# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-scores 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 1efcA 393 3.99e-01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1d2eA 397 8.74e-01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1x8hA 228 1.04e+00 2c78A 405 1.41e+00 1cid 177 1.78e+00 1cid b.1.1.1,b.1.1.3 19740,21679 2fhxA 246 2.30e+00 1ha3A 405 2.49e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1exmA 405 2.86e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1eft 405 3.48e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 1bmc 221 4.29e+00 1a7tA d.157.1.1 42038 1efuA 385 4.33e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 1x8gA 227 4.43e+00 1h6yA 170 5.43e+00 b.18.1.7 70904 2a7yA 83 5.96e+00 1jjeA 222 7.74e+00 1a7tA d.157.1.1 63117 1aipE 405 7.84e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1r6vA 671 7.91e+00 1dd6A 228 8.57e+00 1a7tA d.157.1.1 42054 1m5sA 297 8.64e+00 d.58.33.1,d.58.33.1 74511,74512 1ao5A 237 9.35e+00 5ptp b.47.1.2 26334 1cqxA 403 9.57e+00 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1dyoA 160 1.03e+01 1dyoA b.18.1.7 23771 1jjtA 228 1.06e+01 1a7tA d.157.1.1 63139 1hn0A 1021 1.08e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1z6bA 154 1.08e+01 2bc2B 227 1.09e+01 1a7tA d.157.1.1 42032 2bz6H 254 1.10e+01 1gpc 218 1.18e+01 1gpc b.40.4.7 25393 1ah6 220 1.24e+01 1yer d.122.1.1 41094 2aw2A 120 1.25e+01 1ux6A 350 1.26e+01 b.29.1.16,g.75.1.1 100145,100146 1kliH 254 1.27e+01 b.47.1.2 77435 1ftrA 296 1.31e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1s1dA 331 1.35e+01 b.67.3.1 98344 1drw 273 1.38e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1m2xA 223 1.44e+01 d.157.1.1 84764 1dih 273 1.48e+01 1drw c.2.1.3,d.81.1.3 30056,39971 2a6aA 218 1.50e+01 1mat 264 1.53e+01 1c24A d.127.1.1 41152 1p57B 255 1.60e+01 b.47.1.2 94126 1gxuA 91 1.65e+01 d.58.10.1 76378 1xauA 122 1.65e+01 1g65K 211 1.80e+01 d.153.1.4 41907 1dlc 584 1.82e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23719,27976,43391 1m8aA 70 1.84e+01 d.9.1.1 74579 1icwA 72 1.85e+01 1tvxA d.9.1.1 37357 1avbA 226 1.86e+01 1led b.29.1.1 24158 1akjD 120 1.86e+01 1cd8 b.1.1.1 19712 1cd8 114 1.87e+01 1cd8 b.1.1.1 19714 1aipA 405 1.88e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1e69B 322 1.88e+01 1e69B c.37.1.12 32377 1cr1A 296 2.16e+01 1cr1A c.37.1.11 32286 1neu 124 2.22e+01 1neu b.1.1.1 19704 2fcbA 173 2.25e+01 2fcbA b.1.1.4,b.1.1.4 21781,21782 2bc2A 227 2.32e+01 1a7tA d.157.1.1 42031 2a6hC 1119 2.39e+01 1mqoA 227 2.46e+01 d.157.1.1 103846 1uebA 184 2.46e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1psuA 140 2.50e+01 d.38.1.5 88285 2a6sA 84 2.54e+01 1danH 254 2.56e+01 5ptp b.47.1.2 26292 1tvxB 75 2.67e+01 1tvxA d.9.1.1 37442 1r9fA 136 2.69e+01 d.255.1.1 97257 2breA 219 2.70e+01 1e7uA 961 2.74e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1owxA 121 2.75e+01 d.58.7.1 87494 1ixmA 192 2.76e+01 1ixmA d.123.1.1 41114 1g38A 393 2.85e+01 2admA c.66.1.27 60235 1kgcD 206 2.88e+01 b.1.1.1,b.1.1.2 77384,77385 1xnzA 264 2.88e+01 2fs2A 151 2.91e+01 1b8mA 119 2.92e+01 1bndA g.17.1.3 44797 1x8mA 288 2.93e+01 b.82.1.13 109516 1z8gA 372 2.99e+01 1h5rA 293 3.02e+01 c.68.1.6 65623 1cr0A 296 3.10e+01 1cr1A c.37.1.11 32287 1a78A 134 3.18e+01 1c1lA b.29.1.3 24212 2biwA 490 3.20e+01 1amw 214 3.23e+01 1yer d.122.1.1 41093 1ko3A 230 3.24e+01 d.157.1.1 90974 2fimA 276 3.46e+01 1bndB 119 3.46e+01 1bndA g.17.1.3 44794 1wexA 104 3.50e+01 1c24A 263 3.50e+01 1c24A d.127.1.1 41148 1aqt 138 3.51e+01 1aqt a.2.10.1,b.93.1.1 15718,28435 1yhpA 212 3.53e+01 1lcjA 109 3.55e+01 1qadA d.93.1.1 40414 1bx1A 314 3.66e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 2alaA 391 3.68e+01 1rypL 212 3.77e+01 d.153.1.4 41880 1zbtA 371 3.92e+01 1lvwA 295 3.93e+01 c.68.1.6 84723 1azzA 226 3.93e+01 5ptp b.47.1.2 26072 2c9wA 169 3.95e+01 1eylA 186 4.11e+01 1wba b.42.4.1 25593 1e8cA 498 4.12e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1qmyA 167 4.17e+01 1qmyA d.3.1.2 37094 1ji6A 589 4.20e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1jt8A 102 4.22e+01 b.40.4.5 63279 1fnd 314 4.27e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1i7qB 193 4.36e+01 1qdlB c.23.16.1 61902 1kk1A 410 4.39e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1fnb 314 4.46e+01 1fnc b.43.4.2,c.25.1.1 25628,31518 1z4xA 532 4.48e+01 1c44A 123 4.48e+01 1qndA d.106.1.1 40795 1yloA 348 4.52e+01 1ixmB 192 4.62e+01 1ixmA d.123.1.1 41115 1of5A 221 4.63e+01 d.17.4.2 86933 1yukB 120 4.67e+01 2c5qA 240 4.70e+01 1jykA 254 4.72e+01 c.68.1.13 67458 2ciaA 102 4.74e+01 1i1qB 192 4.74e+01 1qdlB c.23.16.1 61544 1m56B 264 4.74e+01 b.6.1.2,f.17.2.1 74472,74473 1mfa 247 4.82e+01 1mfa b.1.1.1,b.1.1.1 19888,19889 2a1kA 233 4.94e+01 1a14H 120 4.98e+01 1mfa b.1.1.1 20061 1w1wA 430 4.99e+01 1vzqH 250 5.01e+01 1vcbC 160 5.06e+01 1vcbC b.3.3.1 22535 2as9A 210 5.06e+01 2cfuA 658 5.07e+01 1x89A 178 5.11e+01 1k42A 168 5.17e+01 b.18.1.14 72032 2b5eA 504 5.26e+01 1u1zA 168 5.38e+01 d.38.1.6 107602 1lkkA 105 5.44e+01 1lckA d.93.1.1 40412 1bk0 331 5.46e+01 1bk0 b.82.2.1 28118 1a4h 230 5.47e+01 1yer d.122.1.1 41099 1odmA 331 5.56e+01 b.82.2.1 86875 1de4C 640 5.70e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1ukgA 252 5.70e+01 b.29.1.1 99489 1hkvA 453 5.72e+01 b.49.2.3,c.1.6.1 83559,83560 2an1A 292 5.77e+01 2fblA 153 5.80e+01 1wrvA 308 5.88e+01 1am1 213 5.89e+01 1yer d.122.1.1 41095 1qg0A 308 6.00e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1ohfA 644 6.04e+01 b.121.4.8 93014 1elpA 173 6.06e+01 1amm b.11.1.1,b.11.1.1 23596,23597 1mh0A 287 6.16e+01 b.47.1.2 79110 1hniB 427 6.16e+01 1rthA e.8.1.2 43045 1yy5B 513 6.16e+01 1y43B 173 6.21e+01 1a12A 413 6.24e+01 1a12A b.69.5.1 27663 1bndA 119 6.28e+01 1bndA g.17.1.3 44793 2fp7B 172 6.29e+01 1qzgA 187 6.45e+01 b.40.4.3 96643 2bvyA 475 6.49e+01 2c60A 111 6.52e+01 1ytaA 180 6.57e+01 1fjgL 135 6.64e+01 1fjfL b.40.4.5 25346 1keeE 1073 6.65e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68508,68509,68510,68511,68512,68513 1fvuB 125 6.70e+01 1ixxB d.169.1.1 42346 1itwA 741 6.73e+01 c.77.1.2 76793 1bngA 110 6.73e+01 1b20A d.1.1.2 36184 1gpb 842 6.81e+01 1a8i c.87.1.4 35478 1qz8A 113 6.86e+01 b.140.1.1 96619 1j9aA 184 6.89e+01 c.55.3.5 84135 2cwsA 237 6.89e+01 1fnlA 175 6.91e+01 2fcbA b.1.1.4,b.1.1.4 21783,21784 1mgsA 73 7.13e+01 1tvxA d.9.1.1 37389 1gsmA 210 7.19e+01 b.1.1.4,b.1.1.4 65535,65536 1cs0C 1073 7.38e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18559,31488,31675,31676,41520,41521 1j1tA 233 7.38e+01 b.29.1.18 90771 1zo0A 126 7.43e+01 1plfA 72 7.45e+01 1tvxA d.9.1.1 37373 1gl4B 98 7.56e+01 b.1.1.4 65288 1ugjA 141 7.57e+01 b.41.1.3 107826 1ax0 239 7.60e+01 1led b.29.1.1 24042 1cqkA 101 7.61e+01 1cqkA b.1.1.2 21547 1z4vA 532 7.68e+01 1pg6A 243 7.88e+01 b.82.5.2 94673 1f5wA 126 7.95e+01 1f5wA b.1.1.1 19705 1lo6A 223 7.99e+01 b.47.1.2 74143 1jdbB 1073 8.09e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18574,31503,31705,31706,41550,41551 1n99A 166 8.11e+01 b.36.1.1,b.36.1.1 85459,85460 2a6vA 226 8.11e+01 1fnc 314 8.13e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1x82A 190 8.14e+01 1z47A 355 8.14e+01 1ah9 71 8.15e+01 1ah9 b.40.4.5 25330 1v6fA 151 8.16e+01 d.109.1.2 108395 1eajA 126 8.27e+01 1f5wA b.1.1.1 59401 1ahtH 259 8.27e+01 5ptp 1aqjA 421 8.29e+01 2admA c.66.1.27 34242 1kte 105 8.35e+01 1kte c.47.1.1 32771 1j6uA 469 8.38e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1mhcB 99 8.40e+01 1agdB b.1.1.2 20832 1g99A 408 8.40e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1qxrA 189 8.41e+01 b.82.1.7 96552 1h4aX 173 8.43e+01 b.11.1.1,b.11.1.1 83479,83480 1x71A 178 8.53e+01 2brcA 214 8.55e+01 2bgoA 140 8.57e+01 1jg1A 235 8.63e+01 c.66.1.7 66661 1p2zA 968 8.71e+01 b.121.2.2,b.121.2.2 93962,93963 1umhA 184 8.75e+01 b.18.1.21 99605 2fug7 129 8.80e+01 1j08A 226 8.96e+01 c.47.1.2,c.47.1.2 83855,83856 1x11A 172 8.99e+01 1x11A b.55.1.2 26985