The ConSurf Server
SERVER FOR THE IDENTIFICATION OF FUNCTIONAL REGIONS IN BIOPOLYMERS
Job title
2POL
Date
08/12/2024
Running Parameters
Structure
UniProt ID: 2POL
Phylogenetic Progress
Neighbor Joining with ML distance
Conservation Scores
Method of Calculation: Bayesian
Model of substitution for proteins: Best fit
Alignment
Multiple Sequence Alignment is built using MAFFT
The Homologues are collected from UNIREF90
Homolog search algorithm: HMMER
HMMER E-value: 0.0001
No. of HMMER Iterations: 1
Maximal %ID Between Sequences : 95
Minimal %ID For Homologs : 35
150 sequences that sample the list of homologues to the query.
Run Progress
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Extract sequence from PDB file
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Find sequence homologs
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Remove redundant and unrelated sequences
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Align sequences
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Select best evolutionary model
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Calculate conservation scores
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Project conservation scores onto the molecule
Running Messages
There are 4744 HMMER hits. 4659 of them are unique, including the query.
The calculation is performed on a sample of 150 sequences that represent the list of homologues to the query.
Here is the list of sequences that produced significant alignments, but were not chosen as hits.
The best evolutionary model was selected to be: LG. (details).