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 | d1lsua_ | Ktn bsu222 | 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 <-- 2.073 --> HitDALI alignment (Z-score: 7.2 Raw score:525.50) d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilpavqkKNLAVVGAGPAGLAFAI 60 ::::::::::::::::: d1lsua_ 1 -------------------------------------------KQFAVIGLGRFGGSIVK 17 d1ps9a3 61 NAAARGHQVTLFDAHSEIggqfniakqipgkeefyetlryyrrmIEVTGVTLKLnHTVT- 119 :::::::::::::::::: :::::::::: :::: d1lsua_ 18 ELHRMGHEVLAVDINEEK-----------------------vnaYASYATHAVI-ANATe 53 d1ps9a3 120 ---ADQL--QAFDETILASGIPN---RALAQPLIDSGK-TVHLIggcDVAME-------- 162 :::: :::::::::::::: :::::::::::: ::::: ::::: d1lsua_ 54 eneLLSLgiRNFEYVIVAIGANIqasTLTTLLLKELDIpNIWVK---AQNYYhhkvleki 110 d1ps9a3 163 -----lDARR--aiaqgtrlalei 179 :::: d1lsua_ 111 gadriiHPEKdmgvkiaqslsden 134 FAST alignment (Normalized score: 5.49 Raw score:850.90) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVGAGPAGLAFAI 60 ::::::::::::::::: d1lsua_ 1 -------------------------------------------KQFAVIGLGRFGGSIVK 17 d1ps9a3 61 NAAARGHQVTLFDAHSEIGGQFNIAKQIPGKEEFYETLRYYRRMIEVTG--VTLKLNHTV 118 :::::::::::::::: :::::::: :::: d1lsua_ 18 ELHRMGHEVLAVDINE-----------------------EKVNAYAS--YATHAV----- 47 d1ps9a3 119 --------TADQL---QAFDETILASGIPN------RALAQPLIDSG-KTVHLIGGCDVA 160 :::: ::::::::::: ::::::::::: :::::: d1lsua_ 48 IANATEENELLS-LGIRNFEYVIVAIG---ANIQASTLTTLLLKELDIPNIWVK------ 97 d1ps9a3 161 MELDARRAIAQGTRLALEI------------------------------------- 179 d1lsua_ 98 -------------------AQNYYHHKVLEKIGADRIIHPEKDMGVKIAQSLSDEN 134 TMalign alignment (TM-score: 0.44 Raw score:79.61) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVGAGPAGLAFAI 60 ::::::::::::::::: d1lsua_ 1 -------------------------------------------KQFAVIGLGRFGGSIVK 17 d1ps9a3 61 NAAARGHQVTLFDAHSEIGGQFNIAKQIPGKEEFYETLRYYRRMIEVTGVTLKLNHTV-T 119 ::::::::::::::::::: :: ::: ::::::: ::: : d1lsua_ 18 ELHRMGHEVLAVDINEEKV---------------------NA-YAS-YATHAVI-ANATE 53 d1ps9a3 120 A--DQ-L-Q-AFDETILASG-IP--NRALAQPLIDSGK-TVHLIGGCDVAM--------- 161 : :: : : :::::::::: :: ::::::::::::: ::::: :::: d1lsua_ 54 ENELLSLGIRNFEYVIVAIGANIQASTLTTLLLKELDIPNIWVK---AQNYYHHKVLEKI 110 d1ps9a3 162 ------ELDARRA-IAQ--GTR---------LALEI 179 ::: :: : d1lsua_ 111 GADRII----HPEK-DMGV--KIAQSLSDEN----- 134 HHsearch alignment (Probability: 0.97 E-value:0.00) d1ps9a3 44 KNLAVVGAGPAGLAFAINAAARGHQVTLFDAHSEI 78 ::::::::::::::::::::::::::::::::::: d1lsua_ 1 KQFAVIGLGRFGGSIVKELHRMGHEVLAVDINEEK 35