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 | d1pqwa_ | Putative enoyl reductase domain of polyketide synthase | 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 <-- 1.339 --> HitDALI alignment (Z-score: 4.0 Raw score:377.10) d1q1ra2 1 rplpvasgavgkannfrylrtledAECIRR--QLIADNRLVVIG-GGYIGLEVAATAIKA 57 :::::: :::::::::::: ::::::::::::::: d1pqwa_ 1 -----------neaatfgvayltaWHSLCEvgRLSPGERVLIHSaTGGVGMAAVSIAKMI 49 d1q1ra2 58 NMHVTLLDTAARVlervtappvsafYEHLHReaGVDIRTgTQVCGfemstdqqkvtavlc 117 ::::::::::::: :::::: :::::: ::::: d1pqwa_ 50 GARIYTTAGSDAK----------reMLSRLG--VEYVGD-SRSVD--------------- 81 d1q1ra2 118 edGTRL-------PADLVIAGI-------------------------------------- 132 :::: ::::::::: d1pqwa_ 82 -fADEIleltdgyGVDVVLNSLageaiqrgvqilapggrfielgkkdvyadaslglaala 140 d1q1ra2 133 ------------------------------------------g 133 d1pqwa_ 141 ksasfsvvdldlnlklqparyrqllqhilqhvadgklevlpvt 183 FAST alignment (Normalized score: 4.26 Raw score:664.80) d1q1ra2 1 RPLPVASGAVGKANNFRYLR-----TLEDAECIRR------QLIADNRLVVI-GGGYIGL 48 :::::::::: ::::::::::: ::::::: d1pqwa_ 1 --------------------NEAATFGVAYLTAWHSLCEVGRLSPGERVLIHSATGGVGM 40 d1q1ra2 49 EVAATAIKANMHVTLLDTAARVLERVTAPPVSAFYEHLHREAGVDI----RTGTQVCGFE 104 :::::::::::::::::: ::::::::::::: :::: d1pqwa_ 41 AAVSIAKMIGARIYTTAG-------------SDAKREMLSRLGV--EYVGDSRS------ 79 d1q1ra2 105 MSTDQQKVTAVLCEDGTRL--------------PADLVIAGIG----------------- 133 :::::::: d1pqwa_ 80 -------------------VDFADEILELTDGYGVDVVLNS--LAGEAIQRGVQILAPGG 118 d1q1ra2 134 ------------------------------------------------------------ 134 d1pqwa_ 119 RFIELGKKDVYADASLGLAALAKSASFSVVDLDLNLKLQPARYRQLLQHILQHVADGKLE 178 d1q1ra2 134 ----- 134 d1pqwa_ 179 VLPVT 183 TMalign alignment (TM-score: 0.49 Raw score:65.31) d1q1ra2 1 -------RPLPVASGAVGKANNFRYLRTLEDAECIRR--QLIADNRLVVIG-GGYIGLEV 50 :::::::::::: :::::::::::: :::::::: d1pqwa_ 1 NEAATFG------------------VAYLTAWHSLCEVGRLSPGERVLIHSATGGVGMAA 42 d1q1ra2 51 AATAIKANMHVTLLDTAARVLERVTAPPVSAFYEHLHREAGVDIRTGTQVCGFEMSTDQQ 110 ::::::::::::::::::::: :: ::: :: ::::::::::: d1pqwa_ 43 VSIAKMIGARIYTTAGSDAKR--------EM-LSR-LG---VEYVGDSRSVD-------- 81 d1q1ra2 111 KVTAVLCEDGTRL------PADLVIAGI---------------------G---------- 133 :: :::: ::::::::: : d1pqwa_ 82 ----FA---DEILELTDGYGVDVVLNSLAGEAIQRGVQILAPGGRFIELGKKDVYADASL 134 d1q1ra2 134 ------------------------------------------------- 134 d1pqwa_ 135 GLAALAKSASFSVVDLDLNLKLQPARYRQLLQHILQHVADGKLEVLPVT 183 HHsearch alignment (Probability: 0.89 E-value:0.00) d1q1ra2 25 AECIRR--QLIADNRLVVIGG-GYIGLEVAATAIKANMHVTLLDTAARVLER-------- 73 :::::: ::::::::::::: :::::::::::::::::::::::::::::: d1pqwa_ 14 WHSLCEVGRLSPGERVLIHSATGGVGMAAVSIAKMIGARIYTTAGSDAKREMLSRLGVEY 73 d1q1ra2 74 ---VTAPPVSAFYEHLHREAGVDIRTGTQ 99 :::::::::::::::::::::::::: d1pqwa_ 74 VGDSRSVDFADEILELTDGYGVDVVLNSL 102