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 | d1jvba2 | Alcohol dehydrogenase | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | 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 <-- 1.475 --> HitDALI alignment (Z-score: 3.8 Raw score:363.20) d1q1ra2 1 rplpvasgavgkannfrylrtledAECIRR-QLIADNRLVVIG-GGYIGLEVAATAIK-A 57 :::::: :::::::::::: :::::::::::::: : d1jvba2 1 --------lnaveaapltcsgittYRAVRKaSLDPTKTLLVVGaGGGLGTMAVQIAKAvS 52 d1q1ra2 58 NMHVTLLDTAARVlervtappvsafyEHLHreagVDIRTG--tQVCGfemstdqqkvtav 115 ::::::::::::: :::: :::::: :::: d1jvba2 53 GATIIGVDVREEA---------veaaKRAG---aDYVINAsmqDPLA------------- 87 d1q1ra2 116 lcedgTRLP----ADLVIAGIG-------------------------------------- 133 :::: ::::::::: d1jvba2 88 ---eiRRITeskgVDAVIDLNNsektlsvypkalakqgkyvmvglfgadlhyhaplitls 144 d1q1ra2 134 -------------------------- 134 d1jvba2 145 eiqfvgslvgnqsdflgimrlaeagk 170 FAST alignment (Normalized score: 4.39 Raw score:660.60) d1q1ra2 1 RPLPVASGAVGKANNFRYLR------------TLEDAECIRR--QLIADNRLVVI-GGGY 45 ::::::::: ::::::::::: :::: d1jvba2 1 --------------------LNAVEAAPLTCSGITTYRAVR-KASLDPTKTLLVVGAGGG 39 d1q1ra2 46 IGLEVAATAI-KANMHVTLLDTAARVLERVTAPPVSAFYEHLHREAG-VDIRTGTQVCGF 103 :::::::::: ::::::::::: :::::::::::: :::: d1jvba2 40 LGTMAVQIAKAVSGATIIGVDV-------------REEAVEAAKRAGADYVI-------- 78 d1q1ra2 104 EMSTDQQKVTAVLCEDGTRL------------------PADLVIAGIG------------ 133 ::::::: d1jvba2 79 --------------------NASMQDPLAEIRRITESKGVDAVID---LNNSEKTLSVYP 115 d1q1ra2 134 ------------------------------------------------------- 134 d1jvba2 116 KALAKQGKYVMVGLFGADLHYHAPLITLSEIQFVGSLVGNQSDFLGIMRLAEAGK 170 TMalign alignment (TM-score: 0.48 Raw score:63.74) d1q1ra2 1 ----------RPLPVASGAVGKANNFRYLR-TLEDAECIRR-QLIADNRLVVIG-GGYIG 47 :: ::::::::: :::::::::::: ::::: d1jvba2 1 LNAVEAAPLT------------------CSG-ITTYRAVRKASLDPTKTLLVVGAGGGLG 41 d1q1ra2 48 LEVAATAIK-ANMHVTLLDTAARVLERVTAPPVSAFYEHLHREAGVDIRTGTQ--VCGFE 104 ::::::::: :::::::::::::: :: ::::: ::::::: :: d1jvba2 42 TMAVQIAKAVSGATIIGVDVREEA---------VE-AAKRA--GADYVIN-ASMQ----- 83 d1q1ra2 105 MSTDQQKVTAVLCEDGT-R--L---PADLVIAGI----------------------G--- 133 ::: :: : : ::::::::: : d1jvba2 84 -----------DPL-AEIRRITESKGVDAVIDLNNSEKTLSVYPKALAKQGKYVMVGLFG 131 d1q1ra2 134 --------------------------------------- 134 d1jvba2 132 ADLHYHAPLITLSEIQFVGSLVGNQSDFLGIMRLAEAGK 170 HHsearch alignment (Probability: 0.88 E-value:0.00) d1q1ra2 32 LIADNRLVVIGG-GYIGLEVAATAIKA-NMHVTLLDTAARVLER-----------VTAPP 78 :::::::::::: :::::::::::::: :::::::::::::::: ::::: d1jvba2 25 LDPTKTLLVVGAGGGLGTMAVQIAKAVSGATIIGVDVREEAVEAAKRAGADYVINASMQD 84 d1q1ra2 79 VSAFYEHLHREAGVDIRTGTQ 99 ::::::::::::::::::::: d1jvba2 85 PLAEIRRITESKGVDAVIDLN 105