# 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 1nb8A 353 2.68e-47 d.3.1.9 80385 1ogwA 76 4.75e-06 d.15.1.1 87001 1ubi 76 5.46e-06 1ubi d.15.1.1 37584 1bt0A 76 5.97e-05 1ubi d.15.1.1 37607 1nddA 76 2.10e-04 1ubi d.15.1.1 37599 1lm8B 118 4.75e-03 d.15.1.1 74033 1vcbA 118 5.30e-03 1vcbA d.15.1.1 37603 1hleA 345 2.93e-02 1ovaA e.1.1.1 42618 1euvB 86 1.40e-01 1a5r d.15.1.1 37598 1scfA 273 1.41e-01 1exzA a.26.1.2 16873 1k6kA 143 1.47e-01 a.174.1.1 77274 1hkfA 122 1.88e-01 b.1.1.1 83553 1t0yA 122 4.20e-01 d.15.1.1 -9151 1l1oC 181 5.41e-01 b.40.4.3 73480 1j1vA 94 6.71e-01 a.4.12.2 83981 1jmtA 104 7.26e-01 d.58.7.3 63180 1tx4A 198 1.06e+00 1tx4A a.116.1.1 19098 1qxfA 66 1.09e+00 g.41.8.4 -12822 1fvuB 125 1.12e+00 1ixxB d.169.1.1 42346 1rdg 53 1.13e+00 1rb9 g.41.5.1 45221 6rxn 46 1.20e+00 1rb9 g.41.5.1 45222 1alvA 173 1.25e+00 1alvA a.39.1.8 17370 1psrA 100 1.27e+00 1psrA a.39.1.2 17180 1j55A 95 1.51e+00 a.39.1.2 77078 1kk1A 410 1.93e+00 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1s6cA 183 1.99e+00 a.39.1.5 -858 1avsA 90 2.01e+00 1cll a.39.1.5 17226 1qmyA 167 2.06e+00 1qmyA d.3.1.2 37094 1rvgA 305 2.32e+00 c.1.10.2 -5500 1brfA 53 2.50e+00 1rb9 g.41.5.1 45236 1bq9A 54 2.54e+00 1rb9 g.41.5.1 45238 1rwzA 245 2.65e+00 d.131.1.2 -11106 d.131.1.2 -11107 1d0cA 444 2.76e+00 d.174.1.1 64769 1f83A 425 3.04e+00 1f82A d.92.1.7 40306 1sr7A 259 3.07e+00 1a0p 290 3.46e+00 1a0p a.60.9.1 18105 d.163.1.1 42165 1v2yA 105 3.56e+00 d.15.1.1 -9148 1eg3A 261 3.65e+00 1eg3A a.39.1.7 17376 a.39.1.7 17377 b.72.1.1 27805 1exrA 148 3.80e+00 1cll a.39.1.5 17299 1mijA 152 3.83e+00 a.4.1.1 79150 1a28A 256 4.01e+00 1a28A a.123.1.1 19290 1wer 334 4.59e+00 1wer a.116.1.2 19108 1lfdA 87 4.86e+00 1lfdA d.15.1.5 37622 1ovaA 386 4.90e+00 1ovaA e.1.1.1 42619 1lj5A 379 4.96e+00 e.1.1.1 73928 1a7cA 379 4.96e+00 1sek e.1.1.1 42660 1lb6A 160 5.02e+00 b.8.1.1 73798 1sctB 151 5.11e+00 3sdhA a.1.1.2 15003 1kz7A 353 5.26e+00 a.87.1.1 73333 b.55.1.1 73334 1uc2A 481 5.35e+00 unknown_sccs -11725 1ed5A 444 5.35e+00 1nseA d.174.1.1 42530 1d1vA 444 5.36e+00 1nseA d.174.1.1 59101 1qb2A 109 5.38e+00 1qb2A a.36.1.1 17125 1f2rI 100 5.48e+00 1c9fA d.15.2.1 37641 1p4xA 250 5.49e+00 a.4.5.28 87784 a.4.5.28 87785 1id0A 152 5.78e+00 d.122.1.3 66111 1i37A 260 6.12e+00 1a28A a.123.1.1 61583 1jmsA 381 6.23e+00 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 1nw3A 416 6.53e+00 c.66.1.31 86288 1a4pA 96 6.57e+00 1b4cA a.39.1.2 17176 1qpaA 345 6.57e+00 1arv a.93.1.1 18585 1ip9A 85 6.75e+00 1ip9A d.15.2.2 62638 1s8iA 121 7.05e+00 a.133.1.2 -1968 1itbB 315 7.06e+00 1itbB b.1.1.4 21720 b.1.1.4 21721 b.1.1.4 21722 1uhgA 385 7.20e+00 e.1.1.1 88491 1fjgN 61 7.66e+00 1fjfN g.39.1.7 45154 1cqxA 403 7.98e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1ppa 121 8.08e+00 1poa a.133.1.2 19550 1rzfH 235 8.18e+00 b.1.1.1 -2188 b.1.1.2 -2453 1avyA 74 8.52e+00 1avyB h.1.17.1 45656 1i50I 122 8.78e+00 g.41.3.1 61762 g.41.3.1 61763 1lla 628 8.83e+00 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.18.3 21861 1mc2A 122 9.14e+00 a.133.1.2 74622 1h4lD 147 9.55e+00 a.74.1.1 70873 1qopB 396 9.64e+00 2tysB c.79.1.1 35270 1cmiA 85 9.76e+00 1cmiA d.39.1.1 38551 1rpa 342 9.76e+00 1cviA c.60.1.2 33983 1kiyA 374 1.01e+01 a.128.1.5 72555 1top 162 1.06e+01 1ncx a.39.1.5 17223 1r89A 437 1.13e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1rb9 53 1.15e+01 1rb9 g.41.5.1 45214 1vapA 123 1.17e+01 1poa a.133.1.2 19548 1px5A 349 1.18e+01 unknown_sccs -1139 unknown_sccs -9793 1fipA 98 1.21e+01 1fipA unknown_sccs 18980 1r13A 148 1.22e+01 d.169.1.1 -11646 h.1.1.1 -12895 1dbhA 354 1.26e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1nc8 29 1.28e+01 g.40.1.1 45170 1f0xA 571 1.33e+01 1f0xA d.58.32.2 39483 d.145.1.1 41746 1jj2Y 73 1.34e+01 1ffkW g.41.8.1 63110 1ggzA 148 1.37e+01 a.39.1.5 70176 1hynP 379 1.42e+01 1hynP d.112.1.2 61408 1ig8A 486 1.46e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1k8uA 90 1.47e+01 a.39.1.2 72181 1s0uA 408 1.52e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1ka2A 499 1.54e+01 d.92.1.5 77305 1a32 88 1.62e+01 1a32 a.16.1.2 16384 1f0jA 377 1.65e+01 1f0jA a.125.1.1 19346 1k3xA 262 1.72e+01 a.156.1.2 77242 b.113.1.1 77243 g.39.1.8 77244 1g9zA 152 1.74e+01 1bp7A d.95.2.1 60408 1bea 127 1.75e+01 1bea a.52.1.2 17826 1mho 88 1.75e+01 1b4cA a.39.1.2 17171 1hdmA 201 1.77e+01 1iakA b.1.1.2 21583 d.19.1.1 38157 1g5hA 454 1.77e+01 1g5hA c.51.1.1 60270 d.104.1.1 60271 1t82A 155 1.81e+01 1ud9A 245 1.81e+01 1bkdS 439 1.82e+01 1bkdS a.117.1.1 19111 1mjhA 162 1.83e+01 1mjhA c.26.2.4 31639 1npuA 117 1.86e+01 b.1.1.1 -2339 1m7vA 363 1.87e+01 d.174.1.1 78748 1ni3A 392 1.87e+01 c.37.1.8 80531 d.15.10.2 80532 1quuA 250 1.89e+01 1quuA a.7.1.1 16320 a.7.1.1 16321 1qf8A 182 1.91e+01 1qf8A g.41.4.1 45212 1jmmA 377 1.94e+01 b.30.6.1 71749 1nijA 318 1.95e+01 c.37.1.10 85741 d.237.1.1 85742 1ngnA 155 1.98e+01 a.96.1.2 85697 1sqgA 429 1.99e+01 1f4qA 165 2.04e+01 1alvA a.39.1.8 17360 1hzxA 349 2.05e+01 1f88A f.13.1.2 61466 1gcqA 61 2.05e+01 1ckaA b.34.2.1 60434 1ltlA 279 2.08e+01 b.40.4.11 84701 1hq3D 103 2.14e+01 1aoiB a.22.1.1 16464 1wdcB 156 2.21e+01 1wdcB a.39.1.5 17302 1b06A 210 2.22e+01 1avmA a.2.11.1 15740 d.44.1.1 38737 1oglA 283 2.29e+01 unknown_sccs -1512 1ozjA 144 2.34e+01 d.164.1.1 -11537 1e4fT 419 2.42e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1sesA 421 2.42e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1hq3C 136 2.44e+01 1aoiA a.22.1.1 16454 1bf5A 545 2.47e+01 1bg1A a.47.1.1 17766 b.2.5.5 22460 d.93.1.1 40526 1gdoA 240 2.53e+01 1gdoA d.153.1.1 41804 1g2fC 90 2.55e+01 k.12.1.1 60222 1a8h 500 2.69e+01 1a8h a.27.1.1 16922 c.26.1.1 31589 1op3H 225 2.70e+01 b.1.1.1 87208 b.1.1.2 87209 1qw2A 102 2.74e+01 unknown_sccs -9601 1dp7P 76 2.84e+01 1dp7P a.4.5.20 16159 1eo9A 209 2.92e+01 3pchA b.3.6.1 22731 1exkA 79 2.94e+01 1exkA g.54.1.1 45384 1uw1A 80 2.99e+01 unknown_sccs -13438 1kx5B 102 3.00e+01 a.22.1.1 77594 1ift 263 3.02e+01 1mrj d.165.1.1 42211 1s3jA 155 3.09e+01 a.4.5.28 -227 1ldjA 760 3.11e+01 a.4.5.34 73847 a.118.17.1 73848 e.40.1.1 73849 1l9hA 349 3.15e+01 f.13.1.2 73720 1rypJ 204 3.20e+01 d.153.1.4 41878 1rds 105 3.24e+01 9rnt d.1.1.4 36236 1semA 58 3.29e+01 1ckaA b.34.2.1 24544 1zaaC 87 3.36e+01 1aayA g.37.1.1 45013 g.37.1.1 45014 g.37.1.1 45015 1dyoA 160 3.43e+01 1dyoA b.18.1.7 23771 1qxyA 252 3.43e+01 d.127.1.1 -10993 1fp2A 352 3.44e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1aayA 90 3.46e+01 1aayA g.37.1.1 45001 g.37.1.1 45002 g.37.1.1 45003 1dabA 539 3.48e+01 1dabA b.80.1.7 28049 1bh9B 89 3.49e+01 1bh9B a.22.1.3 16485 1iro 54 3.54e+01 1rb9 g.41.5.1 45223 1dazC 99 3.56e+01 1hvc b.50.1.1 26501 1r1tA 122 3.56e+01 1m1nA 491 3.58e+01 c.92.2.3 78417 1rhfA 182 3.61e+01 b.1.1.1 -2335 b.1.1.4 -2684 1mzbA 136 3.67e+01 unknown_sccs -266 1pyaB 228 3.67e+01 1pyaB 1v92A 46 3.70e+01 a.5.2.3 -357 1uch 230 3.75e+01 1uch d.3.1.6 37129 1nvvS 481 3.76e+01 a.117.1.1 86279 1k9uA 78 3.82e+01 a.39.1.10 84348 1qz4A 213 3.82e+01 unknown_sccs -1227 3sdhA 146 3.87e+01 3sdhA a.1.1.2 14984 1s721 57 3.87e+01 8fabB 224 3.88e+01 1igtB b.1.1.1 19773 b.1.1.2 20883 1jrrA 382 3.89e+01 e.1.1.1 63256 1nxhA 126 3.99e+01 unknown_sccs -1239