(c) 1992-2000 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.
Sequence numbers correspond to the following labels:
-
- YGR230W BNS1 SGDID:S0003462, Chr VII from 951886-952299
-
- gi|6321669|ref|NP_011746.1|_1:137 bypasses need for SPO12; Bns1p [Saccharomyces cerevisiae]
- gi|1723750sp|P50084|YG4V_YEAST HYPOTHETICAL 15.8 KD PROTEIN IN SMI1-PHO81 INTERGENIC REGION
- gi|1362318|pir||S57695 hypothetical protein YGR230w - yeast (Saccharomyces cerevisiae)
- gi|886924|emb|CAA61180.1| ORF 137 [Saccharomyces cerevisiae]
- gi|1323415|emb|CAA97258.1| ORF YGR230w [Saccharomyces cerevisiae]
-
- gi|6321946|ref|NP_012022.1|_86:152 Thought to be a positive regulator of exit from M-phase in mitosis and meiosis; interacts with Dbf2p and Dbf20p protein kinases; Spo12p [Saccharomyces cerevisiae]
- gi|134747sp|P17123|SP12_YEAST SPORULATION PROTEIN SPO12
- gi|101633|pir||B36321 sporulation protein SPO12 - yeast (Saccharomyces cerevisiae)
- gi|172669|gb|AAA35076.1| sporulation protein SPO12
- gi|500652|gb|AAB68979.1| Spo12p: sporulation protein [Saccharomyces cerevisiae]
-
- gi|19114859|ref|NP_593947.1|_26:74 hypothetical protein [Schizosaccharomyces pombe]
- gi|1723259sp|Q10189|YAWF_SCHPO Very hypothetical protein C3F10.15c in chromosome I
- gi|7491102|pir||T38716 hypothetical protein SPAC3F10.15c - fission yeast (Schizosaccharomyces pombe)
- gi|1182062|emb|CAA93313.1| similar to S. cerevisiae SPO12-Sporulation required for chromosome division in meiosis I [Schizosaccharomyces pombe]
-
- gi|18376286|emb|CAD21399.1|_60:110 related to BNS1 protein [Neurospora crassa]
10 20 30 40 50 60
| | | | | |
1 MSYGGSASQDIVTKLIRKIQNTSVSCTRRDENLDSFNQHLKMSLKVAHNTKTFAKHCLHRQVFKN
2 MSYGGSASQDIVTKLIRKIQNTSVSCTRRDENLDSFNQHLKMSLKVAHNTKTFAKHCLHRQVFKN
3 -----------------------------------------------H---------TTSNLVKK
4 -------------------------------------------------------ATLRQQVLQK
5 ------------------------------------------------------TLEYHRQVLQN
70 80 90 100 110 120 13
| | | | | |
1 TYRKRKAV.EDQRKNLNTQLRQKFASPSDNLLSPCSRKLNDHKSKLFSAKSQPKTLEFVRGKQNI
2 TYRKRKAV.EDQRKNLNTQLRQKFASPSDNLLSPCSRKLNDHKSKLFSAKSQPKTLEFVRGKQNI
3 TMFKRDLLkQDPKRKL--QLQQRFASPTDRLVSPCSLKLNEHKVKMFGKK-----------KKVN
4 HELPKHAL.-------------NVASPTDSLMSPCTAKLQAHKKKYYMKRKPP------------
5 KMEIDHT-.-------------KYVSPSDNIMSPCTAKLSAFRSKQAGKV-KPKSL---------
0
|
1 PRKPNVDI
2 PRKPNVDI
3 PMKLNF--
4 --------
5 --------