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 | d1i9ga_ | Probable methyltransferase Rv2118c | 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 <-- 1.282 --> HitDALI alignment (Z-score: 7.1 Raw score:570.40) d1l7da1 1 ------------------------------------------------------------ 1 d1i9ga_ 1 tgpfsigervqltdakgrrytmsltpgaefhthrgsiahdavigleqgsvvkssngalfl 60 d1l7da1 1 -----------------------AGYRAVIDGAyefarAFPMmmtaagtvppARVLVFGV 37 :::::::::: :::: :::::::: d1i9ga_ 61 vlrpllvdyvmsmprgpqviypkDAAQIVHEGD-----IFPG----------ARVLEAGA 105 d1l7da1 38 GvagLQAIATAKRLG---AVVMATDVRAATKEQVESLG----------GKFITvkkqaeA 84 : ::::::::::: :::::::::::::::::::: ::::: : d1i9ga_ 106 G--sGALTLSLLRAVgpaGQVISYEQRADHAEHARRNVsgcygqppdnWRLVV--sdlaD 161 d1l7da1 85 VLKelVKTDIAITTALipgkpAPVLITEeMVTKM-KPGSVIIDLA----vEAGGncPLSE 139 ::: ::::::::::: ::::::: ::::: :::::::::: :::: :::: d1i9ga_ 162 SELpdGSVDRAVLDML-----APWEVLD-AVSRLlVAGGVLMVYVatvtqLSRIveALRA 215 d1l7da1 140 pgkIVVKhgvkivgHTNVPS-----------------------------------r 160 :::: :::::: d1i9ga_ 216 -kqCWTE------pRAWETLqrgwnvvglavrpqhsmrghtaflvatrrlapgava 264 FAST alignment (Normalized score: 4.49 Raw score:922.70) d1l7da1 1 ------------------------------------------------------------ 1 d1i9ga_ 1 TGPFSIGERVQLTDAKGRRYTMSLTPGAEFHTHRGSIAHDAVIGLEQGSVVKSSNGALFL 60 d1l7da1 1 -----------------------AGYRAVIDGAYEFARAFPMMMTAAGTVP-----PARV 32 :::::::: :::: d1i9ga_ 61 VLRPLLVDYVMSMPRGPQVIYPKDAAQIVHE--------------------GDIFPGARV 100 d1l7da1 33 LVFGVGVAG-LQAIATAKR---LGAVVMATDVRAATKEQVESL-----------GGKFIT 77 :::::: ::::::::: :::::::::::::::::::: :::: d1i9ga_ 101 LEAGAG---SGALTLSLLRAVGPAGQVISYEQRADHAEHARR-NVSGCYGQPPDNWRL-- 154 d1l7da1 78 VKKQAEAVLKEL------------VKTDIAITTALIPGKPAPVLI------TEEMVT-KM 118 ::::::::: :::::: :: d1i9ga_ 155 ------------VVSDLADSELPDGSVDRAVLD------------MLAPWEVLDAVSRLL 190 d1l7da1 119 KPGSVIIDLAVEAGGNCPLSEPGKIVV-----------------KHGV-KIVGHTNVPSR 160 :::::::: :::: ::::: d1i9ga_ 191 VAGGVLMV-------------------YVATVTQLSRIVEALRAKQCWTEPRAW------ 225 d1l7da1 161 --------------------------------------- 161 d1i9ga_ 226 ETLQRGWNVVGLAVRPQHSMRGHTAFLVATRRLAPGAVA 264 TMalign alignment (TM-score: 0.60 Raw score:95.55) d1l7da1 1 ------------------------------------------------------------ 1 d1i9ga_ 1 TGPFSIGERVQLTDAKGRRYTMSLTPGAEFHTHRGSIAHDAVIGLEQGSVVKSSNGALFL 60 d1l7da1 1 -----------------------AGYRAVIDGAYEFARAFPMMMTAAGTVPPARVLVFGV 37 :::::::::: : :: ::::::::: d1i9ga_ 61 VLRPLLVDYVMSMPRGPQVIYPKDAAQIVHEGD--I---FP----------GARVLEAGA 105 d1l7da1 38 GVAGLQAIATAKRL-G--AVVMATD-V--RAA-TKEQVESL----G--GKFITVKKQAEA 84 :: :: :::::::: : ::::::: : ::: :::::::: : :::::: :::: d1i9ga_ 106 GS-GA-LTLSLLRAVGPAGQVISYEQRADHAEHARRNVSGCYGQPPDNWRLVVS-DLAD- 161 d1l7da1 85 VLKELVKTDIAITTALIPGKPAPV-LITEEMVTK-MKPGSVIIDLA-VEAGG-NC--PLS 138 ::::::::::::::: ::: ::: ::::: ::::::::::: ::::: :: ::: d1i9ga_ 162 SELPDGSVDRAVLDM------LAPWEVL-DAVSRLLVAGGVLMVYVATVTQLSRIVEALR 214 d1l7da1 139 EPGKIVVKHGVKIVGHTNVPS----------------------R------------ 160 :::: ::::::::::: : d1i9ga_ 215 -----AKQC-WTEPRAWETLQRGWNVVGLAVRPQHSMRGHTAFLVATRRLAPGAVA 264 HHsearch alignment (Probability: 0.97 E-value:0.00) d1l7da1 19 MMMTAAGTVPPARVLVFGVGVAGLQAIATAKRLG--AVVMATDVRAATKEQVESLGGKF- 75 :::::::::::::::::::: ::::::::::::: ::::::::::::::::::::::: d1i9ga_ 87 QIVHEGDIFPGARVLEAGAG-SGALTLSLLRAVGPAGQVISYEQRADHAEHARRNVSGCY 145 d1l7da1 76 -------ITVKKQAEAVLKELVKTDIAITTALIPGKPAPVLITEEMVTKMKPGSVIID 126 ::::::::::::::::::::::: : :::::::::::::::::::::: d1i9ga_ 146 GQPPDNWRLVVSDLADSELPDGSVDRAVLD--M---LAPWEVLDAVSRLLVAGGVLMV 198