HorA Server
HorA Server provides remote homology inference for protein domains with known 3D structures.
HorA Server runs in two modes: database search and pairwise comparison. In database search mode, it detects and lists the likely homologs for the query domain. In pairwise comparison mode, it estimates the probability of being homologous for a pair of query domains.

Click for the flowchart of HorA server.
Click for tutorial and explanation of the server results.
We are improving HorAServer. Until the renovation is finished, use this temporary HorAServer2

Database search:
Data input
Input a query domain in PDB format to find its likely homologs in the SCOP40 database (ver 1.69).

PDB id: chain: start: end:
-or- Upload a query file:
Processing method
Processing method:   Fast   Accurate

"Fast" procedure usually takes less than 10 minutes (may take up to 1 hour for a large query or a query from a heavily-populated family), but is less accurate. "Accurate" procedure on avarage takes 24 hours (may take up to several days for a large query), but is more accurate.
Submission
Email (required):
Title (optional):


Pairwise comparison:
Data input
Input a pair of domains in PDB format to estimate their probability of being homologous.
PDB id1: chain: start: end:
-or- Upload a PDB file for query1:
PDB id2: chain: start: end:
-or- Upload a PDB file for query2:
Processing method
Processing method:   Fast   Accurate

"Fast" procedure usually takes less than 10 minutes, but is less accurate. "Accurate" procedure on avarage takes 24 hours (may take longer for large queries), but is more accurate.
Submission
Email (required):
Title (optional):

References:

H. Cheng, BH. Kim, and N. Grishin (2008). Discrimination between distant homologs and structural analogs: lessons from manually constructed, reliable datasets. J. Mol. Biol. 377(4): 1265-1278

BH. Kim, H. Cheng, and N. Grishin (2009). HorA web server to infer homology between proteins using sequence and structural similarity. Nucleic Acids Res. 37(Web Server issue):W532-8

Comments and suggestions to: grishin@chop.swmed.edu

Last updated on 2009-8-3