# 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 6.98e-19 1tp5A 119 2.08e-18 2fcfA 103 3.07e-18 1bfeA 119 3.16e-18 1pdr b.36.1.1 24775 1g9oA 91 3.21e-18 1pdr b.36.1.1 60400 1be9A 119 3.42e-18 1pdr b.36.1.1 24774 2fneA 117 4.18e-18 1i92A 91 8.64e-18 1pdr b.36.1.1 61990 1pdr 99 1.54e-17 1pdr b.36.1.1 24771 1q3oA 109 2.08e-17 b.36.1.1 95700 1qavA 90 2.11e-17 1qauA b.36.1.1 24777 1n7eA 97 3.12e-17 b.36.1.1 91691 1n7fA 97 7.37e-17 b.36.1.1 91692 2h2bA 107 3.57e-16 1ihjA 98 8.25e-16 1pdr b.36.1.1 62382 1qavB 115 8.32e-16 1qauA b.36.1.1 24780 1l6oA 95 1.55e-15 b.36.1.1 84534 1qauA 112 1.74e-15 1qauA b.36.1.1 24779 1wf7A 103 1.97e-15 1i16 130 2.57e-15 1i16 b.36.1.2 24787 1kwaA 88 3.83e-15 1kwaA b.36.1.1 24772 2h3lA 103 5.26e-15 1mfgA 95 5.99e-15 b.36.1.1 79043 1n99A 166 6.27e-15 b.36.1.1,b.36.1.1 85459,85460 1kwaB 88 6.54e-15 1kwaA b.36.1.1 24773 2f0aA 98 1.01e-14 1b8qA 127 1.39e-14 1qauA b.36.1.1 24781 1nf3C 128 1.92e-14 b.36.1.1 85596 1v5lA 103 2.59e-14 b.36.1.1 108378 2f5yA 91 3.74e-13 1m5zA 91 7.12e-13 b.36.1.1 78676 1nteA 82 8.15e-12 b.36.1.1 86163 1r6jA 82 1.46e-11 b.36.1.1 97151 1fc6A 388 1.61e-11 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 3.52e-08 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 5.18e-07 1y8tA 324 6.01e-06 1ky9B 448 9.06e-06 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 1sotA 320 2.56e-04 b.36.1.4,b.47.1.1 105852,105853 1ky9A 448 2.23e-03 b.36.1.4,b.47.1.1 73198,73199 1zn8A 180 3.49e-02 1ao0A 459 6.82e-02 1ecfB c.61.1.1,d.153.1.1 34049,41816 1gph1 465 6.84e-02 1ecfB 1qb7A 236 6.60e-01 1qb7A c.61.1.1 34087 1db3A 372 6.64e-01 1db3A c.2.1.2 29813 1t6t1 118 7.41e-01 1x3mA 415 7.51e-01 1vqqA 646 1.08e+00 1mwrA 646 1.08e+00 d.17.4.5,d.175.1.1,e.3.1.1 79586,79587,79588 1bx4A 345 1.15e+00 1bx4A c.72.1.1 34935 1yg9A 330 1.39e+00 1ciqA 40 2.14e+00 2sniI d.40.1.1 38576 1g2qA 187 2.17e+00 c.61.1.1 65117 1mwsA 646 2.19e+00 d.17.4.5,d.175.1.1,e.3.1.1 79592,79593,79594 1ecfB 504 2.92e+00 1ecfB c.61.1.1,d.153.1.1 34054,41821 1coaI 64 2.98e+00 2sniI d.40.1.1 38574 1mt6A 280 3.13e+00 b.76.2.1,b.85.7.1 79446,79447 1ecfA 504 3.30e+00 1ecfB c.61.1.1,d.153.1.1 34053,41820 1n6aA 259 3.82e+00 b.76.2.1,b.85.7.1 80121,80122 1h3iA 293 3.87e+00 b.76.2.1,b.85.7.1 76635,76636 2bh8A 101 4.17e+00 2f69A 261 4.44e+00 1fxlA 167 4.82e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 1fxrA 64 4.93e+00 1fxd d.58.1.4 38993 1cis 66 5.24e+00 2sniI k.1.1.1 46375 1zsyA 357 5.58e+00 1y0bA 197 6.71e+00 1jnyA 435 6.74e+00 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1uc2A 481 7.29e+00 d.261.1.1 99161 1to2I 64 7.59e+00 1vheA 373 7.74e+00 b.49.3.1,c.56.5.4 100669,100670 2sniI 83 7.88e+00 2sniI d.40.1.1 38573 1rutX 188 7.95e+00 1lw6I 64 8.41e+00 d.40.1.1 74294 1g7rA 594 8.48e+00 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25716,25717,31034,32149 1earA 147 8.54e+00 b.107.1.1,d.58.38.1 64875,64876 1q52A 314 8.63e+00 c.14.1.3 95846 1dfd 64 9.17e+00 1fxd d.58.1.4 38995 1fr3A 67 9.21e+00 1fr3A b.40.6.1 25436 1dax 64 9.32e+00 1fxd d.58.1.4 38996 1eb0A 147 9.65e+00 b.107.1.1,d.58.38.1 64890,64891 2d4pA 141 9.89e+00 1ad3A 452 1.06e+01 1ad3A c.82.1.1 35335 1hcz 252 1.08e+01 1hcz b.2.6.1,b.84.2.2 22464,28250 1nwaA 203 1.08e+01 d.58.28.1 86295 2fa1A 160 1.10e+01 2c9wA 169 1.13e+01 1vkmA 297 1.14e+01 c.138.1.1 108670 1b6cB 342 1.17e+01 1b6cB d.144.1.7 41673 1r13A 148 1.17e+01 d.169.1.1,h.1.1.1 96782,96783 2sxl 88 1.22e+01 1b7fA d.58.7.1 39179 1olmA 403 1.25e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1wkyA 464 1.33e+01 2ampA 304 1.35e+01 2pcfB 250 1.38e+01 1hcz i.4.1.1 45911 2g8oA 264 1.40e+01 1evfA 264 1.44e+01 1bkpA d.117.1.1 40932 1aiqA 264 1.45e+01 1bkpA d.117.1.1 40967 1qqqA 264 1.45e+01 1bkpA d.117.1.1 40931 1w30A 201 1.48e+01 1g57A 217 1.48e+01 1g57A d.115.1.2 60253 2g8mA 264 1.49e+01 1fm0E 150 1.49e+01 1fmaE d.41.5.1 38629 1fmaE 150 1.49e+01 1fmaE d.41.5.1 38630 2fvgA 340 1.50e+01 1opr 213 1.55e+01 1opr c.61.1.1 34091 1o6uA 403 1.55e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1g7sA 594 1.55e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1axwA 265 1.60e+01 1bkpA d.117.1.1 40938 1tys 265 1.62e+01 1bkpA d.117.1.1 40937 1lvoA 302 1.66e+01 b.47.1.4 74284 1se8A 301 1.70e+01 b.40.4.3 105448 1csp 67 1.70e+01 1mjc b.40.4.5 25321 1fsgA 233 1.76e+01 1qk3A c.61.1.1 34029 1ti6A 875 1.78e+01 b.52.2.2,c.81.1.1 106974,106975 1f6fB 210 1.79e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 2abwA 227 1.80e+01 1zm8A 259 1.81e+01 1p9uA 302 1.84e+01 b.47.1.4 88001 1lkkA 105 1.84e+01 1lckA d.93.1.1 40412 1g8aA 227 1.87e+01 c.66.1.3 90506 1ypcI 64 1.90e+01 2sniI d.40.1.1 38570 3sxlA 184 1.92e+01 1b7fA d.58.7.1,d.58.7.1 39173,39174 1xtmA 175 1.94e+01 1g7tA 594 1.95e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25714,25715,31033,32148 2ckiA 262 1.99e+01 1py5A 326 2.08e+01 d.144.1.7 104389 1uh5A 329 2.09e+01 c.2.1.2 107840 1mkmA 249 2.10e+01 a.4.5.33,d.110.2.2 79242,79243 1lcjA 109 2.17e+01 1qadA d.93.1.1 40414 1ojhA 65 2.18e+01 a.214.1.1 103976 2b4aA 138 2.23e+01 1t3qB 788 2.33e+01 d.41.1.1,d.133.1.1 106369,106370 2gwnA 452 2.36e+01 1shsA 147 2.38e+01 1shsA b.15.1.1 23675 1iezA 217 2.44e+01 d.115.1.2 66129 1zkpA 268 2.46e+01 2bsyA 278 2.48e+01 1yjmA 110 2.59e+01 1koe 172 2.60e+01 1koe d.169.1.5 42448 1skyB 502 2.67e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18313,26478,32358 1h3gA 601 2.81e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1vjyA 303 2.87e+01 d.144.1.7 108633 1ifyA 49 2.88e+01 a.5.2.1 71207 2nsyA 271 2.90e+01 2nsyA c.26.2.1 31612 1nsyA 271 2.90e+01 2nsyA c.26.2.1 31614 1kqpA 271 2.90e+01 c.26.2.1 72883 1ih8A 271 2.90e+01 2nsyA c.26.2.1 62377 1reqD 637 2.92e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 7reqB 637 2.94e+01 1reqB c.1.19.1,c.23.6.1 29617,31244 1xdnA 277 2.94e+01 2b18A 164 2.96e+01 1lnzA 342 3.09e+01 b.117.1.1,c.37.1.8 78112,78113 1l1dA 152 3.14e+01 b.88.1.3 73452 1kw4A 89 3.20e+01 a.60.1.2 73077 1x47A 98 3.21e+01 1bzyA 217 3.21e+01 1qk3A c.61.1.1 34071 1tsm 316 3.24e+01 1bkpA d.117.1.1 41024 1viuA 203 3.28e+01 d.113.1.1 100771 1xtlA 175 3.29e+01 2c5qA 240 3.35e+01 1ijgA 309 3.40e+01 1fouA e.27.1.1 62493 1a97A 148 3.44e+01 1nulA c.61.1.1 34023 1vpqA 273 3.57e+01 1rxdA 159 3.58e+01 1lh0A 213 3.60e+01 c.61.1.1 73896 1eyqA 222 3.62e+01 1eypA d.36.1.1 38534 1jepA 222 3.62e+01 d.36.1.1 66612 1vraB 215 3.62e+01 1vc3B 97 3.63e+01 1eypA 222 3.64e+01 1eypA d.36.1.1 38536 1wvhA 134 3.79e+01 1s4iA 175 3.81e+01 1uheA 97 4.09e+01 1xfoA 357 4.12e+01 1shaA 104 4.12e+01 1fmk d.93.1.1 40424 2fojA 155 4.14e+01 1shbA 104 4.15e+01 1fmk d.93.1.1 40425 1yy6A 155 4.17e+01 1zclA 180 4.18e+01 1o50A 157 4.18e+01 d.37.1.1,d.37.1.1 92478,92479 2tscA 264 4.19e+01 1bkpA d.117.1.1 40952 1mk4A 157 4.28e+01 d.108.1.1 84979 1vplA 256 4.34e+01 1oi7A 288 4.35e+01 c.2.1.8,c.23.4.1 87049,87050 1t9fA 187 4.38e+01 b.42.6.1 106710 1xx6A 191 4.41e+01 1vchA 175 4.41e+01 1lckA 175 4.42e+01 1lckA b.34.2.1,d.93.1.1 24552,40421 1jmuB 666 4.45e+01 1y0yA 353 4.47e+01 1a1aA 107 4.65e+01 1fmk d.93.1.1 40449 1m5dA 263 4.70e+01 c.94.1.1 78641 1reqB 637 4.70e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1uzcA 71 4.72e+01 a.159.2.1 100222 1b0aA 288 4.72e+01 1a4iA c.2.1.7,c.58.1.2 30286,33934 1mqdA 261 4.73e+01 c.94.1.1 85049 1m5eA 263 4.74e+01 c.94.1.1 78642 1iieA 75 4.89e+01 1iieA a.109.1.1 19039 1jalA 363 4.93e+01 c.37.1.8,d.15.10.2 84138,84139 1iyu 79 4.93e+01 1iyu b.84.1.1 28227 1l5aA 436 4.97e+01 c.43.1.2,c.43.1.2 75923,75924 1wvqA 167 4.98e+01 1h5wA 309 4.98e+01 e.27.1.1 65635 1c9oA 66 4.99e+01 1mjc b.40.4.5 25325 1ybhA 590 5.06e+01 1avaC 181 5.15e+01 1avaC b.42.4.1 25604 2bs3A 656 5.15e+01 1gceA 364 5.18e+01 1gceA e.3.1.1 42738 1iarB 207 5.20e+01 1iarB b.1.2.1,b.1.2.1 22037,22038 1mqiA 263 5.28e+01 c.94.1.1 91398 1mjc 69 5.30e+01 1mjc b.40.4.5 25319 1siqA 392 5.30e+01 a.29.3.1,e.6.1.1 105585,105586 1l0bA 229 5.34e+01 c.15.1.3,c.15.1.3 73391,73392 1qlaA 656 5.35e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1o4rA 108 5.43e+01 d.93.1.1 92469 2f6uA 234 5.46e+01 1rypB 250 5.48e+01 1rypB d.153.1.4 41933 1o6dA 163 5.48e+01 c.116.1.3 92567 2ffsA 157 5.53e+01 1n0qA 93 5.61e+01 k.37.1.1 79754 1amz 435 5.62e+01 1csh a.103.1.1 18884 3mefA 69 5.65e+01 1mjc b.40.4.5 25320 1qhlA 227 5.67e+01 1qhlA c.37.1.12 32382 1h9oA 112 5.68e+01 1qadA d.93.1.1 60837 1yloA 348 5.82e+01 2f51A 118 5.84e+01 1a8vA 121 5.88e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 1bfi 112 5.88e+01 1qadA d.93.1.1 40499 1zq9A 285 5.89e+01 1ex2A 189 5.92e+01 1ex2A c.51.4.2 33225 1s50A 259 6.23e+01 1zn6A 227 6.23e+01 1grj 158 6.35e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1poiA 317 6.36e+01 1poiA c.124.1.2 34153 1egpA 45 6.47e+01 1egpA d.40.1.1 38561 1a81A 254 6.47e+01 1a81A d.93.1.1,d.93.1.1 40507,40508 1mvwB 145 6.51e+01 i.15.1.1 79524 1b7aA 186 6.60e+01 1a44 b.17.1.1 23705 2fe7A 166 6.67e+01 1w2iA 91 6.76e+01 d.58.10.1 109127 1hvyA 288 6.79e+01 1bkpA d.117.1.1 41049 1uc7A 125 6.83e+01 c.47.1.1 99163 2cwaA 263 6.93e+01 1gppA 237 7.04e+01 b.86.1.2 76262 1gmuA 143 7.05e+01 b.107.1.1,d.58.38.1 65335,65336 1a44 185 7.07e+01 1a44 b.17.1.1 23704 1rgzA 363 7.13e+01 e.3.1.1 97457 1onhA 364 7.15e+01 e.3.1.1 93357 1ga0A 364 7.17e+01 1gceA e.3.1.1 60410 1befA 181 7.27e+01 1befA b.47.1.3 26419 1o57A 291 7.30e+01 a.4.5.40,c.61.1.1 92483,92484 2bltA 361 7.30e+01 1gceA e.3.1.1 42739 1f2fA 104 7.31e+01 1fmk d.93.1.1 40455 1korA 400 7.34e+01 c.26.2.1,d.210.1.1 72824,72825 1y55X 126 7.34e+01 1g6hA 257 7.34e+01 1gajA c.37.1.12 60318 1gmwA 143 7.40e+01 b.107.1.1,d.58.38.1 65347,65348 1rd5A 262 7.41e+01 1xm0A 147 7.43e+01 2brfA 110 7.45e+01 2cyjA 118 7.45e+01 1wd5A 208 7.47e+01 1rgyA 360 7.47e+01 e.3.1.1 97456 1l1qA 186 7.56e+01 c.61.1.1 77653 1rl2A 137 7.57e+01 1rl2A b.34.5.3,b.40.4.5 24610,25342 2cu5A 129 7.65e+01 1hgxA 183 7.68e+01 1tc1A c.61.1.1 34027 1a62 130 7.69e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1uisA 231 7.82e+01 d.22.1.1 99431 1yh2A 175 7.92e+01 2bv9A 290 7.95e+01 1qk4A 233 7.95e+01 1qk3A c.61.1.1 34037 1sv6A 269 8.01e+01 d.177.1.1 106043 1zckA 154 8.12e+01 1jj2H 167 8.12e+01 1ffkF d.41.4.1 63093 1ffkF 157 8.15e+01 1ffkF d.41.4.1 38628 1enp 312 8.16e+01 1enp c.2.1.2 29906 1eno 312 8.18e+01 1enp c.2.1.2 29905 1xv5A 401 8.18e+01 1kk1A 410 8.19e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2awpA 198 8.38e+01 1g65K 211 8.48e+01 d.153.1.4 41907 2ahqA 76 8.48e+01 2fwhA 134 8.48e+01 1rypL 212 8.48e+01 d.153.1.4 41880 1gajA 257 8.49e+01 1gajA c.37.1.12 60416 1ako 268 8.51e+01 1ako d.151.1.1 41779 2ffuA 501 8.51e+01 1g2hA 61 8.63e+01 1g2hA a.4.1.12 60224 1zkkA 167 8.66e+01 1xewY 172 8.79e+01 1d7oA 297 8.79e+01 1enp c.2.1.2 29907 1vj0A 380 8.86e+01 b.35.1.2,c.2.1.1 100786,100787 1iw7C 1119 8.86e+01 e.29.1.1 71474 1htrB 329 8.88e+01 1smrA 1txyA 104 8.88e+01 1g5rA 196 8.91e+01 1g5rA c.37.1.11 32367 1g5tA 196 8.91e+01 1g5rA c.37.1.11 32366