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 | d1ps9a3 | 2,4-dienoyl-CoA reductase, middle domain | Nucleotide-binding domain | Nucleotide-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 <-- 1.727 --> HitDALI alignment (Z-score: 6.8 Raw score:485.90) d1onfa2 1 ---------------------fppvkgientissdeffniKESKKIGIVGSGYIAVELIN 39 :::::::::::::::::::: d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilpaVQKKNLAVVGAGPAGLAFAI 60 d1onfa2 40 VIKRLGIDSYIFARGNRILRKF-----------DESVINVLENDMKKNNINIVTFADVVE 88 :::::::::::::::::::::: ::::::::::::::::::::::::::: d1ps9a3 61 NAAARGHQVTLFDAHSEIGGQFniakqipgkeeFYETLRYYRRMIEVTGVTLKLNHTVTA 120 d1onfa2 89 IkkvsdknlsihlsdgrIYEHFDHVIYCV------------------------------- 117 : :::::::::::: d1ps9a3 121 D----------------QLQAFDETILASgipnralaqplidsgktvhliggcdvameld 164 d1onfa2 118 --------------- 118 d1ps9a3 165 arraiaqgtrlalei 179 FAST alignment (Normalized score: 6.92 Raw score:1001.00) d1onfa2 1 FPPVKGIENTISSDEFF--------------------------------------NIKES 22 ::::: d1ps9a3 1 -----------------INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQK 43 d1onfa2 23 KKIGIVGSGYIAVELINVIKRLGIDSYIFARGNRILRKF------------DESVINVLE 70 :::::::::::::::::::::::::::::::::::::: ::::::::: d1ps9a3 44 KNLAVVGAGPAGLAFAINAAARGHQVTLFDAHSEIGGQ-FNIAKQIPGKEEFYETLRYYR 102 d1onfa2 71 NDMKKNNINIVTFADVVEIKKVSDKNLSIHLSDGR---IYEHFDHVIYCV---------- 117 :::::::::::::::: :::::::::: d1ps9a3 103 RMIEVTGVTLKLNHTV-------------------TADQLQAFDETIL--ASGIPNRALA 141 d1onfa2 118 -------------------------------------- 118 d1ps9a3 142 QPLIDSGKTVHLIGGCDVAMELDARRAIAQGTRLALEI 179 TMalign alignment (TM-score: 0.58 Raw score:67.81) d1onfa2 1 ----------------------------------------FPPVKGIENTISSDEFFNIK 20 : d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPA-------------------V 41 d1onfa2 21 ESKKIGIVGSGYIAVELINVIKRLGIDSYIFARGNRILR-KF--D-------ESV-INVL 69 ::::::::::::::::::::::::::::::::::::::: :: : ::: :::: d1ps9a3 42 QKKNLAVVGAGPAGLAFAINAAARGHQVTLFDAHSEIGGQFNIAKQIPGKEEFYETLRYY 101 d1onfa2 70 ENDMKKNNINIVTFADVVEIKKVSDKNLSIHLSDGRIYEHFDHVIYCV------------ 117 :::::::::::::::::::: : ::::::::::: d1ps9a3 102 RRMIEVTGVTLKLNHTVTAD----------Q------LQAFDETILASGIPNRALAQPLI 145 d1onfa2 118 ---------------------------------- 118 d1ps9a3 146 DSGKTVHLIGGCDVAMELDARRAIAQGTRLALEI 179 HHsearch alignment (Probability: 0.99 E-value:0.00) d1onfa2 17 FNIKESKKIGIVGSGYIAVELINVIKRLGIDSYIFARGNRILRKF-----------DESV 65 ::::::::::::::::::::::::::::::::::::::::::::: :::: d1ps9a3 38 LPAVQKKNLAVVGAGPAGLAFAINAAARGHQVTLFDAHSEIGGQFNIAKQIPGKEEFYET 97 d1onfa2 66 INVLENDMKKNNINIVTFADVVEIKKVS 93 :::::::::::::::::::::::::::: d1ps9a3 98 LRYYRRMIEVTGVTLKLNHTVTADQLQA 125