 1bv8A 138 3.52e+01 1ayoA b.2.4.1 22430 1rcuA 195 3.57e+01 unknown_sccs -7279 1qyiA 384 3.57e+01 unknown_sccs -6836 1plzA 189 3.58e+01 b.82.1.7 88160 1kb5A 115 3.59e+01 1tvdA b.1.1.1 20611 1f6bA 198 3.59e+01 c.37.1.8 64986 1lkxA 697 3.68e+01 c.37.1.9 73981 1h6uA 308 3.71e+01 b.1.18.15 65688 c.10.2.1 65689 1bt0A 76 3.75e+01 1ubi d.15.1.1 37607 1ukz 203 3.77e+01 1zin c.37.1.1 31840 1f7lA 121 3.77e+01 1f7lA d.150.1.2 59666 1agrE 205 3.80e+01 1agrE a.91.1.1 18538 1qxrA 189 3.86e+01 b.82.1.7 -4834 1bmbA 123 3.92e+01 1griA d.93.1.1 40466 1f7tA 122 3.95e+01 1f7lA d.150.1.2 59667 1ufoA 238 3.95e+01 unknown_sccs -8303