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 | d1ewqa2 | DNA repair protein MutS, the C-terminal domain | 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 <-- 1.600 --> HitDALI alignment (Z-score: 10.0 Raw score:910.70) d1tf7a1 1 ---ehqaIAKMRTMI-----------EGFDdishgGLPIGRSTLVSGTSGTGKTLFSIQF 46 :::::::: :::: ::::::::::::::::::::::::: d1ewqa2 1 yvrprfgDRLQIRAGrhpvverrtefVPND-----LEMAHELVLITGPNMAGKSTFLRQT 55 d1tf7a1 47 LYNGIIEF--------------dEPGVFVTFEetpqdiiknarsfgwdlaklvdegklfi 92 :::::::: ::::::::: d1ewqa2 56 ALIALLAQvgsfvpaeeahlplfDGIYTRIGA---------------------------- 87 d1tf7a1 93 ldaspdpegQEVVGGFDLsALIERINYAIQkyrARRVSIDSVtsVFQQydASSVVRRELF 152 ::::::::: ::::::::::: ::::::::: :::: :::::::::: d1ewqa2 88 ---------GKSTFMVEM-EEVALILKEAT--eNSLVLLDEV--GRGT--SSLDGVAIAT 131 d1tf7a1 153 RLVARLKQIGATTVMTTErieeygpiaryGVEEFV---sDNVVILRNVLEGERRRRT--L 207 :::::::::::::::::: :::::: :::::::::::::::::: : d1ewqa2 132 AVAEALHERRAYTLFATH----------yFELTALglprLKNLHVAAREEAGGLVFYhqV 181 d1tf7a1 208 EILK--lrgtshmkgeypftitdhginifplgamrlt 242 :::: d1ewqa2 182 LPGPasksygvevaamaglpkevvararallqamaar 218 FAST alignment (Normalized score: 6.51 Raw score:1495.00) d1tf7a1 1 EHQAI-------AKMRTMIEGFDDISHGG-------------------LPIGRSTLVSGT 34 ::::: :::::::::::: d1ewqa2 1 -----YVRPRFGDRLQI------------RAGRHPVVERRTEFVPNDLEMAHELVLITGP 43 d1tf7a1 35 SGTGKTLFSIQFLYNGIIEFD----------------EPGVFVTFEETPQDIIKNARSFG 78 ::::::::::::::::::: :::::: d1ewqa2 44 NMAGKSTFLRQTALIALLA--QVGSFVPAEEAHLPLFDGIYTR----------------- 84 d1tf7a1 79 WDLAKLVDEGKLFILDASPDPEGQEVVGG-----FDLSALIERINYAIQKYRA-----RR 128 ::::::::::::::: :: d1ewqa2 85 -----------------------------IGAGKSTFMVEMEEVALILK----EATENSL 111 d1tf7a1 129 VSIDSVTSVFQQ--YDASSVVRRELFRLVARLKQIGATTVMTTERIEEYGPIARYGVEEF 186 :::::: :::::::::::::::::::::::::::: ::::::: d1ewqa2 112 VLLDEV------GRGTSSLDGVAIATAVAEALHERRAYTLFA----------THYFELT- 154 d1tf7a1 187 VS------DNVVILRNVLEGERRR--RTLEILKLRGTSHMKGEYPFTITDHGINIFPLGA 238 :::::::::::::::: :::: d1ewqa2 155 --ALGLPRLKNLHVAAREEAGGLVFYHQVL------------------------------ 182 d1tf7a1 239 MRLT------------------------------------ 242 d1ewqa2 183 ----PGPASKSYGVEVAAMAGLPKEVVARARALLQAMAAR 218 TMalign alignment (TM-score: 0.50 Raw score:120.48) d1tf7a1 1 -------EHQAIAKMRTM-I------------EGFDDISHGGLPIGRSTLVSGTSGTGKT 40 :::::: : :::: :: :::::::::::::::: d1ewqa2 1 YVRPRFG-----DRLQIRAGRHPVVERRTEFVPNDL-----EM-AHELVLITGPNMAGKS 49 d1tf7a1 41 LFSIQFLYNGIIE------------F-DE-PGVFVTFEETPQDIIKNARSFGWDLAKLVD 86 ::::::::::::: : :: :::::: :: d1ewqa2 50 TFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRI-GA--------------------- 87 d1tf7a1 87 EGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQYDASSV 146 : ::::: ::: ::::::::::: :::::::::: :::::: :: d1ewqa2 88 ----------G---KSTFM--VEM-EEVALILKEAT--ENSLVLLDEV---GRGTSS-LD 125 d1tf7a1 147 VRRELFRLVARLKQIGATTVMTTERIEEYGPIARYGVEEFV-S--DNVVILRNVLEGE-R 202 ::::::::::::::::::::::: : ::::::: : ::::::::::::: : d1ewqa2 126 GVAIATAVAEALHERRAYTLFAT---------H-YFELTALGLPRLKNLHVAAREEAGGL 175 d1tf7a1 203 RRR-TLEILK-LRGTSHMKG-------------------------------EYPFTITDH 229 ::: :::::: : d1ewqa2 176 VFYHQVLPGPA--------SKSYGVEVAAMAGLPKEVVARARALLQAMAAR--------- 218 d1tf7a1 230 GINIFPLGAMRLT 242 d1ewqa2 219 ------------- 219 HHsearch alignment (Probability: 0.97 E-value:0.00) d1tf7a1 25 IGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKL 84 :::::::::::::::::::::::::::::: :::::::::::::::::::::: d1ewqa2 34 AHELVLITGPNMAGKSTFLRQTALIALLAQ--VGSFVPAEEAHLPLFDGIYTRI------ 85 d1tf7a1 85 VDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKY-RARRVSIDSVTSVFQQYDA 143 :: ::::::::::::::::::: ::::::::::: ::: : d1ewqa2 86 -GA------------------GKSTFMVEMEEVALILKEATENSLVLLDEVG---RGT-S 122 d1tf7a1 144 SSVVRRELFRLVARLKQIGATTVMTTERIEEYG 176 ::::::::::::::::::::::::::::::::: d1ewqa2 123 SLDGVAIATAVAEALHERRAYTLFATHYFELTA 155