a2m2html output for file tmp.a2m

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, 1999.
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:

- T96C FadR, E. coli c-terminus
- gi|1345956|sp|P09371|FADR_ECOLI_121:239 FATTY ACID METABOLISM REGULATOR PROTEIN (Escherichia coli)
- gi|7429350|pir||H64864 DNA-binding protein, fatty acid/fatty acyl-responsive - Escherichia coli (Escherichia coli)
- gi|992991|emb|CAA30881.1| (X08087) fadR [Escherichia coli] (Escherichia coli)
- gi|1651590|dbj|BAA36042.1| (D90753) Fatty acid metabolism regulator protein. [Escherichia coli] (Escherichia coli)
- gi|1787436|gb|AAC74271.1| (AE000217) negative regulator for fad regulon, and positive activator of fabA [Escherichia coli] (Escherichia coli)
- gi|78799|pir||S01288_121:239 regulatory protein fadR - Escherichia coli (Escherichia coli)
- gi|1169604|sp|P44705|FADR_HAEIN_126:239 FATTY ACID METABOLISM REGULATOR PROTEIN (Haemophilus influenzae)
- gi|1074075|pir||A64067 regulatory protein fadR homolog - Haemophilus influenzae (strain Rd KW20) (Haemophilus influenzae)
- gi|1573401|gb|AAC22085.1| (U32726) fatty acid metabolism regulator protein (fadR) [Haemophilus influenzae Rd] (Haemophilus influenzae Rd)
- gi|1651584|dbj|BAA36034.1|_121:205 (D90752) Fatty acid metabolism regulator protein. [Escherichia coli] (Escherichia coli)

              10        20        30        40        50        60     
              |         |         |         |         |         |     
   1 PDKAQEVLATANEVADHADAFAELDYNIFRGLAFASGNPIYGLILNGMKGLYTRIGRHYFANPEA
   2 PDKAQEVLATANEVADHADAFAELDYNIFRGLAFASGNPIYGLILNGMKGLYTRIGRHYFANPEA
   3 PDKAQEVLATANEVADHADAFAELDYTIFRGLAFASGNPIYGLILNGMKGLYTRIGRHYFANPEA
   4 PQKSTALFAELEQLQNTAQDYTEFDYQLFRQFTVVANKPFYRLIFNSLKGVYQRIGLLFFKEKKH
   5 PDKAQEVLATANEVADHADAFAELDYNIFRGLAFASGNPIYGLILNGMKGLYTRIGRHYFANPEA


         70        80        90       100       110         
         |         |         |         |         |         
   1 RSLALGFYHKLSALCSEGAHDQVYETVRRYGHESGEIWHRMQKNLPGDLAIQGR
   2 RSLALGFYHKLSALCSEGAHDQVYETVRRYGHESGEIWHRMQKNLPGDLAIQGR
   3 RSLALGFYHKLSALCSEGAHDQVYETVRRYGHESGEIWHRMQKNLPGDLAIQGR
   4 RELTKQFYLEMQQICLEGNADAVVDCIRKHNLRSSTYWKAILERLPQNL-----
   5 RSLALGFYHKLSALCSEGAH----------------------------------