# List of top-scoring protein chains for t2k-w0.5 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 2gbp 309 3.64e-01 1gca c.93.1.1 35657 3gbp 305 4.24e-01 1gca c.93.1.1 35661 1gca 309 4.28e-01 1gca c.93.1.1 35659 1d2kA 392 1.29e+00 1d2kA c.1.8.5 29008 d.26.3.1 38442 1b3jA 274 1.68e+00 1agdA b.1.1.2 20855 d.19.1.1 38319 1hyrC 275 1.69e+00 1agdA b.1.1.2 61415 d.19.1.1 61416 1zagB 274 2.34e+00 1agdA b.1.1.2 20852 d.19.1.1 38316 1dzgI 432 2.34e+00 1ovaA e.1.1.1 42656 1athB 432 2.54e+00 1ovaA e.1.1.1 42647 2antI 432 2.55e+00 1ovaA e.1.1.1 42650 1dzhI 432 2.59e+00 1ovaA e.1.1.1 42652 1iruA 246 3.79e+00 1danT 80 3.85e+00 1boy b.1.2.1 21953 2hft 218 3.97e+00 1boy b.1.2.1 21951 b.1.2.1 21952 1fakT 206 3.98e+00 1boy b.1.2.1 21957 b.1.2.1 21958 1boy 219 4.10e+00 1boy b.1.2.1 21955 b.1.2.1 21956 1c9wA 315 4.77e+00 1frb c.1.7.1 28699 1ezvB 352 5.53e+00 1ezvB d.185.1.1 59543 d.185.1.1 59544 2bltA 361 5.76e+00 1gceA e.3.1.1 42739 1de4A 275 6.40e+00 1agdA b.1.1.2 20775 d.19.1.1 38277 1colA 204 6.51e+00 1a87 f.1.1.1 43378 1ciu 683 6.62e+00 1cxlA b.1.1.5 21852 b.3.1.1 22521 b.71.1.1 27759 c.1.8.1 28746 1jd0A 263 7.50e+00 2cba b.74.1.1 62888 1mldA 314 7.88e+00 2cmd c.2.1.5 30122 d.162.1.1 42089 1epwA 1290 8.41e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1fm0E 150 9.28e+00 1fmaE d.41.5.1 38629 1fmaE 150 9.28e+00 1fmaE d.41.5.1 38630 1eteA 134 9.84e+00 1eteA a.26.1.2 16869 2scuA 288 1.12e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1qdeA 224 1.14e+01 1qvaA c.37.1.13 32410 1ig8A 486 1.17e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 2act 220 1.23e+01 1cs8A d.3.1.1 37002 1attB 411 1.24e+01 1ovaA e.1.1.1 42639 1attA 421 1.24e+01 1ovaA e.1.1.1 42638 1irxB 523 1.26e+01 1cqjA 286 1.27e+01 2scuA c.2.1.8 30305 c.23.4.1 31133 1scuA 288 1.28e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1ga0A 364 1.31e+01 1gceA e.3.1.1 60410 1gceA 364 1.31e+01 1gceA e.3.1.1 42738 1kcgC 178 1.33e+01 d.19.1.1 68440 1civA 385 1.34e+01 1bmdA c.2.1.5 30134 d.162.1.1 42101 1qoiA 177 1.35e+01 2cpl b.62.1.1 27490 1qvaA 223 1.36e+01 1qvaA c.37.1.13 32411 1qi3A 429 1.41e+01 1jdc b.71.1.1 27794 c.1.8.1 28781 1jv5B 117 1.42e+01 b.1.1.1 67345 1qi5A 429 1.46e+01 1jdc b.71.1.1 27792 c.1.8.1 28779 1qpkA 418 1.50e+01 1jdc b.71.1.1 27793 c.1.8.1 28780 1qkfA 92 1.52e+01 1qkfA d.28.1.1 38456 1fjgS 93 1.55e+01 1qkfA d.28.1.1 38451 1f66E 136 1.59e+01 1aoiA a.22.1.1 16461 1a2vA 655 1.65e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1aec 218 1.66e+01 1cs8A d.3.1.1 37003 1hr8D 443 1.67e+01 d.185.1.1 61202 d.185.1.1 61203 1hr6B 443 1.67e+01 1be3A d.185.1.1 61166 d.185.1.1 61167 1gcyA 527 1.68e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1ekmA 656 1.70e+01 1a2vA b.30.2.1 24413 d.17.2.1 38053 d.17.2.1 38054 1jdc 429 1.78e+01 1jdc b.71.1.1 27789 c.1.8.1 28776 1qi4A 429 1.80e+01 1jdc b.71.1.1 27791 c.1.8.1 28778 1cjyA 749 1.83e+01 1rlw b.7.1.1 23178 c.75.1.1 34986 1id3A 135 1.87e+01 a.22.1.1 66112 1e3jA 352 1.89e+01 1e3jA b.35.1.2 24765 c.2.1.1 29781 1vhp 117 1.91e+01 1igtB b.1.1.1 20504 2amg 415 1.95e+01 1jdc b.71.1.1 27796 c.1.8.1 28783 8jdwA 386 1.96e+01 1jdw d.126.1.2 41132 2jdxA 385 1.99e+01 1jdw d.126.1.2 41139 1jdw 423 2.04e+01 1jdw d.126.1.2 41129 4jdwA 423 2.04e+01 1jdw d.126.1.2 41137 1i3gH 121 2.16e+01 b.1.1.1 66018 1sgfA 238 2.18e+01 5ptp b.47.1.2 26308 1gjwA 637 2.29e+01 b.71.1.1 60582 c.1.8.1 60583 1gjuA 637 2.29e+01 b.71.1.1 60580 c.1.8.1 60581 1hq3C 136 2.31e+01 1aoiA a.22.1.1 16454 1aoiA 116 2.32e+01 1aoiA a.22.1.1 16462 1lucB 324 2.36e+01 1lucA c.1.16.1 29548 1brlB 324 2.36e+01 1lucA c.1.16.1 29554 1ezvA 430 2.36e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 1kyoA 430 2.36e+01 1gp4A 356 2.41e+01 b.82.2.1 65439 1g8iA 190 2.43e+01 1rec a.39.1.5 60363 1ab4 477 2.51e+01 1ab4 e.11.1.1 43251 1gp6A 356 2.54e+01 b.82.2.1 65441 1avgI 142 2.55e+01 1avgI b.60.1.3 27229 1g9nG 313 2.55e+01 1gc1G d.172.1.1 42494 1wdnA 226 2.61e+01 1lst c.94.1.1 35816 1gggB 226 2.61e+01 1lst c.94.1.1 35818 1g6q2 328 2.79e+01 1g6q2 1jcmP 259 2.79e+01 1i25A 37 2.85e+01 1i25A g.3.6.2 44115 1mpaH 225 2.85e+01 1mfa b.1.1.1 20135 b.1.1.2 21165 1fiqC 763 2.86e+01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1g6oA 330 2.86e+01 1g6oA c.37.1.13 32430 1l0oA 150 2.87e+01 1dmtA 696 3.01e+01 1dmtA d.92.1.4 40296 7mdhB 375 3.07e+01 1bmdA c.2.1.5 30131 d.162.1.1 42098 1qnxA 209 3.12e+01 1qnxA d.111.1.1 40914 1bkf 107 3.17e+01 1fkj d.26.1.1 38382 1diiA 521 3.29e+01 1qltA d.58.32.1 39481 d.145.1.1 41744 1jr7A 311 3.31e+01 b.82.2.3 63255 1gc7A 297 3.36e+01 1ef1A a.11.2.1 16370 b.55.1.5 27005 d.15.1.4 37613 8tlnE 316 3.37e+01 1hyt d.92.1.2 59075 2tmnE 316 3.37e+01 1hyt d.92.1.2 59055 6tmnE 316 3.37e+01 1hyt d.92.1.2 59071 1hyt 316 3.37e+01 1hyt d.92.1.2 59005 1thl 319 3.37e+01 1hyt d.92.1.2 59044 3tmnE 316 3.37e+01 1hyt d.92.1.2 59063 1sig 339 3.49e+01 1sig a.112.1.1 19068 1fo4A 1332 3.53e+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 1hdeA 310 3.53e+01 1b6g c.69.1.8 34675 1ede 310 3.54e+01 1b6g c.69.1.8 34662 1sctA 150 3.62e+01 3sdhA a.1.1.2 15002 1be0 310 3.63e+01 1b6g c.69.1.8 34663 1a3lH 218 3.66e+01 1mfa b.1.1.1 20241 b.1.1.2 21253 1k1eA 180 3.68e+01 c.108.1.5 67995 1bez 310 3.69e+01 1b6g c.69.1.8 34666 1dlhB 188 3.86e+01 1iakB b.1.1.2 21598 d.19.1.1 38172 1es7B 89 3.88e+01 1es7B g.7.1.3 44465 1sqc 631 3.90e+01 2sqcA a.102.4.2 18858 a.102.4.2 18859 1eu1A 780 3.91e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1fuuB 394 3.93e+01 1qvaA c.37.1.13 32413 c.37.1.13 32414 1fskC 220 3.99e+01 1igtB b.1.1.1 20467 b.1.1.2 21431 2ldx 331 4.00e+01 3ldh c.2.1.5 30159 d.162.1.1 42126