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 | d1dl5a1 | Protein-L-isoaspartyl O-methyltransferase | S-adenosyl-L-methionine-dependent methyltransferases | S-adenosyl-L-methionine-dependent methyltransferases | 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 <-- 2.050 --> HitDALI alignment (Z-score: 6.2 Raw score:543.00) d1l7da1 1 ------------------------------------------------------------ 1 d1dl5a1 1 mreklfwilkkygvsdhiakafleipreefltksyplsyvyedivlvsyddgeeystssq 60 d1l7da1 1 --AGYRAVIDGAyefarAFPmmmtaagtvppARVLVFGVGvagLQAIATAKRLG---AVV 55 :::::::::: ::: ::::::::: ::::::::::: ::: d1dl5a1 61 psLMALFMEWVG----lDKG-----------MRVLEIGGG--tGYNAAVMSRVVgekGLV 103 d1l7da1 56 MATDVRAA-TKEQVESL------GGKFITvkkqaeaVLKElVKTDIAITTALipgkpAPV 108 :::::::: :::::::: :::::: :::: ::::::::::: ::: d1dl5a1 104 VSVEYSRKiCEIAKRNVerlgieNVIFVC-gdgyygVPEF-SPYDVIFVTVG-----VDE 156 d1l7da1 109 LiTEEMVTKMKPGSVIIDlAVEAggncplsepgkivVKHGVkivGHTNV-------psr 160 : :::::::::::::::: :::: ::::: ::::: d1dl5a1 157 V-PETWFTQLKEGGRVIV-PINLklsrrqpaflfkkKDPYLvgnYKLETrfitaggnlg 213 FAST alignment (Normalized score: 5.16 Raw score:953.40) d1l7da1 1 A----------------------------------------------------------- 1 d1dl5a1 1 -MREKLFWILKKYGVSDHIAKAFLEIPREEFLTKSYPLSYVYEDIVLVSYDDGEEYSTSS 59 d1l7da1 2 ----GYRAVIDGAYEFARAFPMMMTAAGTVP-----PARVLVFGVGVAG-LQAIATAKR- 50 ::::::: :::::::::: ::::::::: d1dl5a1 60 QPSLMALFMEW--------------------VGLDKGMRVLEIGGG---TGYNAAVMSRV 96 d1l7da1 51 --LGAVVMATDVR----AATKEQVESL----GGKFITVKKQAEA------VLKELVKTDI 94 ::::::::::: ::::::::: :::::: :::: ::::: d1dl5a1 97 VGEKGLVVSVEYSRKICEIAKRNVER-LGIENVIFVC-------GDGYYGVPEF-SPYDV 147 d1l7da1 95 AITTALIPGKPAP---VLITEEMVTKMKPGSVIIDLAVEAGGNCPLSEP----------- 140 :::: ::::::::::::::::::: d1dl5a1 148 IFVT---------VGVDEVPETWFTQLKEGGRVIV--------------PINLKLSRRQP 184 d1l7da1 141 GKIVVK----HGVKIVGHTNVPSR----------- 160 :::: :::::::::: d1dl5a1 185 AFLF--KKKDPYLVGNYKLE----TRFITAGGNLG 213 TMalign alignment (TM-score: 0.58 Raw score:92.38) d1l7da1 1 ----------------------------------------------------------AG 2 :: d1dl5a1 1 MREKLFWILKKYGVSDHIAKAFLEIPREEFLTKSYPLSYVYEDIVLVSYDDGEEYSTSSQ 60 d1l7da1 3 Y-RAVIDGAYEFARAFPMMMTAAGTVPPARVLVFGVGVAGLQAIATAKRL-G--AVVMAT 58 : :::::::::: ::: ::::::::::: :::::::::: : :::::: d1dl5a1 61 PSLMALFMEWVG--LDK----------GMRVLEIGGGT--GYNAAVMSRVVGEKGLVVSV 106 d1l7da1 59 DVRAATKEQVE-SL----G--GKFITVK-KQAEAVLKELVKTDIAITTALIPGKPAPVLI 110 ::::::::::: :: : ::::::: :: ::::: ::::::::::: ::: : d1dl5a1 107 EYSRKICEIAKRNVERLGIENVIFVCGDG-YY-GVPEF-SPYDVIFVTVG-----VDE-V 157 d1l7da1 111 TEEMVTKMKPGSVIIDLAVEAGG----NCPLSEPGKIVVKHG--VKIVGHTNVP------ 158 :::::::::::::::: :: ::: :::::::::: :::::::::: d1dl5a1 158 PETWFTQLKEGGRVIV-PI-NLKLSRR-----QPAFLFKKKDPYLVGNYKLETRFITAGG 210 d1l7da1 159 ---SR 160 d1dl5a1 211 NLG-- 213 HHsearch alignment (Probability: 0.97 E-value:0.00) d1l7da1 24 AGTVPPARVLVFGVGVAGLQAIATAKR--LGAVVMATDVRAATKEQVESLGGKF-----I 76 :::::::::::::::: :::::::::: ::::::::::::::::::::::::: : d1dl5a1 71 VGLDKGMRVLEIGGGT-GYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVERLGIENVI 129 d1l7da1 77 TVKKQAEAVLKELVKTDIAITTALIPGKPAPVLITEEMVTKMKPGSVIIDLAVEAGGN 134 :::::::::::::::::::::::::: :::::::::::::::::::::::::: d1dl5a1 130 FVCGDGYYGVPEFSPYDVIFVTVGVD------EVPETWFTQLKEGGRVIVPINLKLSR 181