# 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 1egr 85 3.07e-02 1kte c.47.1.1 32765 1fo5A 85 8.41e-02 1fo5A c.47.1.1 59922 1ego 85 9.74e-02 1kte c.47.1.1 32767 1qfnA 85 5.24e-01 1qfnA c.47.1.1 32768 1a8y 367 6.34e-01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1grx 85 6.56e-01 1kte c.47.1.1 32766 1h75A 81 1.08e+00 1h75A c.47.1.1 60716 1qsaA 618 1.10e+00 1qsaA a.118.5.1 19182 d.2.1.6 36988 1q4mA 221 1.26e+00 unknown_sccs -1910 1sly 618 1.38e+00 1qsaA a.118.5.1 19184 d.2.1.6 36990 1s4nA 348 1.40e+00 unknown_sccs -8262 1r5pA 108 2.64e+00 unknown_sccs -7487 1dq3A 454 3.27e+00 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1mvoA 136 3.29e+00 c.23.1.1 79513 1kte 105 3.34e+00 1kte c.47.1.1 32771 1ry9A 145 3.50e+00 d.198.1.1 -9020 1im4A 221 3.76e+00 unknown_sccs 62581 1o0pA 104 4.36e+00 d.58.7.1 86535 1hyuA 521 4.40e+00 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1iyxA 432 4.48e+00 c.1.11.1 83815 d.54.1.1 83816 1orrA 347 6.72e+00 c.2.1.2 -5776 1aba 87 6.92e+00 1aba c.47.1.1 32760 1vjqA 79 7.50e+00 unknown_sccs -13478 1j0fA 100 7.58e+00 unknown_sccs -7483 1nmoA 247 8.32e+00 unknown_sccs -8746 1cot 129 8.40e+00 1ycc a.3.1.1 15899 2dabA 282 1.05e+01 1daaA e.17.1.1 43274 1g5yA 238 1.10e+01 1lbd a.123.1.1 60294 1m2dA 110 1.21e+01 c.47.1.11 78476 1eu8A 409 1.22e+01 1eu8A c.94.1.1 59502 1gcb 454 1.22e+01 3gcb d.3.1.1 37034 1ut9A 609 1.24e+01 a.102.1.2 -1326 b.1.18.2 -2710 1of8A 370 1.26e+01 c.1.10.4 -5508 1cfyA 143 1.26e+01 1cof d.109.1.2 40858 2tpsA 227 1.36e+01 2tpsA c.1.3.1 28591 1lm6A 215 1.38e+01 d.167.1.1 84628 1daaA 282 1.38e+01 1daaA e.17.1.1 43270 1hfbA 370 1.39e+01 c.1.10.4 76706 1axdA 209 1.42e+01 1gnwA a.45.1.1 17730 c.47.1.5 33024 1t1vA 93 1.45e+01 1o1yA 239 1.66e+01 c.23.16.1 86554 1lbd 282 1.66e+01 1lbd a.123.1.1 19279 1mvcA 240 1.71e+01 a.123.1.1 79499 1mznA 240 1.75e+01 a.123.1.1 79704 1ecxA 384 1.77e+01 1ecxA c.67.1.3 34431 1a6r 471 1.81e+01 3gcb d.3.1.1 37033 1xgsA 295 1.96e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1tbaB 180 1.98e+01 1ytbA d.129.1.1 41286 d.129.1.1 41287 1cof 143 2.00e+01 1cof d.109.1.2 40860 3gcb 470 2.01e+01 3gcb d.3.1.1 37032 1io2A 213 2.02e+01 1ekeA c.55.3.1 62612 3daaA 277 2.07e+01 1daaA e.17.1.1 43272 1n8vA 112 2.14e+01 unknown_sccs 85457 1mgtA 174 2.20e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1npdA 288 2.25e+01 c.2.1.7 80681 c.58.1.5 80682 1mw7A 240 2.31e+01 e.39.1.1 79557 1kx9A 112 2.34e+01 unknown_sccs 77602 1nycA 111 2.38e+01 unknown_sccs -4522 1ytbA 180 2.44e+01 1ytbA d.129.1.1 41276 d.129.1.1 41277 1kum 108 2.52e+01 1kum b.3.1.1 22525 1ksiA 642 2.54e+01 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1ytbB 180 2.55e+01 1ytbA d.129.1.1 41278 d.129.1.1 41279 1jx4A 352 2.62e+01 unknown_sccs -10188 unknown_sccs -11898 1dd5A 185 2.65e+01 1dd5A d.67.3.1 39564 1ghsA 306 2.68e+01 1aq0A c.1.8.3 28840 1eejA 216 2.68e+01 1eejA c.47.1.9 33057 d.17.3.1 38071 1dr8B 344 2.79e+01 1cnzA c.77.1.1 35052 1idm 343 2.82e+01 1cnzA c.77.1.1 35035 1vsd 152 2.88e+01 1cxqA c.55.3.2 33625 1nmeA 146 2.92e+01 c.17.1.1 85874 1m6pA 152 3.11e+01 1m6pA b.64.1.1 27519 1fgyA 127 3.15e+01 1faoA b.55.1.1 26976 1j79A 347 3.18e+01 1j79A c.1.9.4 62675 1jtdB 273 3.24e+01 b.69.5.2 67265 1ksiB 642 3.25e+01 1ksiB b.30.2.1 24409 d.17.2.1 38045 d.17.2.1 38046 1v95A 130 3.25e+01 1c53 79 3.31e+01 1c53 a.3.1.1 15801 1jf0A 195 3.37e+01 1ej3A a.39.1.5 62926 1asu 162 3.38e+01 1cxqA c.55.3.2 33626 1ipd 345 3.40e+01 1cnzA c.77.1.1 35038 1acz 108 3.47e+01 1kum b.3.1.1 22524 1mo0A 275 3.47e+01 c.1.1.1 79329 1tiyA 164 3.53e+01 1kgdA 180 3.55e+01 c.37.1.1 68582 1cxqA 162 3.70e+01 1cxqA c.55.3.2 33621 1j3vA 289 3.79e+01 a.100.1.1 -1303 c.2.1.6 -5947 1kekA 1231 3.88e+01 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1f7tA 122 3.94e+01 1f7lA d.150.1.2 59667