CAB-align (residue-residue Contact Area Based Alignment)
(Takeda-Shitaka Lab)
Main
CAB-align Download
How To Install
- Uncompress tar file
>tar zxf ./CAB_align.tar.gz
- Set path in ./CAB_align/cabalign.sh (exe="./****")
>vi ./CAB_align/cabalign.sh
- Execute Test Run
>cd ./CAB_align
>cabalign.sh d2cvba1.ent d2qdxa2.ent
- Output example
#d1= d2cvba1.mtx 185
#d2= d2qdxa2.mtx 158
#SepWeight= 0.500
#Tarea1= 12012.362
#Tarea1_sep4= 7978.570
#Tarea2= 9799.510
#Tarea2_sep4= 6198.884
#Fin malloc
#Fin setup mammoth
# of Seeds = 290
# of Nr ALI = 86
#INITIAL ALIGNMENTS TIME= 1.632279
# of NR = 172
#finished TMalign N= 94
#Window 11 finished DP N= 94
#Final N= 94 Max= 1833.117
#Window 7 finished DP N= 94
#Final N= 94 Max= 1833.117
#Window 3 finished DP N= 94
#Final N= 94 Max= 1876.549
No1 Weighted sco= 1876.549 SupRec= 5.632 RMSD= 14.547 (145 Res)
LQYPELPLESPLIDAELPDPRGGRYRLSQFHEP--LLAVVFCNHC-PYVKGSIGELVALAER-----YRGKVAFVGINANDYEKYPEDAPEKAAFAEEHGIFFPYLLDETQEVAKAYRALRTPEVFLFDERRLLRYHGRVNDNPKDPSKVQSHDLEAAIEALLRGEEPPL---KEAPAIGCTIKWRPGNEPEVRIG--
HDDLLPGKHLYLLSTGTGMAPFLSVIQDPETYERYEKVILVHGVRWVSELAYADFITKVLPEHEYFGDQVKEKLIYYP--LVTREPFRNQGRQTDLMRSG-----------KLFEDIG---------LPPMNPQDDRAMICG-------SPSMLEETSAVLDSFGLKISPRMGEPGDYLIERAFV-----------EK
#FINISHED TOTAL TIME= 3.498043
contact: shitakam at pharm.kitasato-u.ac.jp
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