# List of top-scoring protein chains for t2k-100-30-bys 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 6rxn 46 2.93e-01 1rb9 g.41.5.1 45222 1hdmA 201 6.11e-01 1iakA b.1.1.2 21583 d.19.1.1 38157 1bnb 38 1.20e+00 1bnb g.9.1.1 44592 1mqoA 227 1.89e+00 1mz5A 638 2.39e+00 b.29.1.15 79679 b.68.1.1 79680 1bjmA 216 2.52e+00 8fabA b.1.1.1 20524 b.1.1.2 21460 1uynX 308 2.53e+00 unknown_sccs -12360 1htrB 329 2.83e+00 1smrA 1ms9A 648 3.08e+00 b.29.1.15 85088 b.68.1.1 85089 1n1tA 641 3.30e+00 b.29.1.15 79821 b.68.1.1 79822 1cq3A 233 3.64e+00 1cq3A b.27.1.1 23923 1nepA 130 4.79e+00 b.1.18.7 80440 1g6gA 127 4.93e+00 1g6gA b.26.1.2 23916 1kzkA 99 5.22e+00 b.50.1.1 73371 1a76 326 5.32e+00 1a76 a.60.7.1 18091 c.120.1.2 33361 1lm8V 160 5.59e+00 b.3.3.1 74035 1lqbC 162 6.36e+00 b.3.3.1 74186 1w2wB 191 6.65e+00 1cp2A 269 6.74e+00 1cp2A c.37.1.10 32269 1kexA 155 7.07e+00 b.18.1.2 77350 1l0qA 391 7.85e+00 b.1.3.1 77644 b.69.2.3 77645 1c3oB 382 8.61e+00 1c3oB c.8.3.1 30744 c.23.16.1 31421 1jotA 133 8.67e+00 1jotA 1g3gA 164 8.72e+00 1g6gA b.26.1.2 23918 1a9xB 379 9.07e+00 1c3oB c.8.3.1 30732 c.23.16.1 31409 4pep 326 9.94e+00 1smrA b.50.1.2 26843 1el6B 219 1.01e+01 1el6B d.182.1.1 42607 7acn 754 1.01e+01 1amj c.8.2.1 30717 c.83.1.1 35393 1o22A 170 1.06e+01 d.238.1.1 86557 1ugxA 133 1.10e+01 1hn0A 1021 1.11e+01 a.102.3.2 83616 b.18.1.17 83617 b.24.1.1 83618 b.30.5.2 83619 1h4wA 224 1.19e+01 b.47.1.2 65622 1p32A 209 1.27e+01 1p32A d.25.1.1 38379 1cs0B 382 1.27e+01 1c3oB c.8.3.1 30740 c.23.16.1 31417 1b6fA 159 1.27e+01 1bv1 d.129.3.1 41316 1hxkA 1015 1.32e+01 a.8.3.1 83070 b.30.5.6 83071 c.6.2.1 83072 1b0jA 754 1.47e+01 1amj c.8.2.1 30719 c.83.1.1 35395 1gskA 513 1.54e+01 b.6.1.3 83314 b.6.1.3 83315 b.6.1.3 83316 1b5eA 246 1.57e+01 1b5eA d.117.1.1 41056 1eysH 259 1.59e+01 6prcH b.41.1.1 25484 f.23.10.1 43517 1m26A 133 1.66e+01 1el6A 219 1.67e+01 1el6B d.182.1.1 42606 1mfa 247 1.69e+01 1mfa b.1.1.1 19888 b.1.1.1 19889 1vcbC 160 1.72e+01 1vcbC b.3.3.1 22535 1ko7A 314 1.73e+01 c.98.2.1 72797 c.91.1.2 72798 1fivA 113 1.74e+01 1fmb b.50.1.1 26764 1ku8A 133 1.79e+01 1w0pA 781 1.80e+01 1jacC 133 1.90e+01 1jotA 1jacA 133 1.93e+01 1jotA 1yaiA 151 1.98e+01 1yaiA b.1.8.1 22289 4fiv 113 2.00e+01 1fmb b.50.1.1 26762 1pylA 97 2.02e+01 1j83A 180 2.03e+01 b.18.1.12 66430 1ox0A 430 2.06e+01 c.95.1.1 87495 c.95.1.1 87496 2por 301 2.07e+01 2por f.4.3.1 43759 1qvjA 292 2.08e+01 d.113.1.1 -10902 2fivA 116 2.12e+01 1fmb b.50.1.1 26766 1prtF 98 2.14e+01 1prtF b.40.2.1 25140 1q33A 292 2.15e+01 d.113.1.1 -10901 1lw6E 281 2.16e+01 c.41.1.1 74293 1spuB 727 2.16e+01 1oacA b.30.2.1 24399 d.17.2.1 38025 d.17.2.1 38026 d.82.1.1 40012 1kt8A 365 2.17e+01 e.17.1.1 77531 1kxgA 152 2.17e+01 b.22.1.1 73145 1oeqA 418 2.18e+01 1szqA 483 2.19e+01 unknown_sccs -11791 1n57A 291 2.19e+01 c.23.16.2 85328 1k3tA 359 2.20e+01 c.2.1.3 72022 d.81.1.1 72023 3fivA 116 2.26e+01 1fmb b.50.1.1 26768 1ncwL 219 2.34e+01 b.1.1.1 85557 b.1.1.2 85558 1htyA 1015 2.36e+01 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 1pbyA 489 2.50e+01 a.3.1.7 -178 a.3.1.7 -179 b.1.18.14 -2762 b.1.18.14 -2763 b.61.4.1 -4528 1o0pA 104 2.54e+01 d.58.7.1 86535 1nkgA 508 2.55e+01 1kit 757 2.65e+01 1kit b.29.1.8 24272 b.29.1.8 24273 b.68.1.1 27616 1q16B 512 2.70e+01 d.58.1.5 -9938 1lk2B 99 2.71e+01 b.1.1.2 -2576 1jjuA 489 2.71e+01 a.3.1.7 66774 a.3.1.7 66775 b.1.18.14 66776 b.1.18.14 66777 b.61.4.1 66778 1udsA 255 2.79e+01 d.14.1.4 -9055 d.101.1.1 -10745 1l0sA 90 2.87e+01 b.81.2.1 73408 1e6yC 247 2.88e+01 1mroC d.58.31.1 39441 1k2eA 156 2.89e+01 d.113.1.1 72010 1a3yA 149 2.92e+01 1obpA b.60.1.1 27110 1rb9 53 2.94e+01 1rb9 g.41.5.1 45214 1hwwA 1015 2.94e+01 a.8.3.1 83067 b.30.5.6 83068 c.6.2.1 83069 1kjvB 100 2.95e+01 b.1.1.2 77423 6acn 754 2.95e+01 1amj c.8.2.1 30721 c.83.1.1 35397 1dzkA 157 3.03e+01 1obpA b.60.1.1 27096 8rxnA 52 3.05e+01 1rb9 g.41.5.1 45215 1kzlA 208 3.06e+01 b.43.4.3 77635 b.43.4.3 77636 1q8uA 350 3.09e+01 d.144.1.7 -11331 1s1qA 145 3.11e+01 d.20.1.2 -9405 1hvc 203 3.12e+01 1hvc b.50.1.1 26614 1ihp 438 3.15e+01 1ihp c.60.1.2 33993 1oacA 727 3.16e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1n08A 163 3.16e+01 b.43.5.1 79730 1pztA 286 3.17e+01 c.68.1.2 -8213 1oalA 151 3.18e+01 b.1.8.1 86739 1gr3A 160 3.21e+01 b.22.1.1 65476 1dd5A 185 3.21e+01 1dd5A d.67.3.1 39564 1nf5B 286 3.22e+01 c.68.1.2 80454 1d6zA 727 3.27e+01 1oacA b.30.2.1 24394 d.17.2.1 38015 d.17.2.1 38016 d.82.1.1 40007 1g13A 162 3.28e+01 1g13A b.95.1.1 60194 1jmxA 494 3.29e+01 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 1uyrA 737 3.29e+01 c.14.1.4 -6258 c.14.1.4 -6259 1yna 194 3.36e+01 1axkA b.29.1.11 24335 1kcxA 518 3.37e+01 b.92.1.3 -5074 c.1.9.6 -5426 1shsA 147 3.37e+01 1shsA b.15.1.1 23675 1amj 754 3.38e+01 1amj c.8.2.1 30725 c.83.1.1 35401 1nmmB 286 3.38e+01 c.68.1.2 80662 1ek4A 418 3.40e+01 1dd8A c.95.1.1 59436 c.95.1.1 59437 1g5pA 289 3.42e+01 1cp2A c.37.1.10 32253 8acn 754 3.44e+01 1amj c.8.2.1 30724 c.83.1.1 35400 3aprE 325 3.45e+01 2er7E b.50.1.2 26820 1qwnA 1045 3.48e+01 a.8.3.1 -414 b.30.5.6 -3517 c.6.2.1 -6058 1fzoB 99 3.52e+01 1agdB b.1.1.2 60157 1fneA 192 3.55e+01 1iakA b.1.1.2 59896 d.19.1.1 59897 1c9oA 66 3.61e+01 1mjc b.40.4.5 25325 2apr 325 3.63e+01 2er7E b.50.1.2 26819 1cx4A 305 3.64e+01 b.82.3.2 59099 b.82.3.2 59100 1bkb 136 3.65e+01 1bkb b.34.5.2 24609 b.40.4.5 25341 1qexA 288 3.67e+01 1qexA b.32.1.1 24425 1p42A 270 3.69e+01 d.14.1.7 87754 d.14.1.7 87755 1pu5A 164 3.75e+01 1od2A 805 3.78e+01 c.14.1.4 86821 c.14.1.4 86822 1wm1A 317 3.79e+01 1my6A 199 3.85e+01 a.2.11.1 85232 d.44.1.1 85233 1kpuB 99 3.87e+01 b.1.1.2 84458 3proD 166 3.89e+01 3proC d.52.1.1 38814 d.52.1.1 38815 1jqcA 375 3.98e+01 1xikA a.25.1.2 63229 1fngA 192 4.00e+01 1iakA b.1.1.2 59904 d.19.1.1 59905 1fzkB 99 4.00e+01 1agdB b.1.1.2 60151