# 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 7.46e-24 1g9oA 91 3.15e-23 1pdr b.36.1.1 60400 2fcfA 103 6.06e-23 1i92A 91 9.70e-23 1pdr b.36.1.1 61990 2fneA 117 2.28e-22 1tp5A 119 3.91e-22 1bfeA 119 7.31e-22 1pdr b.36.1.1 24775 1be9A 119 9.74e-22 1pdr b.36.1.1 24774 1qavA 90 1.44e-21 1qauA b.36.1.1 24777 1n7eA 97 1.85e-21 b.36.1.1 91691 1q3oA 109 2.02e-21 b.36.1.1 95700 1pdr 99 4.03e-21 1pdr b.36.1.1 24771 1n7fA 97 5.15e-21 b.36.1.1 91692 1qavB 115 5.30e-20 1qauA b.36.1.1 24780 1ihjA 98 7.17e-20 1pdr b.36.1.1 62382 1qauA 112 1.37e-19 1qauA b.36.1.1 24779 1l6oA 95 1.54e-19 b.36.1.1 84534 2h2bA 107 1.62e-19 1n99A 166 4.95e-19 b.36.1.1,b.36.1.1 85459,85460 1mfgA 95 9.87e-19 b.36.1.1 79043 2h3lA 103 1.06e-18 1kwaA 88 1.10e-18 1kwaA b.36.1.1 24772 2f0aA 98 1.48e-18 1nf3C 128 1.97e-18 b.36.1.1 85596 1b8qA 127 2.55e-18 1qauA b.36.1.1 24781 1wf7A 103 2.89e-18 1i16 130 3.42e-18 1i16 b.36.1.2 24787 1kwaB 88 6.49e-18 1kwaA b.36.1.1 24773 2f5yA 91 5.57e-17 1v5lA 103 8.34e-17 b.36.1.1 108378 1m5zA 91 7.57e-16 b.36.1.1 78676 1nteA 82 2.45e-15 b.36.1.1 86163 1r6jA 82 5.24e-15 b.36.1.1 97151 1fc6A 388 1.92e-14 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 4.99e-10 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 1.73e-09 1y8tA 324 8.04e-08 1ky9B 448 1.85e-07 b.36.1.4,b.36.1.4,b.47.1.1 73200,73201,73202 1sotA 320 7.18e-06 b.36.1.4,b.47.1.1 105852,105853 1ky9A 448 5.93e-05 b.36.1.4,b.47.1.1 73198,73199 1zn8A 180 7.01e-03 1qb7A 236 1.74e-02 1qb7A c.61.1.1 34087 1db3A 372 5.86e-02 1db3A c.2.1.2 29813 1ao0A 459 6.53e-02 1ecfB c.61.1.1,d.153.1.1 34049,41816 1gph1 465 7.00e-02 1ecfB 1t6t1 118 3.30e-01 1bx4A 345 3.38e-01 1bx4A c.72.1.1 34935 1g2qA 187 5.20e-01 c.61.1.1 65117 1q52A 314 7.93e-01 c.14.1.3 95846 1yg9A 330 8.19e-01 2d4pA 141 8.54e-01 2fe7A 166 9.39e-01 1zsyA 357 1.13e+00 1fdr 248 1.17e+00 1fdr b.43.4.2,c.25.1.1 25653,31543 2bh8A 101 1.20e+00 1ad3A 452 1.23e+00 1ad3A c.82.1.1 35335 1x3mA 415 1.46e+00 1ciqA 40 2.01e+00 2sniI d.40.1.1 38576 1opr 213 2.60e+00 1opr c.61.1.1 34091 1fxlA 167 3.03e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 1fxrA 64 3.14e+00 1fxd d.58.1.4 38993 1n6aA 259 3.19e+00 b.76.2.1,b.85.7.1 80121,80122 1uc2A 481 3.24e+00 d.261.1.1 99161 1vqqA 646 3.30e+00 1y0bA 197 3.38e+00 1mwrA 646 3.77e+00 d.17.4.5,d.175.1.1,e.3.1.1 79586,79587,79588 1r13A 148 4.14e+00 d.169.1.1,h.1.1.1 96782,96783 1lkkA 105 4.37e+00 1lckA d.93.1.1 40412 1lckA 175 4.41e+00 1lckA b.34.2.1,d.93.1.1 24552,40421 1csp 67 4.49e+00 1mjc b.40.4.5 25321 1rutX 188 4.54e+00 2f69A 261 4.64e+00 1yjmA 110 4.70e+00 1vheA 373 4.77e+00 b.49.3.1,c.56.5.4 100669,100670 1tys 265 4.86e+00 1bkpA d.117.1.1 40937 1axwA 265 4.86e+00 1bkpA d.117.1.1 40938 1evfA 264 4.90e+00 1bkpA d.117.1.1 40932 2g8oA 264 5.02e+00 1aiqA 264 5.09e+00 1bkpA d.117.1.1 40967 1qqqA 264 5.18e+00 1bkpA d.117.1.1 40931 1vkmA 297 5.19e+00 c.138.1.1 108670 2g8mA 264 5.30e+00 1mt6A 280 5.33e+00 b.76.2.1,b.85.7.1 79446,79447 3sxlA 184 5.50e+00 1b7fA d.58.7.1,d.58.7.1 39173,39174 1ggrA 168 5.61e+00 1gpr b.84.3.1 28279 1cis 66 5.70e+00 2sniI k.1.1.1 46375 2fa1A 160 5.86e+00 2fvgA 340 6.12e+00 1f3z 161 6.51e+00 1gpr b.84.3.1 28273 1coaI 64 6.62e+00 2sniI d.40.1.1 38574 1h3iA 293 6.78e+00 b.76.2.1,b.85.7.1 76635,76636 1mwsA 646 6.90e+00 d.17.4.5,d.175.1.1,e.3.1.1 79592,79593,79594 2ckiA 262 6.90e+00 2sxl 88 7.24e+00 1b7fA d.58.7.1 39179 2sniI 83 7.50e+00 2sniI d.40.1.1 38573 1lcjA 109 7.64e+00 1qadA d.93.1.1 40414 1fm0E 150 7.73e+00 1fmaE d.41.5.1 38629 1ti6A 875 7.74e+00 b.52.2.2,c.81.1.1 106974,106975 1fmaE 150 7.83e+00 1fmaE d.41.5.1 38630 1ecfB 504 7.88e+00 1ecfB c.61.1.1,d.153.1.1 34054,41821 1zm8A 259 7.91e+00 1dfd 64 8.31e+00 1fxd d.58.1.4 38995 1c9oA 66 8.36e+00 1mjc b.40.4.5 25325 1dax 64 8.37e+00 1fxd d.58.1.4 38996 1to2I 64 8.59e+00 1ecfA 504 8.77e+00 1ecfB c.61.1.1,d.153.1.1 34053,41820 1lh0A 213 8.91e+00 c.61.1.1 73896 1lw6I 64 9.27e+00 d.40.1.1 74294 1g7rA 594 9.53e+00 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25716,25717,31034,32149 3mefA 69 9.61e+00 1mjc b.40.4.5 25320 1jnyA 435 9.70e+00 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2c5qA 240 9.85e+00 1glaF 168 9.97e+00 1gpr b.84.3.1 28274 1xx6A 191 1.04e+01 1fr3A 67 1.08e+01 1fr3A b.40.6.1 25436 2ampA 304 1.11e+01 1mkmA 249 1.16e+01 a.4.5.33,d.110.2.2 79242,79243 1g57A 217 1.17e+01 1g57A d.115.1.2 60253 1vc3B 97 1.18e+01 2c9wA 169 1.25e+01 1earA 147 1.25e+01 b.107.1.1,d.58.38.1 64875,64876 2gwnA 452 1.28e+01 1lnzA 342 1.29e+01 b.117.1.1,c.37.1.8 78112,78113 1mjc 69 1.33e+01 1mjc b.40.4.5 25319 1kw4A 89 1.34e+01 a.60.1.2 73077 2brfA 110 1.34e+01 1lvoA 302 1.34e+01 b.47.1.4 74284 1reqD 637 1.38e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 7reqB 637 1.40e+01 1reqB c.1.19.1,c.23.6.1 29617,31244 1shsA 147 1.42e+01 1shsA b.15.1.1 23675 1se8A 301 1.47e+01 b.40.4.3 105448 1koe 172 1.53e+01 1koe d.169.1.5 42448 1eb0A 147 1.56e+01 b.107.1.1,d.58.38.1 64890,64891 1vraB 215 1.56e+01 1p9uA 302 1.56e+01 b.47.1.4 88001 1o6dA 163 1.60e+01 c.116.1.3 92567 2abwA 227 1.61e+01 1xfoA 357 1.62e+01 1w30A 201 1.65e+01 1ugmA 125 1.70e+01 d.15.1.3 107827 1ifyA 49 1.77e+01 a.5.2.1 71207 2bgiA 272 1.77e+01 2tscA 264 1.79e+01 1bkpA d.117.1.1 40952 1fsgA 233 1.82e+01 1qk3A c.61.1.1 34029 1t9fA 187 1.82e+01 b.42.6.1 106710 1jv2B 692 1.82e+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 1y0yA 353 1.84e+01 1g7sA 594 1.86e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1uh5A 329 1.94e+01 c.2.1.2 107840 1jalA 363 1.95e+01 c.37.1.8,d.15.10.2 84138,84139 2b4aA 138 2.01e+01 1x47A 98 2.06e+01 2f51A 118 2.07e+01 1ex2A 189 2.16e+01 1ex2A c.51.4.2 33225 1uisA 231 2.29e+01 d.22.1.1 99431 1nwaA 203 2.34e+01 d.58.28.1 86295 1g7tA 594 2.38e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25714,25715,31033,32148 1bfi 112 2.39e+01 1qadA d.93.1.1 40499 1hcz 252 2.49e+01 1hcz b.2.6.1,b.84.2.2 22464,28250 1iscA 192 2.51e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1isaA 192 2.51e+01 1avmA a.2.11.1,d.44.1.1 15731,38724 2cyjA 118 2.53e+01 1oi7A 288 2.58e+01 c.2.1.8,c.23.4.1 87049,87050 1reqB 637 2.59e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1iezA 217 2.63e+01 d.115.1.2 66129 1ojhA 65 2.70e+01 a.214.1.1 103976 1xtmA 175 2.75e+01 1wvhA 134 2.80e+01 1h3gA 601 2.82e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 2bsyA 278 2.83e+01 1l0bA 229 2.84e+01 c.15.1.3,c.15.1.3 73391,73392 1xdnA 277 2.84e+01 1ih8A 271 2.91e+01 2nsyA c.26.2.1 62377 2nsyA 271 2.91e+01 2nsyA c.26.2.1 31612 1tsm 316 2.92e+01 1bkpA d.117.1.1 41024 1kqpA 271 2.92e+01 c.26.2.1 72883 1nsyA 271 2.93e+01 2nsyA c.26.2.1 31614 1iyu 79 2.95e+01 1iyu b.84.1.1 28227 2f6uA 234 2.99e+01 2pcfB 250 3.03e+01 1hcz i.4.1.1 45911 1viuA 203 3.05e+01 d.113.1.1 100771 1txvB 440 3.05e+01 1l1qA 186 3.08e+01 c.61.1.1 77653 1h9oA 112 3.10e+01 1qadA d.93.1.1 60837 1epwA 1290 3.21e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1vpqA 273 3.23e+01 1js8A 394 3.23e+01 a.86.1.1,b.112.1.1 67219,67220 1wvqA 167 3.25e+01 1enp 312 3.28e+01 1enp c.2.1.2 29906 1eno 312 3.28e+01 1enp c.2.1.2 29905 1rxdA 159 3.30e+01 1xtlA 175 3.39e+01 1xv5A 401 3.42e+01 2aamA 309 3.44e+01 1zkpA 268 3.48e+01 1hvyA 288 3.49e+01 1bkpA d.117.1.1 41049 1vchA 175 3.52e+01 1befA 181 3.52e+01 1befA b.47.1.3 26419 1d7oA 297 3.53e+01 1enp c.2.1.2 29907 1skyB 502 3.58e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18313,26478,32358 1iieA 75 3.61e+01 1iieA a.109.1.1 19039 1s4iA 175 3.64e+01 1jzxK 205 3.67e+01 i.1.1.2 67885 1t3qB 788 3.67e+01 d.41.1.1,d.133.1.1 106369,106370 1zclA 180 3.69e+01 1b0aA 288 3.75e+01 1a4iA c.2.1.7,c.58.1.2 30286,33934 1zq9A 285 3.79e+01 1g8aA 227 3.80e+01 c.66.1.3 90506 1mlcB 218 3.89e+01 1igtB b.1.1.1,b.1.1.2 20053,21095 1shaA 104 3.91e+01 1fmk d.93.1.1 40424 1shbA 104 3.93e+01 1fmk d.93.1.1 40425 1korA 400 3.97e+01 c.26.2.1,d.210.1.1 72824,72825 1zn6A 227 3.97e+01 1l1dA 152 3.98e+01 b.88.1.3 73452 1bzyA 217 4.03e+01 1qk3A c.61.1.1 34071 1w94A 156 4.08e+01 1o4rA 108 4.08e+01 d.93.1.1 92469 1yloA 348 4.16e+01 1uc7A 125 4.24e+01 c.47.1.1 99163 1pqzA 238 4.28e+01 b.1.1.2,d.19.1.1 104297,104298 1txyA 104 4.31e+01 1b7fA 168 4.33e+01 1b7fA d.58.7.1,d.58.7.1 39169,39170 1b6cB 342 4.55e+01 1b6cB d.144.1.7 41673 2cwaA 263 4.59e+01 2c0cA 362 4.64e+01 1ybhA 590 4.67e+01 1gceA 364 4.75e+01 1gceA e.3.1.1 42738 1vkcA 158 4.80e+01 1uzcA 71 4.83e+01 a.159.2.1 100222 1gv3A 248 4.90e+01 a.2.11.1,d.44.1.1 70585,70586 1jv1A 505 4.92e+01 c.68.1.5 71892 1a8vA 121 4.98e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 1vj0A 380 5.00e+01 b.35.1.2,c.2.1.1 100786,100787 1a62 130 5.11e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1o57A 291 5.11e+01 a.4.5.40,c.61.1.1 92483,92484 1amz 435 5.23e+01 1csh a.103.1.1 18884 1f2fA 104 5.28e+01 1fmk d.93.1.1 40455 1vplA 256 5.31e+01 1egpA 45 5.34e+01 1egpA d.40.1.1 38561 1a1aA 107 5.37e+01 1fmk d.93.1.1 40449 1u58A 253 5.41e+01 2fwhA 134 5.47e+01 1rypB 250 5.48e+01 1rypB d.153.1.4 41933 2rmpA 361 5.59e+01 2rmpA b.50.1.2 26825 1ypcI 64 5.61e+01 2sniI d.40.1.1 38570 2gpr 154 5.65e+01 1gpr b.84.3.1 28269 1sv6A 269 5.66e+01 d.177.1.1 106043 1hkvA 453 5.68e+01 b.49.2.3,c.1.6.1 83559,83560 1b4uA 139 5.73e+01 1bouA a.88.1.1 18523 1h3qA 140 5.74e+01 d.110.4.3 76652 6paxA 133 5.75e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1dekA 241 5.81e+01 1dekA c.37.1.1 31842 1qadA 111 5.84e+01 1qadA d.93.1.1 40498 1w07A 659 5.86e+01 1o5oA 221 5.91e+01 c.61.1.1 92509 3proD 166 5.98e+01 3proC d.52.1.1,d.52.1.1 38814,38815 1qfwM 108 6.00e+01 32c2A b.1.1.1 20436 1oroA 213 6.03e+01 1opr c.61.1.1 34093 1v76A 96 6.10e+01 3proC 166 6.15e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1wlsA 328 6.16e+01 1rgyA 360 6.17e+01 e.3.1.1 97456 2ahqA 76 6.24e+01 1rgzA 363 6.28e+01 e.3.1.1 97457 1ypvA 313 6.28e+01 1onhA 364 6.29e+01 e.3.1.1 93357 1ga0A 364 6.33e+01 1gceA e.3.1.1 60410 2bltA 361 6.45e+01 1gceA e.3.1.1 42739 1wosA 364 6.50e+01 b.44.2.1,d.250.1.1 109468,109469 1g6hA 257 6.59e+01 1gajA c.37.1.12 60318 1hgxA 183 6.60e+01 1tc1A c.61.1.1 34027 1mvwB 145 6.61e+01 i.15.1.1 79524 1n0qA 93 6.64e+01 k.37.1.1 79754 1uheA 97 6.65e+01 1y7lA 316 6.75e+01 1gajA 257 6.79e+01 1gajA c.37.1.12 60416 1mq7A 154 6.80e+01 b.85.4.1 79404 1poiA 317 6.82e+01 1poiA c.124.1.2 34153 2cc0A 195 6.82e+01 1wnfA 328 6.83e+01 1qhlA 227 6.94e+01 1qhlA c.37.1.12 32382 1o50A 157 6.97e+01 d.37.1.1,d.37.1.1 92478,92479 1d8cA 723 7.01e+01 1d8cA c.1.13.1 29325 1p7tA 731 7.06e+01 c.1.13.1 94319 1s3iA 310 7.14e+01 b.46.1.1,c.65.1.1 98435,98436 1d4vB 163 7.16e+01 1d4vB b.22.1.1 23884 1olmA 403 7.26e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1xbd 87 7.28e+01 1xbd b.2.2.1 22389 1y1uA 585 7.29e+01 1lghB 45 7.31e+01 1lghB f.3.1.1 43734 1bouA 139 7.37e+01 1bouA a.88.1.1 18521 1qqrA 138 7.40e+01 1bmlC d.15.5.1 37721 1gmuA 143 7.41e+01 b.107.1.1,d.58.38.1 65335,65336 1nthA 458 7.50e+01 c.1.25.1 80730 1ge8A 249 7.51e+01 1plq d.131.1.2,d.131.1.2 41398,41399 1o6uA 403 7.57e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 2c27A 315 7.66e+01 1l5aA 436 7.69e+01 c.43.1.2,c.43.1.2 75923,75924 1a63 130 7.72e+01 1a62 a.140.3.1,b.40.4.5 64710,64711 1zh5A 195 7.73e+01 1b48A 221 7.80e+01 1pgtA a.45.1.1,c.47.1.5 17703,32997 1u9yA 284 7.84e+01 2bs3A 656 7.87e+01 1yqbA 100 7.91e+01 1yioA 208 7.92e+01 2gm5A 139 8.10e+01 1qlaA 656 8.12e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1s98A 107 8.31e+01 b.124.1.1 105377 1n3jA 119 8.37e+01 b.85.7.2 79963 2asi 360 8.37e+01 2rmpA b.50.1.2 26824 2d1pC 95 8.39e+01 1siqA 392 8.44e+01 a.29.3.1,e.6.1.1 105585,105586 1eulA 994 8.45e+01 1eulA 1g2hA 61 8.45e+01 1g2hA a.4.1.12 60224 1dioA 554 8.45e+01 1dioA c.1.19.3 29656 1fe0A 68 8.51e+01 1cc8A d.58.17.1 39345 1iq8A 582 8.55e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1vm8A 534 8.59e+01 1r62A 160 8.59e+01 d.122.1.3 104816 1v1qA 134 8.59e+01 1eexA 554 8.60e+01 1dioA c.1.19.3 29650 1mak 113 8.66e+01 8fabA b.1.1.1 19825 1a8y 367 8.67e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1npuA 117 8.67e+01 b.1.1.1 92038 1ug8A 87 8.77e+01 d.68.7.1 107825 1tyu 543 8.79e+01 1tyv b.80.1.6 28037 1bxeA 113 8.81e+01 1bxeA d.55.1.1 38898 1m5dA 263 8.84e+01 c.94.1.1 78641 1qa1A 554 8.89e+01 1tyv b.80.1.6 28047 1zkkA 167 8.99e+01