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 | d1f8fa2 | Benzyl 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 <-- 1.469 --> HitDALI alignment (Z-score: 4.8 Raw score:389.30) d1q1ra2 1 rplpvasgavgkannfrylrtledAECIRrqLIADNRLVVIGGGYIGLEVAATAIKANM- 59 ::::: :::::::::::::::::::::::::::: d1f8fa2 1 ----vpiellgplgcgiqtgagacINALK--VTPASSFVTWGAGAVGLSALLAAKVCGAs 54 d1q1ra2 60 HVTLLDTAARVlervtappvsafyEHLHREAGV-DIRTG--tQVCGfemstdqqkvtavl 116 ::::::::::: ::::::::: ::::: :::: d1f8fa2 55 IIIAVDIVESR-------------LELAKQLGAtHVINSktqDPVA-------------- 87 d1q1ra2 117 cedgTRLP---ADLVIAGIG---------------------------------------- 133 :::: ::::::::: d1f8fa2 88 --aiKEITdggVNFALESTGspeilkqgvdalgilgkiavvgapqlgttaqfdvndlllg 145 d1q1ra2 134 ----------------------------- 134 d1f8fa2 146 gktilgvvegsgspkkfipelvrlyqqgk 174 FAST alignment (Normalized score: 4.87 Raw score:740.80) d1q1ra2 1 RPLPVASGAVGKANNFRYLR------------TLEDAECIRR--QLIADNRLVVIGGGYI 46 :::::::::: :::::::::::::::: d1f8fa2 1 --------------------VPIELLGPLGCGIQTGAGACINALKVTPASSFVTWGAGAV 40 d1q1ra2 47 GLEVAATAIKANM-HVTLLDTAARVLERVTAPPVSAFYEHLHREAG-VDIRTGTQVCGFE 104 ::::::::::::: ::::::: :::::::::::: :::: d1f8fa2 41 GLSALLAAKVCGASIIIAVDI-------------VESRLELAKQLGATHVI--------- 78 d1q1ra2 105 MSTDQQKVTAVLCEDGTRL-----------------PADLVIAGIG-------------- 133 :::::::: d1f8fa2 79 -------------------NSKTQDPVAAIKEITDGGVNFALES--TGSPEILKQGVDAL 117 d1q1ra2 134 --------------------------------------------------------- 134 d1f8fa2 118 GILGKIAVVGAPQLGTTAQFDVNDLLLGGKTILGVVEGSGSPKKFIPELVRLYQQGK 174 TMalign alignment (TM-score: 0.49 Raw score:65.47) d1q1ra2 1 -------------RPLPVASGAVGKANNFRYLRT-LEDA-ECIRRQLIADNRLVVIGGGY 45 ::: ::: ::: ::::::::::::::: d1f8fa2 1 VPIELLGPLGCGI------------------QTGA-GACINAL--KVTPASSFVTWGAGA 39 d1q1ra2 46 IGLEVAATAIKANM-HVTLLDTAARVLERVTAPPVSAFYEHLHREAGVDIRTGTQ-VCGF 103 :::::::::::::: ::::::::::: :: ::::: :::::: ::: :: d1f8fa2 40 VGLSALLAAKVCGASIIIAVDIVESR---------LE-LAKQL--GATHVI-NSKTQD-- 84 d1q1ra2 104 EMSTDQQKVTAVLCEDGTRL-----PADLVIAGIG------------------------- 133 :: :::: :::::::::: d1f8fa2 85 -----------PV---AAIKEITDGGVNFALESTGSPEILKQGVDALGILGKIAVVGAPQ 130 d1q1ra2 134 -------------------------------------------- 134 d1f8fa2 131 LGTTAQFDVNDLLLGGKTILGVVEGSGSPKKFIPELVRLYQQGK 174 HHsearch alignment (Probability: 0.93 E-value:0.00) d1q1ra2 30 RQLIADNRLVVIGGGYIGLEVAATAIKANM-HVTLLDTAARVL 71 :::::::::::::::::::::::::::::: :::::::::::: d1f8fa2 24 LKVTPASSFVTWGAGAVGLSALLAAKVCGASIIIAVDIVESRL 66