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 | d1oywa2 | RecQ helicase 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 <-- 1.803 --> HitDALI alignment (Z-score: 6.8 Raw score:690.60) d1tf7a1 1 -ehqaiakmrtMIEG----------------fddishGGLPigrSTLVSGTSGTGKTLFS 43 :::: :::: :::::::::::::::: d1oywa2 1 maqaevlnlesGAKQvlqetfgyqqfrpgqeeiidtvLSGR---DCLVVMPTGGGKSLCY 57 d1tf7a1 44 IQFLYNGiiefDEPGVFVTFEE-TPQDIIKNARSFGWDLA-----------------klv 85 ::::::: ::::::::::: ::::::::::::::::: d1oywa2 58 QIPALLL----NGLTVVVSPLIsLMKDQVDQLQANGVAAAclnstqtreqqlevmtgcrt 113 d1tf7a1 86 DEGKLFILDAspdpegqevvggfdlsALIE--RINYAiQKYRARRVSIDSVTSV-----F 138 :::::::::: :::: ::::: :::::::::::::::: : d1oywa2 114 GQIRLLYIAP---------------eRLMLdnFLEHL-AHWNPVLLAVDEAHCIsqwghD 157 d1tf7a1 139 QQYdassvvrrelFRLVaRLKQIG--ATTVMTTERieeygpiaRYGV-EEFVS------- 188 ::: :::: :::::: ::::::::: :::: ::::: d1oywa2 158 FRP--------eyAALG-QLRQRFptLPFMALTAT--------ADDTtRQDIVrllglnd 200 d1tf7a1 189 DNVVILrnvlegerrrrtleilklrgtshmkgeypftitdhginifplgamrlt 242 :::::: d1oywa2 201 PLIQIS------------------------------------------------ 206 FAST alignment (Normalized score: 5.26 Raw score:1175.00) d1tf7a1 1 EHQAIAKMRTMIEGFDDISHGGLP------------------------------------ 24 d1oywa2 1 ------------------------MAQAEVLNLESGAKQVLQETFGYQQFRPGQEEIIDT 36 d1tf7a1 25 --IGRSTLVSGTSGT---GKTLFSIQFLYNGIIEFDEPGVFVTFEE---TPQDIIKNARS 76 :::::::::: :::::::::::: :::::::::: ::::::::::: d1oywa2 37 VLSGRDCLVVMP---TGGGKSLCYQIPALL----LNGLTVVVSP--LISLMKDQVDQLQA 87 d1tf7a1 77 FGWDLAKLVD-----------------------EGKLFILDASPDPEGQEVVGGFDLS-- 111 :::: ::::::: d1oywa2 88 NGVA------AACLNSTQTREQQLEVMTGCRTGQIRLLYI------------------AP 123 d1tf7a1 112 ------ALIERINYAIQKYRARRVSIDSVTSVFQQYDA--------SSVVRRELFRLVAR 157 ::::::: :::::::::::::: ::::: :::::::: d1oywa2 124 ERLMLDNFLEHLA----HWNPVLLAVDEAHC-------ISQWGHDFRPEYA-ALGQLRQR 171 d1tf7a1 158 LKQ-IGATTVMTTERIEEYGPIAR-------YGVEEFVS--DNVVILRNVLEGERRRRTL 207 ::::::::: :::::::: ::::::: d1oywa2 172 ---FPTLPFMALT-----------ATADDTTRQDIVRLLGLNDPLIQI------------ 205 d1tf7a1 208 EILKLRGTSHMKGEYPFTITDHGINIFPLGAMRLT- 242 d1oywa2 206 -----------------------------------S 206 TMalign alignment (TM-score: 0.47 Raw score:113.99) d1tf7a1 1 --------EHQAIAKMRT-MIE-----------G--FDDISHGGL-PIGRSTLVSGTSGT 37 :: ::: : ::::::::: :: ::::::::::: d1oywa2 1 MAQAEVLN--------LESGAKQVLQETFGYQQFRPGQEEIIDTVLSG-RDCLVVMPTGG 51 d1tf7a1 38 GKTLFSIQFLYNGIIEFDEPGVFVTFEE-TPQDIIKNARSFGWDLAK------------- 83 ::::::::::::: ::::::::::: ::::::::::: :::::: d1oywa2 52 GKSLCYQIPALLL----NGLTVVVSPLISLMKDQVDQLQA-NGVAAACLNSTQTREQQLE 106 d1tf7a1 84 LV--D---EGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVF 138 : : :::::::::: :::::::: ::::::::::::::::::::: d1oywa2 107 -VMTGCRTGQIRLLYIAP------------ERLMLDNF-LEHLAHWNPVLLAVDEAHCIS 152 d1tf7a1 139 QQYDAS--SVV--RRELFRLVARLKQIGATTVMTTERIEEYGPIARYGVEEFV---S-DN 190 ::: :: :::::::::::: ::::::::::: :: :::::::: : :: d1oywa2 153 ---QWGHD-FRPE-YAALGQLRQRFP-TLPFMALTATA----DD-TTRQDIVRLLGLNDP 201 d1tf7a1 191 VVILRNVLEGERRRRTLEILKLRGTSHMKGEYPFTITDHGINIFPLGAMRLT 242 ::::: d1oywa2 202 LIQIS----------------------------------------------- 206 HHsearch alignment (Probability: 0.96 E-value:0.00) d1tf7a1 24 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQ-DIIKNARSFGWDLA 82 :::::::::::::::::::::::::: ::::::::::::::: :::::::::::::: d1oywa2 38 LSGRDCLVVMPTGGGKSLCYQIPALL----LNGLTVVVSPLISLMKDQVDQLQANGVAAA 93 d1tf7a1 83 KLVDEGKLFILDASPDP----EGQEVVGGFDLSALIER-INYAIQKYRARRVSIDSVTSV 137 ::::::::::::::: ::::::::::::::::: ::::::::::::::::::::: d1oywa2 94 --CLNSTQTREQQLEVMTGCRTGQIRLLYIAPERLMLDNFLEHLAHWNPVLLAVDEAHCI 151 d1tf7a1 138 FQQYDASSVVRRELFRLVARLKQIGATTVMTTERIEE 174 :::::::::::::::::::: ::::::::::::::: d1oywa2 152 SQWGHDFRPEYAALGQLRQR--FPTLPFMALTATADD 186