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 | d1g41a_ | HslU | 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 <-- 0.794 --> HitDALI alignment (Z-score: 5.6 Raw score:640.10) d1tf7a1 1 ehqaiakmrtMIEGF---------ddishGGLP-----------------iGRSTLVSGT 34 ::::: :::: ::::::::: d1g41a_ 1 ---semtpreIVSELdqhiigqadakravAIALrnrwrrmqlqeplrhevtPKNILMIGP 57 d1tf7a1 35 SGTGKTLFSIQFLYNGIiefdEPGVFVTFeetpqdiiknarsfgwdlaklvdegklfild 94 ::::::::::::::::: :::::::: d1g41a_ 58 TGVGKTEIARRLAKLAN----APFIKVEA------------------------------- 82 d1tf7a1 95 aspdpegqevvGGFDlsALIErINYAIQKYR----------------------------- 125 :::: :::: ::::::::: d1g41a_ 83 --------tkfTVGK--EVDS-IIRDLTDSAmklvrqqeiaknrliddeaaklinpeelk 131 d1tf7a1 126 ---------aRRVSIDSVTSVFQQY---dASSVVRRELFRLVARLKQ------------I 161 ::::::::::::::: :::::::::::::::::: : d1g41a_ 132 qkaidaveqnGIVFIDEIDKICKKGeysgADVSREGVQRDLLPLVEGstvstkhgmvktD 191 d1tf7a1 162 GATTVMTTERIeeygpiaRYGVE----EFVSDNVVILRNVLEGerrrrtleilklrgtsh 217 ::::::::::: ::::: :::::::::::::::: d1g41a_ 192 HILFIASGAFQ-----vaRPSDLipelQGRLPIRVELTALSAA----------------- 229 d1tf7a1 218 mkgeypftITDH------------------------------------------------ 229 :::: d1g41a_ 230 -dferiltEPHAslteqykalmategvniafttdavkkiaeaafrvnektenigarrlht 288 d1tf7a1 230 ---------------------------------ginifplgamrlt 242 d1g41a_ 289 vmerlmdkisfsasdmngqtvnidaayvadalgevvenedlsrfil 334 FAST alignment (Normalized score: 3.35 Raw score:951.60) d1tf7a1 1 EHQAIAKMRTMIEGFDDISHGGLPI----------------------------------- 25 d1g41a_ 1 -------------------------SEMTPREIVSELDQHIIGQADAKRAVAIALRNRWR 35 d1tf7a1 26 -------------GRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIK 72 :::::::::::::::::::::::: :::::::::: d1g41a_ 36 RMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL----ANAPFIKVEA--------- 82 d1tf7a1 73 NARSFGWDLAKLVDEGKLFILDASPDPEGQEVVG--------GFDLSALIERINYAIQKY 124 ::::::::::::::::: d1g41a_ 83 ----------------------------------TKFTVGKEVDSIIRDLTDSAMKLVR- 107 d1tf7a1 125 RA----------------------------------RRVSIDSVTSVFQQYD-------- 142 :::::::::: d1g41a_ 108 --QQEIAKNRLIDDEAAKLINPEELKQKAIDAVEQNGIVFIDEIDK------ICKKGEYS 159 d1tf7a1 143 -ASSVVRR---ELFRLVARLKQ--------------IGATTVMTTERIEEYGPIA----- 179 ::::::: :::::: :::::::::: d1g41a_ 160 GADVSREGVQRDLLPLV-----EGSTVSTKHGMVKTDHILFIASGA---------FQVAR 205 d1tf7a1 180 ---RYGVEEFVSDNVVILRNVLEGERRRRTLEILKLRGTSHMKGEYPFTITDHGINIFPL 236 ::::::::::::::: ::::: d1g41a_ 206 PSDLIPELQGRLPIRVEL-TALSA------------------------------------ 228 d1tf7a1 237 GAMRLT------------------------------------------------------ 242 d1g41a_ 229 ------ADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIG 282 d1tf7a1 243 ---------------------------------------------------- 243 d1g41a_ 283 ARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADALGEVVENEDLSRFIL 334 TMalign alignment (TM-score: 0.46 Raw score:111.58) d1tf7a1 1 --EHQAIAKMR-TMIE---------GFDDISHGGL--PI--------------GR-STLV 31 ::: :::: :::::::::: :: :: :::: d1g41a_ 1 SE------MTPREIVSELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILM 54 d1tf7a1 32 SGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLF 91 :::::::::::::::::::: ::::::: d1g41a_ 55 IGPTGVGKTEIARRLAKLAN------APFIKVE--------------------------- 81 d1tf7a1 92 ILDASPDPEGQEVVGGFDLSALIERINYAI------------------------------ 121 ::: :::: :::::::::::::: d1g41a_ 82 ---ATK----FTVG--KEVDSIIRDLTDSAMKLVRQQEIAKNRLIDDEAAKLINPEELKQ 132 d1tf7a1 122 QKY-RA--RRVSIDSVTSVFQ------QYDA-SSVVRRELFRLVARLK--------QIGA 163 ::: :: ::::::::::::: :::: :::::::::::::::: :::: d1g41a_ 133 KAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDH 192 d1tf7a1 164 TTVMTTERIEEYGPIARYGV---EEFVSDNVVILRNVLEGERRRR--TLEILKLRGTSHM 218 :::::::::: :::: ::: :::::::::::::: :::: d1g41a_ 193 ILFIASGAFQ--VARP-SDLIPELQGRLPIRVELTAL----SAADFE------------- 232 d1tf7a1 219 KGEYPFTI--TDHG---------------------------------------------- 230 :: :::: d1g41a_ 233 ------RILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRL 286 d1tf7a1 231 ------------------------------------------------INIFPLGAMRLT 242 d1g41a_ 287 HTVMERLMDKISFSASDMNGQTVNIDAAYVADALGEVVENEDLSRFIL------------ 334 HHsearch alignment (Probability: 0.97 E-value:0.00) d1tf7a1 24 PIGRSTLVSGTSGTGKTLFSIQFLY 48 ::::::::::::::::::::::::: d1g41a_ 47 VTPKNILMIGPTGVGKTEIARRLAK 71