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 | d1lv7a_ | AAA domain of cell division protein FtsH | 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 <-- 2.156 --> HitDALI alignment (Z-score: 5.7 Raw score:579.40) d1tf7a1 1 -----ehqaiakmrtmiEGFDDISHGG---------lpIGRSTLVSGTSGTGKTLFSIQF 46 :::::::::: :::::::::::::::::::::: d1lv7a_ 1 mltedqikttfadvagcDEAKEEVAELveylrepsrfkIPKGVLMVGPPGTGKTLLAKAI 60 d1tf7a1 47 LYNGIiefdEPGVFVTfeetpqdiiknarsfgwdlaklvdegklfildASPDpegqevVG 106 ::::: ::::::: :::: :: d1lv7a_ 61 AGEAK----VPFFTIS--------------------------------GSDF--vemfVG 82 d1tf7a1 107 GFdLSALIERINYAIQkYRARRVSIDSVTSVFQqyDASS------vvrrELFRLVARLKQ 160 :: ::::::::::::: :::::::::::::::: :::: ::::::::::: d1lv7a_ 83 VG-ASRVRDMFEQAKK-AAPCIIFIDEIDAVGR-qRGAGlggghdereqTLNQMLVEMDG 139 d1tf7a1 161 I----gATTVMTTERieeygpiARYGVeEFVS-----DNVVILR--------nvlegerr 203 : ::::::::: ::::: :::: ::::::: d1lv7a_ 140 FegnegIIVIAATNR-------PDVLD-PALLrpgrfDRQVVVGlpdvrgreqilkvhmr 191 d1tf7a1 204 rrtleilklrgtshmkgeypfTITD---------------------hginifplgamrlt 242 :::: d1lv7a_ 192 rvplapdidaaiiargtpgfsGADLanlvneaalfaargnkrvvsmvefekakdkimmgl 251 FAST alignment (Normalized score: 4.56 Raw score:1124.00) d1tf7a1 1 EHQAIAKMRTM----------------IEGFDDISHGGLPI--------------GRSTL 30 ::::::::: ::::: d1lv7a_ 1 -----------MLTEDQIKTTFADVAGCDEAKEEVA-----ELVEYLREPSRFKIPKGVL 44 d1tf7a1 31 VSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKL 90 ::::::::::::::::::: :::::::::: d1lv7a_ 45 MVGPPGTGKTLLAKAIAGE----AKVPFFTISG--------------------------- 73 d1tf7a1 91 FILDASPDPEGQEV---------VGGFDLSALIERINYAIQKYRA---RRVSIDSVTSVF 138 ::::::::::::::: :::::::::::: d1lv7a_ 74 --------------SDFVEMFVGVGASRVRDMFEQAKK-------AAPCIIFIDEIDAVG 112 d1tf7a1 139 QQYDAS-----------SVVRRELFRLVARLK----QIGATTVMTTERIEEYGPIA---- 179 ::::::::::::::: ::::::::: d1lv7a_ 113 ------RQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAA-----------TNRP 155 d1tf7a1 180 --RYGVEEF----VSDNVVILRNVLEGERRRRTLEILKLRGTSHMKGEYPFTITDHGINI 233 ::::: ::::::::::: d1lv7a_ 156 DVLDPAL--LRPGRFDRQVVVGLP------------------------------------ 177 d1tf7a1 234 FPLGAMRLT--------------------------------------------------- 242 d1lv7a_ 178 ---------DVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAA 228 d1tf7a1 243 ----------------------- 243 d1lv7a_ 229 RGNKRVVSMVEFEKAKDKIMMGL 251 TMalign alignment (TM-score: 0.46 Raw score:111.40) d1tf7a1 1 --------EHQAIAKMRTMI------EGFDDISHGGL--P---I-----GRSTLVSGTSG 36 ::: ::::::: ::: : : ::::::::::: d1lv7a_ 1 MLTEDQIK---------TTFADVAGCDEAKEEV-AELVEYLREPSRFKIPKGVLMVGPPG 50 d1tf7a1 37 TGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDAS 96 ::::::::::::::: : :::::: :: d1lv7a_ 51 TGKTLLAKAIAGEAK----V-PFFTIS-------------------------------GS 74 d1tf7a1 97 PDPEGQEVVGGFDLSALIERINYAIQKYRARRVSI-DSVTSVFQQYDASSV------V-- 147 ::::::: : ::::::::::::::: ::::::: ::::::::::::::: : d1lv7a_ 75 DFVEMFV-G--VGASRVRDMFEQAKK--AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQT 129 d1tf7a1 148 RRELFRLVARLKQIGATTVMTTERIEEYGPIARYGV-EEFV--SDNVVILRNVLE----- 199 ::::::::::::::::::::::::: :::::: :::: :::::::::::: d1lv7a_ 130 LNQMLVEMDGFEGNEGIIVIAATNR-----PDVLDPALLRPGRFDRQVVVGLPDVRGREQ 184 d1tf7a1 200 ----------------------GERRRRTLEILKLRGTSHMKGEYPFTI-TD-------- 228 :::::: :: :: d1lv7a_ 185 ILKVHMRRVPLAPDIDAAIIARGTPGFS-------------------GADLANLVNEAAL 225 d1tf7a1 229 --------------------------HGINIFPLGAMRLT 242 d1lv7a_ 226 FAARGNKRVVSMVEFEKAKDKIMMGL-------------- 251 HHsearch alignment (Probability: 0.98 E-value:0.00) d1tf7a1 22 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDL 81 :::::::::::::::::::::::::::: : ::::::::::::::::: d1lv7a_ 36 RFKIPKGVLMVGPPGTGKTLLAKAIAGE-A---KVPFFTISGSDFVEMFV---------- 81 d1tf7a1 82 AKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQY 141 :::::::::::::::::::::::::::::::::: d1lv7a_ 82 --------------------------GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQR 115 d1tf7a1 142 -----DASSVVRRELFRLVARL----KQIGATTVMTTERIEEYG 176 ::::::::::::::::: :::::::::::::::::: d1lv7a_ 116 GAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLD 159