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:

- T0126 Olfactory marker protein, mouse
- gi|6981304|ref|NP_036748.1|_1:163 olfactory marker protein (Rattus norvegicus)
- gi|129096|sp|P08523|OMP_RAT OLFACTORY MARKER PROTEIN (OLFACTORY NEURONAL SPECIFIC PROTEIN) (Rattus norvegicus)
- gi|205852|gb|AAA03054.1| (M26926) olfactory marker protein [Rattus norvegicus] (Rattus norvegicus)
- gi|6754936|ref|NP_035140.1|_1:163 olfactory marker protein (Mus musculus)
- gi|627924|pir||B54261 olfactory marker protein - mouse (Mus musculus)
- gi|493517|gb|AAA18415.1| (U02557) olfactory marker protein [Mus musculus] (Mus musculus)
- gi|520741|gb|AAA20486.1| (U01213) olfactory marker protein [Mus musculus] (Mus musculus)
- gi|92567|pir||A27450_2:162 olfactory marker protein - rat (Rattus norvegicus)
- gi|205850|gb|AAA41757.1| (M15644) olfactory neuronal specific protein [Rattus norvegicus] (Rattus norvegicus)
- gi|5453828|ref|NP_006180.1|_1:163 olfactory marker protein (Homo sapiens)
- gi|1352639|sp|P47874|OMP_HUMAN OLFACTORY MARKER PROTEIN (OLFACTORY NEURONAL SPECIFIC PROTEIN) (Homo sapiens)
- gi|520740|gb|AAA20485.1| (U01212) olfactory marker protein [Homo sapiens] (Homo sapiens)
- gi|627558|pir||A54261_1:163 olfactory marker protein - human (Homo sapiens)
- gi|3582107|emb|CAA09447.1|_3:156 (AJ010979) XOMP2 olfactory marker protein [Xenopus laevis] (Xenopus laevis)
- gi|3582105|emb|CAA09446.1|_4:156 (AJ010978) XOMP1 olfactory marker protein [Xenopus laevis] (Xenopus laevis)
- gi|6981304|ref|NP_036748.1|_1:163 olfactory marker protein (Rattus norvegicus)
- gi|129096|sp|P08523|OMP_RAT OLFACTORY MARKER PROTEIN (OLFACTORY NEURONAL SPECIFIC PROTEIN) (Rattus norvegicus)
- gi|205852|gb|AAA03054.1| (M26926) olfactory marker protein [Rattus norvegicus] (Rattus norvegicus)
- gi|6754936|ref|NP_035140.1|_1:163 olfactory marker protein (Mus musculus)
- gi|627924|pir||B54261 olfactory marker protein - mouse (Mus musculus)
- gi|493517|gb|AAA18415.1| (U02557) olfactory marker protein [Mus musculus] (Mus musculus)
- gi|520741|gb|AAA20486.1| (U01213) olfactory marker protein [Mus musculus] (Mus musculus)
- gi|5453828|ref|NP_006180.1|_1:163 olfactory marker protein (Homo sapiens)
- gi|1352639|sp|P47874|OMP_HUMAN OLFACTORY MARKER PROTEIN (OLFACTORY NEURONAL SPECIFIC PROTEIN) (Homo sapiens)
- gi|520740|gb|AAA20485.1| (U01212) olfactory marker protein [Homo sapiens] (Homo sapiens)
- gi|92567|pir||A27450_2:162 olfactory marker protein - rat (Rattus norvegicus)
- gi|205850|gb|AAA41757.1| (M15644) olfactory neuronal specific protein [Rattus norvegicus] (Rattus norvegicus)
- gi|627558|pir||A54261_1:163 olfactory marker protein - human (Homo sapiens)
- gi|3582105|emb|CAA09446.1|_4:156 (AJ010978) XOMP1 olfactory marker protein [Xenopus laevis] (Xenopus laevis)
- gi|3582107|emb|CAA09447.1|_3:156 (AJ010979) XOMP2 olfactory marker protein [Xenopus laevis] (Xenopus laevis)
- gi|5107218|gb|AAD40021.1|AF151102_1_322:407 (AF151102) cortexillin II [Polysphondylium pallidum] (Polysphondylium pallidum)
- gi|2239268|gb|AAB62275.1|_318:410 (L49527) cortexillin I [Dictyostelium discoideum] (Dictyostelium discoideum)
- gi|2239266|gb|AAB62274.1|_320:405 (L46371) cortexillin II [Dictyostelium discoideum] (Dictyostelium discoideum)
- gi|5107216|gb|AAD40020.1|AF151101_1_318:409 (AF151101) cortexillin I [Polysphondylium pallidum] (Polysphondylium pallidum)
- gi|7448308|pir||E72421_136:172 acetyl xylan esterase - Thermotoga maritima (strain MSB8) (Thermotoga maritima)
- gi|4980565|gb|AAD35171.1|AE001694_7 (AE001694) acetyl xylan esterase [Thermotoga maritima] (Thermotoga maritima)
- gi|9937530|gb|AAG02486.1|AF294396_1_242:281 (AF294396) IkappaB kinase gamma [Drosophila melanogaster] (Drosophila melanogaster)
- gi|2429094|gb|AAB70869.1|_137:170 (U58632) acetyl xylan esterase; AxeA [Thermotoga neapolitana] (Thermotoga neapolitana)
- gi|9716164|emb|CAC01555.1|_130:169 (AL391039) putative esterase [Streptomyces coelicolor A3(2)] (Streptomyces coelicolor A3(2))
- gi|2126908|pir||I39804_126:162 cephalosporin-C deacetylase (EC 3.1.1.41) - Bacillus subtilis (Bacillus subtilis)
- gi|550075|dbj|BAA01729.1| (D10935) cephalosporin-C deacetylase [Bacillus subtilis] (Bacillus subtilis)

              10        20        30        40        50        60     
              |         |         |         |         |         |     
   1 MAEDGPQKQQLEMPLVLDQDLTQQMRLRVESLKQRGEKKQDGEKLIRPAESVYRLDFIQQQKLQF
   2 MAEDGPQKQQLDMPLVLDQDLTKQMRLRVESLKQRGEKKQDGEKLLRPAESVYRLDFIQQQKLQF
   3 MAEDGPQKQQLEMPLVLDQDLTQQMRLRVESLKQRGEKKQDGEKLIRPAESVYRLDFIQQQKLQF
   4 --EDGPQKQQLDMPLVLDQDLTKQMRLRVESLKQRGEKKQDGEKLLRPAESVYRLDFIQQQKLQF
   5 MAEDRPQQPQLDMPLVLDQGLTRQMRLRVESLKQRGEKRQDGEKLLQPAESVYRLNFTQQQRLQF
   6 MAEDRPQQPQLDMPLVLDQGLTRQMRLRVERLKQRGEKRQDGEKLLQPEESVYRLNFTQQQRLQF
   7 -----PETSEMELPFNEDTQLTKCMRIRVQTLQQKNGKPQEGEMLLRANDYIYRLDF-PKQKLRF
   8 ------ETSEMELPFIEDTQLTKCMRIRVQTLQQKNAKPQEGEMLLRANEYIYRVDF-SKQKLRF
   9 MAEDGPQKQQLDMPLVLDQDLTKQMRLRVESLKQRGEKKQDGEKLLRPAESVYRLDFIQQQKLQF
  10 MAEDGPQKQQLEMPLVLDQDLTQQMRLRVESLKQRGEKKQDGEKLIRPAESVYRLDFIQQQKLQF
  11 MAEDRPQQPQLDMPLVLDQGLTRQMRLRVESLKQRGEKRQDGEKLLQPAESVYRLNFTQQQRLQF
  12 --EDGPQKQQLDMPLVLDQDLTKQMRLRVESLKQRGEKKQDGEKLLRPAESVYRLDFIQQQKLQF
  13 MAEDRPQQPQLDMPLVLDQGLTRQMRLRVERLKQRGEKRQDGEKLLQPEESVYRLNFTQQQRLQF
  14 ------ETSEMELPFIEDTQLTKCMRIRVQTLQQKNAKPQEGEMLLRANEYIYRVDF-SKQKLRF
  15 -----PETSEMELPFNEDTQLTKCMRIRVQTLQQKNGKPQEGEMLLRANDYIYRLDF-PKQKLRF
  16 LSKTEKDKAILELKLAETLDENERLRNKIEEDKKRAAAEAEGLGLLRT--------HIGHQITDI
  17 LAKTEKDRAILELKLAEAIDEKSKLEQQIEATRIRGAAEAQGLGLLRKNLDTHVHDLLKWQKLTM
  18 LAKCEKDKAILELKLAEILDEKDRLEKKIDEDKKRAEAERLGLGLIRQ--------HLAAQFSDI
  19 LSKMEKDKAILELKLAEAQDEKARLEAQIEADRIRSAAEAQSLGLLRKHLDQHVQDLIKWQKLSI
  20 -----------------------------------------------------------------
  21 -----------------SQELIKKMQLDINELKARDIQKQEVIKGLQIQNDIYRRDF--------
  22 -----------------------------------------------------------------
  23 -----------------------------------------------------------------
  24 -----------------------------------------------------------------


         70        80        90       100       110       120       130
         |         |         |         |         |         |         |
   1 DHWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPAAIFWRKEDSDAMDWNEADALEFGERLS
   2 DHWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPAAIFWRKEDSDAMDWNEADALEFGERLS
   3 DHWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPAAIFWRKEDSDAMDWNEADALEFGERLS
   4 DHWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPAAIFWRKEDSDAMDWNEADALEFGERLS
   5 ERWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPTAIFWRKEDSDAIDWNEADALEFGERLS
   6 ERWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPTAIFWRKEDSDAIDWNEADALEFGERLS
   7 LWWKVHLKTPGKVMITGTSQHWTPDLTNLMTRQLLEPSAVFYKKDAKDKVECNEADAQEFGERIA
   8 LWWKVHLKSPGKVMITGTSQHWTPDLTNLMTRQLLEPSAVFYKKDANDEVECNEADAQEFGERIA
   9 DHWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPAAIFWRKEDSDAMDWNEADALEFGERLS
  10 DHWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPAAIFWRKEDSDAMDWNEADALEFGERLS
  11 ERWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPTAIFWRKEDSDAIDWNEADALEFGERLS
  12 DHWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPAAIFWRKEDSDAMDWNEADALEFGERLS
  13 ERWNVVLDKPGKVTITGTSQNWTPDLTNLMTRQLLDPTAIFWRKEDSDAIDWNEADALEFGERLS
  14 LWWKVHLKSPGKVMITGTSQHWTPDLTNLMTRQLLEPSAVFYKKDANDEVECNEADAQEFGERIA
  15 LWWKVHLKTPGKVMITGTSQHWTPDLTNLMTRQLLEPSAVFYKKDAKDKVECNEADAQEFGERIA
  16 AKWQSFLDNPEAVPYTKTPVNLEAELASL------------------------------------
  17 ENSS---------------------------------------SSSIDDQIIVEVSGLPFGEQVK
  18 HKWQSFLEHPETVPYTGTPVDLDSELSSL------------------------------------
  19 ENSSSTFD----------------------------------------DQIIEEVSGLPFGEQVK
  20 --------------------PVDPQYPGFMTRGILDPRTYYYRRVFTDAVRAVEAAA--------
  21 -----------------------------------------------------------------
  22 ---------------------VDPQYPGFMTRGILDPGTYYYRRVFVDAVRAVEA----------
  23 ---------------TADPVGGTPAYPGFMTRGLDAPENYYYRRVFTDAVRAVEA----------
  24 -----------------TSISLHGHALGWMTKGILDKDTYYYRGVYLDAVRALE-----------


             140       150       160   
              |         |         |   
   1 DLAKIRKVMYFLITFGEGVEPANLKASVVFNQL
   2 DLAKIRKVMYFLITFGEGVEPANLKASVVFNQL
   3 DLAKIRKVMYFLITFGEGVEPANLKASVVFNQL
   4 DLAKIRKVMYFLITFGEGVEPANLKASVVFNQL
   5 DLAKIRKVMYFLVTFGEGVEPANLKASVVFNQL
   6 DLAKIRKVMYFLVTFGEGVEPANLKASVVFNQL
   7 ELAKIRKVMYFVFTFLDGADPSTVEYSIGF---
   8 ELAKIRKVMYFVITFLDGADPATIECSIGF---
   9 DLAKIRKVMYFLITFGEGVEPANLKASVVFNQL
  10 DLAKIRKVMYFLITFGEGVEPANLKASVVFNQL
  11 DLAKIRKVMYFLVTFGEGVEPANLKASVVFNQL
  12 DLAKIRKVMYFLITFGEGVEPANLKASVVFNQL
  13 DLAKIRKVMYFLVTFGEGVEPANLKASVVFNQL
  14 ELAKIRKVMYFVITFLDGADPATIECSIGF---
  15 ELAKIRKVMYFVFTFLDGADPSTVEYSIGF---
  16 ---------------------------------
  17 HL-------------------------------
  18 ---------------------------------
  19 HL-------------------------------
  20 ---------------------------------
  21 ---------------------------------
  22 ---------------------------------
  23 ---------------------------------
  24 ---------------------------------