Sequence-based mutation analysis of ARSA

From Bioinformatikpedia
Revision as of 16:27, 21 June 2011 by Zacher (talk | contribs)

Intro

SNP type mutation position
missense Asp-Asn 29
missense Gln-His 153
missense Thr-Met 274
missense Thr-Ile 409
missense Cys-Gly 489
synonymous Asp [D]-Asp [D] 381
synonymous Pro [P]-Pro [P] 195
synonymous His [H]-His [H] 151
missense Trp [W]-Cys [C] 193


SNAP

We ran snap using the following command: 


snapfun -i ARSA.fasta -m mutants.txt -o snap.out

Multiple sequence alignments

First, we downloaded the HSSP file for ARSA to get all proteins, which are homolog to it. Then we extracted from it all 75 mammalian proteins and downloaded their sequences. Uniprot identifiers of these are listed below:

  • sp|Q08DD1|ARSA_BOVIN
  • sp|P15289|ARSA_HUMAN
  • sp|P50428|ARSA_MOUSE
  • sp|P15848|ARSB_HUMAN
  • sp|P50429|ARSB_MOUSE
  • sp|P50430|ARSB_RAT
  • sp|P51689|ARSD_HUMAN
  • sp|P51690|ARSE_HUMAN
  • sp|Q60HH5|ARSE_MACFA
  • sp|P54793|ARSF_HUMAN
  • sp|Q32KH9|ARSG_CANFA
  • sp|Q96EG1|ARSG_HUMAN
  • sp|Q3TYD4|ARSG_MOUSE
  • sp|Q32KJ9|ARSG_RAT
  • sp|Q32KH8|ARSH_CANFA
  • sp|Q5FYA8|ARSH_HUMAN
  • sp|Q32KH7|ARSI_CANFA
  • sp|Q5FYB1|ARSI_HUMAN
  • sp|Q32KI9|ARSI_MOUSE
  • sp|Q32KJ8|ARSI_RAT
  • sp|Q32KH5|GALNS_CANFA
  • sp|P34059|GALNS_HUMAN
  • sp|Q571E4|GALNS_MOUSE
  • sp|Q8WNQ7|GALNS_PIG
  • sp|Q32KJ6|GALNS_RAT
  • sp|P08842|STS_HUMAN
  • sp|P50427|STS_MOUSE
  • sp|P15589|STS_RAT
  • tr|Q8N322|Q8N322_HUMAN
  • tr|Q96I49|Q96I49_HUMAN
  • tr|Q6YL38|Q6YL38_HUMAN
  • tr|Q63HL5|Q63HL5_HUMAN
  • tr|Q6ZNJ9|Q6ZNJ9_HUMAN
  • tr|B4DVI5|B4DVI5_HUMAN
  • tr|A8K4A0|A8K4A0_HUMAN
  • tr|C9J5G7|C9J5G7_HUMAN
  • tr|B7XD04|B7XD04_HUMAN
  • tr|B7Z267|B7Z267_HUMAN
  • tr|B2R6P1|B2R6P1_HUMAN
  • tr|B7Z6V4|B7Z6V4_HUMAN
  • tr|B4DQ74|B4DQ74_HUMAN
  • tr|B7WNL6|B7WNL6_HUMAN
  • tr|A1L484|A1L484_HUMAN
  • tr|B2R7S0|B2R7S0_HUMAN
  • tr|B7Z1M0|B7Z1M0_HUMAN
  • tr|A5D7J7|A5D7J7_BOVIN
  • tr|Q32KI0|Q32KI0_CANFA
  • tr|Q32KI2|Q32KI2_CANFA
  • tr|D2HFI0|D2HFI0_AILME
  • tr|Q2XQY2|Q2XQY2_MACFA
  • tr|Q32KI1|Q32KI1_CANFA
  • tr|D2HFI1|D2HFI1_AILME
  • tr|A6MKC3|A6MKC3_CALJA
  • tr|D2H6D4|D2H6D4_AILME
  • tr|D2HFI2|D2HFI2_AILME
  • tr|Q8WNR3|Q8WNR3_PIG
  • tr|D2HXW7|D2HXW7_AILME
  • tr|Q32KI3|Q32KI3_CANFA
  • tr|A6QLR7|A6QLR7_BOVIN
  • tr|D2I3S5|D2I3S5_AILME
  • tr|A1XI21|A1XI21_HORSE
  • tr|Q32KI5|Q32KI5_CANFA
  • tr|Q19AM0|Q19AM0_BOVIN
  • tr|D2HFH9|D2HFH9_AILME
  • tr|A6QLZ3|A6QLZ3_BOVIN
  • tr|Q15B85|Q15B85_MACFA
  • tr|Q9DC66|Q9DC66_MOUSE
  • tr|Q32KK2|Q32KK2_RAT
  • tr|B5DEF1|B5DEF1_RAT
  • tr|B2RWQ7|B2RWQ7_MOUSE
  • tr|B4F7E2|B4F7E2_RAT
  • tr|Q8CC47|Q8CC47_MOUSE
  • tr|Q32KK0|Q32KK0_RAT
  • tr|Q3KR80|Q3KR80_RAT
  • tr|D3ZC09|D3ZC09_RAT
Retrieved from "https://i12r-studfilesrv.informatik.tu-muenchen.de/wiki/index.php?title=Sequence-based_mutation_analysis_of_ARSA&oldid=6441"