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 | d1i1na_ | Protein-L-isoaspartyl O-methyltransferase | 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 <-- 1.664 --> HitDALI alignment (Z-score: 5.7 Raw score:345.50) d1q1ra2 1 ------------------------------------------rplpvasgavgkannfry 18 d1i1na_ 1 wksggashselihnlrkngiiktdkvfevmlatdrshyakcnpymdspqsigfqatisap 60 d1q1ra2 19 lrtledaecIRRQLIADNRLVVIGGGYigLEVAATAIKAN---MHVTLLDTAA-RVLErv 74 :::::::::::::::::: ::::::::::: :::::::::: :::: d1i1na_ 61 hmhayalelLFDQLHEGAKALDVGSGS--GILTACFARMVgctGKVIGIDHIKeLVDD-- 116 d1q1ra2 75 tappvsaFYEH----LHRE-AGVDIRTgTQVCGfemstdqqkvtavlcedgTRLP-ADLV 128 :::: :::: ::::::: ::::: :::: :::: d1i1na_ 117 -----svNNVRkddpTLLSsGRVQLVV-GDGRM----------------gyAEEApYDAI 154 d1q1ra2 129 IAGIG------------------------------------------------------- 133 ::::: d1i1na_ 155 HVGAAapvvpqalidqlkpggrlilpvgpaggnqmleqydklqdgsikmkplmgviyvpl 214 d1q1ra2 134 ---------- 134 d1i1na_ 215 tdkekqwsrw 224 FAST alignment (Normalized score: 3.98 Raw score:686.20) d1q1ra2 1 RPLPVASGAVGKANNFRYL----------------------------------------- 19 d1i1na_ 1 -------------------WKSGGASHSELIHNLRKNGIIKTDKVFEVMLATDRSHYAKC 41 d1q1ra2 20 ----------------RTLEDAECI----RRQLIADNRLVVIGGGYIG-LEVAATAIK-- 56 ::::::::: :::::::::::::::: ::::::::: d1i1na_ 42 NPYMDSPQSIGFQATISAPHMHAYALELLFDQLHEGAKALDVGSG---SGILTACFARMV 98 d1q1ra2 57 -ANMHVTLLDTAARVLERVTAPPVSAFYEHLHREA---------GVDIRTGTQVCGFEMS 106 :::::::::: :::::::::::::: ::::: :::: d1i1na_ 99 GCTGKVIGIDH---------IKELVDDSVNNVRK-DDPTLLSSGRVQLV-VGDG------ 141 d1q1ra2 107 TDQQKVTAVLCEDGTR-------LPADLVIAGIG-------------------------- 133 ::::::::: d1i1na_ 142 ----------------RMGYAEEAPYDAIHVG--AAAPVVPQALIDQLKPGGRLILPVGP 183 d1q1ra2 134 ----------------------------------------- 134 d1i1na_ 184 AGGNQMLEQYDKLQDGSIKMKPLMGVIYVPLTDKEKQWSRW 224 TMalign alignment (TM-score: 0.52 Raw score:69.25) d1q1ra2 1 ------------------------------------------------------------ 1 d1i1na_ 1 WKSGGASHSELIHNLRKNGIIKTDKVFEVMLATDRSHYAKCNPYMDSPQSIGFQATISAP 60 d1q1ra2 1 RPLPVASGAVGKANNFRYLRTLEDAECIRRQLIADNRLVVIGGGYIGLEVAATAIKA-N- 58 ::::::::::::::::::::::::::: :::::::::: : d1i1na_ 61 ------------------HMHAYALELLFDQLHEGAKALDVGSGS--GILTACFARMVGC 100 d1q1ra2 59 -MHVTLLDTAARVLERVTAPPVS-AFYEH---L-HREA-GVDIRTGTQVCGFEMSTDQQK 111 ::::::::::::: : : ::::: : :::: :::::: ::::: d1i1na_ 101 TGKVIGIDHIKELV-----D--DSVNNVRKDDPTLLSSGRVQLVV-GDGRM--------- 143 d1q1ra2 112 VTAVLCEDGTRLPADLVIAGI--------------------------------------- 132 ::: :::::::::::: d1i1na_ 144 ---GYA---EEAPYDAIHVGAAAPVVPQALIDQLKPGGRLILPVGPAGGNQMLEQYDKLQ 197 d1q1ra2 133 --------------G------------ 133 : d1i1na_ 198 DGSIKMKPLMGVIYVPLTDKEKQWSRW 224 HHsearch alignment (Probability: 0.65 E-value:0.00) d1q1ra2 27 CIRRQLIADNRLVVIG--GGYIGLEVAATAIKANMHVTLLDTAARVL 71 :::::::::::::::: :::::::::::::: :::::::::::::: d1i1na_ 69 LLFDQLHEGAKALDVGSGSGILTACFARMVGC-TGKVIGIDHIKELV 114