# List of top-scoring protein chains for t04-100-30-bys 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 2.32e-29 b.18.1.9 66714 1gqpA 221 8.30e-27 b.18.1.9 70372 1k3iA 656 1.07e-05 b.1.18.2 68113 b.18.1.1 68114 b.69.1.1 68115 1gof 639 1.65e-04 1gof b.1.18.2 21807 b.18.1.1 23709 b.69.1.1 27631 1fiqC 763 2.61e-01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1o22A 170 3.10e-01 d.238.1.1 86557 1fo4A 1332 4.21e-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 1v97A 1332 4.22e-01 1xnaA 183 8.18e-01 1xnaA b.18.1.8 23773 1ni4B 341 8.87e-01 c.36.1.7 85729 c.48.1.2 85730 1d7pM 159 9.72e-01 1cztA b.18.1.2 23718 1l8nA 679 1.60e+00 c.1.8.10 84564 d.92.2.2 84565 1trb 320 1.69e+00 1trb c.3.1.5 30529 c.3.1.5 30530 1r31A 428 1.69e+00 d.58.20.1 -10108 d.179.1.1 -11716 1ny4A 82 1.76e+00 b.40.4.5 -3944 1v3eA 431 2.20e+00 b.68.1.1 -4584 1lm4A 194 2.42e+00 d.167.1.1 84626 1q4rA 112 2.59e+00 d.58.4.4 -9943 1jsf 130 3.38e+00 3lzt d.2.1.2 36410 1i8aA 189 3.74e+00 1i82A b.1.9.2 61951 1n9lA 109 4.05e+00 d.110.3.6 85468 1h7wA 1025 4.18e+00 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1d8hA 311 4.49e+00 1d8iA d.63.1.1 39544 1xypA 190 4.60e+00 1axkA b.29.1.11 24327 1lmq 129 4.64e+00 3lzt d.2.1.2 36588 1gteA 1025 4.77e+00 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 1ltoA 245 4.83e+00 b.47.1.2 84707 1nwwA 149 4.96e+00 d.17.4.8 86306 1n13A 52 5.09e+00 d.155.1.2 85248 1ro2A 216 5.12e+00 unknown_sccs -11391 1hdmA 201 5.27e+00 1iakA b.1.1.2 21583 d.19.1.1 38157 1nhp 447 5.44e+00 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1pcxA 810 5.64e+00 a.71.2.1 -1098 b.2.8.1 -2910 c.62.1.2 -7984 d.109.2.1 -10823 g.41.10.1 -12792 1xyn 178 5.78e+00 1axkA b.29.1.11 24322 1uzxA 169 5.80e+00 d.20.1.2 -9409 1ema 236 5.94e+00 1ema d.22.1.1 38339 1nhs 447 5.98e+00 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1pfsA 78 6.10e+00 1pfsA b.40.4.7 25391 1bkpA 278 6.25e+00 1bkpA d.117.1.1 41029 1kpeA 126 6.40e+00 1kpf d.13.1.1 37508 1kpf 126 6.44e+00 1kpf d.13.1.1 37507 1uvqB 198 6.61e+00 b.1.1.2 -2659 d.19.1.1 -9348 1hnf 182 6.76e+00 1qa9A b.1.1.1 19741 b.1.1.3 21680 1qczA 169 7.39e+00 1qczA c.23.8.1 31276 1lz1 130 7.51e+00 3lzt d.2.1.2 36415 1gmmA 133 7.82e+00 b.18.1.10 65314 1hilB 220 8.01e+00 1igtB b.1.1.1 19787 b.1.1.2 20897 1dbfA 127 8.09e+00 2chsA d.79.1.2 39761 1cq3A 233 8.42e+00 1cq3A b.27.1.1 23923 1do6A 124 8.64e+00 1do6A b.1.13.1 22361 1o5iA 249 8.76e+00 c.2.1.2 -5833 1mjuH 227 8.86e+00 b.1.1.1 -2245 b.1.1.2 -2495 1ermA 263 8.89e+00 1btl e.3.1.1 42690 1m40A 263 9.77e+00 e.3.1.1 74437 1g13A 162 9.94e+00 1g13A b.95.1.1 60194 1l0lB 439 1.07e+01 d.185.1.1 84484 d.185.1.1 84485 1uxxX 133 1.13e+01 b.18.1.10 -3107 1btl 263 1.14e+01 1btl e.3.1.1 42691 1ow1A 195 1.17e+01 unknown_sccs -4422 1cqkA 101 1.17e+01 1cqkA b.1.1.2 21547 1pqzA 238 1.18e+01 1pu5A 164 1.23e+01 1jssA 224 1.26e+01 d.129.3.2 71844 1r1dA 247 1.30e+01 unknown_sccs -8335 1ca1 370 1.35e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1rz2A 254 1.36e+01 1vhzA 198 1.36e+01 d.113.1.1 -10897 1el5A 389 1.38e+01 1b3mA c.3.1.2 30369 d.16.1.3 37937 1o59A 355 1.41e+01 unknown_sccs -3132 unknown_sccs -3133 1gesA 450 1.42e+01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 1jug 125 1.47e+01 3lzt d.2.1.2 36587 1lvk 762 1.47e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1f5jA 199 1.54e+01 1axkA b.29.1.11 24342 1rurL 217 1.58e+01 b.1.1.1 -2094 b.1.1.2 -2389 2bpa2 175 1.63e+01 2bpa2 1h4gA 207 1.65e+01 b.29.1.11 70863 1kqzA 273 1.69e+01 c.1.8.5 68844 1kbvA 327 1.76e+01 b.6.1.3 68395 b.6.1.3 68396 1g0sA 209 1.77e+01 1g0sA d.113.1.1 60187 1nscA 390 1.78e+01 2qwc b.68.1.1 27591 1k2eA 156 1.81e+01 d.113.1.1 72010 1kcvL 214 1.81e+01 b.1.1.1 72317 b.1.1.2 72318 1smd 496 1.88e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1bvoA 175 1.91e+01 1a3qA b.2.5.3 22457 1shdA 107 1.97e+01 1fmk d.93.1.1 40440 1okhA 46 1.98e+01 g.13.1.1 -12554 1jc4A 148 2.01e+01 1jc4A d.32.1.4 62863 1bvyF 191 2.03e+01 1bvyF c.23.5.1 31207 1dqiA 124 2.12e+01 1do6A b.1.13.1 22357 3lzt 129 2.13e+01 3lzt d.2.1.2 36245 1lm8B 118 2.17e+01 d.15.1.1 74033 1qh7A 207 2.18e+01 1axkA b.29.1.11 24317 1i78A 297 2.23e+01 f.4.4.1 66046 1li4A 432 2.27e+01 c.2.1.4 84616 c.23.12.3 84617 1ggzA 148 2.33e+01 a.39.1.5 70176 1dcfA 136 2.36e+01 1dcfA c.23.1.2 31124 2pooA 355 2.40e+01 1qlgA b.68.3.1 27626 1yna 194 2.42e+01 1axkA b.29.1.11 24335 1molA 94 2.43e+01 1molA d.17.1.1 37988 1iuz 98 2.44e+01 1plc b.6.1.1 22861 1f6fB 210 2.45e+01 1axiB b.1.2.1 22033 b.1.2.1 22034 1qexA 288 2.49e+01 1qexA b.32.1.1 24425 1gqzA 274 2.52e+01 d.21.1.1 83311 d.21.1.1 83312 1cl7I 82 2.53e+01 1igtB 1fjgP 88 2.55e+01 1emwA d.27.1.1 38444 1fc1A 224 2.63e+01 1igtB b.1.1.2 21520 b.1.1.2 21521 1d5tA 433 2.71e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1kinA 366 2.78e+01 1wejH 223 2.84e+01 1igtB b.1.1.1 20361 b.1.1.2 21353 1ppn 212 2.92e+01 1cs8A d.3.1.1 37004 1jd0A 263 2.93e+01 2cba b.74.1.1 62888 1q8bA 105 2.97e+01 unknown_sccs -9958 1vgyA 393 2.99e+01 c.56.5.4 -7882 d.58.19.1 -10106 1ro0A 216 3.13e+01 unknown_sccs -11390 1khbA 625 3.14e+01 c.91.1.1 68606 c.109.1.1 68607 1fx3A 169 3.21e+01 1fx3B d.33.1.1 38524 1g6aA 271 3.22e+01 1btl e.3.1.1 42704 1uunA 184 3.22e+01 unknown_sccs -12370 1unnC 115 3.25e+01 unknown_sccs -10216 1jx4A 352 3.28e+01 unknown_sccs -10188 unknown_sccs -11898 1cb8A 678 3.30e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 1svpA 161 3.31e+01 1svpA b.47.1.3 26384 1ncwH 222 3.31e+01 b.1.1.1 85555 b.1.1.2 85556 1l6xA 207 3.32e+01 b.1.1.2 73642 b.1.1.2 73643 1ugxA 133 3.42e+01 1r9lA 309 3.48e+01 c.94.1.1 -8700 1usuB 170 3.58e+01 unknown_sccs -10492 1lrzA 426 3.59e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1nlbH 218 3.65e+01 b.1.1.1 80621 b.1.1.2 80622 1oxdA 227 3.68e+01 d.22.1.1 -9438 1pvxA 194 3.71e+01 1axkA b.29.1.11 24341 1o4tA 133 3.75e+01 b.82.1.9 86622 1gnd 447 3.83e+01 1gnd c.3.1.3 30423 d.16.1.6 37987 2nlrA 234 3.95e+01 2nlrA b.29.1.11 24344 2hvm 273 3.97e+01 1cnv c.1.8.5 28985 1vzoA 355 3.98e+01