# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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 1ap4 89 2.16e-01 1ncx a.39.1.5 17253 1avsA 90 1.49e+00 1cll a.39.1.5 17226 1zac 90 2.02e+00 1ncx a.39.1.5 17236 1y96B 85 2.07e+00 1mvwC 147 2.37e+00 i.15.1.1 79525 1o1fC 147 2.37e+00 i.15.1.1 80997 1jmtA 104 3.50e+00 d.58.7.3 63180 1p9yA 121 3.55e+00 d.241.2.1 94402 1vdlA 80 4.68e+00 a.5.2.1 108528 1bfmA 69 5.25e+00 1a7w a.22.1.2 16479 1wdtA 665 5.76e+00 1t3wA 148 6.21e+00 1a2xA 159 6.60e+00 1ncx a.39.1.5 17251 1a7w 69 6.67e+00 1a7w a.22.1.2 16477 1cpq 129 6.95e+00 1cpq a.24.3.2 16556 1br1B 150 7.04e+00 1wdcC a.39.1.5 17309 1iqpA 327 7.35e+00 a.80.1.1,c.37.1.20 62649,62650 1top 162 7.54e+00 1ncx a.39.1.5 17223 2cruA 118 7.79e+00 1qo7A 394 7.88e+00 1qo7A c.69.1.11 34697 2mysC 149 8.06e+00 1wdcC a.39.1.5 17323 2ghjA 118 8.15e+00 1id3B 102 8.28e+00 a.22.1.1 66113 1aoiB 87 8.62e+00 1aoiB a.22.1.1 16470 1doi 128 8.72e+00 1awd d.15.4.1 37676 1g4yR 148 9.16e+00 1cll a.39.1.5 60252 1yzyA 413 9.51e+00 1b67A 68 9.95e+00 1a7w a.22.1.2 16474 1eco 136 9.99e+00 1flp a.1.1.2 15208 1ecd 136 1.01e+01 1flp a.1.1.2 15211 1vd2A 89 1.05e+01 d.15.2.2 108517 1hq3D 103 1.06e+01 1aoiB a.22.1.1 16464 1vpfA 102 1.12e+01 1vpfA g.17.1.1 44767 1tzyD 103 1.15e+01 a.22.1.1 107533 2vsgA 358 1.16e+01 2vsgA h.4.1.1 45780 1ak8 76 1.18e+01 1cll a.39.1.5 17281 1aoiF 87 1.21e+01 1aoiB a.22.1.1 16471 1wmhA 89 1.25e+01 1ncx 162 1.29e+01 1ncx a.39.1.5 17222 1hfeS 123 1.30e+01 1hfeS a.137.4.1 19640 1e08D 88 1.33e+01 i.4.1.1 45915 2aqaA 63 1.34e+01 1vr5A 547 1.35e+01 1n1jA 93 1.37e+01 a.22.1.3 79813 1bg1A 722 1.38e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1cll 148 1.42e+01 1cll a.39.1.5 17263 1xfxO 149 1.48e+01 1grj 158 1.56e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1icxA 155 1.57e+01 d.129.3.1 71191 1uedA 406 1.61e+01 a.104.1.1 99256 1fltV 98 1.63e+01 1vpfA g.17.1.1 44751 2beqD 48 1.63e+01 2aw4Q 117 1.63e+01 1eca 136 1.64e+01 1flp a.1.1.2 15209 1t95A 240 1.65e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1hta 69 1.67e+01 1a7w a.22.1.2 16476 1j1jA 240 1.70e+01 a.118.16.1 90762 1xhdA 173 1.73e+01 1ybxA 143 1.82e+01 1y7qA 98 1.83e+01 1yruB 74 1.88e+01 1b73A 254 1.95e+01 1b74A c.78.2.1,c.78.2.1 35266,35267 2amyA 246 2.03e+01 1dp3A 55 2.05e+01 1dp3A a.55.1.2 59128 1o22A 170 2.19e+01 d.238.1.1 86557 1ofcX 304 2.26e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1xouA 192 2.27e+01 1vppV 102 2.38e+01 1vpfA g.17.1.1 44753 1y14B 171 2.44e+01 1zroA 602 2.45e+01 1mgrA 99 2.54e+01 d.1.1.2 79106 3cln 148 2.55e+01 1cll a.39.1.5 17286 2es4D 332 2.63e+01 1aikC 36 2.66e+01 2sivB 1mkkA 96 2.84e+01 g.17.1.1 79240 1x54A 434 2.87e+01 1b74A 254 2.88e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1qczA 169 2.89e+01 1qczA c.23.8.1 31276 6prcH 258 2.89e+01 6prcH b.41.1.1,f.23.10.1 25457,43436 1ic8A 194 2.89e+01 a.4.1.1,a.35.1.1 76740,76741 1exnA 290 2.92e+01 1exnA a.60.7.1,c.120.1.2 18088,33358 1tn4 159 3.10e+01 1ncx a.39.1.5 17248 1rpo 65 3.14e+01 1nkd a.30.1.1 16975 2fji1 399 3.17e+01 1sczA 233 3.26e+01 c.43.1.1 98802 1itf 165 3.32e+01 1b5l a.26.1.3 16899 1ut8A 291 3.35e+01 a.60.7.1,c.120.1.2 99908,99909 1lpe 144 3.40e+01 1nfn a.24.1.1 16524 1wgmA 98 3.51e+01 2c5kT 95 3.56e+01 1e0zA 128 3.56e+01 1awd d.15.4.1 59153 2dfkA 402 3.57e+01 1nu7D 282 3.63e+01 a.8.6.1,a.8.6.1 92191,92192 1fosF 57 3.72e+01 h.1.3.1 45538 1nkd 65 3.78e+01 1nkd a.30.1.1 16974 1zs4A 83 3.81e+01 1e2o 233 3.84e+01 1eaf c.43.1.1 32631 1ylxA 103 3.94e+01 2aobA 99 3.94e+01 1prcH 259 3.96e+01 6prcH b.41.1.1,f.23.10.1 25460,43445 1fp2A 352 4.01e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 2aucA 126 4.09e+01 1iwmA 186 4.14e+01 b.125.1.2 83758 2aukA 190 4.18e+01 1ggzA 148 4.19e+01 a.39.1.5 70176 1dw9A 156 4.22e+01 1dw9A a.35.1.4,d.72.1.1 17065,39596 1qghA 156 4.27e+01 1qghA a.25.1.1 16728 1iq3A 110 4.31e+01 1iq3A a.39.1.6 62640 1p9qC 256 4.42e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1aj4 161 4.43e+01 1ncx a.39.1.5 17244 1dwkA 156 4.45e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1do0A 442 4.63e+01 1do0A c.37.1.20 32432 1b0zA 445 4.64e+01 2pgi c.80.1.2 35309 2pgi 445 4.64e+01 2pgi c.80.1.2 35308 1exnB 290 4.81e+01 1exnA a.60.7.1,c.120.1.2 18089,33359 1ddmA 135 4.87e+01 2nmbA b.55.1.2 26993 1m5yA 408 4.90e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 2a2fX 325 4.98e+01 1dvoA 152 5.00e+01 1dvoA a.136.1.1 19623 1xzoA 174 5.03e+01 1kv0A 66 5.04e+01 g.3.7.1 91040 1le4 144 5.09e+01 1nfn a.24.1.1 16528 1wq8A 110 5.16e+01 1umdA 367 5.23e+01 c.36.1.11 99599 1ahr 146 5.28e+01 1cll a.39.1.5 17287 1xnpA 202 5.41e+01 1ji6A 589 5.43e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1fjgL 135 5.44e+01 1fjfL b.40.4.5 25346 1keyA 235 5.45e+01 a.118.16.1 72389 1dxrH 258 5.48e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1jnmA 62 5.54e+01 h.1.3.1 84181 1mvwB 145 5.55e+01 i.15.1.1 79524 1fpxA 352 5.76e+01 1fpxA a.4.5.29,c.66.1.12 59950,59951 1cxpA 104 5.78e+01 1d2vA a.93.1.2 18695 1d2vA 104 5.78e+01 1d2vA a.93.1.2 18697 1i6zA 135 6.00e+01 a.7.7.1 61861 1vmhA 144 6.02e+01 2f6hX 419 6.06e+01 1pi2 63 6.17e+01 1pi2 g.3.13.1 44342 2ahqA 76 6.17e+01 1n0qA 93 6.27e+01 k.37.1.1 79754 1uilA 113 6.31e+01 1yfbA 59 6.32e+01 1k2fA 190 6.38e+01 b.8.1.2 68054 1mhlA 108 6.42e+01 1d2vA a.93.1.2 18699 1mypA 108 6.42e+01 1d2vA a.93.1.2 18701 1mypB 108 6.42e+01 1mypB a.93.1.2 18702 1a02J 56 6.47e+01 1a02J h.1.3.1 45537 1bz4A 144 6.55e+01 1nfn a.24.1.1 16521 1s69A 124 6.83e+01 a.1.1.1 105305 1nozA 388 7.03e+01 1clqA c.55.3.5 33715 2dd8S 202 7.07e+01 1zbdB 134 7.17e+01 1zbdB g.50.1.1 45359 1c7qA 445 7.30e+01 2pgi c.80.1.2 35307 1b1yA 500 7.35e+01 1byb c.1.8.1 28796 1htmB 138 7.41e+01 1htmB h.3.1.1 45677 2ajfE 180 7.61e+01 1aoy 78 7.75e+01 1aoy a.4.5.3 16087 2cq2A 114 7.76e+01 1w7jB 151 7.80e+01 1r13A 148 7.93e+01 d.169.1.1,h.1.1.1 96782,96783 2itg 163 7.96e+01 1b9dA c.55.3.2 33669 1uslA 170 8.15e+01 c.121.1.1 99871 1f47B 144 8.21e+01 1f46A d.129.4.1 59645 1xbfA 140 8.23e+01 d.273.1.1 109538 1v3hA 495 8.27e+01 c.1.8.1 108303 1jeqB 565 8.47e+01 1jeqB b.131.1.2,c.62.1.4 90368,90369 1byb 495 8.54e+01 1byb c.1.8.1 28790 2ahjA 206 8.74e+01 2ahjA d.149.1.1 41772 1dmhA 311 8.81e+01 1dmhA b.3.6.1 22633 1m46B 25 8.81e+01 1y0vH 146 8.87e+01 2fexA 188 8.89e+01 1a3qA 285 8.94e+01 1a3qA b.1.18.1,b.2.5.3 21932,22447 1tgrA 52 8.94e+01 1zvzA 279 8.98e+01