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 | d1g5ta_ | ATP:corrinoid adenosyltransferase CobA | P-loop containing nucleoside triphosphate hydrolases | P-loop containing nucleoside triphosphate hydrolases | 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 <-- 0.687 --> HitDALI alignment (Z-score: 3.3 Raw score:302.50) d1q1ra2 1 rplpvasgavgkaNNFRYLRtledaecirrqliadnrlvviggGYIGLEVAATAIKANMH 60 ::::::: ::::::::::::::::: d1g5ta_ 1 ------------eRGIIIVF----------------tgngkgkTTAAFGTAARAVGHGKN 32 d1q1ra2 61 VTLLDTAArvlervTAPPvsAFYEHLHREAGVDIRTG-------------------TQVC 101 :::::::: :::: ::::::::::::::::: :::: d1g5ta_ 33 VGVVQFIK------GTWP--NGERNLLEPHGVEFQVMatgftwetqnreadtaacmAVWQ 84 d1q1ra2 102 gfemstdqqkvtavlcedgTRLP-----------------------------------aD 126 :::: : d1g5ta_ 85 -----------------hgKRMLadplldmvvldeltymvaydylpleevisalnarpgH 127 d1q1ra2 127 LVIAGIG----------------------- 133 ::::::: d1g5ta_ 128 QTVIITGrgchrdildladtvselrpvkha 157 FAST alignment (Normalized score: 3.60 Raw score:519.60) d1q1ra2 1 RPLPVASGAVGKAN---NFRYLRTLEDAECIRRQLIADNRLVVIGG-------GYIGLEV 50 ::::: ::::::: d1g5ta_ 1 --------------ERGIIIVF------------------------TGNGKGKTTAAFGT 22 d1q1ra2 51 AATAIKANMHVTLLDTAARVLERVTAPPVS-AFYEHLHREAGVDIRTGTQVCGFEMSTDQ 109 ::::::::::::::::: :::: ::::::::::::::: d1g5ta_ 23 AARAVGHGKNVGVVQFI------KGTW---PNGERNLLEPHGVEFQ-------------- 59 d1q1ra2 110 QKVTAVLCEDGTRLPA-------------------------------------------- 125 d1g5ta_ 60 ----------------VMATGFTWETQNREADTAACMAVWQHGKRMLADPLLDMVVLDEL 103 d1q1ra2 126 ------------------------DLVIAGIG------------------------ 133 :::::: d1g5ta_ 104 TYMVAYDYLPLEEVISALNARPGHQTVIIT--GRGCHRDILDLADTVSELRPVKHA 157 TMalign alignment (TM-score: 0.38 Raw score:50.18) d1q1ra2 1 --RPLPVASGAVGKANNFRY---LRTL-ED-AECIRRQLI-ADNRLVVIGGGY-IGLEVA 51 : ::: ::: ::: :: ::::::::: :::::::::::: :::::: d1g5ta_ 1 ER---------G-III-VFTGNG-KGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGER 48 d1q1ra2 52 ATAIKANMHVTLLDTAARVLERV----------TAPPVSAFYEHLHREAGVDIRTG--TQ 99 ::::: :::::::: :: ::: :: :: d1g5ta_ 49 NLLEP-HGVEFQVM---AT-GFTWETQNREADT---------------------AACMAV 82 d1q1ra2 100 VCGFEMSTDQQKVTAVLCEDGTRL--P--ADLVI-AGI-G-------------------- 133 :: ::: :: : ::::: ::: : d1g5ta_ 83 WQ------------HGK-----RMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARP 125 d1q1ra2 134 -------------------------------- 134 d1g5ta_ 126 GHQTVIITGRGCHRDILDLADTVSELRPVKHA 157 HHsearch alignment (Probability: 0.02 E-value:0.12) d1q1ra2 59 MHVTLLDT 66 :::::::: d1g5ta_ 31 KNVGVVQF 38