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 | d1ps9a3 | 2,4-dienoyl-CoA reductase, middle domain | Nucleotide-binding domain | Nucleotide-binding domain | α/β |
| Hit | d1b16a_ | Drosophila alcohol dehydrogenase | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
Query <-- 1.613 --> IntermediateDALI alignment (Z-score: 4.1 Raw score:393.70) query 1 ---------------------------------------GMENKKMNLLLfsgdydkALA 21 ::::::::::: ::: d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilpAVQKKNLAVVG------aGPA 54 query 22 SLIIANAAREMEIEVTIFCAfwgLLLLrdpekasqedkslyeqafssltpreaeELPLsk 81 :::::::::::::::::::: :::: :::: d1ps9a3 55 GLAFAINAAARGHQVTLFDA---HSEI------------------------ggqFNIA-- 85 query 82 mnlgGIGKKmllemmkeekaPKLSDLLSGARKKEVKFYAXqlsveimgfkkeelfpevqI 141 ::::: :::::::::::::::::::: : d1ps9a3 86 --kqIPGKE--------efyETLRYYRRMIEVTGVTLKLN------------------hT 117 query 142 MDVKEYlknaLESDLQLFI----------------------------------------- 160 :::::: ::::::::: d1ps9a3 118 VTADQL----QAFDETILAsgipnralaqplidsgktvhliggcdvameldarraiaqgt 173 query 161 ------ 161 d1ps9a3 174 rlalei 179 FAST alignment (Normalized score: 3.87 Raw score:654.60) query 1 GME------------------------------------------NKKMNLLLFSGDYDK 18 :::::: d1ps9a3 1 ---INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAV--------- 48 query 19 ---ALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLT-PREA 74 :::::::::::::::::::::: :::: d1ps9a3 49 VGAGPAGLAFAINAAARGHQVTLFD------------------------------AHSEI 78 query 75 EELPLSKMNLGGIGKKMLLEMMKEEKAP------------------KLSDLLSGARKKEV 116 :::::::::::::: d1ps9a3 79 ----------------------------GGQFNIAKQIPGKEEFYETLRYYRRMIEVTGV 110 query 117 KFYAXQLSVEIMGFKKEELFPE-VQIMDVKEYLKNA-LESDLQLFI-------------- 160 ::: :::::::: ::::::: d1ps9a3 111 TLK-------------------LNHTVTADQ-----LQAFDETI--LASGIPNRALAQPL 144 query 161 ----------------------------------- 161 d1ps9a3 145 IDSGKTVHLIGGCDVAMELDARRAIAQGTRLALEI 179 TMalign alignment (TM-score: 0.44 Raw score:70.82) query 1 ---------------------------------------GMENKKMNLLLFSGDYDKALA 21 ::::::::::: :::: d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVG------AGPA 54 query 22 SLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREA-EELPLS 80 :::::::::::::::::::: ::::: : :::: d1ps9a3 55 GLAFAINAAARGHQVTLFDA--HSEIG-------------------------GQ-FNIA- 85 query 81 KMNLGGIGKKMLLE-MMKEEKAPKLSDLLSGARKKEVKFYAXQLSVEIMGFKKEELFPEV 139 : :::::: :: ::::::::::::::::::::: : d1ps9a3 86 --K-QIPGKE--EFY-------ETLRYYRRMIEVTGVTLKLNH-T--------------- 117 query 140 QIMDVKEYLKNALESDLQLFI--------------------------------------- 160 :::::: :::::::::: d1ps9a3 118 ----VTADQL-QAFDETILASGIPNRALAQPLIDSGKTVHLIGGCDVAMELDARRAIAQG 172 query 161 ------- 161 d1ps9a3 173 TRLALEI 179 HHsearch alignment (Probability: 0.10 E-value:0.01) query 2 MENKKMNLLLFSGDYDKALASLIIANAAREMEIEVTIF 39 ::::::::::::: :::::::::::::::::::: d1ps9a3 40 AVQKKNLAVVGAG-----PAGLAFAINAAARGHQVTLF 72
Intermediate <-- 1.477 --> HitDALI alignment (Z-score: 5.2 Raw score:562.50) d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilpAVQKKNLAVVG-AGPAGLAFA 59 ::::::::::: ::::::::: d1b16a_ 1 --------------------------------------mDLTNKNVIFVAaLGGIGLDTS 22 d1ps9a3 60 INAAARGH-QVTLFDAHSEiggqfniakqipgkeefyetlRYYRRMIEVTG----VTLKL 114 :::::::: :::::::::: ::::::::::: ::::: d1b16a_ 23 RELVKRNLkNFVILDRVEN---------------------PTALAELKAINpkvnITFHT 61 d1ps9a3 115 nHTVT-----ADQLQ--------AFDETILASGI-----------pNRALAQPLIDSGK- 149 :::: ::::: ::::::::::: ::::::::::::: d1b16a_ 62 -YDVTvpvaeSKKLLkkifdqlkTVDILINGAGIlddhqiertiaiNFTGLVNTTTAILd 120 d1ps9a3 150 -----------TVHLIggcDVAM------------------------------------- 161 ::::: :::: d1b16a_ 121 fwdkrkggpggIIANI---CSVTgfnaihqvpvysaskaavvsftnslaklapitgvtay 177 d1ps9a3 162 ---eLDAR---------------------------RAIAQGTRLALEI------------ 179 :::: ::::::::::::: d1b16a_ 178 sinpGITRtplvhtfnswldveprvaelllshptqTSEQCGQNFVKAIeankngaiwkld 237 d1ps9a3 180 ----------------- 180 d1b16a_ 238 lgtleaiewtkhwdshi 254 FAST alignment (Normalized score: 4.08 Raw score:868.90) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAV---QKKNLAVV-GAGPAGL 56 :::::::: ::::::: d1b16a_ 1 -----------------------------------------MDLTNKNVIFVAALGGIGL 19 d1ps9a3 57 AFAINAAARG-HQVTLFDAHSEIGGQFNIAKQIPGKEEFYET-LRYYRRMIEV----TGV 110 :::::::::: ::::::::: :::::::::: ::: d1b16a_ 20 DTSRELVKRNLKNFVILDRV----------------------ENPTALAELKAINPKVNI 57 d1ps9a3 111 TLKLNHTVT-------ADQLQ---------AFDETILASGIPN----------------- 137 :: :::: :::: :::::::::: d1b16a_ 58 TF-HTYD--VTVPVAESKKL-LKKIFDQLKTVDILINGAG---ILDDHQIERTIAINFTG 110 d1ps9a3 138 ---------------------------------------------RALAQPLID------ 146 ::::::::: d1b16a_ 111 LVNTTTAILDFWDKRKGGPGGIIANICSVTGFNAIHQVPVYSASKAAVVSFTNSLAKLAP 170 d1ps9a3 147 -SGKTVHLIGGCDVAM----------------------------ELDARRAIAQGTRLAL 177 ::::::: :::: :::::::::::::::: d1b16a_ 171 ITGVTAYS----INPGITRTPLVHTFNSWLDVEPRVAELLLSHPTQTSEQCGQNFVKAIE 226 d1ps9a3 178 EI---------------------------- 179 d1b16a_ 227 --ANKNGAIWKLDLGTLEAIEWTKHWDSHI 254 TMalign alignment (TM-score: 0.45 Raw score:80.06) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVGA-GPAGLAFA 59 ::::::::::::: :::::::: d1b16a_ 1 --------------------------------------MDLTNKNVIFVAALGGIGLDTS 22 d1ps9a3 60 INAA-ARGHQVTLFDAHSEIGGQFNIAKQIPGKEEFYETLRYYRRMIEVTGVTLKLNHT- 117 :::: :::::::::: ::::: : ::::::::::::::::::::: d1b16a_ 23 RELVKRNLKNFVILD-RVENP---------------T-ALAELKAINPKVNITFHTYDVT 65 d1ps9a3 118 --------------------------------------------VTADQ--LQA--F--- 126 ::::: ::: : d1b16a_ 66 VPVAESKKLLKKIFDQLKTVDILINGAGILDDHQIERTIAINFTGLVNTTTAILDFWDKR 125 d1ps9a3 127 -----DETILASGIP----------N---R-ALAQPLIDSG--------KTVHLIGGCDV 159 :::::::::: : : :::::::::: ::::: ::: d1b16a_ 126 KGGPGGIIANICSVTGFNAIHQVPVYSASKAAVVSFTNSLAKLAPITGVTAYSI---NPG 182 d1ps9a3 160 A--------------------------MELDARRAIAQGTRLALEI-------------- 179 : ::::::::::::::::::: d1b16a_ 183 ITRTPLVHTFNSWLDVEPRVAELLLSHPTQTSEQCGQNFVKAIEANKNGAIWKLDLGTLE 242 d1ps9a3 180 ------------ 180 d1b16a_ 243 AIEWTKHWDSHI 254 HHsearch alignment (Probability: 0.79 E-value:0.00) d1ps9a3 41 VQKKNLAVVGAG-PAGLAFAINAAARGHQVTLFDAHSE 77 :::::::::::: ::::::::::::::::::::::::: d1b16a_ 3 LTNKNVIFVAALGGIGLDTSRELVKRNLKNFVILDRVE 40