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 | d1ni5a1 | Putative cell cycle protein MesJ, N-terminal domain | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | 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 <-- 1.165 --> HitDALI alignment (Z-score: 4.1 Raw score:327.80) d1q1ra2 1 rplpvasgavgkannfrylrtlEDAECIRRQLIadNRLVVIGG-GYIGLEVAATAIKAN- 58 ::::::::::: :::::::: ::::::::::::::: d1ni5a1 1 ----------------------SMTLTLNRQLLtsRQILVAFSgGLDSTVLLHQLVQWRt 38 d1q1ra2 59 ----MHVTLLDTAArvleRVTAPPVSAFYEHLHREAGVDIRTG----------------- 97 :::::::::: ::::::::::::::::::::::::: d1ni5a1 39 enpgVALRAIHVHH--glSANADAWVTHCENVCQQWQVPLVVErvqlaqeglgieaqarq 96 d1q1ra2 98 ---tQVCGfemstdqqkvtavlcedgtRLPAdLVIAGIG--------------------- 133 :::: :::: ::::::: d1ni5a1 97 aryqAFAR-----------------tlLPGE-VLVTAQHlddqcetfllalkrgsgpagl 138 d1q1ra2 134 ------------------------------------------------------------ 134 d1ni5a1 139 samaevsefagtrlirpllartrgelvqwarqydlrwiedesnqddsydrnflrlrvvpl 198 d1q1ra2 134 ----------------------------- 134 d1ni5a1 199 lqqrwphfaeatarsaalcaeqeslldel 227 FAST alignment (Normalized score: 3.22 Raw score:560.00) d1q1ra2 1 RPLPVASGAVGKANNFRYLRTLE-DAECIRRQLIAD---NRLVV-IGGGYIGLEVAATAI 55 ::::::::: ::::: ::::::::::::::: d1ni5a1 1 -----------------------SMTLTLNRQL---LTSRQILVAFSGGLDSTVLLHQLV 34 d1q1ra2 56 K-----ANMHVTLLDTAARV-LERVT--APPVSAFYEHLHREAGVDIRTGTQVCGFEMST 107 : ::::::::: ::::: :::::::::::::::::::: d1ni5a1 35 QWRTENPGVALRAIH-----VHHGLSANADAWVTHCENVCQQWQVPLV------------ 77 d1q1ra2 108 DQQKVTAVLCEDGTRLPA--------------------------------DLVIAGIG-- 133 :::::: d1ni5a1 78 ------------------VERVQLAQEGLGIEAQARQARYQAFARTLLPGEVLVTA--QH 117 d1q1ra2 134 ------------------------------------------------------------ 134 d1ni5a1 118 LDDQCETFLLALKRGSGPAGLSAMAEVSEFAGTRLIRPLLARTRGELVQWARQYDLRWIE 177 d1q1ra2 134 -------------------------------------------------- 134 d1ni5a1 178 DESNQDDSYDRNFLRLRVVPLLQQRWPHFAEATARSAALCAEQESLLDEL 227 TMalign alignment (TM-score: 0.46 Raw score:60.64) d1q1ra2 1 RPLPVASGAVGKANNFRYLRTLEDAECIRRQLIADNRLVVIGG-G---YIGLEVAATAIK 56 ::::: :::::::::::::::: : :::::::::::: d1ni5a1 1 ---------------------SMTLT-LNRQLLTSRQILVAFSGGLDSTVLLHQLVQWRT 38 d1q1ra2 57 -AN-MHVTLLDTAA-----RVLERVTAPPVSAFYEHLHREAGVDIRTGT----------- 98 :: :::::::::: ::::: : ::::::::: : ::::::: d1ni5a1 39 ENPGVALRAIHVHHGLSANADAWV---T-HCENVCQQW--Q-VPLVVERVQLAQEGLGIE 91 d1q1ra2 99 ------QVCGFEMSTDQQKVTAVLCEDGTRLPADLVIAGI---G---------------- 133 :::: ::: :::::::::::: : d1ni5a1 92 AQARQARYQA------------FAR---TLLPGEVLVTAQHLDDQCETFLLALKRGSGPA 136 d1q1ra2 134 ------------------------------------------------------------ 134 d1ni5a1 137 GLSAMAEVSEFAGTRLIRPLLARTRGELVQWARQYDLRWIEDESNQDDSYDRNFLRLRVV 196 d1q1ra2 134 ------------------------------- 134 d1ni5a1 197 PLLQQRWPHFAEATARSAALCAEQESLLDEL 227 HHsearch alignment (Probability: 0.10 E-value:0.05) d1q1ra2 29 RRQLIADNRLVV-IGGGYIGLEVAATAIK-----ANMHVTLLDTAARVLERVTAPPVSAF 82 :::::::::::: :::::::::::::::: :::::::::::::::: :::::::: d1ni5a1 7 NRQLLTSRQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHVHHGLSA--NADAWVTH 64 d1q1ra2 83 YEHLHREAGVDIRTG 97 ::::::::::::::: d1ni5a1 65 CENVCQQWQVPLVVE 79