# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1fo5A 85 3.77e-03 1fo5A c.47.1.1 59922 1egr 85 1.00e-02 1kte c.47.1.1 32765 1qfnA 85 3.00e-02 1qfnA c.47.1.1 32768 1hyuA 521 3.12e-02 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1ego 85 5.22e-02 1kte c.47.1.1 32767 1kte 105 1.17e-01 1kte c.47.1.1 32771 2ay1A 394 1.24e-01 1ajsA c.67.1.1 34357 1ksiB 642 2.05e-01 1ksiB b.30.2.1 24409 d.17.2.1 38045 d.17.2.1 38046 1ksiA 642 2.07e-01 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1o94A 729 2.88e-01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1b1cA 181 2.98e-01 1amoA c.23.5.2 31212 1s4nA 348 3.83e-01 unknown_sccs -8262 1grx 85 4.12e-01 1kte c.47.1.1 32766 1djnA 729 5.39e-01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 2tmdA 729 5.54e-01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1ja1A 622 9.91e-01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1f3aA 222 1.00e+00 1pgtA a.45.1.1 17701 c.47.1.5 32995 1jhb 106 1.09e+00 1kte c.47.1.1 32772 1gseA 221 1.12e+00 1pgtA a.45.1.1 17667 c.47.1.5 32961 2tpsA 227 1.17e+00 2tpsA c.1.3.1 28591 1hmcB 148 1.32e+00 1hmcB a.26.1.2 16868 1iyxA 432 1.37e+00 c.1.11.1 83815 d.54.1.1 83816 1k3lA 221 1.46e+00 a.45.1.1 77229 c.47.1.5 77230 1ajsA 412 1.67e+00 1ajsA c.67.1.1 34276 1k3yA 221 1.70e+00 a.45.1.1 77245 c.47.1.5 77246 1idm 343 1.73e+00 1cnzA c.77.1.1 35035 1amoA 615 1.84e+00 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1xgsA 295 2.11e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 1vid 221 2.37e+00 1vid c.66.1.1 34178 1j3vA 289 2.54e+00 a.100.1.1 -1303 c.2.1.6 -5947 1ecxA 384 2.69e+00 1ecxA c.67.1.3 34431 1eg5A 384 2.72e+00 1ecxA c.67.1.3 34429 1ax4A 467 3.04e+00 1ax4A c.67.1.2 34391 1r8sA 164 3.14e+00 c.37.1.8 -7082 4enl 436 3.25e+00 4enl c.1.11.1 29202 d.54.1.1 38846 1qdlB 195 3.34e+00 1qdlB c.23.16.1 31437 1gqoR 143 3.42e+00 c.23.13.1 76312 1e9iA 431 3.47e+00 c.1.11.1 64818 d.54.1.1 64819 1gqoX 143 3.48e+00 c.23.13.1 76317 1bykA 255 3.57e+00 1bykA c.93.1.1 35706 1ipd 345 3.64e+00 1cnzA c.77.1.1 35038 1s6yA 450 3.77e+00 1igwA 434 4.15e+00 c.1.12.7 62370 1o3yA 166 4.25e+00 c.37.1.8 86618 1j2iA 166 4.29e+00 1hv8A 367 4.40e+00 1hv8A c.37.1.19 32405 c.37.1.19 32406 1j6oA 268 4.59e+00 c.1.9.12 77088 1im4A 221 4.89e+00 unknown_sccs 62581 1h75A 81 5.12e+00 1h75A c.47.1.1 60716 1oneA 436 5.25e+00 4enl c.1.11.1 29200 d.54.1.1 38844 1dr8B 344 5.31e+00 1cnzA c.77.1.1 35052 1h1dA 221 5.38e+00 c.66.1.1 83452 1gqoH 143 5.42e+00 c.23.13.1 76302 1r5tA 142 5.51e+00 1toaA 313 5.56e+00 1toaA c.92.2.2 35598 1r5pA 108 5.56e+00 unknown_sccs -7487 1dp4A 435 5.79e+00 1dp4A c.93.1.1 35710 1fn9A 365 5.84e+00 1fn9A d.196.1.1 59894 1gqoK 143 6.11e+00 c.23.13.1 76305 1ry9A 145 6.22e+00 d.198.1.1 -9020 1jqeA 292 6.60e+00 c.66.1.19 71789 1jx4A 352 6.67e+00 unknown_sccs -10188 unknown_sccs -11898 1gqoU 143 7.01e+00 c.23.13.1 76315 1gqoN 143 7.26e+00 c.23.13.1 76308 1pta 318 7.34e+00 1pscA c.1.9.3 29064 1sviA 195 7.43e+00 1io2A 213 7.57e+00 1ekeA c.55.3.1 62612 1d3yA 301 7.77e+00 1d3yA e.12.1.1 43252 1gqoF 143 7.82e+00 c.23.13.1 76300 1gqoI 143 7.92e+00 c.23.13.1 76303 1eu8A 409 8.41e+00 1eu8A c.94.1.1 59502 1hxhA 253 8.50e+00 c.2.1.2 76725 1ej6A 1289 8.89e+00 i.7.1.1 45967 1jb9A 316 9.18e+00 1fnc b.43.4.2 62840 c.25.1.1 62841 1k0fA 277 9.19e+00 c.92.2.2 71974 1puiA 210 9.25e+00 c.37.1.8 88292 1jfrA 262 9.25e+00 1jfrA c.69.1.16 34724 1vjgA 218 9.33e+00 unknown_sccs -6447 1gqoD 143 9.47e+00 c.23.13.1 76298 1gqoL 143 9.56e+00 c.23.13.1 76306 1awe 130 9.77e+00 1awe b.55.1.1 26968 1gcb 454 9.86e+00 3gcb d.3.1.1 37034 1ntr 124 9.98e+00 1dbwA c.23.1.1 31092 1j0fA 100 1.00e+01 unknown_sccs -7483 3gcb 470 1.03e+01 3gcb d.3.1.1 37032 1a6r 471 1.03e+01 3gcb d.3.1.1 37033 1gp6A 356 1.04e+01 b.82.2.1 65441 1ffkI 194 1.06e+01 1ffkI d.12.1.2 37494 1gqoC 143 1.07e+01 c.23.13.1 76297 1co4A 42 1.08e+01 1co4A g.47.1.1 45347 1rjdA 334 1.09e+01 unknown_sccs -8079 1orvA 728 1.13e+01 b.70.3.1 87354 c.69.1.24 87355 1gqoY 143 1.14e+01 c.23.13.1 76318 1quqB 121 1.14e+01 1quqB b.40.4.3 25305 1pb1A 416 1.17e+01 c.77.1.1 88014 1gqoB 143 1.19e+01 c.23.13.1 76296 1aba 87 1.19e+01 1aba c.47.1.1 32760 1s1hM 132 1.19e+01 7icd 416 1.20e+01 1iso c.77.1.1 35072 2oneA 436 1.25e+01 4enl c.1.11.1 29203 d.54.1.1 38847 1cne 270 1.30e+01 1ndh b.43.4.2 25661 c.25.1.1 31551 1de4C 640 1.34e+01 1cx8B a.48.2.1 17779 c.8.4.1 30760 c.56.5.5 33848 1gqoV 143 1.35e+01 c.23.13.1 76316 1gp4A 356 1.36e+01 b.82.2.1 65439 1f61A 429 1.38e+01 1dquA c.1.12.7 29319 1gqoO 143 1.42e+01 c.23.13.1 76309 1gqoT 143 1.42e+01 c.23.13.1 76314 1gqoE 143 1.42e+01 c.23.13.1 76299 1gqoS 143 1.42e+01 c.23.13.1 76313 1pzxA 289 1.45e+01 c.119.1.1 -8623 1f37A 110 1.47e+01 1f37A c.47.1.11 33088 1hizA 379 1.49e+01 c.1.8.3 65841 1tbaB 180 1.49e+01 1ytbA d.129.1.1 41286 d.129.1.1 41287 1n2zA 245 1.50e+01 c.92.2.2 79865 1edg 380 1.53e+01 1edg c.1.8.3 28807 1gqoJ 143 1.54e+01 c.23.13.1 76304 1r9dA 787 1.57e+01 8rucA 475 1.59e+01 1burA c.1.14.1 29339 d.58.9.1 39245 1ytbB 180 1.61e+01 1ytbA d.129.1.1 41278 d.129.1.1 41279 1h2wA 710 1.62e+01 b.69.7.1 76596 c.69.1.4 76597 1eywA 331 1.63e+01 1pscA c.1.9.3 29057 1mh1 186 1.63e+01 1eesA c.37.1.8 32002 1gqoP 143 1.67e+01 c.23.13.1 76310 1cnv 299 1.69e+01 1cnv c.1.8.5 28989 1gqoQ 143 1.72e+01 c.23.13.1 76311 1lvl 458 1.83e+01 1lvl c.3.1.5 30567 c.3.1.5 30568 d.87.1.1 40205 1i0dA 332 1.88e+01 1pscA c.1.9.3 61487 1e8nA 710 1.90e+01 1qfmA b.69.7.1 27675 c.69.1.4 34643 1h2xA 710 1.92e+01 b.69.7.1 76598 c.69.1.4 76599 1b1a 137 1.92e+01 1be1 c.23.6.1 31242 1qfmA 710 1.92e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1s0uA 408 1.97e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1oeqA 418 1.98e+01 1adoA 363 2.02e+01 1fbaA c.1.10.1 29124 1uptA 171 2.03e+01 c.37.1.8 -7085 1exbA 332 2.07e+01 1qrqA c.1.7.1 28666 1qrqA 325 2.08e+01 1qrqA c.1.7.1 28667 1hmcA 148 2.10e+01 1hmcB a.26.1.2 16867 1f89A 291 2.12e+01 d.160.1.1 64988 1oen 540 2.13e+01 1ayl c.91.1.1 64750 c.109.1.1 64751 1eo6A 117 2.14e+01 1eo6A d.15.1.3 37609 1nycA 111 2.15e+01 unknown_sccs -4522 1st9A 143 2.16e+01 c.47.1.10 -7503 1hn0A 1021 2.16e+01 a.102.3.2 83616 b.18.1.17 83617 b.24.1.1 83618 b.30.5.2 83619 1r5jA 337 2.18e+01 unknown_sccs -8471 1ayl 541 2.19e+01 1ayl c.91.1.1 64718 c.109.1.1 64719 1mek 120 2.19e+01 1erv c.47.1.2 32775 1ghr 306 2.19e+01 1aq0A c.1.8.3 28844 1exqA 154 2.26e+01 1b9dA c.55.3.2 33646 1pvyA 227 2.27e+01 d.115.1.2 -10937 1fsz 372 2.29e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1be1 137 2.29e+01 1be1 c.23.6.1 31237 1gk8A 475 2.31e+01 c.1.14.1 65234 d.58.9.1 65235 1n6eA 1071 2.31e+01 b.36.1.3 80149 b.68.7.1 80150 b.69.9.1 80151 c.14.1.2 80152 1kamA 194 2.32e+01 c.26.1.3 72254 1c8bA 371 2.33e+01 1c8bA c.56.1.2 59082 1ghsA 306 2.33e+01 1aq0A c.1.8.3 28840 3grx 82 2.34e+01 1aba c.47.1.1 32769 1r4aA 165 2.35e+01 c.37.1.8 -7089 1vhxA 150 2.36e+01 unknown_sccs -7663 1k32A 1045 2.37e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1orrA 347 2.39e+01 c.2.1.2 -5776 2btvA 901 2.40e+01 2btvA e.28.1.1 43376 1dcfA 136 2.40e+01 1dcfA c.23.1.2 31124 1sra 151 2.41e+01 1sra a.39.1.3 17190 1ogiA 303 2.41e+01 b.43.4.2 -4042 c.25.1.1 -6587 1gqoM 143 2.42e+01 c.23.13.1 76307 1gqoG 143 2.43e+01 c.23.13.1 76301 1jalA 363 2.44e+01 c.37.1.8 84138 d.15.10.2 84139 1jo0A 98 2.47e+01 d.68.4.1 77140 1ebfA 358 2.47e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1dctA 324 2.47e+01 6mhtA c.66.1.26 34244 1vsd 152 2.49e+01 1cxqA c.55.3.2 33625 1hzyA 332 2.55e+01 1pscA c.1.9.3 61468 821p 166 2.62e+01 1ctqA c.37.1.8 31969 1v1rA 400 2.65e+01 1ctqA 166 2.67e+01 1ctqA c.37.1.8 31965 1ky3A 182 2.70e+01 c.37.1.8 73193 1b9dA 163 2.73e+01 1b9dA c.55.3.2 33649 1bw0A 416 2.74e+01 1bw0A c.67.1.1 34385 1r2qA 170 2.75e+01 c.37.1.8 -7071 5p21 166 2.78e+01 1ctqA c.37.1.8 31966 1kczA 413 2.85e+01 c.1.11.2 68451 d.54.1.1 68452 1uxoA 192 2.90e+01 1dqwA 267 2.90e+01 1dqwA c.1.2.3 28551 1qw9A 502 2.95e+01 b.71.1.2 -4677 c.1.8.3 -5348 1tplA 426 2.97e+01 1ax4A c.67.1.2 34387 1m2dA 110 3.01e+01 c.47.1.11 78476 1ns5A 155 3.01e+01 c.116.1.3 80705 1sep 261 3.03e+01 1oaa c.2.1.2 29830 1eriA 276 3.04e+01 1ckqA c.52.1.1 33231 1aje 194 3.06e+01 1ctqA c.37.1.8 32071 2pgd 482 3.09e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1bl3A 160 3.12e+01 1b9dA c.55.3.2 33655 1okgA 373 3.13e+01 c.46.1.2 -7367 c.46.1.2 -7368 unknown_sccs -9494 1i92A 91 3.14e+01 1pdr b.36.1.1 61990 1cl8A 276 3.14e+01 1ckqA c.52.1.1 33230 1qpsA 261 3.14e+01 1ckqA c.52.1.1 33234 1ckqA 276 3.15e+01 1ckqA c.52.1.1 33229 1q7zA 566 3.17e+01 c.1.21.2 -5638 c.1.26.1 -5666 1bu8A 452 3.23e+01 1gpl b.12.1.2 23647 c.69.1.19 34795 1vjqA 79 3.34e+01 unknown_sccs -13478 1ub3A 220 3.39e+01 c.1.10.1 88395 1ytbA 180 3.40e+01 1ytbA d.129.1.1 41276 d.129.1.1 41277 1h70A 255 3.41e+01 1h70A d.126.1.3 60711 1f2dA 341 3.53e+01 1f2dA c.79.1.1 35298 1k28A 584 3.58e+01 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 1olsA 400 3.58e+01 c.36.1.11 -6959 1i2mA 216 3.60e+01 1byuA c.37.1.8 61568 1spa 396 3.60e+01 1ajsA c.67.1.1 34291 1iso 416 3.63e+01 1iso c.77.1.1 35065 1dq3A 454 3.66e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1qc9A 276 3.67e+01 1ckqA c.52.1.1 33235 1ukuA 102 3.73e+01 d.58.5.2 -9992 2pth 193 3.73e+01 2pth c.56.3.1 33793 2ae2A 260 3.73e+01 1bdb c.2.1.2 29945 1nnwA 252 3.80e+01 d.159.1.5 80674 1dd8A 406 3.83e+01 1dd8A c.95.1.1 35932 c.95.1.1 35933 1f8mA 429 3.85e+01 1dquA c.1.12.7 29315 1qg0A 308 3.86e+01 1fnc b.43.4.2 25639 c.25.1.1 31529 1usuB 170 3.88e+01 unknown_sccs -10492 1fc6A 388 3.89e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1jndA 420 3.90e+01 c.1.8.5 71757 d.26.3.1 71758 1m2xA 223 3.90e+01 d.157.1.1 84764 1jd5A 124 3.91e+01 g.52.1.1 66544 1ek4A 418 3.94e+01 1dd8A c.95.1.1 59436 c.95.1.1 59437 1h7eA 245 3.98e+01 c.68.1.13 60717