# List of top-scoring protein chains for 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 1fm5A 199 9.64e-02 1fm5A d.169.1.1 42330 1jhwA 347 2.31e+00 1jxzB 269 2.84e+00 c.14.1.3 67436 1nzyA 269 3.14e+00 1nzyA c.14.1.3 30903 1nzyB 269 3.18e+00 1nzyA c.14.1.3 30904 1krcC 567 3.76e+00 1ubpC b.92.1.1 28419 c.1.9.2 29041 1atiA 505 3.83e+00 1atiA c.51.1.1 33196 d.104.1.1 40745 1atiB 505 3.83e+00 1atiA c.51.1.1 33197 d.104.1.1 40746 1qs0B 338 5.62e+00 1qs0B c.36.1.3 31830 c.48.1.2 33103 1kfiA 572 6.18e+00 c.84.1.1 68555 c.84.1.1 68556 c.84.1.1 68557 d.129.2.1 68558 7fabL 208 6.55e+00 8fabA b.1.1.1 19776 b.1.1.2 20886 1f0zA 66 6.87e+00 1f0zA d.15.3.2 37644 1dt6A 473 7.10e+00 1dt6A a.104.1.1 18977 1kt9A 138 7.11e+00 1ktgA 138 7.11e+00 1dfvB 177 7.49e+00 1nglA b.60.1.1 27145 1adqL 213 8.19e+00 8fabA b.1.1.1 20272 b.1.1.2 21272 1nglA 179 8.67e+00 1nglA b.60.1.1 27146 1dtk 57 9.11e+00 1bpi g.8.1.1 44554 1k8kE 178 1.02e+01 a.148.1.1 68311 1qqsA 174 1.09e+01 1nglA b.60.1.1 27143 1lilA 212 1.20e+01 8fabA b.1.1.1 20557 b.1.1.2 21466 1jmqA 46 1.36e+01 b.72.1.1 66888 1ejvC 567 1.52e+01 1ubpC b.92.1.1 28428 c.1.9.2 29050 1ejuC 567 1.54e+01 1ubpC b.92.1.1 28422 c.1.9.2 29044 1exzA 141 1.57e+01 1exzA a.26.1.2 16877 1ejsC 567 1.58e+01 1ubpC b.92.1.1 28424 c.1.9.2 29046 1qd7H 85 1.59e+01 1a32 i.1.1.3 45871 1ejtC 567 1.60e+01 1ubpC b.92.1.1 28421 c.1.9.2 29043 1a32 88 1.60e+01 1a32 a.16.1.2 16384 1a5mC 566 1.60e+01 1ubpC b.92.1.1 28423 c.1.9.2 29045 1a5oC 566 1.60e+01 1ubpC b.92.1.1 28430 c.1.9.2 29052 1fwiC 567 1.62e+01 1ubpC b.92.1.1 28407 c.1.9.2 29029 1ef2A 566 1.62e+01 1ubpC b.92.1.1 28429 c.1.9.2 29051 1fwjC 567 1.63e+01 1ubpC b.92.1.1 28416 c.1.9.2 29038 1a5kC 566 1.63e+01 1ubpC b.92.1.1 28425 c.1.9.2 29047 1krbC 567 1.63e+01 1ubpC b.92.1.1 28418 c.1.9.2 29040 1prcC 336 1.64e+01 6prcC a.138.1.2 19674 1dxrC 336 1.64e+01 6prcC a.138.1.2 19670 6prcC 336 1.64e+01 6prcC a.138.1.2 19671 1ejrC 567 1.64e+01 1ubpC b.92.1.1 28420 c.1.9.2 29042 2kauC 567 1.68e+01 1ubpC b.92.1.1 28412 c.1.9.2 29034 1k3rA 268 2.00e+01 1bjmA 216 2.01e+01 8fabA b.1.1.1 20524 b.1.1.2 21460 2fb4L 216 2.08e+01 8fabA b.1.1.1 19846 b.1.1.2 20950 1a5lC 566 2.14e+01 1ubpC b.92.1.1 28426 c.1.9.2 29048 1cs1A 386 2.15e+01 1ibjA c.67.1.3 34399 1cs1C 386 2.15e+01 1ibjA c.67.1.3 34401 1ktkE 247 2.17e+01 1fwcC 567 2.17e+01 1ubpC b.92.1.1 28410 c.1.9.2 29032 1bftA 101 2.20e+01 1a3qA b.1.1.5 21934 1fwhC 567 2.40e+01 1ubpC b.92.1.1 28414 c.1.9.2 29036 1kcmA 270 2.44e+01 1fvzA 271 2.63e+01 1fvzA d.129.3.4 60050 1f98A 125 2.64e+01 3pyp d.110.3.1 40899 1ioj 57 2.85e+01 1ioj j.39.1.1 46293 1dszA 86 3.00e+01 2nllB g.39.1.2 45129 1ecfB 504 3.01e+01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1ecfA 504 3.01e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1jb3A 131 3.07e+01 1jc7A b.40.3.2 62833 1psrA 100 3.16e+01 1psrA a.39.1.2 17180 1scfA 273 3.20e+01 1exzA a.26.1.2 16873 1mcwW 216 3.22e+01 8fabA b.1.1.1 20602 b.1.1.2 21509 1a4aA 129 3.34e+01 1nwpA b.6.1.1 22907 2azaA 129 3.36e+01 1nwpA b.6.1.1 22901 8fabA 212 3.43e+01 8fabA b.1.1.1 19772 b.1.1.2 20882 1emrA 159 3.46e+01 1lki a.26.1.1 59456 1dk1A 86 3.51e+01 1a32 a.16.1.2 16385 1f7yA 89 3.58e+01 1a32 a.16.1.2 16386 1kevA 351 3.64e+01 1pedA b.35.1.2 24749 c.2.1.1 29765 1pedA 351 3.64e+01 1pedA b.35.1.2 24753 c.2.1.1 29769 2mcg1 216 3.68e+01 8fabA 1hjdA 101 3.68e+01 b.34.2.1 65846 1m2oA 768 3.78e+01 1tmf3 232 3.89e+01 1qqp3 1bxnA 485 3.91e+01 1burA c.1.14.1 29376 d.58.9.1 39282 1dclA 216 3.94e+01 8fabA b.1.1.1 20565 b.1.1.2 21472