# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1.07e-03 1fo5A c.47.1.1 59922 1egr 85 1.90e-03 1kte c.47.1.1 32765 1hyuA 521 7.03e-03 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1ego 85 9.67e-03 1kte c.47.1.1 32767 1ksiB 642 3.19e-02 1ksiB b.30.2.1 24409 d.17.2.1 38045 d.17.2.1 38046 1ksiA 642 3.22e-02 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1qfnA 85 4.04e-02 1qfnA c.47.1.1 32768 1grx 85 5.45e-02 1kte c.47.1.1 32766 1kte 105 1.50e-01 1kte c.47.1.1 32771 1jhb 106 1.98e-01 1kte c.47.1.1 32772 1s4nA 348 2.20e-01 unknown_sccs -8262 1j3vA 289 5.28e-01 a.100.1.1 -1303 c.2.1.6 -5947 1k3lA 221 5.92e-01 a.45.1.1 77229 c.47.1.5 77230 1k3yA 221 5.92e-01 a.45.1.1 77245 c.47.1.5 77246 1o94A 729 6.72e-01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 2ay1A 394 7.14e-01 1ajsA c.67.1.1 34357 1gseA 221 7.49e-01 1pgtA a.45.1.1 17667 c.47.1.5 32961 1djnA 729 7.76e-01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1ej6A 1289 7.99e-01 i.7.1.1 45967 2tmdA 729 8.23e-01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1f3aA 222 8.27e-01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1bykA 255 1.00e+00 1bykA c.93.1.1 35706 1im4A 221 1.47e+00 unknown_sccs 62581 1jx4A 352 1.60e+00 unknown_sccs -10188 unknown_sccs -11898 1ecxA 384 1.80e+00 1ecxA c.67.1.3 34431 1eg5A 384 1.84e+00 1ecxA c.67.1.3 34429 1gcb 454 2.31e+00 3gcb d.3.1.1 37034 1a6r 471 2.65e+00 3gcb d.3.1.1 37033 3gcb 470 2.65e+00 3gcb d.3.1.1 37032 1iyxA 432 2.71e+00 c.1.11.1 83815 d.54.1.1 83816 1jqeA 292 2.77e+00 c.66.1.19 71789 1ytbA 180 2.86e+00 1ytbA d.129.1.1 41276 d.129.1.1 41277 1ytbB 180 2.92e+00 1ytbA d.129.1.1 41278 d.129.1.1 41279 1h75A 81 2.96e+00 1h75A c.47.1.1 60716 1dp4A 435 2.99e+00 1dp4A c.93.1.1 35710 1tbaB 180 3.02e+00 1ytbA d.129.1.1 41286 d.129.1.1 41287 1fn9A 365 3.06e+00 1fn9A d.196.1.1 59894 1s6yA 450 3.06e+00 1hv8A 367 3.41e+00 1hv8A c.37.1.19 32405 c.37.1.19 32406 1hmcA 148 4.34e+00 1hmcB a.26.1.2 16867 1vid 221 4.66e+00 1vid c.66.1.1 34178 1ddeA 338 5.26e+00 1dd9A e.13.1.1 43255 1ajsA 412 5.44e+00 1ajsA c.67.1.1 34276 1b1cA 181 5.65e+00 1amoA c.23.5.2 31212 1m2dA 110 5.74e+00 c.47.1.11 78476 1xgsA 295 5.75e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 1zfjA 491 6.20e+00 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1a2vA 655 6.44e+00 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1f37A 110 6.58e+00 1f37A c.47.1.11 33088 1hizA 379 6.68e+00 c.1.8.3 65841 1hmcB 148 7.67e+00 1hmcB a.26.1.2 16868 1r5tA 142 8.02e+00 1eqnA 321 8.07e+00 1dd9A e.13.1.1 43256 1m2aA 110 8.09e+00 c.47.1.11 78472 1qdlB 195 8.18e+00 1qdlB c.23.16.1 31437 1ucdA 190 8.54e+00 1ucaA 190 8.61e+00 d.124.1.1 88462 1co4A 42 8.73e+00 1co4A g.47.1.1 45347 1m2bA 110 8.81e+00 c.47.1.11 78474 1dd9A 338 8.86e+00 1dd9A e.13.1.1 43254 1cqzA 554 8.88e+00 1cr6B c.108.1.2 43339 c.69.1.11 34689 4enl 436 8.92e+00 4enl c.1.11.1 29202 d.54.1.1 38846 1cdwA 179 9.02e+00 1ytbA d.129.1.1 41212 d.129.1.1 41213 1gqoX 143 9.02e+00 c.23.13.1 76317 1fsz 372 9.23e+00 1fsz c.32.1.1 31750 d.79.2.1 39802 1o0pA 104 9.39e+00 d.58.7.1 86535 1gpl 432 9.44e+00 1gpl b.12.1.2 23645 c.69.1.19 34793 1ry9A 145 9.49e+00 d.198.1.1 -9020 1whtA 256 9.49e+00 1ivyA c.69.1.5 34646 1bk7A 190 9.56e+00 1bk7A d.124.1.1 41121 1r26A 125 9.77e+00 c.47.1.1 -7389 1t1vA 93 1.02e+01 1jmoA 480 1.11e+01 e.1.1.1 77138 1dcfA 136 1.14e+01 1dcfA c.23.1.2 31124 1h1dA 221 1.18e+01 c.66.1.1 83452 2tpsA 227 1.19e+01 2tpsA c.1.3.1 28591 1j2iA 166 1.23e+01 1o3yA 166 1.23e+01 c.37.1.8 86618 1gqoH 143 1.24e+01 c.23.13.1 76302 1eu8A 409 1.31e+01 1eu8A c.94.1.1 59502 1j08A 226 1.36e+01 c.47.1.2 83855 c.47.1.2 83856 1jvwA 167 1.36e+01 d.26.1.1 71907 1whsA 255 1.37e+01 1ivyA c.69.1.5 34649 1r8sA 164 1.37e+01 c.37.1.8 -7082 1bcsA 263 1.38e+01 1ivyA c.69.1.5 34647 1gqoK 143 1.40e+01 c.23.13.1 76305 1r5pA 108 1.41e+01 unknown_sccs -7487 1idm 343 1.43e+01 1cnzA c.77.1.1 35035 1p4xA 250 1.44e+01 a.4.5.28 87784 a.4.5.28 87785 2oneA 436 1.46e+01 4enl c.1.11.1 29203 d.54.1.1 38847 1s0uA 408 1.48e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1j6oA 268 1.51e+01 c.1.9.12 77088 1mek 120 1.51e+01 1erv c.47.1.2 32775 1pmt 203 1.53e+01 1a0fA a.45.1.1 17740 c.47.1.5 33034 1sxrA 183 1.55e+01 1igwA 434 1.59e+01 c.1.12.7 62370 1ut9A 609 1.60e+01 a.102.1.2 -1326 b.1.18.2 -2710 1sep 261 1.63e+01 1oaa c.2.1.2 29830 1gqoF 143 1.65e+01 c.23.13.1 76300 1gqoR 143 1.65e+01 c.23.13.1 76312 1hn0A 1021 1.67e+01 a.102.3.2 83616 b.18.1.17 83617 b.24.1.1 83618 b.30.5.2 83619 1gqoY 143 1.69e+01 c.23.13.1 76318 1ipd 345 1.75e+01 1cnzA c.77.1.1 35038 1ja1A 622 1.83e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1pta 318 1.86e+01 1pscA c.1.9.3 29064 2aat 396 1.87e+01 1ajsA c.67.1.1 34348 1oaa 259 1.87e+01 1oaa c.2.1.2 29829 7icd 416 1.88e+01 1iso c.77.1.1 35072 1thx 115 1.89e+01 1thx c.47.1.1 32732 1hmpA 217 1.97e+01 1qk3A c.61.1.1 34075 1d3yA 301 1.97e+01 1d3yA e.12.1.1 43252 1cnv 299 1.97e+01 1cnv c.1.8.5 28989 1awe 130 2.02e+01 1awe b.55.1.1 26968 1gqoB 143 2.07e+01 c.23.13.1 76296 1jalA 363 2.11e+01 c.37.1.8 84138 d.15.10.2 84139 1gqoI 143 2.11e+01 c.23.13.1 76303 1gqoO 143 2.11e+01 c.23.13.1 76309 1gqoP 143 2.11e+01 c.23.13.1 76310 1pb1A 416 2.12e+01 c.77.1.1 88014 1orrA 347 2.16e+01 c.2.1.2 -5776 1j0fA 100 2.17e+01 unknown_sccs -7483 1exqA 154 2.17e+01 1b9dA c.55.3.2 33646 1oneA 436 2.17e+01 4enl c.1.11.1 29200 d.54.1.1 38844 1bu8A 452 2.19e+01 1gpl b.12.1.2 23647 c.69.1.19 34795 1hdr 244 2.21e+01 1dhr c.2.1.2 29837 1n6eA 1071 2.21e+01 b.36.1.3 80149 b.68.7.1 80150 b.69.9.1 80151 c.14.1.2 80152 1hurA 180 2.22e+01 1hurA c.37.1.8 32052 1pms 136 2.22e+01 1awe b.55.1.1 26966 1fw1A 216 2.32e+01 a.45.1.1 60051 c.47.1.5 60052 1ntr 124 2.33e+01 1dbwA c.23.1.1 31092 1gqoN 143 2.33e+01 c.23.13.1 76308 1dr8B 344 2.40e+01 1cnzA c.77.1.1 35052 1go3E 187 2.44e+01 b.40.4.5 83054 d.230.1.1 83055 1qrqA 325 2.44e+01 1qrqA c.1.7.1 28667 1cl8A 276 2.47e+01 1ckqA c.52.1.1 33230 1exbA 332 2.48e+01 1qrqA c.1.7.1 28666 1ghsA 306 2.49e+01 1aq0A c.1.8.3 28840 1ckqA 276 2.50e+01 1ckqA c.52.1.1 33229 1sb8A 352 2.51e+01 1iso 416 2.54e+01 1iso c.77.1.1 35065 1jtdB 273 2.57e+01 b.69.5.2 67265 1a8l 226 2.60e+01 1a8l c.47.1.2 32777 c.47.1.2 32778 1ayl 541 2.60e+01 1ayl c.91.1.1 64718 c.109.1.1 64719 1qb0A 211 2.63e+01 1c25 c.46.1.1 32699 1jkgA 140 2.63e+01 d.17.4.2 66795 1sviA 195 2.64e+01 1b6rA 355 2.69e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1gqoT 143 2.71e+01 c.23.13.1 76314 1bl3A 160 2.71e+01 1b9dA c.55.3.2 33655 1e9iA 431 2.71e+01 c.1.11.1 64818 d.54.1.1 64819 1m4jA 142 2.72e+01 d.109.1.2 78602 1r9dA 787 2.73e+01 1adoA 363 2.74e+01 1fbaA c.1.10.1 29124 1jfrA 262 2.82e+01 1jfrA c.69.1.16 34724 1gumA 222 2.89e+01 1pgtA a.45.1.1 17683 c.47.1.5 32977 3grx 82 2.89e+01 1aba c.47.1.1 32769 1be1 137 2.95e+01 1be1 c.23.6.1 31237 1gulA 222 2.98e+01 1pgtA a.45.1.1 17675 c.47.1.5 32969 1s1hM 132 3.02e+01 1cr6B 554 3.06e+01 1cr6B c.108.1.2 43338 c.69.1.11 34688 1f2dA 341 3.12e+01 1f2dA c.79.1.1 35298 1f89A 291 3.17e+01 d.160.1.1 64988 1pzxA 289 3.18e+01 c.119.1.1 -8623 1pvyA 227 3.21e+01 d.115.1.2 -10937 1j79A 347 3.22e+01 1j79A c.1.9.4 62675 1qpsA 261 3.24e+01 1ckqA c.52.1.1 33234 1k32A 1045 3.27e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1dq3A 454 3.29e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1mh1 186 3.34e+01 1eesA c.37.1.8 32002 1vjqA 79 3.37e+01 unknown_sccs -13478 1kkoA 413 3.37e+01 c.1.11.2 68675 d.54.1.1 68676 1vjgA 218 3.48e+01 unknown_sccs -6447 1kf6A 602 3.51e+01 a.7.3.1 72394 c.3.1.4 72395 d.168.1.1 72396 1de4C 640 3.52e+01 1cx8B a.48.2.1 17779 c.8.4.1 30760 c.56.5.5 33848 1kamA 194 3.54e+01 c.26.1.3 72254 1gqoL 143 3.54e+01 c.23.13.1 76306 1gqoS 143 3.54e+01 c.23.13.1 76313 1amoA 615 3.59e+01 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1gvnB 287 3.64e+01 c.37.1.21 76354 1gqoV 143 3.66e+01 c.23.13.1 76316 1vhxA 150 3.71e+01 unknown_sccs -7663 1f21A 155 3.74e+01 2rn2 c.55.3.1 33550 1ky3A 182 3.76e+01 c.37.1.8 73193 1dhr 241 3.76e+01 1dhr c.2.1.2 29832 1hzyA 332 3.79e+01 1pscA c.1.9.3 61468 1puiA 210 3.80e+01 c.37.1.8 88292 1r4aA 165 3.80e+01 c.37.1.8 -7089 1i0dA 332 3.80e+01 1pscA c.1.9.3 61487 1mo0A 275 3.82e+01 c.1.1.1 79329 1mumA 295 3.87e+01 c.1.12.7 85108 1v1rA 400 3.90e+01 1eriA 276 3.97e+01 1ckqA c.52.1.1 33231