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 | d1i8ta1 | UDP-galactopyranose mutase, N-terminal domain | Nucleotide-binding domain | Nucleotide-binding domain | 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 <-- 2.051 --> HitDALI alignment (Z-score: 11.5 Raw score:937.80) d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmpilpavqkKNLAVVGAGPAGLAFAI 60 ::::::::::::::::: d1i8ta1 1 ------------------------------------------mYDYIIVGSGLFGAVCAN 18 d1ps9a3 61 NAAARGHQVTLFDAHSEIGGQFN----------IAKQ----------------------- 87 ::::::::::::::::::::::: :::: d1i8ta1 19 ELKKLNKKVLVIEKRNHIGGNAYtedcegiqihKYGAhifhtndkyiwdyvndlvefnrf 78 d1ps9a3 88 ------------------------------------------------------------ 88 d1i8ta1 79 tnsplaiykdklfnlpfnmntfhqmwgvkdpqeaqniinaqkkkygdkvpenleeqaisl 138 d1ps9a3 88 ----------------------------------------------ipGKEEfyETLRYY 101 :::: :::::: d1i8ta1 139 vgedlyqalikgytekqwgrsakelpafiikripvrftfdnnyfsdryQGIPvgGYTKLI 198 d1ps9a3 102 RRMIEvtGVTLKLNHTVT--ADQLQA-FDETILASgipNRALAQ---------------- 142 ::::: ::::::::::: :::::: :::::::: :::::: d1i8ta1 199 EKMLE--GVDVKLGIDFLkdKDSLASkAHRIIYTG---PIDQYFdyrfgalndnknmelf 253 d1ps9a3 143 ----plIDSGKTVHLIGG-CDVAmELDARRAIAQGTRLALEI---- 179 :::::::::::: :::: :::::::::::::::::: d1i8ta1 254 kkyrelASREDKVIFGGRlAEYK-YYDMHQVISAALYQVKNImstd 298 FAST alignment (Normalized score: 7.47 Raw score:1724.00) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKK--NLAVVGAGPAGLAF 58 :::::::::::::: d1i8ta1 1 --------------------------------------------MYDYIIVGSGLFGAVC 16 d1ps9a3 59 AINAAARGHQVTLFDAHSEIGGQFNIA----------KQIPGKEEFY------------- 95 :::::::::::::::::::::::: :::: d1i8ta1 17 ANELKKLNKKVLVIEKRNHIGGNA---YTEDCEGIQIHKYG------AHIFHTNDKYIWD 67 d1ps9a3 96 ------------------------------------------------------------ 96 d1i8ta1 68 YVNDLVEFNRFTNSPLAIYKDKLFNLPFNMNTFHQMWGVKDPQEAQNIINAQKKKYGDKV 127 d1ps9a3 96 ------------------------------------------------------------ 96 d1i8ta1 128 PENLEEQAISLVGEDLYQALIKGYTEKQWGRSAKELPAFIIKRIPVRFTFDNNYFSDRYQ 187 d1ps9a3 96 -----ETLRYYRRMIEVTGVTLKLNHTV---TADQLQ-AFDETILASGIPNRA------- 139 :::::::::: :::::::::: :::::: :::::::: d1i8ta1 188 GIPVGGYTKLIEKML--EGVDVKLGID-FLKDKDSLASKAHRIIYT-------GPIDQYF 237 d1ps9a3 140 ------------------LAQPLIDSGKTVHLIGGCDV-AMELDARRAIAQGTRLALEI- 179 ::::::::: ::::::::: ::::::::::::::::::: d1i8ta1 238 DYRFGALNDNKNMELFKKYRELASRED-KVIFGGRLA-EYKYYDMHQVISAALYQVKN-I 294 d1ps9a3 180 ---- 180 d1i8ta1 295 MSTD 298 TMalign alignment (TM-score: 0.61 Raw score:108.98) d1ps9a3 1 -INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQKKNLAVVGAGPAGLAFA 59 :::::::::::::::: d1i8ta1 1 M-------------------------------------------YDYIIVGSGLFGAVCA 17 d1ps9a3 60 INAAARGHQVTLFDAHSEIGGQFNI-------AKQ-IPGK-------------------- 91 ::::::::::::::::::::::::: ::: :::: d1i8ta1 18 NELKKLNKKVLVIEKRNHIGGNAYTEDCEGIQIHKYGAHIFHTNDKYIWDYVNDLVEFNR 77 d1ps9a3 92 E----------------------------------------------------------- 92 : d1i8ta1 78 FTNSPLAIYKDKLFNLPFNMNTFHQMWGVKDPQEAQNIINAQKKKYGDKVPENLEEQAIS 137 d1ps9a3 93 ---------------------------------------------------EF-YETLRY 100 :: :::::: d1i8ta1 138 LVGEDLYQALIKGYTEKQWGRSAKELPAFIIKRIPVRFTFDNNYFSDRYQGIPVGGYTKL 197 d1ps9a3 101 YRRMIEVTGVTLKLNHTVT--ADQLQA-FDETILASGIPNR-ALAQ-P------------ 143 :::::: ::::::::::: :::::: :::::::: :: :::: : d1i8ta1 198 IEKMLE--GVDVKLGIDFLKDKDSLASKAHRIIYTG---PIDQYFDYRFGALNDNKNMEL 252 d1ps9a3 144 ------LIDSGKTVHLIGGCDVAMELDARRAIAQGTRLALEI---- 179 :::::::::::::::::::::::::::::::::::: d1i8ta1 253 FKKYRELASREDKVIFGGRLAEYKYYDMHQVISAALYQVKNIMSTD 298 HHsearch alignment (Probability: 0.99 E-value:0.00) d1ps9a3 44 KNLAVVGAGPAGLAFAINAAARGHQVTLFDAHSEIGGQFNIAK 86 ::::::::::::::::::::::::::::::::::::::::::: d1i8ta1 2 YDYIIVGSGLFGAVCANELKKLNKKVLVIEKRNHIGGNAYTED 44