The ConSurf Server

SERVER FOR THE IDENTIFICATION OF FUNCTIONAL REGIONS IN BIOPOLYMERS

The ConSurf Server

SERVER FOR THE IDENTIFICATION OF FUNCTIONAL REGIONS IN BIOPOLYMERS

ConSurf Job Status Page - FINISHED

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Job title


1bl8

Date


13/06/2022

Running Parameters

Structure


PDB ID: 1bl8

Chain identifier: A

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



Extract sequence from PDB file
Find sequence homologs
Remove redundant and unrelated sequences
Align sequences
Select best evolutionary model
Calculate conservation scores
Project conservation scores onto the molecule

Running Messages



There are 12749 HMMER hits. 6480 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).