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: T0542_Ad1.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1s3la_ | Putative phosphodiesterase MJ0936 | Metallo-dependent phosphatases | Metallo-dependent phosphatases | α+β |
| Hit | d1puia_ | Probable GTPase EngB | P-loop containing nucleoside triphosphate hydrolases | P-loop containing nucleoside triphosphate hydrolases | α/β |
Query <-- 1.956 --> IntermediateDALI alignment (Z-score: 6.1 Raw score:664.70) query 1 slqLRLALNqidstvgdiagNAEAILRWTRHSAEQGAHLVAFPEMALTgypvedlalrss 60 :::::: :::::::::::::::::::::::::::: d1s3la_ 1 ---MKIGIM------sdthdHLPNIRKAIEIFNDENVETVIHCGDFVS------------ 39 query 61 fveasrtalRELAARLaeEGFGeLPVLV---gYLDRsesaqpkygqpagaprnaaavlhR 117 ::::::: :::: ::::: :::: : d1s3la_ 40 ---------LFVIKEF--ENLN-ANIIAtygnNDGE-------------rcklkewlkdI 74 query 118 GRVALTFAkhhlpnygvfdefryfvpgdtmPIVRLHGVDIALAICEDLwqdgGRVPAAR- 176 :::::::: :::::::::::::::::: ::::::: d1s3la_ 75 NEENIIDD---------------------fISVEIDDLKFFITHGHHQ----SVLEMAIk 109 query 177 SAGAGLLLSVNASpyerdkddtrlelvrkRAQEaGCTTAYLAM-IGGQdelvfdgdsivv 235 ::::::::::::: :::: ::::::::: :::: d1s3la_ 110 SGLYDVVIYGHTH------------ervfEEVD-DVLVINPGEcCGYL------------ 144 query 236 drdgevvarapQFSEGCVVLDLDLpaaeaepptgvvddglridrlviseeplpayeaela 295 ::::::::::::: d1s3la_ 145 -----------TGIPTIGILDTEK-----------------------------------k 158 query 296 ggyadrl 302 d1s3la_ 159 eyreivl 165 FAST alignment (Normalized score: 4.01 Raw score:894.50) query 1 SLQL-RLALNQIDSTVGDIAG-----NAEAILRWTRHSAEQGAHLVAFPEMALTGYPVED 54 ::::: ::::::::::::::::::::: d1s3la_ 1 ----MKIGIM-----------SDTHDHLPNIRKAIEIFNDENVETVI------------- 32 query 55 LALRSSFVEASRT------------------------------ALRELAARLAEEGFGEL 84 ::::::::::: d1s3la_ 33 -------------HCGDFVSLFVIKEFENLNANIIATYGNNDGERCKLKEWLKD------ 73 query 85 PVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRVALTFAKHHLPNYGVFDEFRYFVPG 144 d1s3la_ 74 ------------------------------------------------------------ 74 query 145 D--------TMPIVRLHGVDIALAICEDLWQDGGRVPAARSA-GAGLLLSVNASPYERDK 195 :::::::::::::::: :::: ::::::::: ::::::::: d1s3la_ 74 -INEENIIDDFISVEIDDLKFFITH---GHHQ-SVLEMAIKSGLYDVVIYGH-------- 120 query 196 DDTRLELVRKRAQE---------AGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAP 246 :::::::: d1s3la_ 121 --------------THERVFEEVDDVLVINP----------------------------- 137 query 247 -------QFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYA 299 :::::::::: d1s3la_ 138 GECCGYLTGIPTIGILD------------------------------------------- 154 query 300 DRL----------- 302 d1s3la_ 155 ---TEKKEYREIVL 165 TMalign alignment (TM-score: 0.40 Raw score:119.85) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 ::::::::::: :: :::::::::::::::::::::::::: d1s3la_ 1 ---MKIGIMSDTHD-----HL-PNIRKAIEIFNDENVETVIHCGDFVS------------ 39 query 61 FVEASRTALRELAARLAEEGFGELPVLVGY--LDRSE-SAQPKYGQPAGAPRNAAA-VLH 116 : :: ::: :: ::: :::::::: ::::: ::: :: d1s3la_ 40 ----L--FV-IKE-FE--NLN-ANIIATYGNNDGERCK---------------LKEW-LK 72 query 117 -RGRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAA 175 ::::::::: :::::::::::::::::: :: :::::: d1s3la_ 73 DINEENIIDD---------------------FISVEIDDLKFFITHGHH-QS--VLEMAI 108 query 176 RSAGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAM-IGGQDELVFDGDSIV 234 :::::::::::::: :: ::: ::: ::::::::: ::: :: d1s3la_ 109 KSGLYDVVIYGHTH---------ER-VFE--EVD-DVLVINPGECCGY-----LT----- 145 query 235 VDRDGEVVARAPQFSEGCVVLDL-DLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAE 293 :::::::::: :: d1s3la_ 146 -------------GIPTIGILDTEKK---------------------------------- 158 query 294 LAGGYA-DRL 302 :::::: d1s3la_ 159 EYREIVL--- 165 HHsearch alignment (Probability: 0.38 E-value:0.00) query 4 LRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAF 42 ::::::: :::::::::::::::::::::::::: d1s3la_ 1 MKIGIMS------DTHDHLPNIRKAIEIFNDENVETVIH 33
Intermediate <-- 0.876 --> HitDALI alignment (Z-score: 3.9 Raw score:360.60) d1s3la_ 1 ----------------MKIGIMSD-----------------------------------t 9 :::::::: d1puia_ 1 fvmsapdirhlpsdtgIEVAFAGRsnagkssalntltnqqlinlfevadgkrlvdlpgyg 60 d1s3la_ 10 hdhlPNIRKAIEIFNDEN-VETVIHCGD-fVSLF-VIKE-FENL---NANIIATYGNN-- 60 :::::::::::::: ::::::::: :::: :::: :::: ::::::::::: d1puia_ 61 emkrKWQRALGEYLEKRQsLQGLVVLMDirHPLKdLDQQmIEWAvdsNIAVLVLLTKAdk 120 d1s3la_ 61 ------dgERCKLKEWLKDINEENIIDD----------FISV---EIDDlkffithghhq 101 :::::::::::::::::::: :::: :::: d1puia_ 121 lasgarkaQLNMVREAVLAFNGDVQVETfsslkkqgvdKLRQkldTWFS----------- 169 d1s3la_ 102 svlemaiksglydvviyghthervfeevddvlvinpgeccgyltgiptigildtekkeyr 161 d1puia_ 170 ------------------------------------------------------------ 170 d1s3la_ 162 eivl 165 d1puia_ 170 ---- 170 FAST alignment (Normalized score: 3.07 Raw score:513.20) d1s3la_ 1 ----------------MKIGIMSDTHD--------------------------------- 11 :::::: d1puia_ 1 FVMSAPDIRHLPSDTGIEVAFA-----GRSNAGKSSALNTLTNQQLINLFEVADGKRLVD 55 d1s3la_ 12 -------HLPNIRKAIEIFND-ENVETVIHCGDFVS-------LFVIK-EFEN---LNAN 52 :::::::::::::: ::::::::: ::::: :::: :::: d1puia_ 56 LPGYGEMKRKWQRALGEYLEKRQSLQGLVVL-----MDIRHPLKDLDQQMIEWAVDSNIA 110 d1s3la_ 53 IIATYGNNDG--------ERCKLKEWLKDIN------EENIIDDFIS------------- 85 :::::: ::::::::::: :::::: d1puia_ 111 VLVLLT----KADKLASGARKAQLNMVRE--AVLAFNGDVQVE----TFSSLKKQGVDKL 160 d1s3la_ 86 ----VEIDDLKFFITHGHHQSVLEMAIKSGLYDVVIYGHTHERVFEEVDDVLVINPGECC 141 :::: d1puia_ 161 RQKLDTWF---------------------------------------------------- 168 d1s3la_ 142 GYLTGIPTIGILDTEKKEYREIVL- 165 d1puia_ 169 ------------------------S 169 TMalign alignment (TM-score: 0.37 Raw score:60.86) d1s3la_ 1 ---------------MKIGIMSDTHDHLPNIRKAIEIFNDENVETVIHC-----GDFVS- 39 ::::::: ::::: d1puia_ 1 FVMSAPDIRHLPSDT---------------------------GIEVAFAGRSNAGKSSAL 33 d1s3la_ 40 LFV-IKEF-----ENLN--ANIIATYGNN--------DGERCKLKEWLKDINEENIIDDF 83 : :::: :::: :::::::::: ::: d1puia_ 34 --NTLTNQQLINLFEVADGKRLVDLPGYGEMKRKWQR--------------------ALG 71 d1s3la_ 84 -ISV-EIDDLKFFITHG----HHQSVLEM-AIKSGLYD-VVIYGHT-H-----------E 123 ::: ::::: :::::: :::::::: :::::::: ::::::: : : d1puia_ 72 EYLEKRQSLQ-GLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVLLTKADKLASGARKAQL 130 d1s3la_ 124 --RVF-EEVDDVLVINPGECCGYLTGIPT--I-GIL-DTEKKEYREIVL 165 ::: ::::::::::::::::: :::: : ::: :::: d1puia_ 131 NMVREAVLAFNGDVQVETFSSLK--KQGVDKLRQKLDTWFS-------- 169 HHsearch alignment (Probability: 0.01 E-value:0.22) d1s3la_ 41 FVIKEFENLNANIIATYGNND 61 ::::::::::::::::::::: d1puia_ 99 QMIEWAVDSNIAVLVLLTKAD 119