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 | d1um8a_ | ClpX | 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 <-- 1.359 --> HitDALI alignment (Z-score: 5.4 Raw score:607.20) d1tf7a1 1 ehqaiakmrtMIEG---------fddishgGLPI-------------------------- 25 :::: :::: d1um8a_ 1 llsyipapkeLKAVldnyvigqeqakkvfsVAVYnhykrlsfkeklkkqdnqdsnveleh 60 d1tf7a1 26 -------GRSTLVSGTSGTGKTLFSIQFLYNGIiefdEPGVFVTFEetpqdiiknarsfg 78 :::::::::::::::::::::::::: ::::::::: d1um8a_ 61 leevelsKSNILLIGPTGSGKTLMAQTLAKHLD----IPIAISDAT-------------- 102 d1tf7a1 79 wdlaklvdegklfildaspdpegqevvggfdlsaliERINYAIQKYR--------aRRVS 130 ::::::::::: :::: d1um8a_ 103 --------------------------------sltvENILTRLLQASdwnvqkaqkGIVF 130 d1tf7a1 131 IDSVTSVFqqydasSVVRRELFRLVAR-----lkQIGATTVMTTERI------------- 172 :::::::: ::::::::::::: ::::::::::::: d1um8a_ 131 IDEIDKIG------EGVQQALLKIVEGslvnqidTSDILFICAGAFDglaeiikkrttqn 184 d1tf7a1 173 -------------eEYGP--------iaRYGV--EEFVSDNVVILRNVLegERRRrtlei 209 :::: :::: ::::::::::::::: :::: d1um8a_ 185 vlgftqekmskkeqEAILhlvqthdlvtYGLIpeLIGRLPVLSTLDSIS--LEAM----- 237 d1tf7a1 210 lklrgtshmkgeypftITDH---------------------------------------- 229 :::: d1um8a_ 238 -----------vdilqKPKNalikqyqqlfkmdevdlifeeeaikeiaqlalerktgarg 286 d1tf7a1 230 ----------------------------ginifplgamrlt 242 d1um8a_ 287 lraiiedfcldimfdlpklkgsevritkdcvlkqaepliia 327 FAST alignment (Normalized score: 3.45 Raw score:971.40) d1tf7a1 1 EHQAIAKMRTMIEGFDDISHGGLPI----------------------------------- 25 d1um8a_ 1 -------------------------LLSYIPAPKELKAVLDNYVIGQEQAKKVFSVAVYN 35 d1tf7a1 26 --------------------------------GRSTLVSGTSGTGKTLFSIQFLYNGIIE 53 :::::::::::::::::::::::: d1um8a_ 36 HYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKH---- 91 d1tf7a1 54 FDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGF---DL 110 :::::::::: :: d1um8a_ 92 LDIPIAISDA---------------------------------------------TSLTV 106 d1tf7a1 111 SALIERINYAIQKYRA---------RRVSIDSVTSVFQQYDA--SSVVRRELFRLVARLK 159 ::::::::::: ::::::::: :::::::::::: d1um8a_ 107 ENILTRLLQAS-----DWNVQKAQKGIVFIDEID--------KIGEGVQQALLKIV---- 149 d1tf7a1 160 Q----------IGATTVMTTERIEEYGPIA------------------------------ 179 :::::::::::: d1um8a_ 150 -EGSLVNQIDTSDILFICAGAFD-------GLAEIIKKRTTQNVLGFTQEKMSKKEQEAI 201 d1tf7a1 180 -------------RYGVEEFVSDNVVILRNVLEGERRRRTLEILKLRGTSHMKGEYPFTI 226 ::::::::::::::: d1um8a_ 202 LHLVQTHDLVTYGLIPELIGRLPVLSTL-------------------------------- 229 d1tf7a1 227 TDHGINIFPLGAMRLT-------------------------------------------- 242 d1um8a_ 230 ----------------DSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEI 273 d1tf7a1 243 ------------------------------------------------------ 243 d1um8a_ 274 AQLALERKTGARGLRAIIEDFCLDIMFDLPKLKGSEVRITKDCVLKQAEPLIIA 327 TMalign alignment (TM-score: 0.46 Raw score:110.69) d1tf7a1 1 ---EHQAIAKMRT--MIE--G---------FDD-ISHGGLPI--G--------------- 26 ::::: ::: : ::: :::::::: : d1um8a_ 1 LLS-----YIPAPKELKAVLDNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSN 55 d1tf7a1 27 ------------R-STLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKN 73 : :::::::::::::::::::::::: :::::::: d1um8a_ 56 VELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLD-----IPIAISDA--------- 101 d1tf7a1 74 ARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYA-IQKY--RA-RRV 129 :: :: ::::: ::::: :::: :: ::: d1um8a_ 102 ----------------------TS-------LT---VENIL-TRLLQASDWNVQKAQKGI 128 d1tf7a1 130 SIDSVTSVFQQYDASSVVRRELFRLVARL-----KQIGATTVMTTERI--E--------- 173 ::::::: : ::: ::::::::::::: :::::::::::::: : d1um8a_ 129 VFIDEID--K-IGE--GVQQALLKIVEGSLVNQIDTSDILFICAGAFDGLAEIIKKRTTQ 183 d1tf7a1 174 ---------------E-YG--P---IAR-YGV---EEFVSDNVVILRNVLEGERRRR-TL 207 : :: : ::: ::: ::::::::::::::: :::: d1um8a_ 184 NVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELIGRLPVLSTLDSIS---LEAMV-- 238 d1tf7a1 208 EILKLRGTSHMKGEYPFTI--TDHGI---------------------------------- 231 :: ::::: d1um8a_ 239 -----------------DILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERK 281 d1tf7a1 232 ----------------------------------------------NIFPLGAMRLT 242 d1um8a_ 282 TGARGLRAIIEDFCLDIMFDLPKLKGSEVRITKDCVLKQAEPLIIA----------- 327 HHsearch alignment (Probability: 0.96 E-value:0.00) d1tf7a1 22 GLPIGRSTLVSGTSGTGKTLFSIQFLY 48 :::::: :::::::::::::::::::: d1um8a_ 65 ELSKSN-ILLIGPTGSGKTLMAQTLAK 90