Reference:
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
Query:542d3.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
Click the hit # to scoll down to alignments.
HIT # |
SCOPid | PROTEIN | SCOP SUPERFAMILY | SCOP FOLD | SCOP CLASS |
Probability | E-value | Raw Score |
---|---|---|---|---|---|---|---|---|
SCOP domains with score better than the threshold (Probability > 0.9) | ||||||||
1 | d1kqpa_ | NH3-dependent NAD+-synthetase | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β | 0.94 | 0.00 | 52.1 |
SCOP domains with score worse than the threshold (Probability ≤ 0.9) | ||||||||
2 | d1dv0a_ | DNA repair protein Hhr23a | UBA-like | RuvA C-terminal domain-like | All α | 0.33 | 0.00 | 25.8 |
3 | d1vjja4 | Transglutaminase catalytic domain | Cysteine proteinases | Cysteine proteinases | α+β | 0.31 | 0.00 | 25.8 |
4 | d1ifya_ | DNA repair protein Hhr23a | UBA-like | RuvA C-terminal domain-like | All α | 0.24 | 0.00 | 23.3 |
5 | d1r7ra3 | Membrane fusion ATPase VCP/p97 | P-loop containing nucleoside triphosphate hydrolases | P-loop containing nucleoside triphosphate hydrolases | α/β | 0.20 | 0.00 | 17.6 |
query 2 DYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGT 54 :::::::::::: ::::::::::::::::::::: :::::: d1kqpa_ 227 SYDEIDDYLEGK-------------EVSAKVSEALEKRYSMTEHKR-QVPASM 265
query 15 DRDTGADAIVAAGYDRELVVKTLRMVDTAE 44 :::::::::::::::::::::::::::::: d1dv0a_ 1 QEKEAIERLKALGFPESLVIQAYFACEKNE 30
query 52 PGTKISAKGFGKDRRLPITNRWR 74 ::::::::::::::::::::::: d1vjja4 278 IGRYISTKAVGSNARMDVTDKYK 300
query 15 DRDTGADAIVAAGYDRELVVKTLRMVDTA 43 ::::::::::::::::::::::::::::: d1ifya_ 7 EYETMLTEIMSMGYERERVVAALRASYNN 35
query 1 PDYPVLDAILELYV-DRDTGADAIVA--AGYDRELVVKTLRMVDTAEYKR 47 :::::::::::::: ::::::::::: :::::::::::::::::::::: d1r7ra3 172 PDEKSRVAILKANLRKSDVDLEFLAKMTNGFSGADLTEICQRACKLAIRE 221