# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 2fe5A 94 2.27e-20 2fcfA 103 1.24e-19 1g9oA 91 1.75e-19 1pdr b.36.1.1 60400 1qavA 90 4.15e-19 1qauA b.36.1.1 24777 1i92A 91 6.11e-19 1pdr b.36.1.1 61990 1tp5A 119 7.66e-19 1bfeA 119 1.18e-18 1pdr b.36.1.1 24775 1n7eA 97 1.51e-18 b.36.1.1 91691 1be9A 119 1.53e-18 1pdr b.36.1.1 24774 1n7fA 97 4.18e-18 b.36.1.1 91692 1pdr 99 5.07e-18 1pdr b.36.1.1 24771 1q3oA 109 7.66e-18 b.36.1.1 95700 1ihjA 98 1.57e-17 1pdr b.36.1.1 62382 1kwaA 88 9.26e-17 1kwaA b.36.1.1 24772 1qavB 115 1.79e-16 1qauA b.36.1.1 24780 1kwaB 88 2.11e-16 1kwaA b.36.1.1 24773 1l6oA 95 3.01e-16 b.36.1.1 84534 1qauA 112 4.42e-16 1qauA b.36.1.1 24779 1nf3C 128 4.57e-16 b.36.1.1 85596 1wf7A 103 5.02e-16 1n99A 166 5.25e-16 b.36.1.1,b.36.1.1 85459,85460 2f0aA 98 6.81e-16 1mfgA 95 7.64e-16 b.36.1.1 79043 1i16 130 7.68e-16 1i16 b.36.1.2 24787 1b8qA 127 1.90e-15 1qauA b.36.1.1 24781 1v5lA 103 5.22e-15 b.36.1.1 108378 1m5zA 91 1.63e-14 b.36.1.1 78676 2f5yA 91 4.15e-14 1nteA 82 8.13e-14 b.36.1.1 86163 1r6jA 82 1.46e-13 b.36.1.1 97151 1fc6A 388 3.63e-12 1fc6A b.36.1.3,c.14.1.2 64738,64739 1te0A 318 2.88e-08 1lcyA 325 3.04e-08 b.36.1.4,b.47.1.1 73834,73835 1y8tA 324 1.48e-06 1ky9B 448 3.22e-06 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 1sotA 320 2.03e-04 b.36.1.4,b.47.1.1 105852,105853 1ky9A 448 9.46e-04 b.36.1.4,b.47.1.1 73198,73199 1zn8A 180 9.90e-03 1ao0A 459 1.20e-01 1ecfB c.61.1.1,d.153.1.1 34049,41816 1gph1 465 1.22e-01 1ecfB 1db3A 372 1.38e-01 1db3A c.2.1.2 29813 1g2qA 187 3.63e-01 c.61.1.1 65117 1yg9A 330 3.77e-01 1qb7A 236 4.48e-01 1qb7A c.61.1.1 34087 1t6t1 118 5.23e-01 1fxlA 167 8.96e-01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1bx4A 345 1.50e+00 1bx4A c.72.1.1 34935 2bh8A 101 1.58e+00 1ciqA 40 1.82e+00 2sniI d.40.1.1 38576 1fxrA 64 1.83e+00 1fxd d.58.1.4 38993 1csp 67 2.23e+00 1mjc b.40.4.5 25321 1rutX 188 2.30e+00 1mt6A 280 2.35e+00 b.76.2.1,b.85.7.1 79446,79447 1opr 213 2.39e+00 1opr c.61.1.1 34091 1yjmA 110 2.64e+00 1zsyA 357 2.64e+00 1cis 66 2.78e+00 2sniI k.1.1.1 46375 2ampA 304 2.81e+00 1h3iA 293 3.28e+00 b.76.2.1,b.85.7.1 76635,76636 1c9oA 66 3.34e+00 1mjc b.40.4.5 25325 1lvoA 302 3.66e+00 b.47.1.4 74284 1r13A 148 3.79e+00 d.169.1.1,h.1.1.1 96782,96783 1x3mA 415 3.92e+00 1p9uA 302 3.96e+00 b.47.1.4 88001 2bsyA 278 4.25e+00 1coaI 64 4.33e+00 2sniI d.40.1.1 38574 2d4pA 141 4.59e+00 1ad3A 452 4.82e+00 1ad3A c.82.1.1 35335 1dax 64 4.87e+00 1fxd d.58.1.4 38996 1dfd 64 5.29e+00 1fxd d.58.1.4 38995 1fm0E 150 5.76e+00 1fmaE d.41.5.1 38629 1fmaE 150 5.80e+00 1fmaE d.41.5.1 38630 1n6aA 259 5.97e+00 b.76.2.1,b.85.7.1 80121,80122 3mefA 69 6.22e+00 1mjc b.40.4.5 25320 1vkmA 297 6.58e+00 c.138.1.1 108670 1fr3A 67 6.97e+00 1fr3A b.40.6.1 25436 2brfA 110 7.12e+00 1fdr 248 7.38e+00 1fdr b.43.4.2,c.25.1.1 25653,31543 1lh0A 213 7.44e+00 c.61.1.1 73896 2sxl 88 7.63e+00 1b7fA d.58.7.1 39179 1koe 172 7.67e+00 1koe d.169.1.5 42448 1mjc 69 7.83e+00 1mjc b.40.4.5 25319 2sniI 83 8.03e+00 2sniI d.40.1.1 38573 1y0bA 197 8.48e+00 1uc2A 481 8.96e+00 d.261.1.1 99161 1to2I 64 9.12e+00 1hcz 252 9.17e+00 1hcz b.2.6.1,b.84.2.2 22464,28250 2c5qA 240 9.21e+00 1q52A 314 9.22e+00 c.14.1.3 95846 1jnyA 435 9.26e+00 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1vpqA 273 9.74e+00 2f4wA 187 1.01e+01 1ecfB 504 1.06e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 1lw6I 64 1.09e+01 d.40.1.1 74294 2fvgA 340 1.09e+01 2pcfB 250 1.13e+01 1hcz i.4.1.1 45911 1vheA 373 1.20e+01 b.49.3.1,c.56.5.4 100669,100670 1w30A 201 1.21e+01 1ecfA 504 1.23e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1l5aA 436 1.28e+01 c.43.1.2,c.43.1.2 75923,75924 1fsgA 233 1.29e+01 1qk3A c.61.1.1 34029 2c9wA 169 1.32e+01 1zm8A 259 1.32e+01 1axwA 265 1.37e+01 1bkpA d.117.1.1 40938 2g8oA 264 1.39e+01 1evfA 264 1.41e+01 1bkpA d.117.1.1 40932 1ti6A 875 1.42e+01 b.52.2.2,c.81.1.1 106974,106975 1aiqA 264 1.43e+01 1bkpA d.117.1.1 40967 2g8mA 264 1.49e+01 1vqqA 646 1.49e+01 1qqqA 264 1.50e+01 1bkpA d.117.1.1 40931 1cq3A 233 1.50e+01 1cq3A b.27.1.1 23923 1mwrA 646 1.51e+01 d.17.4.5,d.175.1.1,e.3.1.1 79586,79587,79588 3sxlA 184 1.57e+01 1b7fA d.58.7.1,d.58.7.1 39173,39174 1tys 265 1.58e+01 1bkpA d.117.1.1 40937 1uh5A 329 1.62e+01 c.2.1.2 107840 1kw4A 89 1.62e+01 a.60.1.2 73077 1xebA 150 1.68e+01 1vc3B 97 1.70e+01 1h3gA 601 1.73e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1eb0A 147 1.83e+01 b.107.1.1,d.58.38.1 64890,64891 2f69A 261 1.83e+01 1ex2A 189 1.84e+01 1ex2A c.51.4.2 33225 1iyu 79 1.86e+01 1iyu b.84.1.1 28227 1nwaA 203 1.93e+01 d.58.28.1 86295 1lnzA 342 2.02e+01 b.117.1.1,c.37.1.8 78112,78113 1zkpA 268 2.08e+01 1yemA 179 2.20e+01 1js8A 394 2.23e+01 a.86.1.1,b.112.1.1 67219,67220 1earA 147 2.33e+01 b.107.1.1,d.58.38.1 64875,64876 1wvqA 167 2.34e+01 1vraB 215 2.35e+01 1xdnA 277 2.35e+01 1ifyA 49 2.39e+01 a.5.2.1 71207 1reqD 637 2.39e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 7reqB 637 2.44e+01 1reqB c.1.19.1,c.23.6.1 29617,31244 1a62 130 2.49e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1g57A 217 2.52e+01 1g57A d.115.1.2 60253 1t9fA 187 2.66e+01 b.42.6.1 106710 1se8A 301 2.71e+01 b.40.4.3 105448 1iieA 75 2.86e+01 1iieA a.109.1.1 19039 1g7rA 594 2.92e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25716,25717,31034,32149 1vplA 256 2.92e+01 1txyA 104 2.96e+01 1l0bA 229 2.97e+01 c.15.1.3,c.15.1.3 73391,73392 1mkmA 249 3.20e+01 a.4.5.33,d.110.2.2 79242,79243 1mwsA 646 3.20e+01 d.17.4.5,d.175.1.1,e.3.1.1 79592,79593,79594 2sli 679 3.29e+01 2sli b.29.1.9,b.68.1.1 24274,27611 4sli 679 3.29e+01 2sli b.29.1.9,b.68.1.1 24275,27612 1g8aA 227 3.33e+01 c.66.1.3 90506 1oi7A 288 3.33e+01 c.2.1.8,c.23.4.1 87049,87050 2aamA 309 3.39e+01 2bs3A 656 3.41e+01 1vchA 175 3.43e+01 1ah1 129 3.45e+01 1ah1 b.1.1.1 20652 1qlaA 656 3.50e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 2f6uA 234 3.65e+01 1ybhA 590 3.67e+01 1rl2A 137 3.69e+01 1rl2A b.34.5.3,b.40.4.5 24610,25342 1mq7A 154 3.71e+01 b.85.4.1 79404 2cyjA 118 3.71e+01 2fa1A 160 3.74e+01 1ojhA 65 3.76e+01 a.214.1.1 103976 1o50A 157 3.81e+01 d.37.1.1,d.37.1.1 92478,92479 1ypcI 64 3.92e+01 2sniI d.40.1.1 38570 1d7oA 297 3.94e+01 1enp c.2.1.2 29907 1uzcA 71 3.95e+01 a.159.2.1 100222 1xtmA 175 3.97e+01 1a97A 148 4.06e+01 1nulA c.61.1.1 34023 2a8mA 420 4.10e+01 1xtlA 175 4.20e+01 1o6dA 163 4.26e+01 c.116.1.3 92567 1b7fA 168 4.28e+01 1b7fA d.58.7.1,d.58.7.1 39169,39170 1reqB 637 4.33e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1g5rA 196 4.37e+01 1g5rA c.37.1.11 32367 1g5tA 196 4.37e+01 1g5rA c.37.1.11 32366 1p7tA 731 4.38e+01 c.1.13.1 94319 1tsm 316 4.39e+01 1bkpA d.117.1.1 41024 1rypB 250 4.41e+01 1rypB d.153.1.4 41933 1amz 435 4.43e+01 1csh a.103.1.1 18884 2a8jA 420 4.47e+01 1viuA 203 4.48e+01 d.113.1.1 100771 1uc7A 125 4.51e+01 c.47.1.1 99163 1v1qA 134 4.57e+01 1ugmA 125 4.60e+01 d.15.1.3 107827 1wlsA 328 4.62e+01 1egpA 45 4.64e+01 1egpA d.40.1.1 38561 1d8cA 723 4.66e+01 1d8cA c.1.13.1 29325 1ih8A 271 4.81e+01 2nsyA c.26.2.1 62377 2nsyA 271 4.81e+01 2nsyA c.26.2.1 31612 1hzdA 272 4.83e+01 c.14.1.3 65969 1nsyA 271 4.84e+01 2nsyA c.26.2.1 31614 1kqpA 271 4.84e+01 c.26.2.1 72883 1s5lO 246 4.85e+01 1wnfA 328 4.88e+01 1l7yA 94 4.92e+01 d.15.1.6 73676 1a8vA 121 4.93e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 1eujA 166 4.95e+01 1eujA b.40.4.4 25316 1rxdA 159 5.00e+01 2cu6A 103 5.00e+01 1xfoA 357 5.01e+01 2b4aA 138 5.01e+01 1o63A 219 5.02e+01 c.94.1.1 92540 2a8lA 420 5.10e+01 1y0yA 353 5.15e+01 1t3qB 788 5.20e+01 d.41.1.1,d.133.1.1 106369,106370 1llnA 262 5.22e+01 d.165.1.1 84625 1b0aA 288 5.31e+01 1a4iA c.2.1.7,c.58.1.2 30286,33934 1zq9A 285 5.31e+01 1lkkA 105 5.39e+01 1lckA d.93.1.1 40412 1fl0A 171 5.45e+01 1eujA b.40.4.4 25315 1xv5A 401 5.53e+01 1zclA 180 5.53e+01 1mvwB 145 5.55e+01 i.15.1.1 79524 1a44 185 5.57e+01 1a44 b.17.1.1 23704 1enp 312 5.58e+01 1enp c.2.1.2 29906 1eno 312 5.59e+01 1enp c.2.1.2 29905 1bzyA 217 5.64e+01 1qk3A c.61.1.1 34071 1cliA 345 5.71e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1lckA 175 5.72e+01 1lckA b.34.2.1,d.93.1.1 24552,40421 1hkvA 453 5.75e+01 b.49.2.3,c.1.6.1 83559,83560 1poiA 317 5.79e+01 1poiA c.124.1.2 34153 2ahqA 76 5.85e+01 1g7tA 594 5.88e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25714,25715,31033,32148 1b7aA 186 6.12e+01 1a44 b.17.1.1 23705 1qqrA 138 6.15e+01 1bmlC d.15.5.1 37721 1wocA 103 6.18e+01 2fnjA 226 6.22e+01 1h95A 79 6.24e+01 b.40.4.5 65742 2tscA 264 6.28e+01 1bkpA d.117.1.1 40952 1n0qA 93 6.31e+01 k.37.1.1 79754 1et7A 341 6.34e+01 1nif b.6.1.3,b.6.1.3 23070,23071 1e6oH 219 6.39e+01 1igtB b.1.1.1,b.1.1.2 20495,21453 1pk6A 133 6.52e+01 b.22.1.1 94801 6paxA 133 6.54e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1dxrH 258 6.55e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 6prcH 258 6.57e+01 6prcH b.41.1.1,f.23.10.1 25457,43436 1iezA 217 6.60e+01 d.115.1.2 66129 1jalA 363 6.62e+01 c.37.1.8,d.15.10.2 84138,84139 1o5oA 221 6.65e+01 c.61.1.1 92509 1isaA 192 6.65e+01 1avmA a.2.11.1,d.44.1.1 15731,38724 1g2hA 61 6.81e+01 1g2hA a.4.1.12 60224 1jzxK 205 6.84e+01 i.1.1.2 67885 1hvyA 288 6.86e+01 1bkpA d.117.1.1 41049 1sixA 174 6.87e+01 b.85.4.1 98892 2f51A 118 6.87e+01 1xx6A 191 6.87e+01 1g65K 211 6.89e+01 d.153.1.4 41907 1rypL 212 6.90e+01 d.153.1.4 41880 1axiA 191 6.92e+01 1huw a.26.1.1 16832 1korA 400 6.92e+01 c.26.2.1,d.210.1.1 72824,72825 2agcA 162 7.01e+01 1iiyA 101 7.07e+01 b.89.1.1 66152 1lcjA 109 7.10e+01 1qadA d.93.1.1 40414 1jv2B 692 7.11e+01 b.1.15.1,c.62.1.1,d.200.1.1,g.3.11.6,g.3.11.6 67338,67339,67340,67341,67342 1qhlA 227 7.15e+01 1qhlA c.37.1.12 32382 1g7sA 594 7.17e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1y7mA 164 7.17e+01 3ezmA 101 7.18e+01 3ezmA b.89.1.1 28395 1mb3A 124 7.19e+01 c.23.1.1 78907 1x47A 98 7.20e+01 1vdmA 153 7.21e+01 1iscA 192 7.23e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1oroA 213 7.28e+01 1opr c.61.1.1 34093 1g31A 111 7.33e+01 1g31A b.35.1.1 24656 2b8wA 328 7.36e+01 1lghB 45 7.38e+01 1lghB f.3.1.1 43734 1j1lA 290 7.40e+01 b.82.1.12 90766 1xe1A 116 7.48e+01 b.43.3.1 109571 1m5tA 124 7.53e+01 c.23.1.1 78660 1z96A 40 7.57e+01 1x65A 89 7.59e+01 1l6zA 216 7.60e+01 b.1.1.1,b.1.1.4 77770,77771 1qk4A 233 7.61e+01 1qk3A c.61.1.1 34037 1lnh 857 7.64e+01 1yge a.119.1.1,b.12.1.1 19237,23637 1u9yA 284 7.76e+01 1qopB 396 7.87e+01 2tysB c.79.1.1 35270 1k8yB 396 7.91e+01 c.79.1.1 72184 1kzlA 208 7.96e+01 b.43.4.3,b.43.4.3 77635,77636 1a50B 396 7.96e+01 2tysB c.79.1.1 35280 2f7fA 494 8.05e+01 1vf7A 369 8.08e+01 f.46.1.1 108557 1bvoA 175 8.15e+01 1a3qA b.2.5.3 22457 1epwA 1290 8.22e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1iq8A 582 8.23e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1skyB 502 8.25e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18313,26478,32358 1a63 130 8.28e+01 1a62 a.140.3.1,b.40.4.5 64710,64711 1xewY 172 8.28e+01 1jem 87 8.32e+01 1ptf d.94.1.1 40548 1e9xA 455 8.43e+01 1ea1A a.104.1.1 18969 1l7bA 92 8.50e+01 c.15.1.2 91053 1vj0A 380 8.54e+01 b.35.1.2,c.2.1.1 100786,100787 2amhA 207 8.61e+01 1bfi 112 8.62e+01 1qadA d.93.1.1 40499 1npuA 117 8.68e+01 b.1.1.1 92038 1bksB 397 8.79e+01 2tysB c.79.1.1 35285 1bd2D 204 8.79e+01 1tcrA b.1.1.1,b.1.1.2 20622,21557 1a22A 180 8.82e+01 1huw a.26.1.1 16833 1p7gA 222 8.83e+01 a.2.11.1,d.44.1.1 94223,94224 1gym 298 8.85e+01 2plc c.1.18.2 29606 1yz7A 188 8.98e+01 2d1pC 95 9.00e+01