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 | d1nvta1 | Shikimate 5-dehydrogenase AroE | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | 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 <-- 1.607 --> HitDALI alignment (Z-score: 3.7 Raw score:305.60) d1onfa2 1 fppvkgientissDEFFNI-----KESK-KIGIVGSGYIAVELINVIKRlGIDSYIFARG 54 :::::: :::: :::::::::::::::::::: :::::::::: d1nvta1 1 ----------dgiGARMALeeeigRVKDkNIVIYGAGGAARAVAFELAK-DNNIIIANRT 49 d1onfa2 55 NRIlrkfdesvinvleNDMKKN-------NINIVtFADVveikkvsdknlsihlsdgrIY 107 ::: :::::: ::::: :::: :: d1nvta1 50 VEK--------aealaKEIAEKlnkkfgeEVKFS-GLDV-------------------DL 81 d1onfa2 108 EHFDHVIYCV-------------------------------------------------- 117 :::::::::: d1nvta1 82 DGVDIIINATpigmypnidvepivkaeklredmvvmdliynpletvllkeakkvnaktin 141 d1onfa2 118 ------------------------------------ 118 d1nvta1 142 glgmliyqgavafkiwtgvepnievmknaiidkitk 177 FAST alignment (Normalized score: 4.05 Raw score:583.20) d1onfa2 1 FPPVKGIENTISSDE---------FFNIKES--KKIGIVGSGYIAVELINVIKRLGIDSY 49 ::::::: :::::::::::::::::::: :::::: d1nvta1 1 ---------------DGIGARMALEEEIGRVKDKNIVIYGAGGAARAVAFELA-KDNNII 44 d1onfa2 50 IFARGNRILRKFDESV----INVLENDMKKN--------NINIVTFADVVEIKKVSDKNL 97 :::: :::::::::: ::::: d1nvta1 45 IANR------------TVEKAEALAKEIAE-KLNKKFGEEVKFS---------------- 75 d1onfa2 98 SIHLS-DGRIYEHFDHVIYCV--------------------------------------- 117 ::::::::::::: d1nvta1 76 -----GLDVDLDGVDIIIN--ATPIGMYPNIDVEPIVKAEKLREDMVVMDLIYNPLETVL 128 d1onfa2 118 ------------------------------------------------- 118 d1nvta1 129 LKEAKKVNAKTINGLGMLIYQGAVAFKIWTGVEPNIEVMKNAIIDKITK 177 TMalign alignment (TM-score: 0.51 Raw score:59.22) d1onfa2 1 ---FPPVKGIENTISSDEFFNI---KES--KKIGIVGSGYIAVELINVIKRLGIDSYIFA 52 ::::::: ::: ::::::::::::::::::::: :::::::: d1nvta1 1 DGI------------GARMALEEEIGRVKDKNIVIYGAGGAARAVAFELAK-DNNIIIAN 47 d1onfa2 53 RGNRILRKFDESVINVLENDMKK---NN----INIVTFADVVEIKKVSDKNLSIHLSDGR 105 :::::: :: ::::::: :: :::: :: : : d1nvta1 48 RTVEKA-------EA-LAKEIAEKLNKKFGEEVKFS--GL---------------D---V 79 d1onfa2 106 IYEHFDHVIYCV------------------------------------------------ 117 :::::::::::: d1nvta1 80 DLDGVDIIINATPIGMYPNIDVEPIVKAEKLREDMVVMDLIYNPLETVLLKEAKKVNAKT 139 d1onfa2 118 -------------------------------------- 118 d1nvta1 140 INGLGMLIYQGAVAFKIWTGVEPNIEVMKNAIIDKITK 177 HHsearch alignment (Probability: 0.79 E-value:0.00) d1onfa2 17 FNIKESKKIGIVGSGYIAVELINVIKRLGIDSYIFARGNR 56 ::::::::::::::::::::::::::: :::::::::::: d1nvta1 13 IGRVKDKNIVIYGAGGAARAVAFELAK-DNNIIIANRTVE 51