# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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 1xnpA 202 1.07e+00 2bc4A 211 1.36e+00 1m6jA 261 1.74e+00 c.1.1.1 78693 1l4sA 112 1.95e+00 d.204.1.1 77693 1llmC 88 3.30e+00 g.37.1.1,g.37.1.1 91059,91060 1jpaA 312 3.87e+00 d.144.1.7 67011 1bf5A 545 4.32e+00 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 2ar0A 541 4.90e+00 2myo 118 8.87e+00 2myo d.211.1.1 19175 1gqeA 365 9.82e+00 e.38.1.1 70351 1ufyA 122 1.26e+01 d.79.1.2 88489 1gnkA 112 1.33e+01 2pii d.58.5.1 39073 1bj8 109 1.38e+01 1bquA b.1.2.1 22070 1a1hA 90 1.54e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45004,45005,45006 1ewqA 765 1.56e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 2ctoA 93 1.57e+01 1aayA 90 1.66e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45001,45002,45003 1zaaC 87 1.70e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45013,45014,45015 1voqa 90 1.73e+01 1htxA 32 1.78e+01 1qfdA g.3.2.1 61261 1a1iA 90 1.82e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 44998,44999,45000 1clvI 32 1.84e+01 1qfdA g.3.2.1 44075 1nrgA 261 1.84e+01 b.45.1.1 80694 1w36C 1122 1.86e+01 1qfdA 32 1.94e+01 1qfdA g.3.2.1 44076 1ngkA 128 1.99e+01 a.1.1.1 85673 1yyvA 131 2.00e+01 1vjkA 98 2.00e+01 d.15.3.1 108631 1myo 118 2.03e+01 2myo d.211.1.1 19174 2fmcA 82 2.08e+01 1q59A 172 2.17e+01 f.1.4.1 95881 1trrA 107 2.31e+01 1jhgA a.4.12.1 19017 2mev2 256 2.34e+01 1aym2 1akaA 401 2.52e+01 1ajsA c.67.1.1 34258 1d4bA 122 2.55e+01 1d4bA d.15.2.1 37638 2cs3A 93 2.59e+01 7aatA 401 2.65e+01 1ajsA c.67.1.1 34250 1guxA 218 2.66e+01 1guxA a.74.1.3 18388 1ewsA 32 2.79e+01 1ewsA g.9.1.1 59534 1ajsA 412 2.95e+01 1ajsA c.67.1.1 34276 1a1gA 90 2.96e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45010,45011,45012 1bquA 215 2.96e+01 1bquA b.1.2.1,b.1.2.1 22066,22067 1pzqA 60 3.06e+01 a.34.3.1 95466 1kfd 605 3.09e+01 1xwl c.55.3.5,e.8.1.1 33694,42987 1pvyA 227 3.17e+01 d.115.1.2 95195 2fi1A 190 3.49e+01 1a6bB 40 3.53e+01 1a6bB g.40.1.1 45172 2ag4A 164 3.64e+01 1tbmA 326 3.70e+01 a.211.1.2 106744 1qceA 123 3.78e+01 1qbzC h.3.2.1 45750 2bnxA 386 3.83e+01 1apyA 162 3.88e+01 1apyA d.153.1.5 42004 2gw8A 114 3.88e+01 1vdiA 52 3.91e+01 1m2kA 249 4.07e+01 c.31.1.5 84754 1jmtB 28 4.24e+01 1hynP 379 4.31e+01 1hynP d.112.1.2 61408 1qrjB 199 4.39e+01 1qrjB a.28.3.1 16952 1dzlA 505 4.43e+01 1dzlA b.121.6.1 23586 2wrpR 107 4.43e+01 1jhgA a.4.12.1 19010 1snnA 227 4.49e+01 d.115.1.2 105821 1otgA 125 4.52e+01 1otgA d.80.1.2 39831 1d6gA 47 4.59e+01 1d6gA g.33.1.1 44976 2bl0C 142 4.60e+01 1vbiA 344 4.61e+01 2a6cA 83 4.62e+01 2fc7A 82 4.87e+01 1tuoA 464 4.95e+01 1r092 262 5.03e+01 1aym2 1y2oA 250 5.11e+01 2cvdA 198 5.14e+01 2fqmA 75 5.15e+01 2tscA 264 5.26e+01 1bkpA d.117.1.1 40952 1jb0I 38 5.38e+01 1jb0I f.23.17.1 62826 1h2vC 771 5.41e+01 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 1x6vA 630 5.58e+01 1jeqA 609 5.62e+01 1jeqA a.140.2.1,b.131.1.1,c.62.1.3 64748,90366,90367 1e69B 322 5.76e+01 1e69B c.37.1.12 32377 1odeA 122 5.78e+01 d.79.1.2 86846 1n3gA 113 5.84e+01 d.204.1.1 79962 1thg 544 5.86e+01 1thg c.69.1.17 34763 1pvc2 271 5.93e+01 1aym2 1tuaA 191 5.96e+01 d.51.1.1,d.51.1.1 107321,107322 1u6pA 56 6.01e+01 2ag9A 164 6.05e+01 1f3yA 165 6.05e+01 d.113.1.1 59635 2furA 209 6.09e+01 1w53A 84 6.18e+01 a.186.1.2 109175 1z2cB 383 6.21e+01 1vbd4 69 6.22e+01 1pvc4 1iieA 75 6.30e+01 1iieA a.109.1.1 19039 1qbzC 123 6.34e+01 1qbzC h.3.2.1 45731 1xeaA 323 6.39e+01 c.2.1.3,d.81.1.5 109572,109573 1yozA 116 6.42e+01 1qqqA 264 6.42e+01 1bkpA d.117.1.1 40931 1evfA 264 6.43e+01 1bkpA d.117.1.1 40932 2bkaA 242 6.51e+01 1ffkI 194 6.66e+01 1ffkI d.12.1.2 37494 1ayg 80 6.73e+01 451c a.3.1.1 15831 1ftt 68 6.84e+01 2hddA a.4.1.1 15997 1fpqA 372 6.94e+01 1fpqA a.4.5.29,c.66.1.12 59947,59948 1aiqA 264 6.94e+01 1bkpA d.117.1.1 40967 1axwA 265 6.95e+01 1bkpA d.117.1.1 40938 1zpyA 95 7.05e+01 2g8oA 264 7.08e+01 1ijyA 130 7.16e+01 1ijxA a.141.1.1 62517 1aueA 100 7.17e+01 1nsgB a.24.7.1 16615 1g13A 162 7.23e+01 1g13A b.95.1.1 60194 1itbB 315 7.33e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21720,21721,21722 1ekeA 230 7.47e+01 1ekeA c.55.3.1 33572 1m13A 316 7.47e+01 a.123.1.1 84746 2g8mA 264 7.54e+01 1nsgB 94 7.69e+01 1nsgB a.24.7.1 16613 1tys 265 7.72e+01 1bkpA d.117.1.1 40937 1g2fC 90 7.84e+01 k.12.1.1 60222 1cq3A 233 8.17e+01 1cq3A b.27.1.1 23923 1eia 207 8.45e+01 1eia a.28.3.1,a.73.1.1 16951,18331 1x6iA 91 8.77e+01 1bh9B 89 8.85e+01 1bh9B a.22.1.3 16485 1cr6B 554 8.99e+01 1cr6B c.69.1.11,c.108.1.2 34688,43338