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 | d1ngvb_ | UBA3 | Activating enzymes of the ubiquitin-like proteins | Activating enzymes of the ubiquitin-like proteins | 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 <-- 1.813 --> HitDALI alignment (Z-score: 6.6 Raw score:745.30) d1ps9a3 1 intcigcnqacldqifvgkvtsclvnprachetkmPILP-------------------AV 41 :::: :: d1ngvb_ 1 ----------------------------dwegrwnHVKKflersgpfthpdfepstesLQ 32 d1ps9a3 42 QK---KNLAVVGAGPAGLAFAINAAARGH-QVTLFDAHSeiggqfNIAKqipgkeeFYET 97 :: :::::::::::::::::::::::: ::::::::: :::: :::: d1ngvb_ 33 FLldtCKVLVIGAGGLGCELLKNLALSGFrQIHVIDMDT------IDVS-------NLNR 79 d1ps9a3 98 LRY-------------YRRMIEV----TGVTLKLnHTVT--ADQLQ-AFDETILASGIPN 137 ::: ::::::: ::::::: :::: ::::: ::::::::::::: d1ngvb_ 80 QFLfrpkdigrpkaevAAEFLNDrvpnCNVVPHF-NKIQdfNDTFYrQFHIIVCGLDSII 138 d1ps9a3 138 --RALAQPLIDSG------------KTVHLIGGcdvAMELD------------------- 164 ::::::::::: :::::::: ::::: d1ngvb_ 139 arRWINGMLISLLnyedgvldpssiVPLIDGGT---EGFKGnarvilpgmtaciectlel 195 d1ps9a3 165 ------------------------------------------------------------ 165 d1ngvb_ 196 yppqvnfpmctiasmprlpehcieyvrmlqwpkeqpfgegvpldgddpehiqwifqksle 255 d1ps9a3 165 --------------------------ARRAIAQGTRLALEI------------------- 179 ::::::::::::::: d1ngvb_ 256 rasqynirgvtyrltqgvvkriipavASTNAVIAAVCATEVfkiatsayiplnnylvfnd 315 d1ps9a3 180 ------------------------------------------------------------ 180 d1ngvb_ 316 vdglytytfeaerkencpacsqlpqniqlqevldyltnsaslqmkspaitatrtlylqse 375 d1ps9a3 180 ----------------------- 180 d1ngvb_ 376 ertrpnladvttpqtvlfklhft 398 FAST alignment (Normalized score: 4.48 Raw score:1195.00) d1ps9a3 1 INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPILPAVQ------------------ 42 d1ngvb_ 1 ------------------------------------------DWEGRWNHVKKFLERSGP 18 d1ps9a3 43 ------------------KKNLAVVGAGPAGLAFAINAAARG-HQVTLFDAHSEIGGQFN 83 :::::::::::::::::::::::: ::::::::: d1ngvb_ 19 FTHPDFEPSTESLQFLLDTCKVLVIGAGGLGCELLKNLALSGFRQIHVIDMD-------- 70 d1ps9a3 84 IAKQIPG--KEEFYET-----------------LRYYRRMIE--VTGVTLKLNHTVTADQ 122 ::::::: ::::::: :::::: :::: d1ngvb_ 71 -------TIDVSNLNRQFLFRPKDIGRPKAEVAAEFLNDR--VPNCNVVP-HFNK----- 115 d1ps9a3 123 L---------QAFDETILASGIPNRALAQPLIDS-----------------GKTVHLIGG 156 ::::::::::: :::::::::: :::::: d1ngvb_ 116 -IQDFNDTFYRQFHIIVCGLD--SIIARRWING-MLISLLNYEDGVLDPSSIVPLID--- 168 d1ps9a3 157 CDVA-------------------------------------------------------- 160 d1ngvb_ 169 ----GGTEGFKGNARVILPGMTACIECTLELYPPQVNFPMCTIASMPRLPEHCIEYVRML 224 d1ps9a3 161 -----------------------------------------------------MELDARR 167 ::::::: d1ngvb_ 225 QWPKEQPFGEGVPLDGDDPEHIQWIFQKSLERASQYNIRGVTYRLTQGVVKRIIPAVAST 284 d1ps9a3 168 AIAQGTRLALEI------------------------------------------------ 179 ::::::::::: d1ngvb_ 285 NAVIAAVCATE-VFKIATSAYIPLNNYLVFNDVDGLYTYTFEAERKENCPACSQLPQNIQ 343 d1ps9a3 180 ------------------------------------------------------- 180 d1ngvb_ 344 LQEVLDYLTNSASLQMKSPAITATRTLYLQSEERTRPNLADVTTPQTVLFKLHFT 398 TMalign alignment (TM-score: 0.56 Raw score:99.55) d1ps9a3 1 -------INTCIGCNQACLDQIFVGKVTSCLVNPRACHETKMPIL--P------------ 39 ::: : d1ngvb_ 1 DWEGRWN-----------------------------------HVKKFLERSGPFTHPDFE 25 d1ps9a3 40 -----AVQK---KNLAVVGAGPAGLAFAINAAA-RGHQVTLFDAHSEIGGQFNIAKQIPG 90 :::: ::::::::::::::::::::: ::::::::::::: ::::: d1ngvb_ 26 PSTESLQFLLDTCKVLVIGAGGLGCELLKNLALSGFRQIHVIDMDTI----DVSNL---- 77 d1ps9a3 91 KEEFYETLRY----------YR--RMIEVT--GVTLKLNHTVT-ADQ-LQ-AFDETILAS 133 : :: :::: :: :::::: ::::::::::: ::: :: ::::::::: d1ngvb_ 78 -N-RQ-FLFRPKDIGRPKAEVAAEFLNDRVPNCNVVPHFNKIQDFNDTFYRQFHIIVCGL 134 d1ps9a3 134 GIP-NR-ALAQPLIDSG-----------KTVHLIGGCDVAM-EL---------------- 163 ::: :: :::::::::: :::::::: ::: :: d1ngvb_ 135 DSIIARRWINGMLISLLNYEDGVLDPSSIVPLIDGG--TEGFKGNARVILPGMTACIECT 192 d1ps9a3 164 ------------------------------------------------------------ 164 d1ngvb_ 193 LELYPPQVNFPMCTIASMPRLPEHCIEYVRMLQWPKEQPFGEGVPLDGDDPEHIQWIFQK 252 d1ps9a3 164 -------------------------------DARRAIAQGTRLALE-I------------ 179 ::::::::::::::: : d1ngvb_ 253 SLERASQYNIRGVTYRLTQGVVKRIIPAVASTNAVIAAVCATEVFKIATSAYIPLNNYLV 312 d1ps9a3 180 ------------------------------------------------------------ 180 d1ngvb_ 313 FNDVDGLYTYTFEAERKENCPACSQLPQNIQLQEVLDYLTNSASLQMKSPAITATRTLYL 372 d1ps9a3 180 -------------------------- 180 d1ngvb_ 373 QSEERTRPNLADVTTPQTVLFKLHFT 398 HHsearch alignment (Probability: 0.96 E-value:0.00) d1ps9a3 41 VQKKNLAVVGAGPAGLAFAINAAARGH-QVTLFDAH----SEIGGQFNIAKQIPGKEEFY 95 ::::::::::::::::::::::::::: :::::::: :::::::::::::::::::: d1ngvb_ 35 LDTCKVLVIGAGGLGCELLKNLALSGFRQIHVIDMDTIDVSNLNRQFLFRPKDIGRPKAE 94 d1ps9a3 96 ETLRYYRRMIEVTGVTLKLN--HTVTADQLQAFDETILASGIPNRA 139 :::::::::::::::::::: :::::::::::::::::::::::: d1ngvb_ 95 VAAEFLNDRVPNCNVVPHFNKIQDFNDTFYRQFHIIVCGLDSIIAR 140