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 | d1ps9a3 | 2,4-dienoyl-CoA reductase, middle domain | Nucleotide-binding domain | Nucleotide-binding domain | α/β |
| Hit | d1ne2a_ | Hypothetical protein Ta1320 | S-adenosyl-L-methionine-dependent methyltransferases | S-adenosyl-L-methionine-dependent methyltransferases | α/β |
Query <-- 1.613 --> IntermediateDALI alignment (Z-score: 4.1 Raw score:393.70) query 1 ---------------------------------------GMENKKMNLLLfsgdydkALA 21 ::::::::::: ::: d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilpAVQKKNLAVVG------aGPA 54 query 22 SLIIANAAREMEIEVTIFCAfwgLLLLrdpekasqedkslyeqafssltpreaeELPLsk 81 :::::::::::::::::::: :::: :::: d1ps9a3 55 GLAFAINAAARGHQVTLFDA---HSEI------------------------ggqFNIA-- 85 query 82 mnlgGIGKKmllemmkeekaPKLSDLLSGARKKEVKFYAXqlsveimgfkkeelfpevqI 141 ::::: :::::::::::::::::::: : d1ps9a3 86 --kqIPGKE--------efyETLRYYRRMIEVTGVTLKLN------------------hT 117 query 142 MDVKEYlknaLESDLQLFI----------------------------------------- 160 :::::: ::::::::: d1ps9a3 118 VTADQL----QAFDETILAsgipnralaqplidsgktvhliggcdvameldarraiaqgt 173 query 161 ------ 161 d1ps9a3 174 rlalei 179 FAST alignment (Normalized score: 3.87 Raw score:654.60) query 1 GME------------------------------------------NKKMNLLLFSGDYDK 18 :::::: d1ps9a3 1 ---INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAV--------- 48 query 19 ---ALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLT-PREA 74 :::::::::::::::::::::: :::: d1ps9a3 49 VGAGPAGLAFAINAAARGHQVTLFD------------------------------AHSEI 78 query 75 EELPLSKMNLGGIGKKMLLEMMKEEKAP------------------KLSDLLSGARKKEV 116 :::::::::::::: d1ps9a3 79 ----------------------------GGQFNIAKQIPGKEEFYETLRYYRRMIEVTGV 110 query 117 KFYAXQLSVEIMGFKKEELFPE-VQIMDVKEYLKNA-LESDLQLFI-------------- 160 ::: :::::::: ::::::: d1ps9a3 111 TLK-------------------LNHTVTADQ-----LQAFDETI--LASGIPNRALAQPL 144 query 161 ----------------------------------- 161 d1ps9a3 145 IDSGKTVHLIGGCDVAMELDARRAIAQGTRLALEI 179 TMalign alignment (TM-score: 0.44 Raw score:70.82) query 1 ---------------------------------------GMENKKMNLLLFSGDYDKALA 21 ::::::::::: :::: d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVG------AGPA 54 query 22 SLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREA-EELPLS 80 :::::::::::::::::::: ::::: : :::: d1ps9a3 55 GLAFAINAAARGHQVTLFDA--HSEIG-------------------------GQ-FNIA- 85 query 81 KMNLGGIGKKMLLE-MMKEEKAPKLSDLLSGARKKEVKFYAXQLSVEIMGFKKEELFPEV 139 : :::::: :: ::::::::::::::::::::: : d1ps9a3 86 --K-QIPGKE--EFY-------ETLRYYRRMIEVTGVTLKLNH-T--------------- 117 query 140 QIMDVKEYLKNALESDLQLFI--------------------------------------- 160 :::::: :::::::::: d1ps9a3 118 ----VTADQL-QAFDETILASGIPNRALAQPLIDSGKTVHLIGGCDVAMELDARRAIAQG 172 query 161 ------- 161 d1ps9a3 173 TRLALEI 179 HHsearch alignment (Probability: 0.10 E-value:0.01) query 2 MENKKMNLLLFSGDYDKALASLIIANAAREMEIEVTIF 39 ::::::::::::: :::::::::::::::::::: d1ps9a3 40 AVQKKNLAVVGAG-----PAGLAFAINAAARGHQVTLF 72
Intermediate <-- 1.633 --> HitDALI alignment (Z-score: 5.1 Raw score:446.20) d1ps9a3 1 intcigcnqacldqifvgkvtsclVNPR--achetkmpilpavqKKNLAVVGAGPagLAF 58 :::: ::::::::::: ::: d1ne2a_ 1 ----mgikndleirlqklqqqgypTDAStaayflieiyndgnigGRSVIDAGTGN--GIL 54 d1ps9a3 59 AINAAARGH-QVTLFDAHSEIggqfniakqipgkeefyetlryYRRMIEvtGVTLKLnHT 117 ::::::::: ::::::::::: :::::: :::::: :: d1ne2a_ 55 ACGSYLLGAeSVTAFDIDPDA-------------------ietAKRNCG--GVNFMV-AD 92 d1ps9a3 118 VTAdQLQAFDETILAsGIPNRALAQPLIDsgKTVHLIggcDVAM---------------- 161 ::: ::::::::::: ::::::::::::: :::::: :::: d1ne2a_ 93 VSE-ISGKYDTWIMN-PPFDRAFIDKAFEtsMWIYSI---GNAKardflrrefsargdvf 147 d1ps9a3 162 ---ELDAR--------raiaqgtrlalei 179 ::::: d1ne2a_ 148 reeKVYITvpriyrarieavifgvrnhsf 176 FAST alignment (Normalized score: 3.69 Raw score:655.00) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQ------------------ 42 d1ne2a_ 1 ------------------------------------------MGIKNDLEIRLQKLQQQG 18 d1ps9a3 43 ----------------------KKNLAVVGAGPAG-LAFAINAAARG-HQVTLFDAHSEI 78 :::::::::: ::::::::::: ::::::::: d1ne2a_ 19 YPTDASTAAYFLIEIYNDGNIGGRSVIDAGTG---NGILACGSYLLGAESVTAFDID--- 72 d1ps9a3 79 GGQFNIAKQIPGKEEFYETLRYYRRMIEVTGVTLKLNHTVTADQ-------LQAFDETIL 131 ::::::::::: :::::: ::::::::: d1ne2a_ 73 ----------------PDAIETAKRNC--GGVNFM---------VADVSEISGKYDTWIM 105 d1ps9a3 132 ASGIPNRALAQPLIDSG--KTVHLIGGCDVAMELDARRAIAQGTRLALEI---------- 179 :: :::::::::::: :::::: d1ne2a_ 106 NP-PFDRAFIDKAFE--TSMWIYSI-------------------------GNAKARDFLR 137 d1ps9a3 180 --------------------------------------- 180 d1ne2a_ 138 REFSARGDVFREEKVYITVPRIYRARIEAVIFGVRNHSF 176 TMalign alignment (TM-score: 0.47 Raw score:84.02) d1ps9a3 1 -----------INTCI----GCNQACLDQIFVGKVTSCLVNPR-ACHE--TKMP-ILPAV 41 ::::: ::::: :: :: :::: d1ne2a_ 1 MGIKNDLEIRLQKLQQQGYP------------------TDASTA--AYFL--IEI-YNDG 37 d1ps9a3 42 --QKKNLAVVGAGPAGLAFAINAAARGH-QVTLFDAHSEIGGQFNIAKQIPGKEEFYETL 98 :::::::::::: :::::::::::: :::::::::::: : d1ne2a_ 38 NIGGRSVIDAGTGN--GILACGSYLLGAESVTAFDIDPDAI------------------E 77 d1ps9a3 99 RYYRRMIEVTGVTLKLNHTVTADQLQAFDETILASGIPNRALAQPLIDSGKTVHLIGGCD 158 : :::::: :::::: :::: :::::::::::: ::::::::::::::::::::::: : d1ne2a_ 78 T-AKRNCG--GVNFMV-ADVS-EISGKYDTWIMN-PPFDRAFIDKAFETSMWIYSIGN-A 130 d1ps9a3 159 VAM-------------------ELDAR------RA-IAQG-TRL------ALEI 179 ::: :::: :: ::: : d1ne2a_ 131 KARDFLRREFSARGDVFREEKV-YITVPRIYRARIE-AVIF--GVRNHSF---- 176 HHsearch alignment (Probability: 0.21 E-value:0.00) d1ps9a3 17 VGKVTSCLVNPRACH--ETKMPILPAVQKKNLAVVGAGPAGLAFAINAAARG-HQVTLFD 73 ::::::::::::::: :::::::::::::::::::::::::::: ::::: ::::::: d1ne2a_ 13 KLQQQGYPTDASTAAYFLIEIYNDGNIGGRSVIDAGTGNGILACG--SYLLGAESVTAFD 70 d1ps9a3 74 AHSEI 78 ::::: d1ne2a_ 71 IDPDA 75