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 | d1p5fa_ | DJ-1 | Class I glutamine amidotransferase-like | Flavodoxin-like | 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 <-- 1.036 --> HitDALI alignment (Z-score: 5.2 Raw score:502.90) d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilpavqKKNLAVVG----aGPAGL 56 :::::::: ::::: d1p5fa_ 1 ------------------------------------------SKRALVILakgaeEMETV 18 d1ps9a3 57 AFAINAAARGHQVTLFD---AHSEiGGQFNIakqipgkeefyetlryyrrmievtgvtlk 113 ::::::::::::::::: :::: :::::: d1p5fa_ 19 IPVDVMRRAGIKVTVAGlagKDPV-QCSRDV--------------------------vic 51 d1ps9a3 114 LNHTVT-aDQLQAFDETILA---sGIPNRA---LAQPLIDSG----KTVHLIGGCD---- 158 :::::: :::::::::::: :::::: ::::::::: :::::::::: d1p5fa_ 52 PDASLEdaKKEGPYDVVVLPggnlGAQNLSesaAVKEILKEQenrkGLIAAICAGPtall 111 d1ps9a3 159 -----------VAMEL-----------------------darRAIAQGTRLALEI----- 179 ::::: ::::::::::::: d1p5fa_ 112 aheigfgskvtTHPLAkdkmmngghytysenrvekdgliltsRGPGTSFEFALAIvealn 171 d1ps9a3 180 --------------- 180 d1p5fa_ 172 gkevaaqvkaplvlk 186 FAST alignment (Normalized score: 4.53 Raw score:826.40) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVGA-------GP 53 :::::: :: d1p5fa_ 1 ------------------------------------------SKRALV---ILAKGAEEM 15 d1ps9a3 54 AGLAFAINAAARGHQVTLFDA--HSEIGGQFNIAKQIPGKEEFYETLRYYRRMIEVTGVT 111 ::::::::::::::::::::: ::::::: d1p5fa_ 16 ETVIPVDVMRRAGIKVTVAGLAGKDPVQCS------------------------------ 45 d1ps9a3 112 LKLNHTVTAD---------------QLQAFDETILASGIPN--------------RALAQ 142 :::::::::::: ::::: d1p5fa_ 46 ----------RDVVICPDASLEDAKKEGPYDVVVLPG----GNLGAQNLSESAAVKEILK 91 d1ps9a3 143 PLIDSGKTVHLIGGCDVAME---------------------------------------- 162 ::::::::::::::: d1p5fa_ 92 EQENRKGLIAAICAG-----PTALLAHEIGFGSKVTTHPLAKDKMMNGGHYTYSENRVEK 146 d1ps9a3 163 -------LDARRAIAQGTRLALEI----------------- 179 :::::::::::::::: d1p5fa_ 147 DGLILTSRGPGTSFEFALAIVEA-LNGKEVAAQVKAPLVLK 186 TMalign alignment (TM-score: 0.30 Raw score:54.36) d1ps9a3 1 ----INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPIL------------------ 38 :::::::::: ::::::::::: ::::: d1p5fa_ 1 SKRALVILAKGAEE-----------METVIPVDVMR-RAGIKVTVAGLAGKDPVQCSRDV 48 d1ps9a3 39 ----------------PAVQKKNLAVVGAGPAGLAFAINAAAR--GHQVTLFDAHSEIG- 79 ::: : d1p5fa_ 49 VICPDASLEDAKKEGP------------------------YDVVV-------------LP 71 d1ps9a3 80 GQFNIAKQIPGKEEFY-E-TLR-YYRRMIEVTGVT--------------LKLNHTVTADQ 122 :: :: :::::: : ::: :::::::::::: ::: ::: d1p5fa_ 72 -GG--NL---GAQNLSESAAVKEILKEQENRKGLIAAICAGPTALLAHEIGF-GSK---- 120 d1ps9a3 123 LQAFDETILASG-IP-N----------RALAQPLIDSGKTVHLI--------GGCDVAME 162 ::: :: : ::: ::: :: d1p5fa_ 121 ---------VTTHPLAKDKMMNGGHYT-YSE----------NRVEKDGLILTSR------ 154 d1ps9a3 163 LDARRAIAQGTRLALE----I------------- 179 :: :::::::::::: : d1p5fa_ 155 GP--GTSFEFALAIVEALNGKEVAAQVKAPLVLK 186 HHsearch alignment (Probability: 0.45 E-value:0.01) d1ps9a3 44 KNLAVVG-AGPA--GLAFA-INAAARGHQVTLFDA 74 ::::::: :::: ::::: ::::::::::::::: d1p5fa_ 2 KRALVILAKGAEEMETVIPVDVMRRAGIKVTVAGL 36