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 | d1teaa2 | Hydroxyisobutyrate dehydrogenase | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | 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 <-- 1.148 --> HitDALI alignment (Z-score: 5.0 Raw score:452.60) d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilpavqkKNLAVVGAGPAGLAFAI 60 ::::::::::::::::: d1teaa2 1 -------------------------------------------MKVGFIGLGIMGKPMSK 17 d1ps9a3 61 NAAARGHQVTLFDAHSEIggqfniakqipgkeefyetlryyrrMIEVTGVTLklnhtVTA 120 :::::::::::::::::: ::::::::: ::: d1teaa2 18 NLLKAGYSLVVSDRNPEA-----------------------iaDVIAAGAET----aSTA 50 d1ps9a3 121 DQLQ-AFDETILASGI-PNRA-LAQP---LIDS---GKTVHLIggCDVAM---------- 161 :::: ::::::::::: :::: :::: :::: ::::::: ::::: d1teaa2 51 KAIAeQCDVIITMLPNsPHVKeVALGengIIEGakpGTVLIDM--SSIAPlasreisdal 108 d1ps9a3 162 ------------eLDARRAIA--------------qgtrlALEI--------- 179 :::::::: :::: d1teaa2 109 kakgvemldapvsGGEPKAIDgtlsvmvggdkaifdkyydLMKAmagsvvhtg 161 FAST alignment (Normalized score: 4.37 Raw score:740.90) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVGAGPAGLAFAI 60 ::::::::::::::::: d1teaa2 1 -------------------------------------------MKVGFIGLGIMGKPMSK 17 d1ps9a3 61 NAAARGHQVTLFDAHSEIGGQFNIAKQIPGKEEFYET--LRYYRRMIEVTGVTLKLNHTV 118 :::::::::::::::: :::::: ::::: d1teaa2 18 NLLKAGYSLVVSDRNP---------------------EAIADVIA----AGAET------ 46 d1ps9a3 119 --TADQLQ-AFDETILASGIPNRA------------------------------------ 139 :::::: ::::::::::: d1teaa2 47 ASTAKAIAEQCDVIITMLPN----SPHVKEVALGENGIIEGAKPGTVLIDMSSIAPLASR 102 d1ps9a3 140 -LAQPLIDSGKTVHLIGGCDVAME----LDARRAIAQGTRLALEI--------------- 179 :::::::::::::: ::::::: d1teaa2 103 EISDALKAKGVEMLD---------APVSGGEPKAI----------DGTLSVMVGGDKAIF 143 d1ps9a3 180 ------------------ 180 d1teaa2 144 DKYYDLMKAMAGSVVHTG 161 TMalign alignment (TM-score: 0.43 Raw score:77.69) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVGAGPAGLAFAI 60 ::::::::::::::::: d1teaa2 1 -------------------------------------------MKVGFIGLGIMGKPMSK 17 d1ps9a3 61 NAAARGHQVTLFDAHSEIGGQFNIAKQIPGKEEFYETLRYYRRMIEVTGVTLKLNHTVTA 120 ::::::::::::::::::: :: :::: ::::: : :: d1teaa2 18 NLLKAGYSLVVSDRNPEAI---------------------AD-VIAA-GAETA--S-TA- 50 d1ps9a3 121 DQLQ-AFDETILASGIP-NRA-LAQ----PLI-DSG-KTVHLIGGCDV------------ 159 :::: :::::::::::: ::: ::: ::: ::: ::::::::::: d1teaa2 51 KAIAEQCDVIITMLPNSPHVKEVALGENGIIEGAKPGTVLIDMSSIAPLASREISDALKA 110 d1ps9a3 160 ---------AMELDARR-AI----AQG--------------TRLALEI------- 179 ::::: :: ::: :::::: d1teaa2 111 KGVEMLDAP---VSGGEPKAIDGTLSVMVGGDKAIFDKYYD-LMKAMAGSVVHTG 161 HHsearch alignment (Probability: 0.95 E-value:0.00) d1ps9a3 44 KNLAVVGAGPAGLAFAINAAARGHQVTLFDAHSEI 78 ::::::::::::::::::::::::::::::::::: d1teaa2 1 MKVGFIGLGIMGKPMSKNLLKAGYSLVVSDRNPEA 35