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: T0582_Ad1.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1dgw.1 | Seed storage 7S protein | RmlC-like cupins | Double-stranded beta-helix | All β |
| Hit | d1i5za2 | Catabolite gene activator protein, N-terminal domain | cAMP-binding domain-like | Double-stranded beta-helix | All β |
Query <-- 0.954 --> IntermediateDALI alignment (Z-score: 8.0 Raw score:547.40) query 1 meinadftKPVVIdTDQLEWRPSpMKGVERRMLDR-----IGGEvARATSIVRYAPGSRF 55 ::::: ::::::::: ::::::::::: :::: ::::::::::::::: d1dgw.1 1 --------DKPFN-LRSRDPIYS-NNYGKLYEITPeknsqLRDL-DILLNCLQMNEGALF 49 query 56 SAHTHD-GGEEFIVLDGVFQDE----------HGDYPAGTYVRNPPTTSHVPGSAEGCTI 104 :::::: ::::::::::::::: :::::::::::::::::::::::::::: d1dgw.1 50 VPHYNSrATVILVANEGRAEVElvgleqlrryAATLSEGDIIVIPSSFPVALKAASDLNM 109 query 105 FVKLWQ----------------------------------------fdpadrtqfsknm 123 :::::: d1dgw.1 110 VGIGVNaennernflaghkenvirqiprqvsdltfpgsgeeveellenqkesyfvdgqp 168 FAST alignment (Normalized score: 6.32 Raw score:908.40) query 1 MEINADFTKPVVIDTDQLEWRPS--PMKGVERRMLDRIGGEVA-------------RATS 45 ::::::::::: ::::::::: :::: d1dgw.1 1 ---------DKPFNLRSRDP---IYSNNYGKLYE---------ITPEKNSQLRDLDILLN 39 query 46 IVRYAPGSRFSAHTHD-GGEEFIVLDGVFQDE-----------HGDYPAGTYVRNPPTTS 93 :::::::::::::::: :::::::::::::: ::::::::::::::::: d1dgw.1 40 CLQMNEGALFVPHYNSRATVILVANEGRAEV-ELVGLEQLRRYAATLSEGDIIVIPSSFP 98 query 94 HVPGSAEGCTIFVKLWQFDPADRTQFSKNM------------------------------ 123 :::::::::::::: d1dgw.1 99 VALKAASDLNMVGI----------------GVNAENNERNFLAGHKENVIRQIPRQVSDL 142 query 124 -------------------------- 124 d1dgw.1 143 TFPGSGEEVEELLENQKESYFVDGQP 168 TMalign alignment (TM-score: 0.60 Raw score:74.36) query 1 MEINADFTKPVVIDTDQLEWRPSPMK-GVERRMLDRIGG--------EVARATSIVRYAP 51 ::::: : ::::::::: :::::: ::::: :::::::::: d1dgw.1 1 --------DKPFN-L--RSRDPIYSNNYGKLYE-ITPEKNSQLRDLD---ILLNCLQMNE 45 query 52 GSRFSAHTHD-GGEEFIVLDGVFQDE----------HGDYPAGTYVRNPPTTSHVPGSAE 100 :::::::::: ::::::::::::::: :::::::::::::::::::::::: d1dgw.1 46 GALFVPHYNSRATVILVANEGRAEVELVGLEQLRRYAATLSEGDIIVIPSSFPVALKAAS 105 query 101 GCTIFVKLWQFDP----------------------------------------------- 113 :::::::: :::: d1dgw.1 106 DLNMVGIG-VNAENNERNFLAGHKENVIRQIPRQVSDLTFPGSGEEVEELLENQKESYFV 164 query 114 ----ADRTQFSKNM 123 d1dgw.1 165 DGQP---------- 168 HHsearch alignment (Probability: 0.95 E-value:0.00) query 41 ARATSIVRYAPGSRFSAHTH-DGGEEFIVLDGV----FQDEHG------DYPAGTYVRNP 89 :::::::::::::::::::: :::::::::::: :::::: ::::::::::: d1dgw.1 35 DILLNCLQMNEGALFVPHYNSRATVILVANEGRAEVELVGLEQLRRYAATLSEGDIIVIP 94 query 90 PTTSHVPGSAEGCTIFV 106 ::::::::::::::::: d1dgw.1 95 SSFPVALKAASDLNMVG 111
Intermediate <-- 0.924 --> HitDALI alignment (Z-score: 3.4 Raw score:304.90) d1dgw.1 1 -dkPFNLrsrdpiysnnygklyeitpeknsqlrdldilLNCLQMNEGALF-VPHYNsraT 58 :::: :::::::::::: ::::: : d1i5za2 1 qtdPTLE--------------------------wflshCHIHKYPSKSTLiHQGEK--aE 32 d1dgw.1 59 VILVANEGRAEVElvgleqlrryAATLSEGDIIVIPS------SFPVALKAASDLNMVGI 112 ::::::::::::: :::::::::::::: ::::::::::::::::: d1i5za2 33 TLYYIVKGSVAVLikdeegkemiLSYLNQGDFIGELGlfeegqERSAWVRAKTACEVAEI 92 d1dgw.1 113 GVNAennernflaghkenvirqiprqvsdltfpgsgeeveellenqkesyfvdgqp 168 :::: d1i5za2 93 SYKK----------------frqliqvnpdilmrlsaqmarrlqvtsekvgnlafl 132 FAST alignment (Normalized score: 3.98 Raw score:592.80) d1dgw.1 1 DKPFNLRSRDPIYSNNYGKLYEITPEKNSQLRDLDI-----------LLNCLQMNEGAL- 48 :::::::::::: d1i5za2 1 ------------------------------------QTDPTLEWFLSHCHIHKYPSKSTL 24 d1dgw.1 49 FVPHYNSRA---TVILVANEGRAEVELVG-LEQLRRY-AATLSEGDIIVI-------PSS 96 :::: ::::::::::::::: ::::::: ::::::::: ::: d1i5za2 25 IHQG-----EKAETLYYIVKGSVAVLI--KDEEGKEMILSYLNQGDF---IGELGLFEEG 74 d1dgw.1 97 F--PVALKAASDLNMVGIGVNAENNERNFLAGHKENVIRQIPRQVSDLTFPGSGEEVEEL 154 : ::::::::::::::::: d1i5za2 75 QERSAWVRAKTACEVAEISY---------------------------------------- 94 d1dgw.1 155 LENQKESYFVDGQP-------------------------------------- 168 d1i5za2 95 --------------KKFRQLIQVNPDILMRLSAQMARRLQVTSEKVGNLAFL 132 TMalign alignment (TM-score: 0.34 Raw score:57.34) d1dgw.1 1 -----------DKPFNLRSRDPIYSNNYGKLYEITPEKNSQLRDLDILLNCLQMNEGALF 49 ::::::::::::: d1i5za2 1 QTDPTLEWFLS------------------------------------HCHIHKYPSKSTL 24 d1dgw.1 50 VP-HYNSRATVILVANEGRAEVELV------GLEQLRRYAATLSEGDII-VIP----SSF 97 :: :::: : ::::::::::::::: :::::::::::: ::: ::: d1i5za2 25 IHQGEKA-E-TLYYIVKGSVAVLIKDEEGKE------MILSYLNQGDFIGELGLFEEGQE 76 d1dgw.1 98 P-VALKAASDLNMVGIGVNA------------------------------------ENNE 120 : :::::::::::::::::: d1i5za2 77 RSAWVRAKTACEVAEISYKKFRQLIQVNPDILMRLSAQMARRLQVTSEKVGNLAFL---- 132 d1dgw.1 121 RNFLAGHKENVIRQIPRQVSDLTFPGSGEEVEELLENQKESYFVDGQP 168 d1i5za2 133 ------------------------------------------------ 133 HHsearch alignment (Probability: 0.92 E-value:0.00) d1dgw.1 37 LLNCLQMNEGALFVPHYNSRATVILVANEGRAEVELVGLEQLRRYAATLSEGDIIV---- 92 :::::::::::::::: ::::::::::::::::::::::::::::::::::::::: d1i5za2 12 HCHIHKYPSKSTLIHQ-GEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGL 70 d1dgw.1 93 IPSS--FPVALKAASDLNMVGI 112 :::: :::::::::::::::: d1i5za2 71 FEEGQERSAWVRAKTACEVAEI 92