# List of top-scoring protein chains for T0237.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 1h9oA 112 9.97e-01 1qadA d.93.1.1 60837 1m6bA 621 1.03e+00 c.10.2.5 74521 c.10.2.5 74522 g.3.9.1 74523 g.3.9.1 74524 1bik 147 2.09e+00 1bpi g.8.1.1 44549 g.8.1.1 44550 3ldh 330 2.49e+00 3ldh i.12.1.1 46015 1o0iA 138 2.94e+00 d.38.1.5 86532 1l6jA 425 3.53e+00 a.20.1.2 73619 d.92.1.11 73620 g.14.1.2 73621 g.14.1.2 73622 g.14.1.2 73623 1vyuA 351 4.19e+00 1m2oA 768 4.63e+00 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1exsA 160 5.04e+00 1bebA b.60.1.1 27125 1l8dA 112 5.76e+00 h.4.12.1 73687 1g91A 77 5.95e+00 1b3aA d.9.1.1 60389 1iso 416 6.05e+00 1iso c.77.1.1 35065 1ruoA 209 7.07e+00 2cgpA a.4.5.4 16105 b.82.3.2 28144 1edzA 320 7.16e+00 1ee9A c.2.1.7 30287 c.58.1.2 33935 6icd 416 7.56e+00 1iso c.77.1.1 35081 1cw4A 416 7.61e+00 1iso c.77.1.1 35068 1hj6A 416 7.61e+00 1iso c.77.1.1 35070 1gro 416 7.65e+00 1iso c.77.1.1 35079 1cw7A 416 7.67e+00 1iso c.77.1.1 35087 1grp 416 7.69e+00 1iso c.77.1.1 35077 1ide 416 7.69e+00 1iso c.77.1.1 35082 1pb1A 416 7.69e+00 c.77.1.1 88014 1bl5 414 7.88e+00 1iso c.77.1.1 35083 1anv 356 8.68e+00 1anv a.54.1.1 17890 g.51.1.1 45365 g.51.1.1 45371 1f1fA 89 9.04e+00 1ctj a.3.1.1 59571 1cdoA 374 9.13e+00 2ohxA b.35.1.2 24747 c.2.1.1 29763 1qo6A 101 1.02e+01 g.14.1.2 44673 g.27.1.1 44954 1bfi 112 1.06e+01 1qadA d.93.1.1 40499 1p15A 253 1.08e+01 c.45.1.2 -7353 1mmg 762 1.10e+01 1lvk b.34.3.1 24579 c.37.1.9 32176 1qadA 111 1.11e+01 1qadA d.93.1.1 40498 1lufA 343 1.16e+01 d.144.1.7 78223 1adt 356 1.17e+01 1anv a.54.1.1 17887 g.51.1.1 45362 g.51.1.1 45368 1e9tA 59 1.17e+01 2pspA g.16.1.1 44747 1aorA 605 1.19e+01 1b25A a.110.1.1 19042 d.152.1.1 41794 1e88A 160 1.20e+01 g.14.1.2 44669 g.14.1.2 44670 g.27.1.1 44950 1hruA 188 1.23e+01 1hruA d.115.1.1 40926 1no7A 604 1.27e+01 unknown_sccs -12043 1jltB 122 1.30e+01 a.133.1.2 66868 1lvk 762 1.34e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1ef5A 103 1.34e+01 1lfdA d.15.1.5 37629 1ioaA 240 1.36e+01 1led b.29.1.1 24168 1dkmA 410 1.40e+01 1dklA c.60.1.2 34000 1fpzA 212 1.41e+01 1fpzA c.45.1.1 59976 1dkqA 410 1.42e+01 1dklA c.60.1.2 33998 1sm2A 264 1.45e+01 1dklA 410 1.49e+01 1dklA c.60.1.2 33996 1gfyA 298 1.49e+01 1pty c.45.1.2 32666 1s78A 624 1.50e+01 c.10.2.5 -6197 c.10.2.5 -6198 g.3.9.1 -12476 g.3.9.1 -12477 1dceA 567 1.50e+01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1pvhB 169 1.57e+01 a.26.1.1 -709 1a7m 180 1.62e+01 1lki a.26.1.1 16830 1dfaA 454 1.64e+01 1vdeA b.86.1.2 28375 d.95.2.2 40575 d.95.2.2 40576 1ivhA 394 1.65e+01 3mdeA a.29.3.1 16608 e.6.1.1 42869 1qh0A 295 1.67e+01 b.43.4.2 68891 c.25.1.1 68892 1a3wA 500 1.68e+01 1a49A b.58.1.1 27060 c.1.12.1 29288 c.49.1.1 33142 1vazA 88 1.70e+01 unknown_sccs -9419 1ixlA 131 1.71e+01 d.38.1.5 -9705 1n8zC 607 1.79e+01 c.10.2.5 80322 c.10.2.5 80323 g.3.9.1 80324 g.3.9.1 80325 1e6yA 569 1.79e+01 1mroA a.89.1.1 18529 d.58.31.2 39447 1emrA 159 1.82e+01 1lki a.26.1.1 59456 1lki 180 1.88e+01 1lki a.26.1.1 16829 1yaaA 412 1.90e+01 1ajsA c.67.1.1 34280 1meyC 87 1.96e+01 2gliA k.12.1.1 46430 1kibA 89 1.98e+01 a.3.1.1 72502 1ul7A 102 1.98e+01 unknown_sccs -11020 1mmn 762 1.99e+01 1lvk b.34.3.1 24582 c.37.1.9 32179 1ihp 438 2.01e+01 1ihp c.60.1.2 33993 1eakA 421 2.06e+01 a.20.1.2 70093 d.92.1.11 70094 g.14.1.2 70095 g.14.1.2 70096 g.14.1.2 70097 1smd 496 2.20e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1qgzA 295 2.22e+01 b.43.4.2 68889 c.25.1.1 68890 1q4nX 496 2.23e+01 b.71.1.1 -4647 c.1.8.1 -5271 1aokB 122 2.26e+01 1poa a.133.1.2 19561 1m5nS 485 2.32e+01 a.118.1.1 78653 1avv 151 2.33e+01 1efnB d.102.1.1 40703 1jxkA 491 2.33e+01 b.71.1.1 63316 c.1.8.1 63317 1drw 273 2.36e+01 1drw c.2.1.3 30057 d.81.1.3 39972 1nrfA 262 2.37e+01 e.3.1.1 -11780 1v5sA 126 2.37e+01 1efnB 152 2.69e+01 1efnB d.102.1.1 40699 1gr1A 303 2.78e+01 b.43.4.2 76319 c.25.1.1 76320 1go2A 304 2.78e+01 b.43.4.2 76243 c.25.1.1 76244 1khqA 212 2.79e+01 d.3.1.1 -8868 1e63A 304 2.80e+01 1fnc b.43.4.2 59287 c.25.1.1 59288 1gh6B 333 2.81e+01 a.74.1.3 65192 a.74.1.3 65193 1ewyA 303 2.82e+01 1fnc b.43.4.2 25651 c.25.1.1 31541 1b2rA 304 2.83e+01 1fnc b.43.4.2 25648 c.25.1.1 31538 1gjrA 304 2.83e+01 b.43.4.2 70197 c.25.1.1 70198 1que 303 2.85e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 1ub4A 110 2.86e+01 b.34.6.2 88399 1ef0A 462 2.90e+01 1vdeA b.86.1.2 28376 d.95.2.2 40577 d.95.2.2 40578 1quf 304 2.92e+01 1fnc b.43.4.2 25650 c.25.1.1 31540 1j2zA 270 2.92e+01 b.81.1.1 -4797 1e64A 304 2.94e+01 1fnc b.43.4.2 59289 c.25.1.1 59290 1e62A 304 3.00e+01 1fnc b.43.4.2 59285 c.25.1.1 59286 1p57A 114 3.03e+01 unknown_sccs -11657 1bjk 295 3.06e+01 1fnc b.43.4.2 25649 c.25.1.1 31539 1ogiA 303 3.06e+01 b.43.4.2 -4042 c.25.1.1 -6587 1s0uA 408 3.07e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1aw5 340 3.07e+01 1b4kA c.1.10.3 29181 1iznA 286 3.18e+01 e.43.1.1 83847 1vom 762 3.19e+01 1lvk b.34.3.1 24577 c.37.1.9 32174 1n8yC 608 3.21e+01 c.10.2.5 80314 c.10.2.5 80315 g.3.9.1 80316 g.3.9.1 80317 1p9pA 261 3.26e+01 1hsjA 487 3.28e+01 4mbp a.4.5.28 61237 c.94.1.1 61238 1qgyA 295 3.29e+01 b.43.4.2 -4044 c.25.1.1 -6589 1fmvA 761 3.33e+01 1lvk b.34.3.1 24580 c.37.1.9 32177 1ks0A 63 3.34e+01 g.14.1.2 68856 1a7j 290 3.35e+01 1a7j c.37.1.6 31952 1ogjA 303 3.41e+01 b.43.4.2 -4043 c.25.1.1 -6588 1h85A 295 3.42e+01 b.43.4.2 65716 c.25.1.1 65717 1d0yA 761 3.44e+01 1lvk b.34.3.1 24581 c.37.1.9 32178 1lt8A 406 3.48e+01 c.1.26.1 78186 1uocA 289 3.53e+01 unknown_sccs -7671 1mma 762 3.56e+01 1lvk b.34.3.1 24587 c.37.1.9 32184 1bqeA 295 3.60e+01 b.43.4.2 64760 c.25.1.1 64761 1h42A 304 3.61e+01 b.43.4.2 -4041 c.25.1.1 -6586 1dviA 184 3.66e+01 1alvA a.39.1.8 17365 1fnyA 237 3.67e+01 1led b.29.1.1 59920 1cg4A 431 3.68e+01 1adeA c.37.1.10 32228 2recA 353 3.74e+01 2reb i.2.1.1 45879 1pkhA 204 3.74e+01 b.85.4.1 -5053 1fleI 57 3.75e+01 1fleI g.3.14.1 44352 2reb 352 3.79e+01 2reb c.37.1.11 32282 d.48.1.1 38767 1qf5A 431 3.81e+01 1adeA c.37.1.10 32212 1kkbA 432 3.86e+01 c.37.1.10 72643 1hi7A 60 3.86e+01 2pspA g.16.1.1 44744 9pap 212 3.86e+01 1cs8A d.3.1.1 37006 1cg1A 431 3.87e+01 1adeA c.37.1.10 32223 1cg3A 431 3.90e+01 1adeA c.37.1.10 32219 1qwoA 442 3.90e+01 1hw5A 210 3.93e+01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1dxrM 323 3.93e+01 6prcM f.26.1.1 43432 1n4mA 345 3.95e+01 a.74.1.3 79994 a.74.1.3 79995 1sek 378 3.98e+01 1sek e.1.1.1 42675 1izyA 283 3.98e+01 c.23.16.2 -6516 1izzA 283 3.99e+01 c.23.16.2 -6518