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: T542_A.pdb A
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 <-- 0.638 --> IntermediateDALI alignment (Z-score: 3.2 Raw score:303.50) 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---GATTVMTTE 170 query 92 drsesaqpkygqpagaprN-------aaavlhrgRVALTFAKHHLPNYgvfdefryfvpg 144 : :::::::::::::: d1tf7a1 171 ------------------RieeygpiarygveefVSDNVVILRNVLEG------------ 200 query 145 dtmpivrlhgvdialaicedlwqdggrvpaarsagaglllsvnaspyerdkddtrlelvr 204 d1tf7a1 201 ------------------------------------------------------------ 201 query 205 kraqeagcttaylamiggqdelvfdgdsivvdrdgevvarapqfsegcvvldldlpaaea 264 d1tf7a1 201 ------------------------------------------------------------ 201 query 265 epptgvvddglridrlviseeplpayeaelaggyadrldadeevysalvvglrayvakng 324 d1tf7a1 201 ------------------------------------------------------------ 201 query 325 frsvliglsggidsalvaaiacdalgaqnvygvsmpskyssdhskgdaaelarrtglnfr 384 d1tf7a1 201 ------------------------------------------------------------ 201 query 385 tvsiepmfdaymaslgltglaeenlqsrlrgttlmaisnqeghivlapgnkselavgyst 444 d1tf7a1 201 ------------------------------------------------------------ 201 query 445 lygdsvgaygpikdvyktsifrlaewrnraaaergqtppipeasitkpdypvldailely 504 d1tf7a1 201 ------------------------------------------------------------ 201 query 505 vdrdtgadaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrw 564 d1tf7a1 201 ----------------------errrrtleilklrgtshmkgeypftitdhginifplga 238 query 565 regh 568 d1tf7a1 239 mrlt 242 FAST alignment (Normalized score: 1.90 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 LDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPS 361 d1tf7a1 198 ------------------------------------------------------------ 198 query 362 KYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTLMAI 421 d1tf7a1 198 ------------------------------------------------------------ 198 query 422 SNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQT 481 d1tf7a1 198 ------------------------------------------------------------ 198 query 482 PPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQY 541 d1tf7a1 198 ------------------------------------------------------------ 198 query 542 PPGTKISAKGFGKDRRLPITNRWREGH--------------------------------- 568 d1tf7a1 198 ---------------------------LEGERRRRTLEILKLRGTSHMKGEYPFTITDHG 230 query 569 ------------ 569 d1tf7a1 231 INIFPLGAMRLT 242 TMalign alignment (TM-score: 0.21 Raw score:121.48) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 :: : : d1tf7a1 1 --------------EH--------------------------------Q-A--------- 4 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1tf7a1 5 ------------------------------------------------------------ 5 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1tf7a1 5 ------------------------------------------------------------ 5 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 ::::: d1tf7a1 5 ------------------------------------------IAKMR------------- 9 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 :: d1tf7a1 10 -------TM--------------------------------------------------- 11 query 301 RLDADEEVYSALVVGLRAYVAKN--------GFRSVLIGLSGG-IDSALVAAIACDALGA 351 :::::::::::: ::: : : :::::::::::::::: d1tf7a1 12 ----IEGFDDISHGGL-PIG--RSTLVSGTS-----------GTGKTLFSIQFLYNGIIE 53 query 352 -QNVYGVSMPSKYSSDHSKGDAAELAR--RTGL--NF-----RTVSIE-PMF--DAYMAS 398 ::::::::: : ::::::::::: :::: :: :::::: : d1tf7a1 54 FDEPGVFVTF---E--ETPQDIIKNARSFGWDLAKLVDEGKLFILDASP--DPE------ 100 query 399 LGLTGLAEENLQSRLRGTTLMAISNQEGHIVLAPGNKSE-L-----AV--GYSTL-YGDS 449 ::: ::::::::::::::::::::::::::::::::: : : ::::: ::: d1tf7a1 101 --GQE-VVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQYDA-SSVVRRELF-RLV 155 query 450 -VG----AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELY 504 :: :::::: :: ::: ::::: d1tf7a1 156 ARLKQIGATTVMT--TE--------------------------------RIE-EYGPI-- 178 query 505 VDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTK----------------IS 548 : : :: :: ::: : :::: :: d1tf7a1 179 A---------------------R--YG--VE-EFV-S-DNVVILRNVLEGERRRRTLEIL 210 query 549 AKGFGK----------------------------DRRLPITNRWREGH 568 : : :: d1tf7a1 211 K-L-RGTSHMKGEYPFTITDHGINIFPLGAMRLT-------------- 242 HHsearch alignment (Probability: 0.02 E-value:0.74) query 324 GFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTG--L 381 ::::::::::::::::::::::::::::::::::::::::::::::::::::::::: : d1tf7a1 26 GRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLV 85 query 382 NFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTT 417 :::::::::::::::::::::::::::::::::::: d1tf7a1 86 DEGKLFILDASPDPEGQEVVGGFDLSALIERINYAI 121
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