(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:
-
- T0139 Dnase Fragmentation Factor/Inhibotor to Caspase Associated DNase domain (225-307), human
-
- gi|14043461|gb|AAH07721.1|AAH07721_225:307 (BC007721) DNA fragmentation factor, 45 kD, alpha polypeptide [Homo sapiens]
-
- gi|4758148|ref|NP_004392.1|_225:307 (NM_004401) DNA fragmentation factor, 45 kD, alpha polypeptide; DNA fragmentation factor, 45 kD, alpha subunit; DFF45 [Homo sapiens]
- gi|2810997sp|O00273|DFFA_HUMAN DNA fragmentation factor alpha subunit (DNA fragmentation factor 45 kDa subunit) (DFF-45) (Inhibitor of CAD) (ICAD)
- gi|2065561|gb|AAC51249.1| (U91985) DNA fragmentation factor-45 [Homo sapiens]
- gi|12652589|gb|AAH00037.1|AAH00037 (BC000037) DNA fragmentation factor, 45 kD, alpha polypeptide [Homo sapiens]
- gi|13937994|gb|AAH07112.1|AAH07112 (BC007112) DNA fragmentation factor, 45 kD, alpha polypeptide [Homo sapiens]
-
- gi|9087146sp|O54786|DFFA_MOUSE_225:307 DNA fragmentation factor alpha subunit (DNA fragmentation factor 45 kDa subunit) (DFF-45) (Inhibitor of CAD) (ICAD)
- gi|2754586|dbj|BAA24140.1| (AB009375) ICAD-L [Mus musculus]
-
- gi|4926918|gb|AAD32953.1|AF087573_1_225:262 (AF087573) DNA fragmentation factor DFF35 [Homo sapiens]
- gi|6048966|gb|AAF02419.1|AF103799_1 (AF103799) unknown [Homo sapiens]
-
- gi|6753628|ref|NP_034174.1|_225:261 (NM_010044) DNA fragmentation factor, alpha subunit [Mus musculus]
- gi|2754588|dbj|BAA24141.1| (AB009376) ICAD-S [Mus musculus]
-
- gi|16758492|ref|NP_446131.1|_225:261 (NM_053679) DNA fragmentation factor, alpha subunit [Rattus norvegicus]
- gi|7381181|gb|AAF61425.1|AF136601_1 (AF136601) caspase-activated deoxyribonuclease inhibitor short form [Rattus norvegicus]
10 20 30 40 50 60
| | | | | |
1 TGISRETSSDVALASHILTALREKQAPELSLSSQDLELVTKEDPKALAVALNWDIKKTETVQEAC
2 TGISRETSSDVALASHILTALREKQAPELSLSSQDLELVTKEDPKALAVALNWDIKKTETVQEAC
3 TGISRETSSDVALASHILTALREKQAPELSLSSQDLELVTKEDPKALAVALNWDIKKTETVQEAC
4 TGVGREMASEVLLRSQILTTLKEKPAPELSLSSQDLESVSKEDPKALAVALSWDIRKAETVQQAC
5 TGISRETSSDVALASHILTALREKQAPELSLSSQDLEV---------------------------
6 TGVGREMASEVLLRSQILTTLKEKPAPELSLSSQDLE----------------------------
7 TGVGGEVASEVMLRSQILAALKEKPAPELSLSSQDLE----------------------------
70 80
| |
1 ERELALRLQQTQSLHSLR
2 EWELALRLQQTQSLHSLR
3 ERELALRLQQTQSLHSLR
4 TTELALRLQQVQSLHSLR
5 ------------------
6 ------------------
7 ------------------