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 | d1fnna2 | CDC6, N-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 <-- 2.225 --> HitDALI alignment (Z-score: 6.3 Raw score:659.60) d1tf7a1 1 ----------ehqaiakmrtmIEGFDdishgGLPI---------GRSTLVSGTSGTGKTL 41 ::::: :::: :::::::::::::::: d1fnna2 1 aivvddsvfspsyvpkrlphrEQQLQ--qldILLGnwlrnpghhYPRATLLGRPGTGKTV 58 d1tf7a1 42 FSIQFLYNGIIEFDEPGVFVTFEEtpqdiiknarsfgwdlaklvdegklfildaspdpeg 101 :::::::::::::::::::::::: d1fnna2 59 TLRKLWELYKDKTTARFVYINGFI------------------------------------ 82 d1tf7a1 102 qevvggfDLSALIERINYAIQ-----------------------kyRARRVSIDSVTSVF 138 :::::::::::::: :::::::::::::: d1fnna2 83 -----yrNFTAIIGEIARSLNipfprrglsrdeflallvehlrerdLYMFLVLDDAFNLA 137 d1tf7a1 139 qqydassvvRRELFRLVARLKQ------iGATTVMTTERieeygpIARYGVE----EFVS 188 ::::::::::::: :::::::::: ::::::: :::: d1fnna2 138 ---------PDILSTFIRLGQEadklgafRIALVIVGHN------DAVLNNLdpstRGIM 182 d1tf7a1 189 D-NVVILRNVLE-----------------------------GERRR----------rtle 208 : :::::::::: ::::: d1fnna2 183 GkYVIRFSPYTKdqifdilldrakaglaegsysedilqmiaDITGAqtpldtnrgdarla 242 d1tf7a1 209 ilklrgtshmkgeypftitdhginifplgamrlt 242 d1fnna2 243 idilyrsayaaqqngrkhiapedvrksskevlfg 276 FAST alignment (Normalized score: 4.60 Raw score:1189.00) d1tf7a1 1 EHQAIAKMRTM--------------------IEGFDDISHGGLPI--------------- 25 ::::::: d1fnna2 1 -----------AIVVDDSVFSPSYVPKRLPHREQQLQQ-------LDILLGNWLRNPGHH 42 d1tf7a1 26 GRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLV 85 :::::::::::::::::::::::::::::::::::::: d1fnna2 43 YPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYING---------------------- 80 d1tf7a1 86 DEGKLFILDASPDPEGQEVV----GGFDLSALIER-------------------INYAIQ 122 ::::::::::: :::::: d1fnna2 81 --------------------FIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLR 120 d1tf7a1 123 KYRA-RRVSIDSVTSVFQQYDASSV-VRRELFRLVARLKQI--------GATTVMTTERI 172 :::: :::::::::: ::::::::::::: :::::::: d1fnna2 121 ERDLYMFLVLDDAFN----------LAPDILSTFIRLGQ--EADKLGAFRIALVIVG--- 165 d1tf7a1 173 EEYGPIA--------RYGVEEFV--SDNVVILRNVLEGERRRRTLEILKLRGTSHMKGEY 222 ::::::: ::::::: d1fnna2 166 -------HNDAVLNNLDPSTRG-IMGKYVIRF---------------------------- 189 d1tf7a1 223 PFTITDHGINIFPLGAMRLT---------------------------------------- 242 d1fnna2 190 --------------------SPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQ 229 d1tf7a1 243 ----------------------------------------------- 243 d1fnna2 230 TPLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKEVLFG 276 TMalign alignment (TM-score: 0.44 Raw score:106.16) d1tf7a1 1 ----------------EHQAIAKMRTMI--EGFDDISHGGLP--I-------GRSTLVSG 33 :: :::::::::::: : :::::::: d1fnna2 1 AIVVDDSVFSPSYVPK----------RLPHREQQLQQLDILLGNWLRNPGHHYPRATLLG 50 d1tf7a1 34 TSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEET-----------PQDIIKNARSFGWDLA 82 ::::::::::::::::::::::::::::::::: d1fnna2 51 RPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIA---------------- 94 d1tf7a1 83 KLVDEGKLFIL---------DASPDPEGQEVVGGFDLSALIERINYAIQ-KYRARRVSID 132 ::: :: :::::::::::: :::::::::: d1fnna2 95 --------RSLNIPFPRRGL--------------SR-DEFLALLVEHLRERDLYMFLVLD 131 d1tf7a1 133 SVTSVFQQYDASSVVRRELFRLVARLKQ---I--G-ATTVMTTERIEEYGPIARYGVE-E 185 :::::: : :::::::::::: : : ::::::::: ::::::: : d1fnna2 132 DAFNLA--------P-DILSTFIRLGQEADKLGAFRIALVIVGHN------DAVLNNLDP 176 d1tf7a1 186 --FV-SD-NVVILRNVLE-----------------------------GERRRRTL----- 207 :: :: :::::::::: :::::::: d1fnna2 177 STRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNR 236 d1tf7a1 208 EILKLRGTSHMKGEYP-FTI-TD---------------------------------HGIN 232 : :: :: d1fnna2 237 ---------------GD-ARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKEVLFG---- 276 d1tf7a1 233 IFPLGAMRLT 242 d1fnna2 277 ---------- 277 HHsearch alignment (Probability: 0.98 E-value:0.00) d1tf7a1 12 IEGFDDISHG----GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEET- 66 :::::::::: ::::::::::::::::::::::::::::::::::::::::::::: d1fnna2 25 LQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYR 84 d1tf7a1 67 -PQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYR 125 ::::::::: ::::::::::::::::::::::::::::: d1fnna2 85 NFTAIIGEIA---------------------RSLNIPFPRRGLSRDEFLALLVEHLRERD 123 d1tf7a1 126 -ARRVSIDSVTSVFQQYDASSVVRRELFRLVARLKQIGATTVMTTERI 172 :::::::::::::: :::::::::::::::::::::::::::::: d1fnna2 124 LYMFLVLDDAFNLAP---DILSTFIRLGQEADKLGAFRIALVIVGHND 168