# List of top-scoring protein chains for T0330.t2k-w0.5 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 1bw6A 56 6.38e-01 1bw6A a.4.1.7 16052 1ukxA 137 2.03e+00 d.20.1.3 107919 1hlvA 131 2.16e+00 a.4.1.7,a.4.1.7 65854,65855 1pyaB 229 2.87e+00 1pyaB 1zlkA 95 2.89e+00 2au5A 139 3.57e+00 1zljA 78 3.76e+00 2a6zA 222 4.88e+00 1tuuA 399 5.25e+00 1g99A 408 5.27e+00 1g99A c.55.1.2,c.55.1.2 33457,33458 1t0yA 122 5.93e+00 d.15.1.1 99066 1nmrA 85 7.40e+00 a.144.1.1 91992 2a6yA 256 7.43e+00 2afaA 425 7.82e+00 2gcfA 73 8.13e+00 1sfxA 109 8.39e+00 a.4.5.50 105505 1rkbA 173 9.39e+00 1j3uA 468 1.01e+01 a.127.1.1 84078 1oy5A 257 1.33e+01 c.116.1.4 93718 1ir6A 424 1.37e+01 c.107.1.2 71342 1iznB 277 1.64e+01 e.43.1.2 83848 2vhbA 146 1.73e+01 2vhbA a.1.1.2 15629 2fexA 188 1.90e+01 1x64A 89 2.03e+01 1kevA 351 2.23e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1vfgA 390 2.55e+01 a.173.1.1,d.218.1.4 108570,108571 1jqbA 351 2.65e+01 b.35.1.2,c.2.1.1 77151,77152 1w2yA 229 2.66e+01 a.204.1.1 109140 1ve4A 206 2.66e+01 1b8zA 90 2.68e+01 1huuA a.55.1.1 17902 1riyA 90 2.72e+01 2f3oA 776 2.77e+01 1wclA 76 2.77e+01 2b2cA 314 2.85e+01 2cqnA 77 2.89e+01 2cpmA 94 2.91e+01 2a7vA 490 2.93e+01 1w5mA 337 3.02e+01 1pgjA 478 3.04e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 1s9jA 341 3.07e+01 1ydnA 295 3.17e+01 1sxm 40 3.43e+01 2pta g.3.7.2 44150 1u9lA 70 3.44e+01 a.60.4.2 107751 1pveA 72 3.56e+01 a.189.1.1 104322 1k0eA 453 3.57e+01 d.161.1.1 67938 1w63M 423 3.60e+01 i.23.1.1 109204 1ui0A 205 3.65e+01 c.18.1.2 99411 1mciA 216 3.66e+01 8fabA b.1.1.1,b.1.1.2 20581,21488 1gv3A 248 3.66e+01 a.2.11.1,d.44.1.1 70585,70586 2mcg1 216 3.66e+01 8fabA 1fcdC 174 3.89e+01 1fcdC a.3.1.4,a.3.1.4 15966,15967 1mcoL 216 3.90e+01 8fabA b.1.1.1,b.1.1.2 20563,21468 1jmoA 480 3.95e+01 e.1.1.1 77138 1kanA 253 4.04e+01 1knyA a.24.16.1,d.218.1.1 75878,75879 1jmjA 480 4.05e+01 e.1.1.1 77135 1xdwA 331 4.08e+01 1dclA 216 4.18e+01 8fabA b.1.1.1,b.1.1.2 20565,21472 1ydfA 257 4.20e+01 1sojI 420 4.38e+01 a.211.1.2 98950 1b4kA 337 4.82e+01 1b4kA c.1.10.3 29184 1wy5A 317 4.88e+01 2cse1 1267 4.90e+01 1huuA 90 5.07e+01 1huuA a.55.1.1 17897 2fb2A 340 5.24e+01 1pyiA 96 5.26e+01 1pyiA g.38.1.1,h.1.3.1 45079,45512 1knyA 253 5.50e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1q5xA 161 5.70e+01 c.8.7.1 95947 1q1lA 401 5.72e+01 d.258.1.1 95591 1tv8A 340 5.75e+01 c.1.28.3 107352 1g0sA 209 5.78e+01 1g0sA d.113.1.1 60187 1kkmA 205 5.84e+01 c.91.1.2 72654 1w5oA 337 6.00e+01 1viqA 220 6.00e+01 d.113.1.1 100766 1wglA 59 6.04e+01 1u02A 239 6.19e+01 c.108.1.15 107538 1ok8A 394 6.51e+01 b.1.18.4,f.10.1.1 93236,93237 1tgeA 395 6.54e+01 b.1.18.4,f.10.1.1 106894,106895 1tg8A 395 6.55e+01 b.1.18.4,f.10.1.1 106892,106893 1sviA 195 6.86e+01 c.37.1.8 106048 1kf6B 243 6.95e+01 a.1.2.1,d.15.4.2 72397,72398 2esnA 310 7.00e+01 1my6A 199 7.11e+01 a.2.11.1,d.44.1.1 85232,85233 1sxl 97 7.12e+01 1b7fA d.58.7.1 39180 1useA 45 7.14e+01 1mbj 53 7.41e+01 1a5j a.4.1.3 16035 1x69A 79 7.56e+01 1w5qA 337 7.57e+01 1w5pA 337 7.58e+01 2fk6A 320 7.66e+01 1w54A 337 7.67e+01 4tmkA 213 7.77e+01 5tmpA c.37.1.1 31930 2cw9A 194 7.81e+01 2f4mB 61 7.88e+01 1spbS 266 8.01e+01 1gci c.41.1.1 32532 1suaA 266 8.01e+01 1gci c.41.1.1 32531 1w56A 337 8.03e+01 1wcmD 177 8.06e+01 1duiA 266 8.15e+01 1gci c.41.1.1 32530 1sue 266 8.17e+01 1gci c.41.1.1 32520 1sub 275 8.18e+01 1gci c.41.1.1 32513 2bmjA 178 8.20e+01 1f6mC 108 8.21e+01 1thx c.47.1.1 32725 1v6aA 332 8.24e+01 1v5iA 275 8.26e+01 1gnsA 263 8.27e+01 c.41.1.1 70289 1f99A 162 8.27e+01 1cpcA a.1.1.3 59722 1ubnA 275 8.27e+01 1gci c.41.1.1 32535 1l9gA 192 8.45e+01 c.18.1.2 84568 1sr9A 644 8.45e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 2sniE 275 8.50e+01 1gci c.41.1.1 32529 1suc 275 8.52e+01 1gci c.41.1.1 32521 1sup 275 8.54e+01 1gci c.41.1.1 32510 1usdA 45 8.54e+01 1s02 275 8.55e+01 1gci c.41.1.1 32525 1to2E 281 8.57e+01 1dsn 333 8.66e+01 1cb6A c.94.1.2 35837 1hse 334 8.70e+01 1cb6A c.94.1.2 35849 1lct 333 8.78e+01 1cb6A c.94.1.2 35836 1vfe 333 8.82e+01 1cb6A c.94.1.2 35854 1csp 67 8.85e+01 1mjc b.40.4.5 25321 1h44A 334 8.87e+01 c.94.1.2 76673 1vfd 330 8.87e+01 1cb6A c.94.1.2 35855 1p58A 495 8.96e+01 i.17.1.1 94127 1zkgA 212 8.97e+01