# List of top-scoring protein chains for t04-100-30-alpha 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 1jhjA 171 1.53e-18 b.18.1.9 66714 1gqpA 221 3.80e-17 b.18.1.9 70372 1k3iA 656 8.34e-04 b.1.18.2 68113 b.18.1.1 68114 b.69.1.1 68115 1gof 639 2.97e-03 1gof b.1.18.2 21807 b.18.1.1 23709 b.69.1.1 27631 1fo4A 1332 4.52e-01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1fiqC 763 6.38e-01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1d7pM 159 9.39e-01 1cztA b.18.1.2 23718 1xnaA 183 1.31e+00 1xnaA b.18.1.8 23773 1ksiA 642 2.09e+00 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1o59A 355 2.19e+00 1el5A 389 2.28e+00 1b3mA c.3.1.2 30369 d.16.1.3 37937 1m4vA 204 2.71e+00 b.40.2.2 74459 d.15.6.1 74460 1nhcA 336 2.98e+00 1trb 320 3.31e+00 1trb c.3.1.5 30529 c.3.1.5 30530 1umhA 184 3.51e+00 1o22A 170 4.33e+00 d.238.1.1 86557 1k12A 158 4.72e+00 b.18.1.15 71978 1qh7A 207 5.56e+00 1axkA b.29.1.11 24317 1d8hA 311 6.77e+00 1d8iA d.63.1.1 39544 1q4rA 112 7.02e+00 1rurL 217 7.84e+00 1uxxX 133 9.04e+00 1ca1 370 9.11e+00 1ca1 a.124.1.1 19340 b.12.1.3 23648 1gmmA 133 9.25e+00 b.18.1.10 65314 1jd0A 263 9.55e+00 2cba b.74.1.1 62888 1j0sA 157 1.08e+01 1nhs 447 1.09e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1nhp 447 1.09e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1h4gA 207 1.20e+01 b.29.1.11 70863 1v3eA 431 1.27e+01 1l8nA 679 1.35e+01 c.1.8.10 84564 d.92.2.2 84565 1jsf 130 1.37e+01 3lzt d.2.1.2 36410 1ema 236 1.40e+01 1ema d.22.1.1 38339 1i78A 297 1.43e+01 f.4.4.1 66046 1cr5A 189 1.45e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1cl7I 82 1.49e+01 1igtB 1fx3A 169 1.52e+01 1fx3B d.33.1.1 38524 1r31A 428 1.54e+01 1n9lA 109 1.73e+01 d.110.3.6 85468 1i8aA 189 1.85e+01 1i82A b.1.9.2 61951 1k2eA 156 1.94e+01 d.113.1.1 72010 1n13A 52 1.95e+01 d.155.1.2 85248 1g0sA 209 1.97e+01 1g0sA d.113.1.1 60187 1larA 575 1.99e+01 1larA c.45.1.2 32693 c.45.1.2 32694 1czsA 160 2.00e+01 1cztA b.18.1.2 23714 1lz1 130 2.03e+01 3lzt d.2.1.2 36415 1lm4A 194 2.08e+01 d.167.1.1 84626 1l0lB 439 2.10e+01 d.185.1.1 84484 d.185.1.1 84485 1bvyF 191 2.12e+01 1bvyF c.23.5.1 31207 1eaqA 140 2.26e+01 b.2.5.6 76144 1oe9A 795 2.39e+01 1ojjA 402 2.42e+01 1k1xA 659 2.48e+01 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1ugiA 84 2.54e+01 1ugiA d.17.5.1 38125 1qhtA 775 2.59e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1dymA 402 2.68e+01 1celA b.29.1.10 24304 1ughI 82 2.68e+01 1ugiA d.17.5.1 38133 1ny4A 82 2.77e+01 1cztA 160 2.93e+01 1cztA b.18.1.2 23715 1dqqB 210 2.95e+01 1igtB b.1.1.1 20421 b.1.1.2 21391 1bvoA 175 3.04e+01 1a3qA b.2.5.3 22457 1fbr 93 3.15e+01 1fbr g.27.1.1 44948 g.27.1.1 44949 1jc4A 148 3.16e+01 1jc4A d.32.1.4 62863 1omiA 248 3.24e+01 a.4.5.4 87079 b.82.3.3 87080 1hp1A 516 3.30e+01 d.114.1.1 70976 d.159.1.2 70977 1vmoA 163 3.37e+01 1vmoA b.77.1.1 27974 1lmq 129 3.37e+01 3lzt d.2.1.2 36588 1hnf 182 3.39e+01 1qa9A b.1.1.1 19741 b.1.1.3 21680 1ni4B 341 3.56e+01 c.36.1.7 85729 c.48.1.2 85730 1czfA 362 3.62e+01 1czfA b.80.1.3 28031 1j58A 385 3.63e+01 b.82.1.2 71531 1kcvH 217 3.71e+01 b.1.1.1 72315 b.1.1.2 72316 1fhoA 119 3.75e+01 1fhoA b.55.1.1 26982 1eudB 396 3.79e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 2pooA 355 3.80e+01 1qlgA b.68.3.1 27626 1p5dX 463 3.81e+01 1o4rA 108 3.84e+01 1q8bA 105 3.84e+01 1rwiA 270 3.89e+01 1iz6A 138 3.94e+01 b.34.5.2 76976 b.40.4.5 76977