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 | d1l8qa2 | Chromosomal replication initiation factor DnaA | 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 <-- 2.355 --> HitDALI alignment (Z-score: 7.0 Raw score:697.60) d1tf7a1 1 ---------------------ehqaiAKMRtmiegfddishgGLPI-gRSTLVSGTSGTG 38 :::: :::: :::::::::::: d1l8qa2 1 dflnpkytlenfivgegnrlayevvkEALE------------NLGSlyNPIFIYGSVGTG 48 d1tf7a1 39 KTLFSIQFLYNGIIeFDEPGVFVTFEetpqdiiknarsfgwdlaklvdegklfilDASPd 98 :::::::::::::: ::::::::::: :::: d1l8qa2 49 KTHLLQAAGNEAKK-RGYRVIYSSAD-----------------------------DFAQ- 77 d1tf7a1 99 pegqevVGGF---dlSALIERINyaiqkyrARRVSIDSVTSVfQQYDassvvrRELFRLV 155 :::: :::::::: :::::::::::: :::: ::::::: d1l8qa2 78 ----amVEHLkkgtiNEFRNMYK------sVDLLLLDDVQFL-SGKE---rtqIEFFHIF 123 d1tf7a1 156 ARLKQIGATTVMTTERieeygpIARYG-----VEEFVS--DNVVILRNVlegERRR---- 204 :::::::::::::::: ::::: :::::: ::::::::: :::: d1l8qa2 124 NTLYLLEKQIILASDR------HPQKLdgvsdRLVSRFegGILVEIELD---NKTRfkii 174 d1tf7a1 205 -rtleilklrgtshmkgeypftitdhginifplgamrlt 242 d1l8qa2 175 keklkefnlelrkevidyllentknvreiegkikliklk 213 FAST alignment (Normalized score: 5.65 Raw score:1283.00) d1tf7a1 1 EHQAIAKMRTMIEGFDDISHGGLPI----------------------------------- 25 d1l8qa2 1 -------------------------DFLNPKYTLENFIVGEGNRLAYEVVKEALENLGSL 35 d1tf7a1 26 GRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLV 85 :::::::::::::::::::::::::: ::::::::::: d1l8qa2 36 YNPIFIYGSVGTGKTHLLQAAGNEAK-KRGYRVIYSSA---------------------- 72 d1tf7a1 86 DEGKLFILDASPDPEGQEVVGGFD---------------LSALIERINYAIQKYRARRVS 130 ::::::::: :::::: d1l8qa2 73 ------------------------DDFAQAMVEHLKKGTINEFRNMYK------SVDLLL 102 d1tf7a1 131 IDSVTSVFQQYDA---SSVVRRELFRLVARLKQIGATTVMTTERIEEYGPIA-------- 179 :::::: :::::::::::::::::::::::::: d1l8qa2 103 LDDVQF-------LSGKERTQIEFFHIFNTLYLLEKQIILAS----------DRHPQKLD 145 d1tf7a1 180 -RYGVEEFVS---DNVVILRNVLEGERRRRTLEILKLRGTSHMKGEYPFTITDHGINIFP 235 :::::::: ::::::::: d1l8qa2 146 GVSDRLVSR-FEGGILVEIELD-------------------------------------- 166 d1tf7a1 236 LGAMRLT----------------------------------------------- 242 d1l8qa2 167 -------NKTRFKIIKEKLKEFNLELRKEVIDYLLENTKNVREIEGKIKLIKLK 213 TMalign alignment (TM-score: 0.43 Raw score:105.25) d1tf7a1 1 -------EHQAIAKMRTMIE---G----F-DDISHGGL--PIG---RSTLVSGTSGTGKT 40 ::: : : :::::::: ::: :::::::::::::: d1l8qa2 1 DFLNPKY----------TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKT 50 d1tf7a1 41 LFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPD-P 99 :::::::::::: ::::::::::: ::::: d1l8qa2 51 HLLQAAGNEAKK-RGYRVIYSSAD-----------------------------DFAQAM- 79 d1tf7a1 100 EGQ--EVVGGF---DLSALIERINYAIQKYRARRVSIDSVTSVFQQYD--ASSVVRRELF 152 : : ::::::::::: ::::::::::::: ::: : :::: d1l8qa2 80 --VEH-----LKKG---TINEFRNMYKS---VDLLLLDDVQFLS-GKERT----Q-IEFF 120 d1tf7a1 153 RLVARLKQIGATTVMTTERIEEYGPIARYG---V--EE-FVSDNVVILRNVLEGERRRRT 206 ::::::::::::::::::: :::::: : :: :::::::::::: :::: d1l8qa2 121 HIFNTLYLLEKQIILASDR-----HPQKLDGVSDRLVSRFEGGILVEIELD-----NKTR 170 d1tf7a1 207 LEILKLRGTSHMKGEYPFTI-TD------------------------------------H 229 :::: :: d1l8qa2 171 ----------------FKIIKEKLKEFNLELRKEVIDYLLENTKNVREIEGKIKLIKLK- 213 d1tf7a1 230 GINIFPLGAMRLT 242 d1l8qa2 214 ------------- 214 HHsearch alignment (Probability: 0.99 E-value:0.00) d1tf7a1 27 RSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVD 86 :::::::::::::::::: ::::::::::::::::::::::::::::::: d1l8qa2 37 NPIFIYGSVGTGKTHLLQ-AAGNEAKKRGYRVIYSSADDFAQAMVEHLKK---------- 85 d1tf7a1 87 EGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQYDASSV 146 :::::::::: ::::::::::::::::: :: d1l8qa2 86 ---------------------GTINEFRNMY------KSVDLLLLDDVQFLSGK----ER 114 d1tf7a1 147 VRRELFRLVARLKQIGATTVMTTERI 172 :::::::::::::::::::::::::: d1l8qa2 115 TQIEFFHIFNTLYLLEKQIILASDRH 140