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 | d1q1ra2 | Putidaredoxin reductase | FAD/NAD(P)-binding domain | FAD/NAD(P)-binding domain | α/β |
| Hit | d1dusa_ | Hypothetical protein MJ0882 | S-adenosyl-L-methionine-dependent methyltransferases | S-adenosyl-L-methionine-dependent methyltransferases | α/β |
Query <-- 1.466 --> IntermediateDALI alignment (Z-score: 4.6 Raw score:383.50) query 1 -------------------------------gMENKKMNLLLfsgdydkALASLIIANAA 29 :::::::::: ::::::::::: d1q1ra2 1 rplpvasgavgkannfrylrtledaecirrqlIADNRLVVIG------gGYIGLEVAATA 54 query 30 REMEIEVTIFCAfwgLLLLrdpekasqedkslyeqafssltpreAEELPlskmnlggigk 89 :::::::::::: :::: ::::: d1q1ra2 55 IKANMHVTLLDT---AARV------------------------lERVTA----------- 76 query 90 kmllemmkeekapklSDLLSGARKKEVKFY--AXQLsveimgfkkeelfpevqiMDVKey 147 ::::::::::::::: :::: :::: d1q1ra2 77 -----------ppvsAFYEHLHREAGVDIRtgTQVC---gfemstdqqkvtavlCEDG-- 120 query 148 LKNAleSDLQLFI-- 160 :::: ::::::: d1q1ra2 121 TRLP--ADLVIAGig 133 FAST alignment (Normalized score: 4.48 Raw score:653.70) query 1 -------------------------------GMENKKMNLLLFSGDYDK---ALASLIIA 26 ::::::::: :::::::: d1q1ra2 1 RPLPVASGAVGKANNFRYLRTLEDAECIRRQLIADNRLVV---------IGGGYIGLEVA 51 query 27 NAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGG 86 :::::::::::::: d1q1ra2 52 ATAIKANMHVTLLD---------------------------------------------- 65 query 87 IGKKMLLEMMKEEKAP-------------KLSDLLSGARKKEVKFYAXQLSVEIMGFKKE 133 ::::::::::::::::: d1q1ra2 66 ----------------TAARVLERVTAPPVSAFYEHLHREAGVDIR-------------- 95 query 134 ELFPEVQIMDVKEYLKNA----------------------LESDLQLFI---- 160 ::::: ::::::: d1q1ra2 96 ------TGTQV-------CGFEMSTDQQKVTAVLCEDGTRLPADLVI--AGIG 133 TMalign alignment (TM-score: 0.32 Raw score:51.98) query 1 --------------------------------GMENKKMNLLLFSGDYDKALASLIIANA 28 :::::::::::: :::::::::::: d1q1ra2 1 RPLPVASGAVGKANNFRYLRTLEDAECIRRQL---IADNRLVVIGGG-YIGLEVAATAIK 56 query 29 AREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIG 88 :: ::::: ::: :: :::: : : d1q1ra2 57 AN-----MHVTL---LDT-----------------------AA----RVLE---R--V-- 74 query 89 KK--MLL--EMMKEEKAPKLSDLLSGARKKEV-KF--YA----------------XQLSV 125 :: : ::::::::::: : : : ::::: d1q1ra2 75 TAPP--VSA--------FYEHLHREAGV---DI-RTG-TQVCGFEMSTDQQKVTAVLCED 119 query 126 EIMGFKKEELFPEVQIMDVKEYLKNALESDLQLFI--- 160 : ::: :: : :::: d1q1ra2 120 G--------------TRL--PA---D-----LVIAGIG 133 HHsearch alignment (Probability: 0.05 E-value:0.02) query 20 LASLIIANAAREMEIEVTIF 39 :::::::::::::::::::: d1q1ra2 45 YIGLEVAATAIKANMHVTLL 64
Intermediate <-- 1.425 --> HitDALI alignment (Z-score: 5.1 Raw score:366.30) d1q1ra2 1 ----------------------rplpvasgavgkannfrYLRTleDAECIrrQLIADNRL 38 :::: ::::: :::::::: d1dusa_ 1 fsekpttksdvkivedilrgkklkfktdsgvfsygkvdkGTKI--LVENV--VVDKDDDI 56 d1q1ra2 39 VVIGGGYigLEVAATAIKANMHVTLLDTAARVlervtappvsafyEHLH-----rEAGVD 93 ::::::: ::::::::::::::::::::::: :::: ::::: d1dusa_ 57 LDLGCGY--GVIGIALADEVKSTTMADINRRA---------iklaKENIklnnldNYDIR 105 d1q1ra2 94 IRTgTQVCGfemstdqqkvtavlcedgTRLPADLVIAGIG-------------------- 133 ::: ::::: ::::::::::::: d1dusa_ 106 VVH-SDLYE----------------nvKDRKYNKIITNPPiragkevlhriieegkellk 148 d1q1ra2 134 ---------------------------------------------- 134 d1dusa_ 149 dngeiwvviqtkqgakslakymkdvfgnvetvtikggyrvlkskkl 194 FAST alignment (Normalized score: 3.21 Raw score:515.80) d1q1ra2 1 RPLPVASGAVGKANNFRYL------------------------------------RTLED 24 ::::: d1dusa_ 1 -------------------FSEKPTTKSDVKIVEDILRGKKLKFKTDSGVFSYGKVDKGT 41 d1q1ra2 25 AECIRR--QLIADNRLVVIGGGYIG-LEVAATAIKAN--MHVTLLDTAARVLERVTAPPV 79 ::::: :::::::::::::: ::::::::: :::::::::: d1dusa_ 42 KILVE-NVVVDKDDDILDLGCG---YGVIGIALAD--EVKSTTMADINR----------- 84 d1q1ra2 80 --SAFYEH-----LHREAGVDIRTGTQVCGFEMSTDQQKVTAVLCEDG---------TRL 123 :::::: ::::::::: ::: d1dusa_ 85 RAIKLAKENIKLNNLDNYDIRV--------------------------VHSDLYENVKDR 118 d1q1ra2 124 PADLVIAGIG-------------------------------------------------- 133 :::::::: d1dusa_ 119 KYNKIITN--PPIRAGKEVLHRIIEEGKELLKDNGEIWVVIQTKQGAKSLAKYMKDVFGN 176 d1q1ra2 134 ------------------ 134 d1dusa_ 177 VETVTIKGGYRVLKSKKL 194 TMalign alignment (TM-score: 0.49 Raw score:64.67) d1q1ra2 1 --------------------------------------RPLPVASGAVGKANNFRYLR-T 21 :: : d1dusa_ 1 FSEKPTTKSDVKIVEDILRGKKLKFKTDSGVFSYGKVD------------------KGTK 42 d1q1ra2 22 LEDAECIRRQLIADNRLVVIGGGYIGLEVAATAIKANMHVTLLDTAARVLERVTAPPVSA 81 ::::: : : :::::::::::::: :::::::::::::::::::::::: : : d1dusa_ 43 ILVEN-V-V-VDKDDDILDLGCGY--GVIGIALADEVKSTTMADINRRAI-----K--L- 89 d1q1ra2 82 FYEHLHR----E-AGVDIRTGTQVCGFEMSTDQQKVTAVLCEDGTRLPADLVIAGIG--- 133 :::::: : ::::::: ::: ::::::::::::::::: d1dusa_ 90 -AKENIKLNNLDNYDIRVVH-SDL----------------YENVKDRKYNKIITNPPIRA 131 d1q1ra2 134 ------------------------------------------------------------ 134 d1dusa_ 132 GKEVLHRIIEEGKELLKDNGEIWVVIQTKQGAKSLAKYMKDVFGNVETVTIKGGYRVLKS 191 d1q1ra2 134 --- 134 d1dusa_ 192 KKL 194 HHsearch alignment (Probability: 0.14 E-value:0.01) d1q1ra2 14 NNFRYLRTLED-AECIRRQL--IADNRLVVIGGGYIGLEVAATAIKANMHVTLLDTAARV 70 ::::::::::: :::::::: :::::::::::::::: :::::::::::::::::::: d1dusa_ 29 SGVFSYGKVDKGTKILVENVVVDKDDDILDLGCGYGVI--GIALADEVKSTTMADINRRA 86 d1q1ra2 71 LE 72 :: d1dusa_ 87 IK 88