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 | d1tf7a1 | Circadian clock protein KaiC | P-loop containing nucleoside triphosphate hydrolases | P-loop containing nucleoside triphosphate hydrolases | α/β |
| Hit | d1ls1a2 | GTPase domain of the signal sequence recognition protein Ffh | P-loop containing nucleoside triphosphate hydrolases | P-loop containing nucleoside triphosphate hydrolases | α/β |
Query <-- 1.007 --> IntermediateDALI alignment (Z-score: 2.3 Raw score:411.50) query 1 ----------------------------------------------------sLQLRLAL 8 ::::::: d1tf7a1 1 ehqaiakmrtmiegfddishgglpigrstlvsgtsgtgktlfsiqflyngiieFDEPGVF 60 query 9 NQID------------------------------------stvgDIAGNAEAILRWTRHS 32 :::: :::::::::::::::: d1tf7a1 61 VTFEetpqdiiknarsfgwdlaklvdegklfildaspdpegqevVGGFDLSALIERINYA 120 query 33 A-EQGAHLVAFPemALTGypvedlalrssFVEASRTALRELAARLAEEgfgELPVLVGYl 91 : :::::::::: :::: ::::::::::::::::::: :::::::: d1tf7a1 121 IqKYRARRVSID--SVTS-----vfqqydASSVVRRELFRLVARLKQI---GATTVMTT- 169 query 92 drsesaqpkygqpagAPRNaaavlhrgrVALTFAKHHLPNygvfdefryfvpgdtmpivr 151 :::: :::::::::::: d1tf7a1 170 ---------erieeyGPIA-rygveefvSDNVVILRNVLE---------------gerrr 204 query 152 lhgvdialaicedlwqdgGRVPaarsagaglllsvnaspyerdkddtrlelvrkRAQEAg 211 :::: ::::: d1tf7a1 205 rtleilklrgtshmkgeyPFTI--------------------------------TDHGI- 231 query 212 cttaylamiggqdelvfdgdsivvdrdgevvarapqfsegcvvldldlpaaeaePPTGvv 271 :::: d1tf7a1 232 ---------------------------------------------------nifPLGA-- 238 query 272 ddglridrlviseeplpayeaelaggyadrl 302 d1tf7a1 239 ---------------------------mrlt 242 FAST alignment (Normalized score: 2.60 Raw score:703.80) query 1 ----------------------------------------------------SLQLRLAL 8 :::::::: d1tf7a1 1 EHQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVF 60 query 9 NQIDST-----------------------------------------VGDIAGNAEAILR 27 : ::::::::::::: d1tf7a1 61 V-----TFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIE 115 query 28 WTRHSA-EQGAHLVAFPEMALTGYPVEDLALRSS----------FVEASRTALRELAARL 76 :::::: :::::::::: :::::::::::::::: d1tf7a1 116 RINYAIQKYRARRVSID-----------------SVTSVFQQYDASSVVRRELFRLVARL 158 query 77 AEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRG---------------RVA 121 ::: :::::::::: ::: d1tf7a1 159 KQI---GATTVMTTER--------------------------IEEYGPIARYGVEEFVSD 189 query 122 LTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGAG 181 :::::::: d1tf7a1 190 NVVILRNV---------------------------------------------------- 197 query 182 LLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGEV 241 d1tf7a1 198 ------------------------------------------------------------ 198 query 242 VARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADR 301 d1tf7a1 198 ------------------------------------------------------------ 198 query 302 L--------------------------------------------- 302 d1tf7a1 198 -LEGERRRRTLEILKLRGTSHMKGEYPFTITDHGINIFPLGAMRLT 242 TMalign alignment (TM-score: 0.33 Raw score:100.58) query 1 -----SLQL------------RL-----ALNQIDSTVGDIAGNAEAILRWTRHSAEQGAH 38 :::: :: ::::::: : :: :: d1tf7a1 1 EHQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTS-------G--TG--KT--------- 40 query 39 LVAF--------PEMALTGYPVEDLALRSSFVEASRTALRELAARLAEEGFGE------L 84 :::: : d1tf7a1 41 LFSIQFLYNGII----------------------------------------EFDEPGV- 59 query 85 PVL-VG-YLDRSESAQPKYGQPAGAPRNAAA-VLHRGRVALT--------FAKHHLPNYG 133 : : ::: ::::: :::::::::: :::::: d1tf7a1 60 --FV-TFEET----------------PQDIIKNARSFGWDLAKLVDEGKLFILDAS---- 96 query 134 VFDEFRYF-------VPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGAGLLLSV 186 ::::: :::::::::::::::::::::::: d1tf7a1 97 ---PDPEGQEVVGGF---------------------DLSALIERINYAIQKYRARRVSID 132 query 187 N-AS--P-YERDKD-DT-RLELVRKRAQEAGCTTAYLAMIGG-----QDELVFDGDSIVV 235 : :: : :::::: :: :::::::::: ::::::::::::: ::::::::: d1tf7a1 133 SVTSVFQQYDASSVVRRELFRLVARLKQ-IGATTVMTTERIEEYGPI----ARYGVEEFV 187 query 236 DRDGEVVARAP--QFSE--------GCVV-LDLDLPAAEAEPPTGVVDDGLRIDRLVISE 284 :::::: :: :::: :::: d1tf7a1 188 -----SDNVVILR--NVLEGERRRRTLEILKLRG-------------------------- 214 query 285 EPLPAYEAELAGG----------------------YADRL 302 :::::: d1tf7a1 215 -------TSHMKGEYPFTITDHGINIFPLGAMRLT----- 242 HHsearch alignment (Probability: 0.01 E-value:0.33) query 203 VRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAPQFSEGC 252 :::::::::::::::::::::::::::::::::::::::::::::::::: d1tf7a1 154 LVARLKQIGATTVMTTERIEEYGPIARYGVEEFVSDNVVILRNVLEGERR 203
Intermediate <-- 1.654 --> HitDALI alignment (Z-score: 6.8 Raw score:693.40) d1tf7a1 1 ehqaiakmrtmiegfddisHGGLPIG---rstLVSGtSGTGKTLFSIQFLYNGIIEfDEP 57 ::::::: :::: ::::::::::::::::::: ::: d1ls1a2 1 ------------------eARLPVLKdrnlwfLVGL-QGSGKTTTAAKLALYYKGK-GRR 40 d1tf7a1 58 GVFVT-------FEET-PQDIIKnarsfgwdlaklvdegkLFILDASPdpegqevvgGFD 109 ::::: :::: :::::: :::::::: ::: d1ls1a2 41 PLLVAadtqrpaAREQlRLLGEK---------------vgVPVLEVMD---------GES 76 d1tf7a1 110 LSALIERINYAIQKYRARRVSIDSVTsvfqqydaSSVVRRELFRLVARLKqigattvmtt 169 :::::::::::::::::::::::::: :::::::::::::::: d1ls1a2 77 PESIRRRVEEKARLEARDLILVDTAG----rlqiDEPLMGELARLKEVLG--pdevllvl 130 d1tf7a1 170 eriEEYG--PIARygVEEF-VSDNVVILRN--VLEGerrrrtleilklrgtshMKGE--- 221 :::: :::: :::: :::::::::: :::: :::: d1ls1a2 131 damTGQEalSVAR--AFDEkVGVTGLVLTKldGDAR-------------ggaaLSARhvt 175 d1tf7a1 222 -ypftitdHGINIFPL-GAMR---lt 242 :::::::: :::: d1ls1a2 176 gkpiyfagGLEPFYPErLAGRilgmg 201 FAST alignment (Normalized score: 6.42 Raw score:1417.00) d1tf7a1 1 EHQAIAKMRTMIEGFDDIS-HGGLP--IGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEP 57 ::::: :::::::::::::::::::::::::::: :::: d1ls1a2 1 -------------------EARLPVLKDRNLWFLVGLQGSGKTTTAAKLALYYKG-KGRR 40 d1tf7a1 58 GVFVT--FEE--TPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGF----D 109 ::::: ::: :::::::::::: ::::::: : d1ls1a2 41 PLLVAADTQRPAAREQLRLLGEKV-----------GVPVLEV-------------MDGES 76 d1tf7a1 110 LSALIERINYAIQKYRARRVSIDSVTSVFQQYDA--------SSVVRRELFRLVARLKQI 161 :::::::::::::::::::::: :::::::::::::: d1ls1a2 77 PESIRRRVEEKARLEARDLILV------------DTAGRLQIDEPLMGELARLKEV---- 120 d1tf7a1 162 GAT---TVMTTERIEEYGPIAR-----------YGVEEF--VSDNVVILRNVLEGERRRR 205 ::::::: :::::: ::::::: d1ls1a2 121 ---LGPDEVLLVL---------DAMTGQEALSVARAFDEKVGVTGLVL------------ 156 d1tf7a1 206 TLEILKLRGTSHMKGEYPFTITDHGINIFPLGAMRLT----------------------- 242 d1ls1a2 157 -------------------------------------TKLDGDARGGAALSARHVTGKPI 179 d1tf7a1 243 ---------------------- 243 d1ls1a2 180 YFAGGLEPFYPERLAGRILGMG 201 TMalign alignment (TM-score: 0.52 Raw score:126.47) d1tf7a1 1 EHQAIAKMRTMIEGFDDISHGGLPI---GRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEP 57 ::: :::: :::::::::: :::::::::::::::::: :: d1ls1a2 1 ----------------EAR--LPVLKDRNLWFLVGLQG-SGKTTTAAKLALYYKGKG-RR 40 d1tf7a1 58 GVFVT-F-----EET-PQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDL 110 ::::: : ::: :::::: : : : :::::::: : ::: d1ls1a2 41 PLLVAADTQRPAAREQLRLLGE-K----V-G--------VPVLEVMD-------G--ESP 77 d1tf7a1 111 SALIERINYAIQKYRARRVSIDSVTSVFQ-QYDASSVVRRELFRLVARLKQIGATTVMTT 169 :::::::::::::::::::::::::: : ::: :::::::::::::: ::::::: d1ls1a2 78 ESIRRRVEEKARLEARDLILVDTAGR--LQ--IDE-PLMGELARLKEVLG---PDEVLLV 129 d1tf7a1 170 ER-IEEYG--PIARYGVEEF-VSDNVVILRNVLEGERRRR-T--L--EI--LKLRGTSHM 218 :: ::::: ::: ::::: ::::::::::: :::: : : :: ::: :: d1ls1a2 130 LDAMTGQEALSVA--RAFDEKVGVTGLVLTKL----DGDARGGAALSARHVTGK----PI 179 d1tf7a1 219 KGEYPFTITDHGIN-IFPLGAMR------LT 242 : : : : ::: :::::::: d1ls1a2 180 Y--F-A-G---GLEPFYPERLAGRILGMG-- 201 HHsearch alignment (Probability: 0.99 E-value:0.00) d1tf7a1 24 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETP----QDIIKNARSFGW 79 ::::::::::::::::::::::::::: :::::::::::::::: :::::::::::: d1ls1a2 8 KDRNLWFLVGLQGSGKTTTAAKLALYY-KGKGRRPLLVAADTQRPAAREQLRLLGEKVGV 66 d1tf7a1 80 DLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQ 139 :::: :::::::::::::::::::::::::::::::::: d1ls1a2 67 PVLE--------------------VMDGESPESIRRRVEEKARLEARDLILVDTAGRL-- 104 d1tf7a1 140 QYDASSVVRRELFRLVARLKQIGATTV 166 ::::::::::::::::::::::::: d1ls1a2 105 --QIDEPLMGELARLKEVLGPDEVLLV 129