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 | d1hyea1 | MJ0490, lactate/malate 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 <-- 1.445 --> HitDALI alignment (Z-score: 5.1 Raw score:436.90) d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilpavqkKNLAVVGA-GPAGLAFA 59 :::::::: :::::::: d1hyea1 1 -------------------------------------------MKVTIIGAsGRVGSATA 17 d1ps9a3 60 INAAAR--GHQVTLFDAHSEIggqfniakqipgkeefyetlrYYRRMIEV--------tg 109 :::::: ::::::::::::: :::::::: d1hyea1 18 LLLAKEpfMKDLVLIGREHSI-----------------nkleGLREDIYDalagtrsdan 60 d1ps9a3 110 VTLKLnHTVTadQLQA-FDETILASGI----------------PNRA-LAQPLID-SGKT 150 ::::: :::: :::: :::::::::: :::: ::::::: :::: d1hyea1 61 IYVES-DENL--RIIDeSDVVIITSGVprkegmsrmdlaktnaKIVGkYAKKIAEiCDTK 117 d1ps9a3 151 VHLIggCDVAM-eldarraiaqgtrlalei 179 :::: ::::: d1hyea1 118 IFVI--TNPVDvmtykalvdskfernqvfg 145 FAST alignment (Normalized score: 4.37 Raw score:704.10) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVG-AGPAGLAFA 59 ::::::: ::::::::: d1hyea1 1 -------------------------------------------MKVTIIGASGRVGSATA 17 d1ps9a3 60 INAAARG--HQVTLFDAHSEIGGQFNIAKQIPGKEEF--YETLRYYRRMIEV-------- 107 ::::::: ::::::::: ::::::::::::: d1hyea1 18 LLLAKEPFMKDLVLIGRE-------------------HSINKLEGLREDIYDALAGTRSD 58 d1ps9a3 108 TGVTLKLNHTVTADQL--------QAFDETILASGIPN--------------------RA 139 :::::: ::::::::::: :: d1hyea1 59 ANIYVE----------SDENLRIIDESDVVIITSG---VPRKEGMSRMDLAKTNAKIVGK 105 d1ps9a3 140 LAQPLID-SGKTVHLIGGCDVAMELDARRAIAQGTRLALEI------------------- 179 ::::::: :::::::: d1hyea1 106 YAKKIAEICDTKIFVI-------------------------TNPVDVMTYKALVDSKFER 140 d1ps9a3 180 ----- 180 d1hyea1 141 NQVFG 145 TMalign alignment (TM-score: 0.42 Raw score:74.56) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVG-AGPAGLAFA 59 ::::::: ::::::::: d1hyea1 1 -------------------------------------------MKVTIIGASGRVGSATA 17 d1ps9a3 60 INAAARG-HQ-VTLFDA--HSEIG-GQFNIAKQIPGKEEFYETLRYYRRMIE-VT----- 108 ::::::: :: :::::: ::::: : :::::: :: d1hyea1 18 LLLAKEPFMKDLVLIGREHSINKLE-------------------G-LREDIYDALAGTRS 57 d1ps9a3 109 -GVTLKLNHTVTADQLQA-FDETILASGI--------------P--NR-ALAQPLID-SG 148 :::::: :::: ::::: :::::::::: : :: :::::::: :: d1hyea1 58 DANIYVE-SDEN-LRIIDESDVVIITSGVPRKEGMSRMDLAKTNAKIVGKYAKKIAEICD 115 d1ps9a3 149 KTVHLIGGCDVAM--------------------ELDARRAIAQGTRLALEI 179 :::::: :::: d1hyea1 116 TKIFVI---TNPVDVMTYKALVDSKFERNQVFG------------------ 145 HHsearch alignment (Probability: 0.97 E-value:0.00) d1ps9a3 44 KNLAVVGA-GPAGLAFAINAAARGH--QVTLFDAHSEIGGQFNIAKQIPGKEEFYETLRY 100 :::::::: :::::::::::::::: ::::::::::::: ::: :::::::: d1hyea1 1 MKVTIIGASGRVGSATALLLAKEPFMKDLVLIGREHSINK-------LEG--LREDIYDA 51 d1ps9a3 101 YRRMIEVTGVTLKLNHTVTADQLQAFDETILASGIPNRALAQ 142 : :::::::::::::::::::::::::::::::: :::::: d1hyea1 52 L--AGTRSDANIYVESDENLRIIDESDVVIITSGV-PRKEGM 90