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 | d1b0ua_ | ATP-binding subunit of the histidine permease | 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 <-- 1.886 --> HitDALI alignment (Z-score: 7.4 Raw score:800.60) d1tf7a1 1 ehqaiAKMRtMIEG--------fddishgGLPIGRSTLVSGTSGTGKTLFSIQFLY---- 48 :::: :::: ::::::::::::::::::::::::::: d1b0ua_ 1 -----NKLH-VIDLhkrygghevlkgvslQARAGDVISIIGSSGSGKSTFLRCINFlekp 54 d1tf7a1 49 -------------------------ngiIEFDE--PGVFVTFEetpqdiiknarsfgwdl 81 ::::: :::::::: d1b0ua_ 55 segaiivngqninlvrdkdgqlkvadknQLRLLrtRLTMVFQH----------------- 97 d1tf7a1 82 aklvdegklfildASPDPE----------------------------------------- 100 :::::: d1b0ua_ 98 -------------FNLWSHmtvlenvmeapiqvlglskhdareralkylakvgideraqg 144 d1tf7a1 101 --gQEVVGGFDLSALIERINYAIqkyrARRVSIDSVTSVfQQYDassVVRRELFRLVARL 158 :::::::::::::::::::: :::::::::::: :::: ::::::::::::: d1b0ua_ 145 kypVHLSGGQQQRVSIARALAME----PDVLLFDEPTSA-LDPE---LVGEVLRIMQQLA 196 d1tf7a1 159 KQiGATTVMTTErieeygpiarYGVE-EFVSDNVVILRNvlegerrrRTLEILKLR-gts 216 :: ::::::::: :::: :::::::::::: ::::::::: d1b0ua_ 197 EE-GKTMVVVTH----------EMGFaRHVSSHVIFLHQ--------GKIEEEGDPeqvf 237 d1tf7a1 217 hMKGEypftitdhginifplgamrlt 242 :::: d1b0ua_ 238 gNPQS------prlqqflkgslkkle 257 FAST alignment (Normalized score: 4.71 Raw score:1173.00) d1tf7a1 1 EHQAIAKMRTMIEGFDDISHG------------------GLPIGRSTLVSGTSGTGKTLF 42 ::::: ::::::::::::::::::::: d1b0ua_ 1 -----NKLHV-----------IDLHKRYGGHEVLKGVSLQARAGDVISIIGSSGSGKSTF 44 d1tf7a1 43 SIQFLYNGIIEFDE-----------------------------------------PGVFV 61 :::: ::::: d1b0ua_ 45 LRCI----------NFLEKPSEGAIIVNGQNINLVRDKDGQLKVADKNQLRLLRTRLTMV 94 d1tf7a1 62 TFEETPQDIIKNARSFGWDLAKLVDEGKLFILDA----SPDPEGQEVVGG---------- 107 :::: d1b0ua_ 95 ----------------------------------FQHFNLWS--------HMTVLENVME 112 d1tf7a1 108 --------------------------------------FDLSALIERINYAIQKYRARRV 129 ::::::::::::: :::::::: d1b0ua_ 113 APIQVLGLSKHDARERALKYLAKVGIDERAQGKYPVHLSGGQQQRVSIARA-LAMEPDVL 171 d1tf7a1 130 SIDSVTSVFQQY---DASSVVRRELFRLVARLKQIGATTVMTTERIEEYGPIARYGVE-E 185 ::::: ::::::::::::: ::::::::::::: :::::: : d1b0ua_ 172 LFDEP-------TSALDPELVGEVLRIM-QQLAEEGKTMVVV----------THEMGFAR 213 d1tf7a1 186 FVSDNVVILRNVLEGERRRRTLEILKLRGTSHMKGEYPFTITDHGINIFPLGAMRLT--- 242 ::::::::: d1b0ua_ 214 HVSSHVIFL------------------------------------------------HQG 225 d1tf7a1 243 -------------------------------- 243 d1b0ua_ 226 KIEEEGDPEQVFGNPQSPRLQQFLKGSLKKLE 257 TMalign alignment (TM-score: 0.50 Raw score:120.49) d1tf7a1 1 EHQAIAKMRTMIE------------GFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLY 48 ::::::: ::: : ::::::::::::::::::::::::::: d1b0ua_ 1 ------NKLHVIDLHKRYGGHEVLKGVS--L--QARAGDVISIIGSSGSGKSTFLRCINF 50 d1tf7a1 49 --------NGIIEFDEP------GVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLF--I 92 ::: ::::: ::::::::::::::::: : d1b0ua_ 51 LEKPSEGAIIV-NGQNINLVRDK-----------------DGQLKVADKNQLRLLRTRLT 92 d1tf7a1 93 LD---ASPDP--------------------------------------------EGQEVV 105 :: ::::: :::::: d1b0ua_ 93 MVFQHFNLWSHMTVLENVMEAPIQVLGLSKHDARERALKYLAKVGIDERAQGKYPVHLSG 152 d1tf7a1 106 GGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQYDASSVVRRELFRLVARLKQIGATT 165 ::::: :::::::::: ::::::::::: ::::: ::::::::::::::: :::: d1b0ua_ 153 GQQQR-VSIARALAME----PDVLLFDEPTS--ALDPE--LVGEVLRIMQQLAEE-GKTM 202 d1tf7a1 166 VMTTERIEEYGPIARYGVEEFVSD-NVVILRNVLEGERRRRTLEILKLRG----TSHMKG 220 :::: : ::::::::: ::::::: ::::::::::: :: d1b0ua_ 203 VVVT---------H-EMGFARHVSSHVIFLHQ-------GKIEEEGDPEQVFGN----PQ 241 d1tf7a1 221 EYP-------------FTITDHGINIFPLGAMRLT 242 ::: d1b0ua_ 242 SPRLQQFLKGSLKKLE------------------- 257 HHsearch alignment (Probability: 0.98 E-value:0.00) d1tf7a1 14 GFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEE-T------ 66 ::::::: ::::::::::::::::::::::::: : :::::::::::::::: : d1b0ua_ 17 VLKGVSL-QARAGDVISIIGSSGSGKSTFLRCI-N-FLEKPSEGAIIVNGQNINLVRDKD 73 d1tf7a1 67 -------PQDIIKNARSFGWDLAKLVDEGKL--------------------------FIL 93 :::::::::::::::::::::::: ::: d1b0ua_ 74 GQLKVADKNQLRLLRTRLTMVFQHFNLWSHMTVLENVMEAPIQVLGLSKHDARERALKYL 133 d1tf7a1 94 DASPDPEGQ--EVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQYDASSVVRREL 151 ::::::::: ::::::::::::::::::::::::::::::::::: ::::::::: d1b0ua_ 134 AKVGIDERAQGKYPVHLSGGQQQRVSIARALAMEPDVLLFDEPTSA-----LDPELVGEV 188 d1tf7a1 152 FRLVARLKQIGATTVMTTERIEEYGPIARYGVEEFVSDNVVILRN 196 ::::::::::::::::::::::: ::::::::::::: d1b0ua_ 189 LRIMQQLAEEGKTMVVVTHEMGF---------ARHVSSHVIFLHQ 224