Functional Analysis Of 1zkd: Difference between revisions
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[http://locate.imb.uq.edu.au/cgi-bin/report.cgi?entry=PA111577.1 mouse ortholog] | [http://locate.imb.uq.edu.au/cgi-bin/report.cgi?entry=PA111577.1 mouse ortholog] | ||
Results: soluble non-secreted protein, subcell. location prob. cytoplasm and mitochondrion | Results: soluble non-secreted protein, subcell. location prob. cytoplasm and mitochondrion | ||
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Nuclear Protein Localisation Prediction | |||
[http://pprowler.itee.uq.edu.au/Nucleo-Release-1.0/index.jsp?requestid=8874182 mouse ortholog] | |||
Result: NLS 0.07 nonNLS 0.93 | |||
Revision as of 04:42, 5 June 2007
Best scores for Methyltransferase: in SSM (Secondary Structure Matching), LIG(Ligand Template Matches) and REV (Reverse Template Matches)
Superfamily search against HMM library found motif similar to S-adenosyl-L-methionine-dependent methyltransferases (1g8a) which is a RNA binding protein:
http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/pdbsum/GetPage.pl?pdbcode=1g8a
http://supfam.org/SUPERFAMILY/cgi-bin/scop.cgi?sunid=53335
No DNA-binding motifs (Helix-turn-helix) were found in the ProFunc search.
Search against NCBI Protein Database for "S-adenosyl-L-methionine-dependent Methyltransferase" limited to RefSeq Sequences
101 hits --> saved all as FASTA file "search150507.fasta"
deleted sequences of excessive length from fasta file:
gi15234111 gi88860170 gi77360608 gi119501377 gi126138018
added sequence of 1zkd to fasta file --> saved file as "search150507_1.fasta"
MSA still very messy --> NEXT: BLAST search for 1zkd and mouse and human orthologs. Build MSA from the resulting sequences from BLAST search !
ncbi entry mouse ortholog LOC73694human ortholog LOC554711zkd Rhodopseudomonas palustris
--blastp mouse ortholog results e-value cut off e-48-- --blastp human ortholog results e-value cut off e-47-- --blastp 1zkd R.pelustris results e-value cut off e-48--
LOCATE Data
mouse ortholog Results: soluble non-secreted protein, subcell. location prob. cytoplasm and mitochondrion
Nuclear Protein Localisation Prediction
mouse ortholog Result: NLS 0.07 nonNLS 0.93
