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 | d1gpma1 | GMP synthetase, central 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 <-- 0.739 --> HitDALI alignment (Z-score: 4.3 Raw score:361.40) d1q1ra2 1 rplpvasgavgkannfrylrTLEDAECIRRQLIaDNRLVVIGG-GYIGLEVAATAIKANM 59 ::::::::::::: ::::::::: :::::::::::::::: d1gpma1 1 --------------wtpakiIDDAVARIREQVG-DDKVILGLSgGVDSSVTAMLLHRAIG 45 d1q1ra2 60 -HVTLLDTAArvleRVTAPPVSAFYEHLHR-EAGVDIRTG-------------------- 97 ::::::::: :::::::::::::::: ::::::::: d1gpma1 46 kNLTCVFVDN----GLLRLNEAEQVLDMFGdHFGLNIVHVpaedrflsalagendpeakr 101 d1q1ra2 98 --------tQVCGfemstdqqkvtavlcedgTRLP-ADLVIAGI---------------- 132 :::: :::: :::::::: d1gpma1 102 kiigrvfveVFDE----------------eaLKLEdVKWLAQGTiypdviesaakmglve 145 d1q1ra2 133 -----------------------------g 133 d1gpma1 146 plkelfkdevrkiglelglpydmlyrhpfp 175 FAST alignment (Normalized score: 4.25 Raw score:648.30) d1q1ra2 1 RPLPVASGAVGKANNFRYLR------TLEDAECIRRQLIADNRLVV-IGGGYIGLEVAAT 53 :::::::::::: ::::::: ::::::::::::: d1gpma1 1 --------------------WTPAKIIDDAVARIREQV-GDDKVILGLSGGVDSSVTAML 39 d1q1ra2 54 AIKANM----HVTLLDTAARVL--ERVTAPPVSAFYEHLH-REAGVDIRTGTQVCGFEMS 106 ::: :::::: :::::::::::::::: :::::::: d1gpma1 40 LHR---AIGKNLTCVF------VDNGLLRLNEAEQVLDMFGDHFGLNIV----------- 79 d1q1ra2 107 TDQQKVTAVLCEDGTR----------------------------------------LPAD 126 :::: d1gpma1 80 ----------------HVPAEDRFLSALAGENDPEAKRKIIGRVFVEVFDEEALKLEDVK 123 d1q1ra2 127 LVIAGIG------------------------------------------------- 133 ::: d1gpma1 124 WLA----QGTIYPDVIESAAKMGLVEPLKELFKDEVRKIGLELGLPYDMLYRHPFP 175 TMalign alignment (TM-score: 0.47 Raw score:62.29) d1q1ra2 1 ---------RPLPVASGAVGKANNFRYLRTLEDA--ECIR-RQLIADNRLVVIGGGY-IG 47 : :: :: ::::::::::::: :: d1gpma1 1 WTPAKIIDD------------------------AVA--RIREQ-VGDDKVILGLSGGVDS 33 d1q1ra2 48 LEVAATAIKANM-HVTLLDTAARVLERVTA-PPVS-AFYEHLHREAGVDIRTGT------ 98 :::::::::::: :::::::::: ::::: :::: ::::::: : ::::::: d1gpma1 34 SVTAMLLHRAIGKNLTCVFVDNG--LLRLNEAEQVLDMFGDHF-G--LNIVHVPAEDRFL 88 d1q1ra2 99 ----------------------QVCGFEMSTDQQKVTAVLCEDGTRLPADLVIAG----- 131 ::::: :: ::::::::::: d1gpma1 89 SALAGENDPEAKRKIIGRVFVEVFDEE-----------AL----KLEDVKWLAQGTIYPD 133 d1q1ra2 132 -----------------------------------------IG 133 : d1gpma1 134 VIESAAKMGLVEPLKELFKDEVRKIGLELGLPYDMLYRHPF-P 175 HHsearch alignment (Probability: 0.33 E-value:0.01) d1q1ra2 25 AECIRRQLIADNRLVVIGGGYIGLEVAATAIK-ANMHVTLLDTAARVLERVTAPPVSAFY 83 :::::::::::::::::::::::::::::::: :::::::::::::::::::::::::: d1gpma1 11 VARIREQVGDDKVILGLSGGVDSSVTAMLLHRAIGKNLTCVFVDNGLLRLNEAEQVLDM- 69 d1q1ra2 84 EHLHREAGVDIR 95 :::::::::: d1gpma1 70 --FGDHFGLNIV 79