# 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 1nb8A 353 2.82e-51 d.3.1.9 80385 1d3zA 76 1.43e-02 1ubi d.15.1.1 37592 1ogwA 76 1.75e-02 d.15.1.1 87001 1ubi 76 2.20e-02 1ubi d.15.1.1 37584 1ubq 76 2.23e-02 1ubi d.15.1.1 37585 1cd9C 175 3.67e-01 1bgc a.26.1.1 16816 1lm8B 118 5.06e-01 d.15.1.1 74033 1hkfA 122 6.77e-01 b.1.1.1 83553 1vcbA 118 1.35e+00 1vcbA d.15.1.1 37603 1dipA 78 2.19e+00 1dipA h.1.12.1 45632 1dipB 78 3.04e+00 1dipB h.1.12.1 45633 1rf6A 427 3.10e+00 d.68.2.2 -10314 1foeA 377 3.21e+00 1foeA a.87.1.1 18517 b.55.1.1 26969 1eteA 134 4.47e+00 1eteA a.26.1.2 16869 1nddD 76 4.80e+00 1ubi d.15.1.1 37602 1l1oC 181 5.51e+00 b.40.4.3 73480 1kay 381 5.75e+00 1ba1 c.55.1.1 33385 c.55.1.1 33386 1gnc 178 6.04e+00 1bgc a.26.1.1 16821 1k2fA 190 6.25e+00 b.8.1.2 68054 1o13A 136 6.95e+00 c.55.5.1 80762 1bt0A 76 7.26e+00 1ubi d.15.1.1 37607 1ba1 386 7.35e+00 1ba1 c.55.1.1 33387 c.55.1.1 33388 1bupA 386 7.59e+00 1ba1 c.55.1.1 33377 c.55.1.1 33378 1i1iP 681 7.77e+00 1i1iP d.92.1.5 40297 1gm5A 780 7.94e+00 unknown_sccs 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 1binA 143 7.95e+00 2gdm a.1.1.2 15231 1jd5A 124 8.46e+00 g.52.1.1 66544 1cuk 203 8.57e+00 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1avc 673 9.24e+00 1avc a.65.1.1 18178 a.65.1.1 18179 1l1sA 113 9.45e+00 c.114.1.1 73484 1ni3A 392 9.78e+00 c.37.1.8 80531 d.15.10.2 80532 1rdg 53 1.00e+01 1rb9 g.41.5.1 45221 1qz8A 113 1.01e+01 unknown_sccs -4264 1q1aA 289 1.10e+01 c.31.1.5 -6781 1fqiA 147 1.11e+01 1agrE a.91.1.1 18542 1qxfA 66 1.12e+01 g.41.8.4 -12822 1nvhA 66 1.19e+01 1nddA 76 1.19e+01 1ubi d.15.1.1 37599 1omiA 248 1.36e+01 a.4.5.4 87079 b.82.3.3 87080 1iirA 415 1.42e+01 1iirA c.87.1.5 62453 1ksfX 758 1.47e+01 a.174.1.1 77522 c.37.1.20 77523 c.37.1.20 77524 1fu9A 36 1.47e+01 1fu9A g.37.1.2 45074 1fslA 143 1.49e+01 2gdm a.1.1.2 15229 1sfcB 83 1.56e+01 1sfcB h.1.15.1 45644 1p9qC 256 1.56e+01 1neeA 138 1.57e+01 unknown_sccs -9002 g.59.1.1 -12824 1ih7A 903 1.65e+01 1clqA c.55.3.5 62375 e.8.1.1 62376 1clqA 903 1.69e+01 1clqA c.55.3.5 33717 e.8.1.1 43006 8adh 374 1.72e+01 2ohxA b.35.1.2 24690 c.2.1.1 29706 9rnt 104 1.78e+01 9rnt d.1.1.4 36055 1ckmA 330 1.82e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1ngvA 534 1.87e+01 c.111.1.2 85698 1extA 162 1.89e+01 1extA g.24.1.1 44900 g.24.1.1 44901 g.24.1.1 44902 1rms 105 1.90e+01 9rnt d.1.1.4 36235 1rds 105 1.91e+01 9rnt d.1.1.4 36236 1hjp 203 1.93e+01 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1jx7A 117 2.01e+01 c.114.1.1 77195 1pwbA 177 2.02e+01 d.169.1.1 -11641 h.1.1.1 -12890 1k28A 584 2.04e+01 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 1sesA 421 2.06e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1q67A 231 2.07e+01 unknown_sccs -4373 1jqgA 433 2.08e+01 c.56.5.1 71791 d.58.3.1 71792 1nbaA 264 2.09e+01 1nbaA unknown_sccs 31753 1cmiA 85 2.10e+01 1cmiA d.39.1.1 38551 1l3kA 196 2.16e+01 d.58.7.1 73539 d.58.7.1 73540 1k94A 165 2.21e+01 a.39.1.8 68333 1jr3D 343 2.24e+01 a.80.1.1 63251 c.37.1.20 63252 1nwmX 142 2.29e+01 a.7.8.1 86301 1cknA 330 2.31e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1exzA 141 2.32e+01 1exzA a.26.1.2 16877 1dgkN 917 2.34e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1i0vA 104 2.35e+01 9rnt d.1.1.4 36054 1n8kA 374 2.36e+01 b.35.1.2 80298 c.2.1.1 80299 2cavA 445 2.39e+01 1dgwA b.82.1.2 28094 b.82.1.2 28095 1hrkA 359 2.44e+01 1hrkA c.92.1.1 61228 1cqzA 554 2.48e+01 1cr6B c.108.1.2 43339 c.69.1.11 34689 1midA 91 2.54e+01 a.52.1.1 -983 1b6cB 342 2.55e+01 1b6cB d.144.1.7 41673 1pqnA 127 2.57e+01 c.47.1.8 -7479 1hetA 374 2.61e+01 2ohxA b.35.1.2 60975 c.2.1.1 60976 1b2rA 304 2.64e+01 1fnc b.43.4.2 25648 c.25.1.1 31538 1dx8A 70 2.67e+01 1rb9 g.41.5.1 45243 1jqlB 140 2.72e+01 c.37.1.20 63234 1ds6B 180 2.72e+01 1rhoA b.1.18.8 21898 1k6kA 143 2.77e+01 a.174.1.1 77274 1bq9A 54 2.80e+01 1rb9 g.41.5.1 45238 1qmyA 167 2.87e+01 1qmyA d.3.1.2 37094 1g4yR 148 2.90e+01 1cll a.39.1.5 60252 1t95A 240 2.91e+01 1sjwA 144 2.98e+01 unknown_sccs -9296 1heuA 374 2.98e+01 2ohxA b.35.1.2 60979 c.2.1.1 60980 1fiuA 286 2.99e+01 1fiuA c.52.1.10 33317 1guaB 81 3.03e+01 1c1yB d.15.1.5 37619 1wwbX 103 3.04e+01 1wwcA b.1.1.4 21777 1jthB 77 3.07e+01 h.1.15.1 67271 1ep3A 311 3.07e+01 2dorA c.1.4.1 28597 1jqjC 343 3.08e+01 a.80.1.1 67097 c.37.1.20 67098 1rpnA 335 3.09e+01 c.2.1.2 -5759 1ha1 184 3.11e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1czaN 917 3.13e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1go2A 304 3.14e+01 b.43.4.2 76243 c.25.1.1 76244 1sur 215 3.17e+01 1sur c.26.2.2 31620 1r9dA 787 3.18e+01 3rnt 104 3.19e+01 9rnt d.1.1.4 36069 1kv5A 250 3.19e+01 c.1.1.1 73052 1rcwA 231 3.20e+01 unknown_sccs -1921 1bq8A 54 3.28e+01 1rb9 g.41.5.1 45237 1f0nA 285 3.31e+01 1dqyA c.69.1.3 34636 1jp3A 253 3.33e+01 1f75A c.101.1.1 63221 2ohxA 374 3.34e+01 2ohxA b.35.1.2 24669 c.2.1.1 29685 1dabA 539 3.37e+01 1dabA b.80.1.7 28049 1r13A 148 3.38e+01 d.169.1.1 -11646 h.1.1.1 -12895 1uehA 253 3.48e+01 c.101.1.1 -6879 1octC 156 3.54e+01 1au7A a.4.1.1 15991 a.35.1.1 17017 1h8eG 272 3.57e+01 1e79G c.49.2.1 60756 1r0pA 312 3.59e+01 d.144.1.7 -11377 1brfA 53 3.66e+01 1rb9 g.41.5.1 45236 1ebmA 317 3.69e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1ogiA 303 3.72e+01 b.43.4.2 -4042 c.25.1.1 -6587 1itbB 315 3.77e+01 1itbB b.1.1.4 21720 b.1.1.4 21721 b.1.1.4 21722 1h9oA 112 3.90e+01 1qadA d.93.1.1 60837 1b7yB 785 3.93e+01 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 6rxn 46 3.99e+01 1rb9 g.41.5.1 45222