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 | d1uaaa1 | DEXX box DNA helicase | 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 <-- 1.532 --> HitDALI alignment (Z-score: 7.1 Raw score:737.10) d1tf7a1 1 ehqaiakmrtmiEGFD-dishgGLPIgRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEP-- 57 :::: :::: ::::::::::::::::::::::::::::::: d1uaaa1 1 ------------RLNPgqqqavEFVT-GPCLVLAGAGSGKTRVITNKIAHLIRGCGYQar 47 d1tf7a1 58 -GVFVTFEET-PQDIIKNARsFGWDlAKLVDEgkLFILDASP------------------ 97 ::::::::: ::::::::: :::: :::::: :::::::: d1uaaa1 48 hIAAVTFTNKaAREMKERVG-QTLG-RKEARG--LMISTFHTlgldiikreyaalgmkan 103 d1tf7a1 98 ------------------------------------------------------------ 98 d1uaaa1 104 fslfddtdqlallkelteglieddkvllqqlistisnwkndlktpsqaaasaigerdrif 163 d1tf7a1 98 --------------dpegqevvGGFDLSA------lierINYAIqkyraRRVSIDSVTSV 137 ::::::: ::::: ::::::::::: d1uaaa1 164 ahcyglydahlkacnvldfddlILLPTLLlqaneevrkrWQNKI-----RYLLVDEYQDT 218 d1tf7a1 138 fqqydassvVRRELFRLVARLKQiGATTVMTTERI--eeygpiarYGVEEFVS-----DN 190 :::::::::::::: ::::::::::: :::::::: :: d1uaaa1 219 ---------NTSQYELVKLLVGS-RARFTVVGDDDqsiyswrgarPQNLVLLSqdfpaLK 268 d1tf7a1 191 VVILRN--VLEGERRrrtleilklrgtshmkGEYPftitdhginifplgamrlt 242 :::::: ::::::: :::: d1uaaa1 269 VIKLEQnyRSSGRIL--kaaniliannphvfEKRL--------------fselg 306 FAST alignment (Normalized score: 4.43 Raw score:1206.00) d1tf7a1 1 EHQAIAKMRTMIEGFDDISHGG----------LPIGRSTLVSGTSGTGKTLFSIQFLYNG 50 :::::::::::::::::::::::::::: d1uaaa1 1 ----------------------RLNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHL 38 d1tf7a1 51 IIEFDE---PGVFVTFEE---TPQDIIKNARSFGWDLAKLVDEG--------KLFILDAS 96 :::::: ::::::: ::::::::::: ::::: d1uaaa1 39 IRGCGYQARHIAAVTF--TNKAAREMKERVGQ------------TLGRKEARGLMIS--- 81 d1tf7a1 97 PDPEGQEV---------------------------------------------------- 104 d1uaaa1 82 --------TFHTLGLDIIKREYAALGMKANFSLFDDTDQLALLKELTEGLIEDDKVLLQQ 133 d1tf7a1 105 ---------------------------------------------------VGGFDLSAL 113 ::::::: d1uaaa1 134 LISTISNWKNDLKTPSQAAASAIGERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTL-- 191 d1tf7a1 114 IER--------INYAIQKYRARRVSIDSVTSVFQQYDASSVVRRE-LFRLVARLKQ---I 161 :::::: :::::::::::: :::::::::: : d1uaaa1 192 ---LLQANEEVRKRWQN--KIRYLLVDEYQD--------------TNTSQYELVKLLVGS 232 d1tf7a1 162 GATTVMTTERIEEYGPIAR---------------YGVEEFVS--DNVVILRNVLEGERRR 204 ::::::::: :::::::: :::::: d1uaaa1 233 RARFTVVGD----------DDQSIYSWRGARPQNLVLLSQDFPALKVIKL---------- 272 d1tf7a1 205 RTLEILKLRGTSHMKGEYPFTITDHGINIFPLGAMRLT---------------------- 242 d1uaaa1 273 --------------------------------------EQNYRSSGRILKAANILIANNP 294 d1tf7a1 243 ------------ 243 d1uaaa1 295 HVFEKRLFSELG 306 TMalign alignment (TM-score: 0.41 Raw score:98.78) d1tf7a1 1 ----EHQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDE 56 ::::::: :::: ::::::::::::::::::::::::::::: d1uaaa1 1 RLNP----------GQQQAVE---FVTG---PCLVLAGAGSGKTRVITNKIAHLIRGCGY 44 d1tf7a1 57 PGV-FV-TF--EETPQDIIKNARSFGWDLAKLVDEGKL-FILDAS-----PDPEGQEVVG 106 ::: :: :: ::::::::: : : :::::: ::: :::::: ::: d1uaaa1 45 QARHIAAVTFTNKAAREMKE-R----V-GQTLGR-KEARGLMISTFHTLG-------LDI 90 d1tf7a1 107 GFDLSAL---------------------------------------------IERINYAI 121 ::::::: d1uaaa1 91 IKREYAALGMKANFSLFDDTDQLALLKELTEGLIEDDKVLLQQLISTISNWK-------- 142 d1tf7a1 122 QKYRARRVSIDSVT------------------------------------SVFQQYDASS 145 : :::::::: d1uaaa1 143 -------------NDLKTPSQAAASAIGERDRIFAHCYGLYDAHLKACNV--LDFDDLIL 187 d1tf7a1 146 VVRRELF-R--LVARLKQIGATTVMTTERIEEYGPIARYGVEE--FV-SD--N--VVILR 195 ::::::: : :::::::: ::::::::: : :::::::: :: :: : ::::: d1uaaa1 188 LPTLLLQANEEVRKRWQNK-IRYLLVDEY--Q---DTNTSQYELVKLLVGSRARFTVVGD 241 d1tf7a1 196 NVL------------EGERRRRTLE-ILKLRGTSHMKGEYPFTITD-------------- 228 ::: :: ::::: :::: ::::::::: d1uaaa1 242 DDQSIYSWRGARPQN--------LVLLSQDF-PALK-VIKLEQNYRSSGRILKAANILIA 291 d1tf7a1 229 ------HGINIFPL-------GAMRLT 242 :: d1uaaa1 292 NNPHVF------EKRLFSELG------ 306 HHsearch alignment (Probability: 0.97 E-value:0.00) d1tf7a1 25 IGRSTLVSGTSGTGKTLFSIQFLYNGIIEFD---EPGVFVTFEET-PQDIIKNARSF 77 ::::::::::::::::::::::::::::::: ::::::::::: ::::::::::: d1uaaa1 13 VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQT 69