# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1s5uA 138 1.99e-22 d.38.1.1 98573 1z54A 132 3.50e-22 1lo7A 141 9.81e-20 d.38.1.1 74144 2cyeA 133 9.81e-20 1bvqA 141 1.38e-19 1bvqA d.38.1.1 38542 1njkA 156 2.24e-18 d.38.1.1 85818 2gf6A 135 2.97e-18 2av9A 147 1.87e-17 2aliA 158 9.15e-16 1yliA 153 2.32e-11 1vpmA 169 1.56e-09 2gvhA 288 6.70e-08 2h4uA 145 4.04e-07 1zkiA 133 4.24e-06 2b3nA 159 1.12e-05 2essA 248 1.29e-05 1u1zA 168 1.30e-05 d.38.1.6 107602 1j1yA 136 2.26e-05 d.38.1.5 90776 1wluA 136 3.08e-05 1ixlA 131 4.79e-05 d.38.1.5 90717 2b6eA 146 1.33e-04 1o0iA 138 2.12e-04 d.38.1.5 86532 2cwzA 141 4.22e-04 2fs2A 151 5.22e-04 1psuA 140 5.63e-04 d.38.1.5 88285 1q4uA 151 6.61e-04 d.38.1.5 95828 1c8uA 285 7.95e-04 1c8uA d.38.1.3,d.38.1.3 38547,38548 1iq6A 134 1.85e-03 d.38.1.4 76755 1t82A 155 2.29e-03 d.38.1.5 106639 1z6bA 154 1.10e-02 1vh5A 148 3.29e-02 d.38.1.5 100642 1sh8A 154 3.12e-01 d.38.1.5 105549 2bi0A 337 6.33e-01 2c8mA 262 1.07e+00 2arsA 262 1.22e+00 1u2xA 474 1.57e+00 c.72.1.3 107622 1mkaA 171 3.84e+00 1mkaA d.38.1.2 38543 1h6tA 291 4.64e+00 b.1.18.15,c.10.2.1 65686,65687 1lshA 1056 5.10e+00 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1tf4A 605 5.91e+00 1tf4A a.102.1.2,b.2.2.2 18827,22393 1vcaA 202 7.52e+00 1vcaA b.1.1.3,b.1.1.4 21649,21685 1p6pA 125 8.30e+00 b.60.1.2 87839 1yocA 147 8.35e+00 1j5qA 437 8.42e+00 b.121.2.3,b.121.2.3 77084,77085 1h6uA 308 8.67e+00 b.1.18.15,c.10.2.1 65688,65689 1b9lA 120 9.08e+00 1b9lA d.96.1.3 40665 1fmaD 81 9.37e+00 1fmaD d.15.3.1 37643 2hnp 321 9.37e+00 1pty c.45.1.2 32678 1fm0D 81 9.45e+00 1fmaD d.15.3.1 37642 1pkp 150 9.87e+00 1pkp d.14.1.1,d.50.1.2 37551,38787 1m3yA 413 1.04e+01 b.121.2.3,b.121.2.3 78579,78580 1zyoA 191 1.05e+01 2bm3A 166 1.06e+01 1on2A 142 1.07e+01 a.4.5.24,a.76.1.1 87103,87104 1knwA 425 1.09e+01 b.49.2.3,c.1.6.1 90969,90970 3fib 249 1.11e+01 3fib d.171.1.1 42455 2fibA 269 1.12e+01 3fib d.171.1.1 42457 1fib 269 1.17e+01 3fib d.171.1.1 42456 1g7fA 298 1.17e+01 1pty c.45.1.2 60330 1te5A 257 1.23e+01 d.153.1.1 106795 2bsjA 133 1.24e+01 1f3mA 80 1.29e+01 1f3mA j.66.1.1 46358 1m3sA 186 1.31e+01 c.80.1.3 78573 1bv1 159 1.31e+01 1bv1 d.129.3.1 41313 1wxcB 134 1.37e+01 1m9sA 605 1.41e+01 b.1.18.15,b.34.11.1,b.34.11.1,b.34.11.1,c.10.2.1 78874,78875,78876,78877,78878 1f39A 101 1.41e+01 1umuA b.87.1.1 28386 2bdvA 231 1.42e+01 2bshA 125 1.46e+01 1ao8 162 1.47e+01 3dfr c.71.1.1 34883 2b59A 187 1.51e+01 1nkgA 508 1.53e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1qmrA 159 1.54e+01 1bv1 d.129.3.1 41314 1o6vA 466 1.54e+01 b.1.18.15,c.10.2.1 81099,81100 2f71A 298 1.63e+01 1pty 321 1.64e+01 1pty c.45.1.2 32656 1pa1A 310 1.66e+01 c.45.1.2 94404 1zt1A 277 1.68e+01 1ptvA 321 1.69e+01 1pty c.45.1.2 32665 1a5y 330 1.70e+01 1pty c.45.1.2 32673 1aax 321 1.75e+01 1pty c.45.1.2 32657 1yg9A 330 1.81e+01 1ii6A 368 1.82e+01 1bg2 c.37.1.9 62413 1neu 124 1.84e+01 1neu b.1.1.1 19704 1o6sA 466 1.88e+01 b.1.18.15,c.10.2.1 81094,81095 1lxtA 561 1.89e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35432,35433,35434,41309 3pmgA 561 2.06e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1shwB 181 2.07e+01 b.18.1.4 105563 2f4lA 297 2.23e+01 1tbuA 118 2.24e+01 1tlyA 278 2.37e+01 f.4.6.1 107143 1q0bA 367 2.37e+01 c.37.1.9 95502 2eifA 136 2.38e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1l5aA 436 2.46e+01 c.43.1.2,c.43.1.2 75923,75924 1u04A 771 2.60e+01 b.34.14.1,c.55.3.10 107539,107540 1ftpA 133 2.63e+01 1hmt b.60.1.2 27199 1fm4A 159 2.73e+01 1bv1 d.129.3.1 76186 1zt7A 276 2.81e+01 1zxkA 98 2.83e+01 2a8lA 420 2.84e+01 2a8mA 420 2.84e+01 2a8jA 420 2.84e+01 1eeoA 321 2.89e+01 1pty c.45.1.2 32655 1mbyA 88 2.90e+01 d.223.1.1 78931 1txqA 93 2.90e+01 1m4iA 181 2.92e+01 d.108.1.1 74457 1u6zA 513 3.13e+01 1jeoA 180 3.28e+01 c.80.1.3 66611 1rl4A 188 3.31e+01 d.167.1.1 97636 1widA 130 3.33e+01 1lnh 857 3.43e+01 1yge a.119.1.1,b.12.1.1 19237,23637 1pn2A 280 3.46e+01 d.38.1.4,d.38.1.4 94930,94931 2mspA 126 3.57e+01 1mspA b.1.11.2 22335 1cpn 208 3.57e+01 1axkA b.29.1.2 24175 1x88A 359 3.59e+01 1rbp 182 3.61e+01 1aqb b.60.1.1 27085 1tyjA 170 3.76e+01 1rfs 139 3.84e+01 1rfs b.33.1.1 24434 1w66A 232 3.97e+01 1b3jA 274 3.99e+01 1agdA b.1.1.2,d.19.1.1 20855,38319 1rovA 857 4.01e+01 a.119.1.1,b.12.1.1 97674,97675 1tw4A 125 4.05e+01 1kg0C 136 4.24e+01 d.169.1.1 72445 1cpq 129 4.24e+01 1cpq a.24.3.2 16556 1ihfB 94 4.32e+01 1huuA a.55.1.1 17894 1v93A 296 4.36e+01 c.1.23.1 100532 1aipA 405 4.51e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1lwyA 324 4.63e+01 a.96.1.3,d.129.1.2 78285,78286 1ejeA 192 4.64e+01 1ejeA b.45.1.2 25757 1m3qA 317 4.73e+01 a.96.1.3,d.129.1.2 91184,91185 1c4zD 154 4.74e+01 1u9aA d.20.1.1 38331 1wguA 136 4.75e+01 2bbkL 125 4.92e+01 2bbkL g.21.1.1 44882 2h03A 291 4.92e+01 1ekyA 129 5.01e+01 1cpq i.11.1.1 46012 1qusA 322 5.10e+01 1ltm d.2.1.6 36991 1tuaA 191 5.16e+01 d.51.1.1,d.51.1.1 107321,107322 1ltm 320 5.19e+01 1ltm d.2.1.6 36992 1vk6A 269 5.22e+01 d.113.1.4,d.113.1.4 100851,100852 1g86A 142 5.34e+01 b.29.1.3 70161 1lcl 142 5.34e+01 1lcl b.29.1.3 24216 1hdkA 141 5.35e+01 b.29.1.3 65807 1bsjA 168 5.43e+01 1bs4A d.167.1.1 42302 1vprA 374 5.44e+01 1b20A 110 5.47e+01 1b20A d.1.1.2 36207 1gc1G 321 5.49e+01 1gc1G d.172.1.1 42493 1tc5A 194 5.52e+01 c.110.1.1 106752 1baoA 110 5.60e+01 1b20A d.1.1.2 36187 1e1xA 299 5.61e+01 1hcl d.144.1.7 59157 2gv8A 447 5.61e+01 1qp2A 70 5.70e+01 1pse b.34.4.2 24596 1hn0A 1021 5.71e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1vqwA 457 5.72e+01 1r1qA 100 5.89e+01 d.93.1.1 104763 1aipE 405 5.90e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1b2zA 110 5.92e+01 1b20A d.1.1.2 36216 1du6A 64 5.94e+01 1akhA a.4.1.1 16002 1g5hA 454 5.98e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1zo0A 126 6.06e+01 1mg2B 131 6.14e+01 g.21.1.1 79060 1b76A 442 6.17e+01 1atiA c.51.1.1,d.104.1.1 33198,40747 2bhoA 130 6.17e+01 2f5uA 447 6.21e+01 2ftbA 125 6.22e+01 1yveI 524 6.30e+01 1qmgA a.100.1.2,c.2.1.6 18789,30186 1irk 306 6.34e+01 1fmk d.144.1.7 41703 1stfI 98 6.36e+01 1stfI d.17.1.2 38006 1yveJ 524 6.45e+01 1qmgA a.100.1.2,c.2.1.6 18790,30187 1brhA 110 6.52e+01 1b20A d.1.1.2 36151 1bnr 110 6.55e+01 1b20A d.1.1.2 36206 1a2pA 110 6.55e+01 1b20A d.1.1.2 36140 1rnbA 110 6.60e+01 1b20A d.1.1.2 36196 1b2sA 110 6.60e+01 1b20A d.1.1.2 36213 1brnL 110 6.65e+01 1b20A d.1.1.2 36143 1b3sA 110 6.75e+01 1b20A d.1.1.2 36229 1owfB 94 6.82e+01 a.55.1.1 87488 1qmgA 524 6.85e+01 1qmgA a.100.1.2,c.2.1.6 18785,30182 1dpjA 329 6.88e+01 1smrA b.50.1.2 26828 2c4bA 143 6.92e+01 1jrkA 156 6.97e+01 d.113.1.1 71827 1jvpP 298 7.10e+01 d.144.1.7 67371 1wk2A 121 7.13e+01 1ktjA 129 7.15e+01 b.1.18.7 72974 3mspA 126 7.15e+01 1mspA b.1.11.2 22343 1h54A 754 7.17e+01 a.102.1.4,b.30.5.3 60634,60635 1a4yB 123 7.20e+01 7rsa d.5.1.1 37296 1m93C 41 7.22e+01 1k78A 149 7.33e+01 a.4.1.5,a.4.1.5 68255,68256 1qg7A 67 7.36e+01 1a15A d.9.1.1 37449 1h54B 754 7.59e+01 a.102.1.4,b.30.5.3 60636,60637 1b21A 110 7.61e+01 1b20A d.1.1.2 36219 1g99A 408 7.62e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1ir3A 306 7.72e+01 1fmk d.144.1.7 41702 1i31A 314 7.75e+01 1bw8A b.2.7.1 22481 1wgvA 124 7.83e+01 1g87A 614 7.91e+01 a.102.1.2,b.2.2.2 83275,83276 1d3cA 686 7.98e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1czsA 160 7.99e+01 1cztA b.18.1.2 23714 1cztA 160 7.99e+01 1cztA b.18.1.2 23715 1xnpA 202 8.08e+01 1dbiA 280 8.18e+01 1gci c.41.1.1 32543 1nb5I 98 8.21e+01 d.17.1.2 80381 1ha3A 405 8.23e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1banA 110 8.50e+01 1b20A d.1.1.2 36197 1a8uA 277 8.67e+01 1brt c.69.1.12 34703 1wubA 178 8.75e+01 1xn8A 131 8.85e+01 1gz8A 299 8.88e+01 d.144.1.7 83405 1exmA 405 8.91e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131