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 | d1l7da1 | Nicotinamide nucleotide transhydrogenase dI component | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
| Hit | d1edza1 | Methylenetetrahydrofolate dehydrogenase/cyclohydrolase | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
Query <-- 1.100 --> IntermediateDALI alignment (Z-score: 5.1 Raw score:345.40) query 1 ---------------GMEN----------KKMNLLLfsgdydkALASLIIANAAREMEIE 35 :::: ::::::: ::::::::::::::::: d1l7da1 1 agyravidgayefarAFPMmmtaagtvppARVLVFG------vGVAGLQAIATAKRLGAV 54 query 36 VTIFCafwgLLLLrdpekasqedkslyeqafssltpreaeelplskmnlggigkkmllem 95 ::::: :::: d1l7da1 55 VMATD----VRAA----------------------------------------------- 63 query 96 mkeekapklsdllSGARKKEVKFYAXQLsveimgfkkeelfpevqimDVKEYLKNALESD 155 ::::::::::::::: ::::::::::::: d1l7da1 64 -----------tkEQVESLGGKFITVKK-------------------QAEAVLKELVKTD 93 query 156 LQLFI------------------------------------------------------- 160 ::::: d1l7da1 94 IAITTalipgkpapvliteemvtkmkpgsviidlaveaggncplsepgkivvkhgvkivg 153 query 161 ------- 161 d1l7da1 154 htnvpsr 160 FAST alignment (Normalized score: 3.90 Raw score:624.80) query 1 GME----------------------------NKKMNLLLFSGDYDK---ALASLIIANAA 29 :::::: ::::::::::: d1l7da1 1 ---AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLV---------FGVGVAGLQAIATA 48 query 30 REMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIGK 89 :::::::::: d1l7da1 49 KRLGAVVMAT-------------------------------------------------- 58 query 90 KMLLEMMKEEKAPKLSD-----LLSGARKKEVKFYAXQLSVEIMGFKKEELFPEVQIM-- 142 :::::::::::::: d1l7da1 59 -----------------DVRAATKEQVESLGGKFIT----------------------VK 79 query 143 -DVKEYLKNALESDLQLFI----------------------------------------- 160 :::::::::::::::: d1l7da1 80 KQAEAVLKELVKTDIAI--TTALIPGKPAPVLITEEMVTKMKPGSVIIDLAVEAGGNCPL 137 query 161 ----------------------- 161 d1l7da1 138 SEPGKIVVKHGVKIVGHTNVPSR 160 TMalign alignment (TM-score: 0.23 Raw score:37.44) query 1 ------------------------------GMENKKMNLLLFSGDYDKALASLIIANAAR 30 d1l7da1 1 AGYRAVIDGAYEFARAFPMMMTAAGTVPPA------------------------------ 30 query 31 EMEIEVTIFCAFWGLLLLRDPEK--AS--QEDKSLYEQAFSSLTPREAE----------- 75 :: ::: ::::: :: :::::: : :: :: ::: d1l7da1 31 -----------RV-LVF-GVGVAGLQAIATAKRLG-A--VV--MA-TDVRAATKEQVESL 71 query 76 ---ELPL-SK-----------------MNLGGIGKKMLLEMMKEEKAPKLSDLLSGARKK 114 :::: :: ::::::: d1l7da1 72 GGKFITVKKQAEAVLKELVKTDIAITT--------------------------ALIPGKP 105 query 115 EVKFYA---X----QLSVEIMGFKKEELFPE---V----Q----IMDVKEY--------- 147 :::::: : :::: : : :::: : : ::::::: d1l7da1 106 APVLITEEMVTKMKPGSV----I-I--DLAVEAGGNCPLSEPGKIVVKHGVKIVGHTNVP 158 query 148 --LKNALESDLQLFI 160 d1l7da1 159 SR------------- 160 HHsearch alignment (Probability: 0.09 E-value:0.01) query 21 ASLIIANAAREMEIEVTIF 39 ::::::::::::::::::: d1l7da1 40 AGLQAIATAKRLGAVVMAT 58
Intermediate <-- 2.060 --> HitDALI alignment (Z-score: 11.3 Raw score:802.40) d1l7da1 1 --AGYRAVIDGAYEFAR--------AFPMmmtaagtvppARVLVFGVG-VAGLQAIATAK 49 ::::::::::::::: :::: ::::::::: ::::::::::: d1edza1 1 pcTPLAIVKILEFLKIYnnllpegnRLYG----------KKCIVINRSeIVGRPLAALLA 50 d1l7da1 50 RLGAVVMATDVRA------atkeqveSLGGKFITVkkQAEAVLKELVKTDIAITTALIpg 103 ::::::::::::: ::::::::: ::::::::::::::::::::: d1edza1 51 NDGATVYSVDVNNiqkftrgeslklnKHHVEDLGE-ySEDLLKKCSLDSDVVITGVPS-- 107 d1l7da1 104 kPAPVlITEEMvtkMKPGSVIIDLAveAGGNCPLsepgkivvKHGV-KIVGH-TNVPSR- 160 :::: ::::: ::::::::::: ::::::: :::: ::::: :::::: d1edza1 108 -ENYK-FPTEY---IKEGAVCINFA--CTKNFSD------dvKEKAsLYVPMtGKVTIAm 154 d1l7da1 161 ----------------- 161 d1edza1 155 llrnmlrlvrnvelske 171 FAST alignment (Normalized score: 7.85 Raw score:1299.00) d1l7da1 1 --AGYRAVIDGAYEFARAFPMMMTAAGTVP---------------PARVLVFGV-GVAGL 42 ::::::::::: ::::::::: ::::: d1edza1 1 PCTPLAIVKILEF-----------------LKIYNNLLPEGNRLYGKKCIVINRSEIVGR 43 d1l7da1 43 QAIATAKRLGAVVMATDVRAATKEQVE---------------SLGGKFITVKK----QAE 83 :::::::::::::::::: :::::: ::: d1edza1 44 PLAALLANDGATVYSVDV---------NNIQKFTRGESLKLNKHHVED-----LGEYSED 89 d1l7da1 84 AVLKELVKTDIAITTALIPGKPAPV----LITEEMVTKMKPGSVIIDLAVEA--GGNCPL 137 ::::::::::::::::: ::::: ::::::::::: :::: d1edza1 90 LLKKCSLDSDVVITGVP--------SENYKFPTE---YIKEGAVCINF----ACTKNF-- 132 d1l7da1 138 SEPGKIVVKHG--------VKIV-GHTNVPSR------------------- 160 :::: ::::::: d1edza1 133 -----------SDDVKEKASLYVPMTGKVTI-AMLLRNMLRLVRNVELSKE 171 TMalign alignment (TM-score: 0.67 Raw score:107.59) d1l7da1 1 --AGYRAVIDGAYEFARA-------FPMMMTAAGTVPPARVLVFGVG-VAGLQAIATAKR 50 :::::::::::::::: ::: :::::::::: :::::::::::: d1edza1 1 PCTPLAIVKILEFLKIYNNLLPEGNRLY---------GKKCIVINRSEIVGRPLAALLAN 51 d1l7da1 51 LGAVVMATDVRAATKEQVE--------SLGGKFITVKKQAEAVLKELVKTDIAITTALIP 102 :::::::::::: ::: :: ::::::::: :::::::::::::::::::::: d1edza1 52 DGATVYSVDVNN-IQK-FTRGESLKLNKHHVEDLGE-YSEDLLKKCSLDSDVVITGVPS- 107 d1l7da1 103 GKPAPVLITEEMVTKMKPGSVIIDLAVEAGGNCPLSEPGKIVVKHGVKIVGHTN-VPSR- 160 :::: :::::: : ::::::::: :: :::::: ::::::::::::: :::: d1edza1 108 --ENYK-FPTEYI--K-EGAVCINFA-CT-KNFSDD-----VKEKASLYVPMTGKVTIAM 154 d1l7da1 161 ----------------- 161 d1edza1 155 LLRNMLRLVRNVELSKE 171 HHsearch alignment (Probability: 0.98 E-value:0.00) d1l7da1 26 TVPPARVLVFGVGV-AGLQAIATAKRLGAVVMATDVRAATKEQVESLGGKFITVKKQAEA 84 :::::::::::::: ::::::::::::::::::::: :: d1edza1 26 RLYGKKCIVINRSEIVGRPLAALLANDGATVYSVDV----------------------NN 63 d1l7da1 85 VLKELVKTDIAITTALIPGKPAPVLITEEMVTKMKPGSVIIDLAVE 130 ::::::::::::::::::: ::::::::: :::::::::::: d1edza1 64 IQKFTRGESLKLNKHHVED---LGEYSEDLL---KKCSLDSDVVIT 103