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: T517_A.pdb A
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1onfa2 | Glutathione reductase | FAD/NAD(P)-binding domain | FAD/NAD(P)-binding domain | α/β |
| Hit | d1chua2 | L-aspartate oxidase | FAD/NAD(P)-binding domain | FAD/NAD(P)-binding domain | α/β |
Query <-- 1.673 --> IntermediateDALI alignment (Z-score: 4.3 Raw score:336.20) query 1 ------------------GMENKKMNLLLfsgdydkALASLIIANAAREMEIEVTIFCAf 42 ::::::::::: ::::::::::::::::::::::: d1onfa2 1 fppvkgientissdeffnIKESKKIGIVG------sGYIAVELINVIKRLGIDSYIFAR- 53 query 43 wgLLLLrdpekasqedkslyeqafssltprEAEELplskmnlggigkkmllemmkeekap 102 :::: ::::: d1onfa2 54 --GNRI-----------------------lRKFDE------------------------s 64 query 103 KLSDLLSGARKKEVKFY--AXQLsveimgfkkeelfpevqiMDVKEYLknaLESDLQLF- 159 ::::::::::::::::: :::: ::::::: :::::::: d1onfa2 65 VINVLENDMKKNNINIVtfADVV-----eikkvsdknlsihLSDGRIY---EHFDHVIYc 116 query 160 i 160 d1onfa2 117 v 117 FAST alignment (Normalized score: 4.62 Raw score:632.20) query 1 -----------------GMEN-KKMNLLLFSGDYDK---ALASLIIANAAREMEIEVTIF 39 :::: ::::: ::::::::::::::::::::: d1onfa2 1 FPPVKGIENTISSDEFFNIKESKKIGI---------VGSGYIAVELINVIKRLGIDSYIF 51 query 40 CAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKEE 99 :: d1onfa2 52 AR---------------------------------------------------------- 53 query 100 KAP-----------KLSDLLSGARKKEVKFYAXQLSVEIMGFKKEELFPEVQIMDVKEYL 148 ::::::::::::::::: ::::: d1onfa2 54 ---GNRILRKFDESVINVLENDMKKNNINIV--------------------TFADV---- 86 query 149 KN--------------------ALESDLQLFI--- 160 :::::::: d1onfa2 87 --VEIKKVSDKNLSIHLSDGRIYEHFDHVI--YCV 117 TMalign alignment (TM-score: 0.39 Raw score:61.66) query 1 -------------------GMENKKMNLLLFSGDYDKALASLIIANAAREMEIEVTIFCA 41 :: :::::::: : ::::::::::::::::::::::: d1onfa2 1 FPPVKGIENTISSDEFFNIKE-SKKIGIVG-S-----GYIAVELINVIKRLGIDSYIFAR 53 query 42 FWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEEL-PLSKMNLGGIGKKMLLEMMKEEK 100 ::::: : :::: d1onfa2 54 ---GNRIL---------------------R--KFDES----------------------- 64 query 101 APKLS-DLLSGARKKEVKFYAXQLS------------VEIMGFKKEELFPEVQIMDV--K 145 :: ::::::::::::::::::: ::: : d1onfa2 65 ---VINVLENDMKKNNINIVTFADVVEIKKVSDKNLS-----------------IHLSDG 104 query 146 EYLKNALESDLQLFI- 160 :: :: :::::::: d1onfa2 105 RI-YE--HFDHVIYCV 117 HHsearch alignment (Probability: 0.09 E-value:0.01) query 20 LASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPL 79 :::::::::::::::::::::::::::: d1onfa2 32 YIAVELINVIKRLGIDSYIFARGNRILR-------------------------------- 59 query 80 SKMNLGGIGKKMLLEMMKEEKA 101 ::::::::::::::::::: d1onfa2 60 ---KFDESVINVLENDMKKNNI 78
Intermediate <-- 2.056 --> HitDALI alignment (Z-score: 6.8 Raw score:478.00) d1onfa2 1 fppvkgientissdeffnikeskKIGIVGSGYIAVELINVIKRlGIDSYIFARGNRilRK 60 :::::::::::::::::::: :::::::::::: :: d1chua2 1 ---------------ntlpehscDVLIIGSGAAGLSLALRLAD-QHQVIVLSKGPV--TE 42 d1onfa2 61 FD-----------------------------------------esvinvLENDMKKNN-I 78 :: ::::::::: : d1chua2 43 FDetdsidshvedtliagagicdrhavefvasnarscvqwlidqgvlttLVSKALNHPnI 102 d1onfa2 79 NIVTFADVVEIKKVS-------DKNLSIHLS-----DGRIYEhFDHVIYCV--------- 117 ::::::::::::::: ::::::::: :::::: :::::::: d1chua2 103 RVLERTNAVDLIVSDkiglpgtRRVVGAWVWnrnkeTVETCH-AKAVVLATggaskvyqy 161 d1onfa2 118 ------------------------------------------------------------ 118 d1chua2 162 ttnpdissgdgiamawragcrvancggvmvddhgrtdveglyaigevsytglhganrmas 221 d1onfa2 118 ------------------------------ 118 d1chua2 222 nslleclvygwsaaeditrrmhdistlppw 251 FAST alignment (Normalized score: 5.27 Raw score:902.40) d1onfa2 1 FPPVKGIENTISSDEFFNIKESK--------KIGIVGSGYIAVELINVIKRLGIDSYIFA 52 ::::::::::::::::::: ::::::::: d1chua2 1 -----------------------NTLPEHSCDVLIIGSGAAGLSLALRLA-DQHQVIVLS 36 d1onfa2 53 RGNRILRKFDESVIN--------------------------------------------- 67 :: d1chua2 37 KG-------------PVTEFDETDSIDSHVEDTLIAGAGICDRHAVEFVASNARSCVQWL 83 d1onfa2 68 -------VLENDMKK-NNINIVTFADVVEIKKVSDKN------------LSIHLS----- 102 :::::::: :::::::::::::::: ::::: d1chua2 84 IDQGVLTTLVSKALNHPNIRVLERTNAVDLIV-----SDKIGLPGTRRVVGAWV-WNRNK 137 d1onfa2 103 -DGRIYEHFDHVIYCV-------------------------------------------- 117 :::: :::::::: d1chua2 138 ETVET-CHAKAVVL--ATGGASKVYQYTTNPDISSGDGIAMAWRAGCRVANCGGVMVDDH 194 d1onfa2 118 --------------------------------------------------------- 118 d1chua2 195 GRTDVEGLYAIGEVSYTGLHGANRMASNSLLECLVYGWSAAEDITRRMHDISTLPPW 251 TMalign alignment (TM-score: 0.38 Raw score:44.05) d1onfa2 1 ---------------------------------------FPP------------------ 3 ::: d1chua2 1 NTLPEHSCDVLIIGSGAAGLSLALRLADQHQVIVLSKGPVTEFDETDSIDSHVEDTLIAG 60 d1onfa2 4 -----------------------------VKGIE-NT-----ISSDEFFNIKESKKIGIV 28 ::::: :: :::: d1chua2 61 AGICDRHAVEFVASNARSCVQWLIDQGVLTTLVSKALNHPNIRVLE-------------- 106 d1onfa2 29 GSGYIAVELINVI-----------KR---------------LGIDSYIFARGN------- 55 :::::: ::: :: :::::::::::: d1chua2 107 --RTNAVD--LIVSDKIGLPGTRRVVGAWVWNRNKETVETCHAKAVVLATGGASKVYQYT 162 d1onfa2 56 ------RILRKFDESVI-NVLENDM--------------KKNN-INIVTFA--------- 84 :::: : : ::::::: :::: ::::::: d1chua2 163 TNPDISSGDG---I--AMAWRAGCRVANCGGVMVDDHGRTDVEGLYAIGEVSYTGLHGAN 217 d1onfa2 85 ----DVVEIKKVSDKNLSIHLSDGR-I--YE--H--FD------------HVIYCV 117 ::::: : :: : :: d1chua2 218 RMAS----------------NSLLECLVYGWSAAEDITRRMHDISTLPPW------ 251 HHsearch alignment (Probability: 0.93 E-value:0.00) d1onfa2 23 KKIGIVGSGYIAVELINVIKRLGIDSYIFARG 54 ::::::::::::::::::::::: :::::::: d1chua2 8 CDVLIIGSGAAGLSLALRLADQH-QVIVLSKG 38