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 | d1r7aa2 | Sucrose phosphorylase | (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 <-- 1.124 --> HitDALI alignment (Z-score: 10.8 Raw score:1378.50) d1j93a_ 1 tqpllldavrgkeverPPVWLMRQAGRyMKSYqllcekyplfrdrsenvdLVVEISLQPW 60 ::::::::::: :::: :::::::::: d1r7aa2 1 --------------mkNKVQLITYADR-LGDG------------------TIKSMTDILR 27 d1j93a_ 61 KVFR--PDGVILFS----------DILTPLsgmnipfdiikgkgpvifdplrtaadvekv 108 :::: :::::::: :::::: d1r7aa2 28 TRFDgvYDGVHILPfftpfdgadaGFDPID------------------------------ 57 d1j93a_ 109 refipeksVPYV--geALTILRKEVNnQAAVLGFVGAPftLASY---------------- 150 :::: :::::::::: ::::::::::: :::: d1r7aa2 58 -------hTKVDerlgSWDDVAELSK-THNIMVDAIVN--HMSWeskqfqdvlakgeese 107 d1j93a_ 151 ----VVEG------------------gssKNFTK--------ikrlafaepkvlhaLLQK 180 :::: ::::: :::: d1r7aa2 108 yypmFLTMssvfpngateedlagiyrprpGLPFThykfagktrlvwvsftpqqvdiDTDS 167 d1j93a_ 181 --FATSMAKYIRYQADSGAQAVQIFDSWA---telSPVDFEEFSLPYLKQIVDSVKLTHp 235 ::::::::::::::::::::::::::: :::::::::::::::::::::::: d1r7aa2 168 dkGWEYLMSIFDQMAASHVSYIRLDAVGYgakeagTSCFMTPKTFKLISRLREEGVKRG- 226 d1j93a_ 236 nLPLILYASGSGGLLERLPLtGVDVVSLDwtVDMA---------------dGRRRLGpnV 280 ::::::::::::::::::: :::::::: :::: :::::: : d1r7aa2 227 -LEILIEVHSYYKKQVEIAS-KVDRVYDF--ALPPlllhalstghvepvahWTDIRP--N 280 d1j93a_ 281 AIQGNVD----------------------------------------------------- 287 ::::::: d1r7aa2 281 NAVTVLDthdgigvidigsdqldrslkglvpdedvdnlvntihanthgesqaatgaaasn 340 d1j93a_ 288 -------pGVLF---GSKEFITNRINDTVKKAgkgkHILNLghGIKV------------- 324 :::: ::::::::::::::::: ::::: :::: d1r7aa2 341 ldlyqvnsTYYSalgXNDQHYIAARAVQFFLP----GVPQV--YYVGalagkndmellrk 394 d1j93a_ 325 -------------------gtpEENFAHFFEIAKGLR--y 343 ::::::::::::::: d1r7aa2 395 tnngrdinrhyystaeidenlkRPVVKALNALAKFRNeld 434 FAST alignment (Normalized score: 5.46 Raw score:2108.00) d1j93a_ 1 TQPLLLDAVRGKEVER--PPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVD------LV 52 ::::: :::: :: d1r7aa2 1 ----------------MKNKVQL-ITYA------------------------DRLGDGTI 19 d1j93a_ 53 VEISLQPWKVF--RPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVRE 110 ::::::::::: ::::::: d1r7aa2 20 KSMTDILRTRFDGVYDGVHI---------------------------------------- 39 d1j93a_ 111 ----------------FIPEKSVPY-------VGEALTILRKEVNNQAAVLGFVGAPFTL 147 :::: ::::::::: :::::::::: d1r7aa2 40 LPFFTPFDGADAGFDPIDHT-----KVDERLGSWDDVAELS----KTHNIMVDAI----- 85 d1j93a_ 148 ASYVVEGGSSKNFTK----------------------------IKRLAFAEPKVLHAL-- 177 ::::: d1r7aa2 86 ---------------VNHMSWESKQFQDVLAKGEESEYYPMFLTMSSV----------FP 120 d1j93a_ 178 ----------------------------------------------LQKFATSMAKYIRY 191 :::::::::::::: d1r7aa2 121 NGATEEDLAGIYRPRPGLPFTHYKFAGKTRLVWVSFTPQQVDIDTDSDKGWEYLMSIFDQ 180 d1j93a_ 192 QADSGAQAVQIFDSWATELSPV----------DFEEFSLPYLKQIVDSVKLTHPNLPLIL 241 ::::::::::: :::: ::::::::::::::::::: ::::::: d1r7aa2 181 MAASHVSYIRL--DAVG-----YGAKEAGTSCFMTPKTFKLISRLREEGVK--RGLEILI 231 d1j93a_ 242 YASGS---GGLLERLPLTGVDVVSLDWTV-----------------DMADGRRRLGPNV- 280 :: ::::::::: ::::::: ::::::: d1r7aa2 232 EV---HSYYKKQVEIAS-KVDRVYD----FALPPLLLHALSTGHVEPVAHWTD------I 277 d1j93a_ 281 ---AIQGNVDP------------------------------------------------- 288 ::::: d1r7aa2 278 RPNNAVTV---LDTHDGIGVIDIGSDQLDRSLKGLVPDEDVDNLVNTIHANTHGESQAAT 334 d1j93a_ 289 --------------GVLF---GSKEFITNRINDTVKKAGKGK--HILNLGHGIKVGTP-- 327 :::: ::::::::::::::: :::: d1r7aa2 335 GAAASNLDLYQVNSTYYSALGANDQHYIAARAVQFF------LPGVPQ----------VY 378 d1j93a_ 328 --------------------------------------EENFAHFFEIAKGLRY----- 343 ::::::::::::: d1r7aa2 379 YVGALAGKNDMELLRKTNNGRDINRHYYSTAEIDENLKRPVVKALNALAKF---RNELD 434 TMalign alignment (TM-score: 0.58 Raw score:198.86) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQPW 60 ::: :::::::::::: :: :::::::::: d1r7aa2 1 -----MKN---------KVQLITYADRLG-DG------------------TIKSMTDILR 27 d1j93a_ 61 KVFR--PDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSV- 117 :::: :::::::::: : :::: :::::::: ::: :: d1r7aa2 28 TRFDGVYDGVHILPFF-T--------PFDG-ADAGFDPI-------------DHT--KVD 62 d1j93a_ 118 P--YVGEALTILRKEVNNQAAVLGFVGAPFTLASY---V---------------VEG--- 154 : ::::::::::: : :::::::: ::::::: : ::: d1r7aa2 63 ERLGSWDDVAELSK-T---HNIMVDAI-VNHMSWESKQFQDVLAKGEESEYYPMFLTMSS 117 d1j93a_ 155 ----------------GSSKNFTKIK---------RLAF------AEPKVLHALLQ-KFA 182 :::::::: :::: ::::::: ::: d1r7aa2 118 VFPNGATEEDLAGIYR--PRPGLPFTHYKFAGKTRLVWVSFTPQQ----VDIDTDSDKGW 171 d1j93a_ 183 TSMAKYIRYQADSGAQAVQIFDSWAT-EL--SPVDFEE-FSLPYLKQIVDSVKLTHPNLP 238 :::::::::::::::::::::::::: : ::::::: ::::::::::::::::: :: d1r7aa2 172 EYLMSIFDQMAASHVSYIRLDAVGYGA-KEAGTSCFMTPKTFKLISRLREEGVKRG--LE 228 d1j93a_ 239 LILYASGSGGLLERLPLTGVDVVSLD--WTVD-----------MADGRRRLGPNVAIQGN 285 ::::::::::::::::: :::::::: :::: :::::::::: : :::: d1r7aa2 229 ILIEVHSYYKKQVEIAS-KVDRVYDFALPPLLLHALSTGHVEPVAHWTDIRPN-N-AVTV 285 d1j93a_ 286 VDP--------------------------------------------------------- 288 ::: d1r7aa2 286 LDTHDGIGVIDIGSDQLDRSLKGLVPDEDVDNLVNTIHANTHGESQAATGAAASNLDLYQ 345 d1j93a_ 289 ---GVLF---GSKEFITNRINDTVKKAGKGKHILNLGHGI-------------------- 322 :::: ::::::::::::::: :: ::::::::: d1r7aa2 346 VNSTYYSALGANDQHYIAARAVQFF-LP---GVPQVYYVGALAGKNDMELLRKTNNGRDI 401 d1j93a_ 323 KVG-T------PE--E-NFAHFFEIAKGL--RY 343 ::: : :: : :::::::::::: :: d1r7aa2 402 NRHYYSTAEIDENLKRPVVKALNALAKFRNELD 434 HHsearch alignment (Probability: 0.07 E-value:0.01) d1j93a_ 166 LAFAEPKVLHALLQKFATSMAKYIRYQADSGAQAVQIFDSWATEL 210 ::::::::::::: ::::::::::::::: :::::::: d1r7aa2 163 IDTDSDKGWEYLM--------SIFDQMAASHVSYIR-LDAVGYGA 198