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 | d1ks9a2 | Ketopantoate reductase PanE | 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 <-- 1.410 --> HitDALI alignment (Z-score: 4.5 Raw score:436.10) d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilpavqkKNLAVVGAGPAGLAFAI 60 ::::::::::::::::: d1ks9a2 1 -------------------------------------------MKITVLGCGALGQLWLT 17 d1ps9a3 61 NAAARGHQVTLFDAHseiggqfniakqipgkeefyeTLRY---yrRMIEvtgVTLKlnht 117 ::::::::::::::: :::: :::: :::: d1ks9a2 18 ALCKQGHEVQGWLRV--------------pqpycsvNLVEtdgsiFNES---LTAN---- 56 d1ps9a3 118 vtaDQLQ-AFDETILASGIPNRA-LAQPLID---SGKTVHLIggcDVAM----------- 161 :::: ::::::::::::::: ::::::: :::::::: :::: d1ks9a2 57 --dPDFLaTSDLLLVTLKAWQVSdAVKSLAStlpVTTPILLI---HNGMgtieelqniqq 111 d1ps9a3 162 -----eLDAR-------------------------raiaqgtrlALEI-------- 179 :::: :::: d1ks9a2 112 pllmgtTTHAarrdgnviihvangithigparqqdgdysyladiLQTVlpdvawhn 167 FAST alignment (Normalized score: 3.97 Raw score:687.10) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVGAGPAGLAFAI 60 ::::::::::::::::: d1ks9a2 1 -------------------------------------------MKITVLGCGALGQLWLT 17 d1ps9a3 61 NAAARGHQVTLFDAHSEIGGQFNIAKQIPGKEEFYETLRYYRRMIE-------------- 106 ::::::::::::::: d1ks9a2 18 ALCKQGHEVQGWLRV-------------------------------PQPYCSVNLVETDG 46 d1ps9a3 107 ---VTGVTLKLNHTVTADQL-------QAFDETILASGIPN-RALAQPLID---SGKTVH 152 ::::: :::::::::::::: ::::::::: :::::: d1ks9a2 47 SIFNESLT------------ANDPDFLATSDLLLVTLKAWQVSDAVKSLASTLPVTTPIL 94 d1ps9a3 153 LIGGCDVAMELDARRAIAQGTRLALEI--------------------------------- 179 : d1ks9a2 95 L--------------------------IHNGMGTIEELQNIQQPLLMGTTTHAARRDGNV 128 d1ps9a3 180 --------------------------------------- 180 d1ks9a2 129 IIHVANGITHIGPARQQDGDYSYLADILQTVLPDVAWHN 167 TMalign alignment (TM-score: 0.42 Raw score:74.73) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVGAGPAGLAFAI 60 ::::::::::::::::: d1ks9a2 1 -------------------------------------------MKITVLGCGALGQLWLT 17 d1ps9a3 61 NAAARGHQVTLFDAH-S-EIGGQFNIAKQIPGKEEFYETLRYY-----RRMIEVTGVTLK 113 ::::::::::::::: : ::: :::: :::: :::: d1ks9a2 18 ALCKQGHEVQGWLRVPQPYCS------------------VNLVETDGS-IFNE---SLTA 55 d1ps9a3 114 LNHTVTADQLQAFDETILASGIP-NRA-LAQPL--IDSGKTVHLIGGCDVAM-------- 161 : :: :::::::::::::::: ::: ::::: :::::::::::: ::: d1ks9a2 56 --N-DP-DFLATSDLLLVTLKAWQVSDAVKSLASTLPVTTPILLIHN--GMGTIEELQNI 109 d1ps9a3 162 -------ELDARRA-------I---A-QG--------------TR--L--ALE-I---- 179 ::::::: : : :: : : ::: : d1ks9a2 110 QQPLLMGTTTHAARRDGNVIIHVANGITHIGPARQQDGDYSYL-ADILQTVLPDVAWHN 167 HHsearch alignment (Probability: 0.97 E-value:0.00) d1ps9a3 44 KNLAVVGAGPAGLAFAINAAARGHQVTLFDAHSEIGGQFNIAKQIPGKEEFYETLRYYRR 103 ::::::::::::::::::::::::::::::::::::::::::: d1ks9a2 1 MKITVLGCGALGQLWLTALCKQGHEVQGWLRVPQPYCSVNLVE----------------- 43 d1ps9a3 104 MIEVTGVTLKLNHTVTADQLQAFDETILASGIPNRA 139 ::::: ::::::::::::::::::::::::::::: d1ks9a2 44 -TDGSI-FNESLTANDPDFLATSDLLLVTLKAWQVS 77