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 | d1j93a_ | Uroporphyrinogen decarboxylase, UROD | UROD/MetE-like | TIM beta/alpha-barrel | α/β |
| Hit | d1ji2a3 | Maltogenic amylase, central domain | (Trans)glycosidases | TIM beta/alpha-barrel | α/β |
Query <-- 0.875 --> IntermediateDALI alignment (Z-score: 2.8 Raw score:517.50) query 1 ------------------------------------------------------------ 1 d1j93a_ 1 tqpllldavrgkeverppvwlmrqagrymksyqllcekyplfrdrsenvdlvveislqpw 60 query 1 ------------------------------------------------------------ 1 d1j93a_ 61 kvfrpdgvilfsdiltplsgmnipfdiikgkgpvifdplrtaadvekvrefipeksvpyv 120 query 1 ------------sLQLRLALN-qidSTVG---------------------------DIAG 20 :::::::: :::: :::: d1j93a_ 121 gealtilrkevnnQAAVLGFVgapfTLASyvveggssknftkikrlafaepkvlhaLLQK 180 query 21 NAEAILRWTRHSAEQGAHLVAFPEMaltgypvedLALRSSFVEASRTALRELAARLAEEg 80 ::::::::::::::::::::::::: ::::::::::::::::::::::::: d1j93a_ 181 FATSMAKYIRYQADSGAQAVQIFDS------watELSPVDFEEFSLPYLKQIVDSVKLT- 233 query 81 FGELPVLVGY---lDRSEsaqpkygqpagaprnaaavlhrgRVALTFAKHhlpnygvfde 137 :::::::::: :::: ::::::::: d1j93a_ 234 HPNLPLILYAsgsgGLLE------------------rlpltGVDVVSLDW---------- 265 query 138 fryfvPGDTMpivrlhgvdialaiceDLWQD----ggrvPAARSAGaglllsvnaspyer 193 ::::: ::::: ::::::: d1j93a_ 266 -----TVDMAdgrrrlgpnvaiqgnvDPGVLfgskefitNRINDTV---kkagkgkhiln 317 query 194 dkddtRLELvRKRAQEAGcttaylamiggqdelvfdgdsivvdrdgevvarapqfsegcv 253 :::: :::::::: d1j93a_ 318 lghgiKVGTpEENFAHFF------------------------------------------ 335 query 254 vldldlpaaEAEPptgvvddglridrlviseeplpayeaelaggyadrl 302 :::: d1j93a_ 336 -----eiakGLRY------------------------------------ 343 FAST alignment (Normalized score: 2.91 Raw score:937.50) query 1 S----------------------------------------------------------- 1 d1j93a_ 1 -TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQP 59 query 2 ------------------------------------------------------------ 2 d1j93a_ 60 WKVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSVPY 119 query 2 --------------LQLRLALNQIDSTV-------------------------------- 15 :::::::: d1j93a_ 120 VGEALTILRKEVNNQAAVLGFV------GAPFTLASYVVEGGSSKNFTKIKRLAFAEPKV 173 query 16 --GDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLAL--------RSSFV-EA 64 ::::::::::::::::::::::::::: ::::: :: d1j93a_ 174 LHALLQKFATSMAKYIRYQADSGAQAVQI---------------FDSWATELSPVDFEEF 218 query 65 SRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRG------ 118 :::::::::::::: :::::::::: d1j93a_ 219 SLPYLKQIVDSVKL-THPNLPLILY-----------------------------ASGSGG 248 query 119 --------RVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVD-------------- 156 ::::::: d1j93a_ 249 LLERLPLTGVDVVSL-------------------------------DWTVDMADGRRRLG 277 query 157 ---IALAICEDLWQDG------------------GRVPAARSAGA---GLLLSV---NAS 189 ::::: ::::: ::::: ::: d1j93a_ 278 PNVAIQGN--------VDPGVLFGSKEFITNRINDTVKK------AGKGKHIL-NLGHGI 322 query 190 PYERDKD-----DTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVAR 244 : ::::::::::: d1j93a_ 323 K------VGTPEENFAHFFEIAK------------------------------------- 339 query 245 APQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRL-- 302 d1j93a_ 340 ----------------------------------------------------------GL 341 query 303 -- 303 d1j93a_ 342 RY 343 TMalign alignment (TM-score: 0.44 Raw score:131.70) query 1 SLQLRL------------------------------------------------------ 6 ::::: d1j93a_ 1 -TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQP 59 query 7 ------ALNQIDSTVGDIAGN--------------------------------A---E-A 24 ::::::::::::::: : : : d1j93a_ 60 WKVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSVPY 119 query 25 ILRWTRHSAE--QGAHLVAFPEMAL-TG-YP-----VE--D-LAL---------RSSFVE 63 :::::::::: ::::::::::::: :: :: :: : ::: :::::: d1j93a_ 120 VGEALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQ 179 query 64 ASRTALRELAARLAEEGFGELPVLVGYLDRS--ESAQPKYGQPAGAPR-NAA-AV--LHR 117 :::::::::::::::: : ::::::::::: : :::::::::: ::: :: ::: d1j93a_ 180 KFATSMAKYIRYQADS-G--AQAVQIFDSWATE---L-SPVDFEEFSLPYLKQIVDSVKL 232 query 118 GRV-ALTFA-KHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAA 175 ::: ::::: :::::: : :::::::::: ::::::::::::::::: d1j93a_ 233 THPNLPLILYASGSGG------L--LERLPLTGVD--------VVSLDWTVDMADGRRRL 276 query 176 RSAGAGLLLSVNASPYERDKDD--TRLELVRKRAQEAGCT-TAYLA-MIGGQDELVFD-G 230 ::: : ::::::: ::::::: :::::::::::::::: ::::: ::: :::: : d1j93a_ 277 GPN-V--AIQGNVD-PGVLFGSKEFITNRINDTVKKAGKGKHILNLGHGI----KVGTPE 328 query 231 --DSIVVDRDGEVVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLP 288 ::::: ::::: ::: d1j93a_ 329 ENFAHFF---EIAKG-------------LRY----------------------------- 343 query 289 AYEAELAGGYADRL 302 d1j93a_ 344 -------------- 344 HHsearch alignment (Probability: 0.14 E-value:0.02) query 18 IAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSSFVEASRTALRELAARLA 77 ::::::::::::::::::::::::::::::::::::: ::::::::::::::::: d1j93a_ 178 LQKFATSMAKYIRYQADSGAQAVQIFDSWATELSPVD------FEEFSLPYLKQIVDSVK 231 query 78 EEGFGELPVLV 88 :::: :::::: d1j93a_ 232 LTHP-NLPLIL 241
Intermediate <-- 1.445 --> HitDALI alignment (Z-score: 11.6 Raw score:1415.30) d1j93a_ 1 tqpllLDAVRgkeverPPVWLMRQAGRYMKSYQLLCEKYP------lfrdrsenvdlVVE 54 ::::: :::::::::::::::::::::::: ::: d1ji2a3 1 -vfttPEWAK------EAVIYQIFPERFANGDPSNDPPGTeqwakdarprhdsfyggDLK 53 d1j93a_ 55 ISLQPWKVFR---PDGVILFSDI---------LTPLsgmnipfdiikgkgpvifdplrta 102 :::::::::: :::::::::: :::: d1ji2a3 54 GVIDRLPYLEelgVTALYFTPIFaspshhkydTADY------------------------ 89 d1j93a_ 103 advekvrefipeksvpyvGEALTILRKEVNN-QAAVLGFVGaPFTL-------------- 147 ::::::::::::: ::::::::: :::: d1ji2a3 90 ---------laidpqfgdLPTFRRLVDEAHRrGIKIILDAV-FNHAgdqffafrdvlqkg 139 d1j93a_ 148 ------------------asyvvEGGSSKNFTkikrlafaepkvlhaLLQK--FATSMAK 187 ::::::::: :::: ::::::: d1ji2a3 140 eqsrykdwffiedfpvsktsrtnYETFAVQVP----------ampklRTENpeVKEYLFD 189 d1j93a_ 188 YIRYQADSGAQAVQIFDSWAtelspvdfeeFSLPYLKQIVDSVKLTHPNLPLILYASgsg 247 :::::::::::::::::::: ::::::::::::::::::::::::::: d1ji2a3 190 VARFWMEQGIDGWRLDVANE----------VDHAFWREFRRLVKSLNPDALIVGEIW--- 236 d1j93a_ 248 GLLERLPL-TGVDVVSLD--WTVD-----------------maDGRRRLGPNV--AIQGN 285 :::::::: ::::::::: :::: :::::::::: ::::: d1ji2a3 237 HDASGWLMgDQFDSVMNYlfRESVirffatgeihaerfdaeltRARMLYPEQAaqGLWNL 296 d1j93a_ 286 VDP----GVLF---GSKEFITNRINDTVKKAgkgkHILNLghgikvgtpeeNFAH----- 333 ::: :::: ::::::::::::::::: ::::: :::: d1ji2a3 297 LDShdteRFLTscgGNEAKFRLAVLFQMTYL----GTPLI--------yygDEIGmagat 344 d1j93a_ 334 ------------------fFEIAK-GLRY--------- 343 ::::: :::: d1ji2a3 345 dpdcrrpmiweekeqnrglFEFYKeLIRLrhrlasltr 382 FAST alignment (Normalized score: 5.17 Raw score:1870.00) d1j93a_ 1 TQPLLLDAVRGKEVER---------PPVWLMRQAGRYMKSYQLLCEKYPLFRDRSE---- 47 ::::: :::: d1ji2a3 1 ----------------VFTTPEWAKEAVIY-QIFP---------------------ERFA 22 d1j93a_ 48 ----------------------------NVDLVVEISLQPWKVFRPDGVILFSDILTPLS 79 :::::::::::: :::::::::: d1ji2a3 23 NGDPSNDPPGTEQWAKDARPRHDSFYGGDLKGVIDRLPYL-EELGVTALYF--------- 72 d1j93a_ 80 GMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKS----------------------- 116 d1ji2a3 73 -------------------------------------TPIFASPSHHKYDTADYLAIDPQ 95 d1j93a_ 117 ---VPYVGEALTILRKEVNN-QAAVLGFVGAPFTLASYVVEGGSS--------------- 157 ::::::::::::: ::::::::: d1ji2a3 96 FGDLPTFRRLVDEAHR----RGIKIILDAV---------------FNHAGDQFFAFRDVL 136 d1j93a_ 158 -------------------------------KNFTKIKRLAFAEPKVLHAL-------LQ 179 ::::: :: d1ji2a3 137 QKGEQSRYKDWFFIEDFPVSKTSRTNYETFAVQVPA---------------MPKLRTENP 181 d1j93a_ 180 KFATSMAKYIRYQADSGAQAVQIFDSWATELSPVDFEEF--SLPYLKQIVDSVKLTHPNL 237 ::::::::::::::::::::::: :::: ::::::::::::::::::: d1ji2a3 182 EVKEYLFDVARFWMEQGIDGWRL--DVAN----------EVDHAFWREFRRLVKSLNPDA 229 d1j93a_ 238 PLILYAS-GSGGLLERLPLTGVDVVSLDWTVDMADGRRRLGPNVAIQGNV--DPGVL--- 291 ::::::: :::::: ::: ::::::: ::::: d1ji2a3 230 LIVGEIWHDASGWL--MGD-QFDSVMN-----------------------YLFRESVIRF 263 d1j93a_ 292 ----FGSKEFITNRINDTVKKAGK---GKHILNLGHGIKVG------------TPEENFA 332 :::::::::::::::::::: :::::::: ::::::: d1ji2a3 264 FATGEIHAERFDAELTRARMLYPEQAAQGLWNLLD------SHDTERFLTSCGGNEAKFR 317 d1j93a_ 333 HFFEIAKGLRY------------------------------------------------- 343 :::::::: d1ji2a3 318 LAVLFQMT---YLGTPLIYYGDEIGMAGATDPDCRRPMIWEEKEQNRGLFEFYKELIRLR 374 d1j93a_ 344 -------- 344 d1ji2a3 375 HRLASLTR 382 TMalign alignment (TM-score: 0.60 Raw score:205.36) d1j93a_ 1 ---TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPL---------------- 41 ::::: : ::::::::::::: ::::::::::: d1ji2a3 1 VFT----TPEWA-K-----EAVIYQIFPERFA-NGDPSNDPPGTEQWAKDARPRHDSFYG 49 d1j93a_ 42 FRDRSENVDLVVEISLQPWKVFR---PDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDP 98 :::::::::::::: :::::::::: : :::: :::::: d1ji2a3 50 ---------GDLKGVIDRLPYLEELGVTALYFTPIF-A---------SPSH-HKYDTA-- 87 d1j93a_ 99 LRTAADVEKVREFIPEKSVP---YVGEALTILRKEVNNQAAVLGFVGAPFTLAS-Y--V- 151 : : : ::: ::::::::::::::::::::::::::::::: : : d1ji2a3 88 ----------D-Y-L--AIDPQFGDLPTFRRLVDEAHRRGIKIILDAVFNHAGDQFFAFR 133 d1j93a_ 152 --------------VE------G-GS-----SKNFTKI--KRLAFAEPKVLHALLQKFAT 183 :: : :: ::::::: :: ::::: ::::: d1ji2a3 134 DVLQKGEQSRYKDWFFIEDFPVSKTSRTNYETFAVQVPAM--PK-----LRTEN-PEVKE 185 d1j93a_ 184 SMAKYIRYQADSGAQAVQIFDSWATELSPVDFEEFSLPYLKQIVDSVKLTHPNLPLILYA 243 :::::::::::::: :::::: ::: : ::::::::::::::: :::::::::: d1ji2a3 186 YLFDVARFWMEQGI-DGWRLD-VAN------E--VDHAFWREFRRLVKS-LNPDALIVGE 234 d1j93a_ 244 SGSGGLLERLPL-TGVDVVSLD--WTV-----------------DMADGRRRLGPNV--A 281 :::::::::: ::::::::: ::: ::::::::::::: : d1ji2a3 235 --IWHDASGWLMGDQFDSVMNYLFRESVIRFFATGEIHAERFDAELTRARMLYPEQAAQG 292 d1j93a_ 282 IQGNVDP----GVLF-G--SKEFITNRINDTVKKAGKGKHILNLGHGI-----------K 323 ::::::: :::: : :::::::::::::::: ::::::::: : d1ji2a3 293 LWNLLDSHDTERFLTSCGGNEAKFRLAVLFQMTYL----GTPLIYYGDEIGMAGATDPDC 348 d1j93a_ 324 VG-TP-----EEN-FAHFFEIAKGLR--Y----- 343 :: :: ::: :::::::::::: : d1ji2a3 349 RRPMIWEEKEQNRGLFEFYKELIRLRHRLASLTR 382 HHsearch alignment (Probability: 0.09 E-value:0.06) d1j93a_ 166 LAFAEPKVLHALLQKFATSMAKYIRYQADSGAQAVQIFDSWATELSPVDFEEFSLPYLKQ 225 ::::::::::::: :::::::::::::::: :: ::::::: :::: d1ji2a3 176 LRTENPEVKEYLF--------DVARFWMEQGIDGWRL-DV-ANEVDHA--------FWRE 217 d1j93a_ 226 IVDSVKLTHPNLPLILYASGSGGLLERLPLTGVDVV-SLDW------------------T 266 :::::::::::::::::: :::::::::::::::: :::: : d1ji2a3 218 FRRLVKSLNPDALIVGEI--WHDASGWLMGDQFDSVMNYLFRESVIRFFATGEIHAERFD 275 d1j93a_ 267 VDMADGRRRL-----GPNVAIQGNVDPGVL---FGSKEFITNRINDTVKKAGKGKHILN 317 :::::::::: ::::::::::::::: :::::::::::::::::::::::::: d1ji2a3 276 AELTRARMLYPEQAAQGLWNLLDSHDTERFLTSCGGNEAKFRLAVLFQMTYLGTPLIYY 334