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 | d1o94a2 | Trimethylamine dehydrogenase, C-terminal domain | FAD/NAD(P)-binding domain | FAD/NAD(P)-binding domain | α/β |
| Hit | d1xfia_ | Hypothetical protein At2g17340 | Hypothetical protein At2g17340 | Hypothetical protein At2g17340 | multi |
Query <-- 1.405 --> IntermediateDALI alignment (Z-score: 4.4 Raw score:399.70) query 1 -----------------------------------gmeNKKMNLLLFSGDydkaLASLII 25 :::::::::::: :::::: d1o94a2 1 rwntdgtnclthdpipgadaslpdqltpeqvmdgkkkiGKRVVILNADTY----FMAPSL 56 query 26 ANAAREMEIEVTIFCAfwGLLLlrdpekasqedkslyeqafssltprEAEELplskmnlg 85 :::::::::::::::: :::: ::::: d1o94a2 57 AEKLATAGHEVTIVSG--VHLA------------------------nYMHFT-------- 82 query 86 gigkkmllemmkeekapKLSDLLSGARKKEVKFYAX-------------QLSVEI----m 128 ::::::::::::::::::: :::::: d1o94a2 83 ----------------lEYPNMMRRLHELHVEELGDhfcsriepgrmeiYNIWGDgskrt 126 query 129 gfkkeelfpevqimDVKEylknalESDLQLFI---- 160 :::: :::::::: d1o94a2 127 yrgpgvsprdantsHRWI------EFDSLVLVtgrh 156 FAST alignment (Normalized score: 4.56 Raw score:720.10) query 1 GMEN---------------------------------------KKMNLLLFSGDYDKALA 21 :::::::::: ::: d1o94a2 1 ----RWNTDGTNCLTHDPIPGADASLPDQLTPEQVMDGKKKIGKRVVILNADT----YFM 52 query 22 SLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSK 81 ::::::::::::::::::::: d1o94a2 53 APSLAEKLATAGHEVTIVSGV--------------------------------------- 73 query 82 MNLGGIGKKMLLEMMKEEKAP----------KLSDLLSGARKKEVKFYAXQLSVEIMGFK 131 ::::::::::::::::: d1o94a2 74 ---------------------HLANYMHFTLEYPNMMRRLHELHVEEL------------ 100 query 132 KEELFPEVQIMDVKEYLKNA--------------------------------------LE 153 ::::: :: d1o94a2 101 --------GDHFC-------SRIEPGRMEIYNIWGDGSKRTYRGPGVSPRDANTSHRWIE 145 query 154 SDLQLFI----- 160 :::::: d1o94a2 146 FDSLVL-VTGRH 156 TMalign alignment (TM-score: 0.43 Raw score:68.80) query 1 ------------------------------------GMENKKMNLLLFSGDYDKALASLI 24 :::::::::::: :: ::::: d1o94a2 1 RWNTDGTNCLTHDPIPGADASLPDQLTPEQVMDGKK-KIGKRVVILNAD-TY---FMAPS 55 query 25 IANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNL 84 ::::::::::::::::: : ::: : :::: d1o94a2 56 LAEKLATAGHEVTIVSG--V-HLA----------------------N-YMHF-------- 81 query 85 GGIGKKMLLEMMKEEKAPKLSDLLSGARKKEVKFYA-X------------QLSVEI-MG- 129 : ::::::::::::::::::: : :::::: : d1o94a2 82 --------T--------LEYPNMMRRLHELHVEELGDHFCSRIEPGRMEIYNIWGDG-SK 124 query 130 ---------------FKKEELFPEVQIMDVKEYLKNALESDLQLFI--- 160 :::: :: :::::::: d1o94a2 125 RTYRGPGVSPRDANT-------------SHRW--IE--FDSLVLVTGRH 156 HHsearch alignment (Probability: 0.11 E-value:0.01) query 20 LASLIIANAAREMEIEVTIF 39 :::::::::::::::::::: d1o94a2 51 FMAPSLAEKLATAGHEVTIV 70
Intermediate <-- 1.277 --> HitDALI alignment (Z-score: 2.3 Raw score:319.20) d1o94a2 1 ------------------------------------------------------------ 1 d1xfia_ 1 emvpfpqlpmpiennyractipyrfpsddpkkatpneiswinvfansipsfkkraesdit 60 d1o94a2 1 ------------------------------------------------------------ 1 d1xfia_ 61 vpdaparaekfaeryagiledlkkdpeshggppdgillcrlreqvlrelgfrdifkkvkd 120 d1o94a2 1 ------------------------------rwntdgtnclthdpipgadaslpdqltpeq 30 d1xfia_ 121 eenakaislfpqvvslsdaieddgkrlenlvrgifagnifmsflascqnlvprpwviddl 180 d1o94a2 31 vmDGKKK---IGKRVVILNADT----YFMAPSLAEKLATAGHEVTIVSG----vhlanym 79 ::::: :::::::::::: ::::::::::::::::::::::: d1xfia_ 181 enFQAKWinkSWKKAVIFVDNSgadiILGILPFARELLRRGAQVVLAANelpsinditct 240 d1o94a2 80 hftlEYPNMM---rrlHELH-VEELGDH----fCSRIepgrmEIYNiwgdgskrtyrgpg 131 :::::: :::: ::::::: :::: :::: d1xfia_ 241 elteILSQLKngqllgVDTSkLLIANSGndlpvIDLS-----RVSQ-------------- 281 d1o94a2 132 vsprdantshrwIEFDSLVLV--------------------TGRH--------------- 156 ::::::::: :::: d1xfia_ 282 ------elaylsSDADLVIVEgmgrgietnlyaqfkcdslkIGMVkhlevaeflggrlyd 335 d1o94a2 157 -------- 157 d1xfia_ 336 cvfkfnev 343 FAST alignment (Normalized score: 2.19 Raw score:506.70) d1o94a2 1 RWNTDGTNCLTHDPIPGADASLPDQLT--------------------------------- 27 d1xfia_ 1 ---------------------------EMVPFPQLPMPIENNYRACTIPYRFPSDDPKKA 33 d1o94a2 28 ------------------------------------------------------------ 28 d1xfia_ 34 TPNEISWINVFANSIPSFKKRAESDITVPDAPARAEKFAERYAGILEDLKKDPESHGGPP 93 d1o94a2 28 ------------------------------------------------------------ 28 d1xfia_ 94 DGILLCRLREQVLRELGFRDIFKKVKDEENAKAISLFPQVVSLSDAIEDDGKRLENLVRG 153 d1o94a2 28 --------------------------PEQVMD---GKKKIGKRVVILNADTY----FMAP 54 ::::: :::: :::::::::::: :::: d1xfia_ 154 IFAGNIFMSFLASCQNLVPRPWVIDDLENFQ-AKWINKS-WKKAVIFVDNSGADIILGIL 211 d1o94a2 55 SLAEKLATAGHEVTIVSGVHLANYMHFTLE-----------YPNMMRRLHEL-------- 95 :::::::::::::::: :::::::::: d1xfia_ 212 PFARELLRRGAQVVLA--------------ANELPSINDITCTELTEILSQ-LKNGQLLG 256 d1o94a2 96 ----HVEELGDHFCSRIEPGRMEIYNIWGDGSKRTYRGPGVSPRDANTSHRW-------- 143 ::::: d1xfia_ 257 VDTSKLLIA-------------------------------------------NSGNDLPV 273 d1o94a2 144 --------------IEFDSLVLVTGRH--------------------------------- 156 ::::::::: d1xfia_ 274 IDLSRVSQELAYLSSDADLVIVE----GMGRGIETNLYAQFKCDSLKIGMVKHLEVAEFL 329 d1o94a2 157 -------------- 157 d1xfia_ 330 GGRLYDCVFKFNEV 343 TMalign alignment (TM-score: 0.46 Raw score:72.31) d1o94a2 1 -----------------RWNTDGT------------------------------------ 7 ::: d1xfia_ 1 EMVPFPQLPMPIENNYR----ACTIPYRFPSDDPKKATPNEISWINVFANSIPSFKKRAE 56 d1o94a2 8 --------------------------------------NCLT-HD--------------- 13 :: :: d1xfia_ 57 SDITVPDAPARAEKFAERYAGILEDLKKDPESHGGPPD--GILLCRLREQVLRELGFRDI 114 d1o94a2 14 -----------------------------------PIPGADASLPDQLTPE--------- 29 ::: d1xfia_ 115 FKKVKDEENAKAISLFPQVVSLSDAIEDDGKRLEN-------------LVRGIFAGNIFM 161 d1o94a2 30 ------------------QV-MDGKKK---IGKRVVILNADT--Y--FMAPSLAEKLATA 63 :: ::::: :::::::::::: : ::::::::::::: d1xfia_ 162 SFLASCQNLVPRPWVIDDLEN-FQAKWINKSWKKAVIFVDNSGADIILGILPFARELLRR 220 d1o94a2 64 GHEVTIVSG------VHLA-NY-MHFTLEYPNM-MRRL--HELH-VEELGDHF----CSR 107 ::::::::: :::: :: : :::::: ::: :::: :::::::: ::: d1xfia_ 221 GAQVVLAANELPSINDITCTELT-E--ILSQLKN-GQLLGVDTSKLLIANSGNDLPVIDL 276 d1o94a2 108 IEPGRMEIYNIWGDGSKRTYRGPGVSPRDANTSHRW--IE-FDSLVLVTG---------- 154 :::: :::: :: ::::::::: d1xfia_ 277 ------SRVS----------------------QELAYLSSDADLVIVEGMGRGIETNLYA 308 d1o94a2 155 ----------RH----------------------- 156 :: d1xfia_ 309 QFKCDSLKIGMVKHLEVAEFLGGRLYDCVFKFNEV 343 HHsearch alignment (Probability: 0.88 E-value:0.00) d1o94a2 36 KKIGKRVVILNADTY---FMAPS-LAEKLATAGHEVTIVSGVHLANYMHFTLEYPNMMRR 91 ::::::::::::::: ::::: :::::::::::::::::::::::::::::::::::: d1xfia_ 189 NKSWKKAVIFVDNSGADIILGILPFARELLRRGAQVVLAANELPSINDITCTELTEILSQ 248 d1o94a2 92 LHELHVEELGDHFCSRIEP 110 ::::::::::::::::::: d1xfia_ 249 LKNGQLLGVDTSKLLIANS 267