# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 2fh7A 595 9.18e-55 1larA 575 1.73e-54 1larA c.45.1.2,c.45.1.2 32693,32694 1rpmA 278 7.06e-54 2shpA c.45.1.2 32679 1yfoA 302 9.10e-54 2shpA c.45.1.2 32681 1p15A 253 3.23e-51 c.45.1.2 93894 2shpA 525 5.43e-50 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 2hnp 321 5.49e-50 1pty c.45.1.2 32678 1g7fA 298 2.05e-49 1pty c.45.1.2 60330 2f71A 298 2.14e-49 2b49A 287 2.25e-49 1a5y 330 2.40e-49 1pty c.45.1.2 32673 1pa1A 310 4.59e-49 c.45.1.2 94404 2b3oA 532 5.59e-49 1eeoA 321 8.05e-49 1pty c.45.1.2 32655 1aax 321 8.08e-49 1pty c.45.1.2 32657 1pty 321 8.30e-49 1pty c.45.1.2 32656 1ptvA 321 8.63e-49 1pty c.45.1.2 32665 2bzlA 325 2.73e-47 1wchA 315 5.61e-47 2bijA 305 1.74e-46 1jlnA 297 2.09e-46 1pty c.45.1.2 63172 2bv5A 282 2.33e-46 1yptA 305 6.70e-24 1ytw c.45.1.2 32686 1ytn 306 8.19e-24 1ytw c.45.1.2 32688 1ytw 306 2.25e-23 1ytw c.45.1.2 32689 1yts 278 5.01e-23 1ytw c.45.1.2 32690 1lyvA 306 5.42e-23 c.45.1.2 74348 1g4wR 383 6.94e-17 1g4uS a.24.11.1,c.45.1.2 16644,32692 1g4uS 383 1.95e-16 1g4uS a.24.11.1,c.45.1.2 16643,32691 1x24A 180 4.30e-11 1zclA 180 4.28e-10 1rxdA 159 4.37e-10 1zckA 154 4.41e-10 1oheA 348 1.95e-09 c.45.1.1,c.45.1.1 87013,87014 1fpzA 212 1.22e-07 1fpzA c.45.1.1 59976 1vhrA 184 3.15e-07 1vhrA c.45.1.1 32651 1d5rA 324 3.37e-06 1d5rA b.7.1.1,c.45.1.1 23181,32697 1wrmA 165 3.60e-06 1i9sA 210 4.43e-06 1i9sA c.45.1.1 62099 2c46A 241 6.79e-06 1yz4A 160 4.50e-05 1xriA 151 8.15e-05 1yn9A 169 1.02e-04 1mkp 144 1.20e-04 1vhrA c.45.1.1 32654 1lw3A 657 3.07e-04 b.55.1.8,c.45.1.3 91152,91153 1zsqA 528 3.24e-04 1ywfA 296 3.93e-04 1u24A 337 3.86e-03 2d5cA 263 6.91e-02 2cy0A 263 7.98e-02 1zq4A 693 9.91e-02 1wxdA 263 9.96e-02 1f48A 589 3.81e-01 1f48A c.37.1.10,c.37.1.10 32280,32281 1jroB 777 4.84e-01 d.41.1.1,d.133.1.1 67141,67142 1ihuA 589 6.48e-01 c.37.1.10,c.37.1.10 62394,62395 1wj7A 104 1.37e+00 1m1zA 513 1.85e+00 c.26.2.1,d.153.1.1 78457,78458 1jgtA 513 1.96e+00 c.26.2.1,d.153.1.1 66684,66685 1gvhA 396 1.99e+00 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1npyA 271 2.51e+00 c.2.1.7,c.58.1.5 85995,85996 1gskA 513 2.92e+00 b.6.1.3,b.6.1.3,b.6.1.3 83314,83315,83316 1fadA 99 3.19e+00 1fadA a.77.1.2 18428 1zsyA 357 3.61e+00 1us8A 147 3.65e+00 c.37.1.12 99859 1wr2A 238 3.98e+00 1xhlA 297 3.99e+00 c.2.1.2 109591 1b73A 254 4.05e+00 1b74A c.78.2.1,c.78.2.1 35266,35267 1e0cA 271 4.43e+00 1e0cA c.46.1.2,c.46.1.2 32717,32718 2f46A 156 4.51e+00 1b74A 254 4.98e+00 1b74A c.78.2.1,c.78.2.1 35264,35265 1z5vA 474 6.08e+00 1v37A 177 6.30e+00 1mnd 762 6.90e+00 1lvk b.34.3.1,c.37.1.9 24591,32188 1f2dA 341 7.23e+00 1f2dA c.79.1.1 35298 1vl4A 447 7.92e+00 d.283.1.1 108718 1h65A 270 8.41e+00 c.37.1.8 65640 1u5uA 374 8.76e+00 1jkmA 358 8.87e+00 1jkmA c.69.1.2 34633 1zh2A 121 9.37e+00 2bm8A 236 9.42e+00 1tzjA 338 9.46e+00 1ot1A 686 9.79e+00 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87392,87393,87394,87395 1f2tA 149 1.06e+01 1f2tA c.37.1.12 32373 2essA 248 1.09e+01 1f1oA 431 1.11e+01 1f1oA a.127.1.1 19433 1j0dA 341 1.12e+01 c.79.1.1 83902 1y10A 407 1.12e+01 1vkrA 125 1.25e+01 c.44.2.1 108689 1w6sA 599 1.29e+01 1rc9A 221 1.33e+01 1d3cA 686 1.35e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1h38D 883 1.41e+01 e.8.1.3 76628 1h38C 883 1.42e+01 e.8.1.3 76627 1k66A 149 1.44e+01 c.23.1.1 90941 1jkmB 361 1.45e+01 1jkmA c.69.1.2 34634 1rj9A 304 1.49e+01 a.24.13.1,c.37.1.10 97553,97554 1xkqA 280 1.53e+01 1qo7A 394 1.56e+01 1qo7A c.69.1.11 34697 1btmA 252 1.56e+01 1amk c.1.1.1 28513 1gn0A 108 1.59e+01 c.46.1.3 65358 1cxlA 686 1.68e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21829,22498,27736,28723 1gmxA 108 1.76e+01 c.46.1.3 65355 1ps1A 337 1.78e+01 1ps1A a.128.1.4 19450 1mswD 883 1.78e+01 e.8.1.3 79427 1zbxB 141 1.82e+01 1h38B 883 1.97e+01 e.8.1.3 76626 1uroA 367 2.00e+01 1uroA c.1.22.1 29675 1qg0A 308 2.05e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1xb3A 128 2.10e+01 1t3gA 159 2.11e+01 1i6wA 181 2.17e+01 1i6wA c.69.1.18 61859 1fpqA 372 2.20e+01 1fpqA a.4.5.29,c.66.1.12 59947,59948 1hcd 118 2.21e+01 1hce b.42.5.2 25624 1booA 323 2.23e+01 1booA c.66.1.11 34248 1i1qB 192 2.29e+01 1qdlB c.23.16.1 61544 1az3A 244 2.38e+01 1rvaA c.52.1.2 33276 1t9kA 347 2.39e+01 c.124.1.5 106721 1ur4A 399 2.46e+01 1ispA 181 2.48e+01 c.69.1.18 76778 1d8cA 723 2.49e+01 1d8cA c.1.13.1 29325 2btoA 473 2.49e+01 1ltlA 279 2.52e+01 b.40.4.11 84701 2b9lA 394 2.52e+01 1e5mA 416 2.52e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1qzzA 374 2.57e+01 a.4.5.29,c.66.1.12 96719,96720 1sjwA 144 2.58e+01 d.17.4.9 98899 1g60A 260 2.60e+01 c.66.1.11 70151 2ft6A 124 2.61e+01 1mvoA 136 2.61e+01 c.23.1.1 79513 2pna 104 2.61e+01 1qadA d.93.1.1 40501 1p7tA 731 2.61e+01 c.1.13.1 94319 1cpt 412 2.70e+01 1cpt a.104.1.1 18968 1fvuA 133 2.73e+01 1ixxB d.169.1.1 42345 1f0jA 377 2.75e+01 1f0jA a.211.1.2 19346 1xzwA 426 2.85e+01 1d0yA 761 2.88e+01 1lvk b.34.3.1,c.37.1.9 24581,32178 1eu8A 409 2.96e+01 1eu8A c.94.1.1 59502 1b5tA 275 2.99e+01 1b5tA c.1.23.1 29676 1r3sA 367 3.04e+01 c.1.22.1 96963 1gylA 369 3.04e+01 1gox c.1.4.1 28610 3tgl 269 3.17e+01 3tgl c.69.1.17 34733 1ako 268 3.17e+01 1ako d.151.1.1 41779 1vloA 381 3.18e+01 b.44.2.1,d.250.1.1 108838,108839 191l 164 3.20e+01 1l92 d.2.1.3 36826 1p0iA 529 3.22e+01 c.69.1.1 93867 1fmjA 351 3.25e+01 c.37.1.5 59879 1jffB 445 3.28e+01 c.32.1.1,d.79.2.1 62934,62935 1mn8A 100 3.28e+01 a.61.1.6 79318 1nnvA 110 3.30e+01 d.17.7.1 92012 1cp3A 277 3.35e+01 1pauA c.17.1.1 30992 4kbpA 432 3.35e+01 4kbpA b.1.12.1,d.159.1.1 22345,42064 1dbqA 289 3.44e+01 1qpzA c.93.1.1 35666 1usgA 346 3.45e+01 c.93.1.1 99864 2glzA 153 3.49e+01 1jftA 340 3.52e+01 a.35.1.5,c.93.1.1 66652,66653 1ms9A 648 3.55e+01 b.29.1.15,b.68.1.1 85088,85089 1qpzA 340 3.56e+01 1qpzA a.35.1.5,c.93.1.1 17097,35673 1ei6A 406 3.59e+01 c.76.1.4 90443 1oqcA 125 3.67e+01 a.24.15.1 87264 2f8lA 344 3.76e+01 1yqzA 438 3.89e+01 1lvk 762 3.95e+01 1lvk b.34.3.1,c.37.1.9 24576,32173 2ech 50 3.97e+01 1fvl g.20.1.1 44879 1fp1D 372 3.98e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1sly 618 3.98e+01 1qsaA a.118.5.1,d.2.1.6 19184,36990 1sx5A 244 4.08e+01 c.52.1.2 99023 190l 164 4.13e+01 1l92 d.2.1.3 36892 1m2xA 223 4.14e+01 d.157.1.1 84764 168lA 164 4.17e+01 1l92 d.2.1.3 36975 1zoiA 276 4.20e+01 1hce 118 4.20e+01 1hce b.42.5.2 25625 1j2lA 70 4.20e+01 g.20.1.1 90787 1p9rA 418 4.23e+01 c.37.1.11 94399 2ex4A 241 4.24e+01 1tvkA 440 4.25e+01 c.32.1.1,d.79.2.1 107362,107363 2b06A 155 4.32e+01 1vpwA 340 4.37e+01 1qpzA a.35.1.5,c.93.1.1 17087,35680 1igwA 434 4.45e+01 c.1.12.7 62370 1kbpA 432 4.45e+01 4kbpA b.1.12.1,d.159.1.1 22349,42068 1eq6A 189 4.58e+01 1eq6A d.107.1.1 40796 1pamA 686 4.58e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 1sx7A 164 4.74e+01 1t0iA 191 4.79e+01 c.23.5.4 106209 1rw2A 152 4.85e+01 a.118.19.1 97961 1zp4A 304 4.87e+01 1xksA 450 4.89e+01 1jffA 451 4.91e+01 c.32.1.1,d.79.2.1 62932,62933 1y44A 320 4.93e+01 2lbp 346 4.95e+01 2liv c.93.1.1 35709 1swyA 164 4.96e+01 2bjvA 265 5.00e+01 2akaA 776 5.12e+01 1j75A 67 5.23e+01 a.4.5.19 62673 1skz 119 5.28e+01 1skz g.3.15.1,g.3.15.1 44366,44367 1al8 359 5.29e+01 1gox c.1.4.1 28608 1jf9A 408 5.29e+01 1c0nA c.67.1.3 62931 1hg3A 225 5.31e+01 1hg3A c.1.1.1 61025 4rhn 115 5.32e+01 1kpf d.13.1.1 37495 1q2zA 120 5.33e+01 a.118.19.1 95656 1wstA 417 5.35e+01 155l 164 5.38e+01 1l92 d.2.1.3 36762 1bssA 244 5.48e+01 1rvaA c.52.1.2 33256 1gox 370 5.61e+01 1gox c.1.4.1 28607 1agx 331 5.66e+01 4pgaA c.88.1.1 35564 1syxB 86 5.81e+01 2pgd 482 5.84e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1o3uA 135 5.84e+01 a.24.16.3 86615 1wy9A 147 5.86e+01 1b96A 244 5.87e+01 1rvaA c.52.1.2 33268 1kwnA 207 5.90e+01 b.25.1.1 77568 2fsxA 148 5.93e+01 1l58 164 5.95e+01 1l92 d.2.1.3 36635 1sffA 426 6.00e+01 c.67.1.4 105482 1wetA 340 6.17e+01 1qpzA a.35.1.5,c.93.1.1 17093,35670 1omiA 248 6.20e+01 b.82.3.3,a.4.5.4 87079,87080 1ysc 421 6.21e+01 1ivyA c.69.1.5 34652 1li5A 461 6.31e+01 a.27.1.1,c.26.1.1 73912,73913 1cpy 421 6.37e+01 1ivyA c.69.1.5 34651 1c30B 382 6.42e+01 c.8.3.1,c.23.16.1 30736,31413 1n2eA 300 6.46e+01 c.26.1.4 85268 1fvl 70 6.49e+01 1fvl g.20.1.1 44880 1qsaA 618 6.55e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1tubA 440 6.59e+01 1tubA c.32.1.1,d.79.2.1 31751,39803 1c3oB 382 6.60e+01 1c3oB c.8.3.1,c.23.16.1 30744,31421 1tfr 305 6.61e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1rqwA 207 6.63e+01 b.25.1.1 97781 2c1mB 46 6.67e+01 2cb2A 318 6.68e+01 1zcjA 463 6.69e+01 1thv 207 6.76e+01 1thv b.25.1.1 23904 2tscA 264 6.78e+01 1bkpA d.117.1.1 40952 2bgcA 238 6.95e+01 1a54A 321 7.00e+01 1ixh c.94.1.1 35763 1i7qB 193 7.00e+01 1qdlB c.23.16.1 61902 1tbbA 332 7.04e+01 a.211.1.2 106741 1x6oA 174 7.13e+01 b.34.5.2,b.40.4.5 109493,109494 1cs0B 382 7.19e+01 1c3oB c.8.3.1,c.23.16.1 30740,31417 1fp2A 352 7.24e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 2b43A 526 7.29e+01 2astC 69 7.39e+01 1q1fA 151 7.39e+01 a.1.1.2 104476 1x7dA 350 7.45e+01 2rhe 114 7.45e+01 8fabA b.1.1.1 20523 1c25 161 7.49e+01 1c25 c.46.1.1 32698 1b97A 244 7.55e+01 1rvaA c.52.1.2 33252 1z7dA 433 7.61e+01 1b37A 472 7.63e+01 1b37B c.3.1.2,d.16.1.5 30389,37953 1axwA 265 7.73e+01 1bkpA d.117.1.1 40938 4ubpB 126 7.75e+01 1ubpB b.85.3.1 28345 1thw 207 7.81e+01 1thv b.25.1.1 23903 1hdmA 201 7.90e+01 1iakA b.1.1.2,d.19.1.1 21583,38157 1nubA 229 7.95e+01 1sra a.39.1.3,g.3.11.3,g.68.1.1 17191,44330,44715 165l 164 7.99e+01 1l92 d.2.1.3 36680 1dktB 79 8.04e+01 1puc d.97.1.1 40688 1ixh 321 8.08e+01 1ixh c.94.1.1 35761 1gqyA 475 8.10e+01 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1b94A 244 8.11e+01 1rvaA c.52.1.2 33250 1qvaA 223 8.13e+01 1qvaA c.37.1.19 32411 1omzA 293 8.16e+01 c.68.1.15 87093 1t6nA 220 8.19e+01 c.37.1.19 106576 1nmeA 146 8.26e+01 c.17.1.1 85874 1evfA 264 8.31e+01 1bkpA d.117.1.1 40932 1sviA 195 8.41e+01 c.37.1.8 106048 169lA 164 8.58e+01 1l92 d.2.1.3 36963 1d1dA 262 8.60e+01 1d1dA a.28.3.1,a.73.1.1 16958,18335 1iv8A 720 8.66e+01 b.71.1.1,c.1.8.1 76842,76843 1udsA 255 8.68e+01 d.14.1.4,d.101.1.1 99219,99220 1ru8A 232 8.70e+01 c.26.2.1 97849 1kpf 126 8.76e+01 1kpf d.13.1.1 37507 1jwiA 131 8.82e+01 d.169.1.1 67383 1h2kA 349 8.90e+01 b.82.2.6 76572 1eonA 245 8.92e+01 1rvaA c.52.1.2 33238 1tys 265 8.94e+01 1bkpA d.117.1.1 40937 2cxxA 190 8.95e+01