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 | d1ogsa2 | Glucosylceramidase, catalytic 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 <-- 1.093 --> HitDALI alignment (Z-score: 10.9 Raw score:1354.50) d1j93a_ 1 tqpllldavrgkeveRPPVWLMRQ--AGRYMkSYQLLcekyplfrdrsenvdlvveislq 58 ::::::::: ::::: ::::: d1ogsa2 1 ---------------VKGFGGAMTdaAALNI-LALSP------------------paqnl 26 d1j93a_ 59 pWKVFR------PDGVILFSDI-------LTPLsGMNIpfdiikgkgpvifdplrtaadv 105 ::::: :::::::::: :::: :::: d1ogsa2 27 lLKSYFseegigYNIIRVPMAScdfsirtYTYA-DTPD---------------------- 63 d1j93a_ 106 eKVRE-FIPEksVPYVG-eALTILRKEVN---nQAAVLGFVGapftlasyVVEGGSSKNF 160 :::: :::: ::::: :::::::::: ::::::::: :::::::::: d1ogsa2 64 -DFQLhNFSL--PEEDTklKIPLIHRALQlaqrPVSLLASPW--tsptwlKTNGAVNGKG 118 d1j93a_ 161 tkikrlafaepKVLH--ALLQKFATSMAKYIRYQAD-SGAQ-AVQIFDSWATEL------ 210 :::: ::::::::::::::::::: :::: :::::::::::: d1ogsa2 119 ---------slKGQPgdIYHQTWARYFVKFLDAYAEhKLQFwAVTAENEPSAGLlsgypf 169 d1j93a_ 211 --spvDFEEfSLPYLK-QIVDSVKLT-HPNLPLIL-YASGSG--GLLERLP-----LTGV 258 :::: :::::: ::::::::: :::::::: :::::: ::::::: :::: d1ogsa2 170 qclgfTPEH-QRDFIArDLGPTLANStHHNVRLLMlDDQRLLlpHWAKVVLtdpeaAKYV 228 d1j93a_ 259 DVVSLDW--------tvDMADGRRRlGPNVAIQGnvDPGV-----------lfGSKEFIT 299 ::::::: :::::::: :::::::: :::: ::::::: d1ogsa2 229 HGIAVHWyldflapakaTLGETHRL-FPNTMLFAseACVGskfweqsvrlgswDRGMQYS 287 d1j93a_ 300 NRINDTVKKAgkgkHILNLghGIKV-------------------------gtPEENFAHF 334 :::::::::: ::::: :::: :::::::: d1ogsa2 288 HSIITNLLYH---vVGWTD-wNLALnpeggpnwvrnfvdspiivditkdtfyKQPMFYHL 343 d1j93a_ 335 FEIAKGLR--y 343 :::::::: d1ogsa2 344 GHFSKFIPegs 354 FAST alignment (Normalized score: 5.15 Raw score:1794.00) d1j93a_ 1 TQPLLLDAVRGKEVER-PPVWLMRQAGRYMKSYQLLCEKYPLFRDRSEN----------- 48 ::::: d1ogsa2 1 ----------------VKGFGG---------------------------AMTDAAALNIL 17 d1j93a_ 49 ---VDLVVEISLQPWK---VFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTA 102 :::::::::::: ::::::: d1ogsa2 18 ALSPPAQNLLLKSYF-SEEGIGYNII---------------------------------- 42 d1j93a_ 103 ADVEKVREFIPEKSV-----------------------------------PYVGEALTIL 127 :::::::::: d1ogsa2 43 ---------------RVPMASCDFSIRTYTYADTPDDFQLHNFSLPEEDTKLKIPLIHRA 87 d1j93a_ 128 RKEVNNQAAVLGFVGAPFTLASY---------VVEGGSSKNFTKIKRLAFAEPKVL---- 174 ::: ::::::::: :::::::: d1ogsa2 88 LQL--AQRPVSLLA---------SPWTSPTWLKTNGAVNG----------------KGSL 120 d1j93a_ 175 -----HALLQKFATSMAKYIRYQADS--GAQAVQIFD--SWAT------------ELSPV 213 ::::::::::::::::::::: :::::: :::: ::::: d1ogsa2 121 KGQPGDIYHQTWARYFVKFLDAYAEHKLQFWAVT---AENEPSAGLLSGYPFQCLGFTPE 177 d1j93a_ 214 DFEEFSLPYLKQIVDSVK-LTHPNLPLILYAS-------GSGGLLERLPLT------GVD 259 :::::::: ::::::: ::::::::: ::::::::::: ::: d1ogsa2 178 HQRDFIAR---DLGPTLANSTHHNVRLL----MLDDQRLLLPHWAKVVLT-DPEAAKYVH 229 d1j93a_ 260 VVSLDWTV------------DMADGRRRLGPNVAIQGNVDPGVLFG-------------- 293 :::: :::::::: :::::: d1ogsa2 230 GIAV----HWYLDFLAPAKATLGETHRL-FPNTML-----------FASEACVGSKFWEQ 273 d1j93a_ 294 --------SKEFITNRINDTVKKAGKGK---HILNLGHGIKVGT---------------- 326 :::::::::::::: :::: d1ogsa2 274 SVRLGSWDRGMQYSHSIITNLL------YHVVGWT---------DWNLALNPEGGPNWVR 318 d1j93a_ 327 --------------------PEENFAHFFEIAKGLRY----- 343 ::::::::::: d1ogsa2 319 NFVDSPIIVDITKDTFYKQPMFYHLGHFSKF------IPEGS 354 TMalign alignment (TM-score: 0.59 Raw score:202.93) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVD--LVVE-ISL 57 :: ::::::::::::::: :: : : :: :: d1ogsa2 1 -------VK--------GFGGAMTDAAALNIL-AL--S-----------PPA--QNL-LL 28 d1j93a_ 58 Q-PWK--VFRPDGVILFSDILT-PLSGMNIPFDI-IKGKGPVIFDPLRTAADVEKVREFI 112 : ::: ::::::::: :::: : ::::::::::: ::: ::::: d1ogsa2 29 KSYFSEEGIGYNIIRV--PMASC----------DF-SIRTYTYADTP----DDF-QLHNF 70 d1j93a_ 113 PEKSVPYV-GEALTILRKEVNNQAAVLGFVGAPFTLASYVV-EGGSSKNFTKIKRLAFAE 170 :::::::: ::::::::::::::::::::::: ::::::: :::::::: :: :: d1ogsa2 71 SLPEEDTKLKIPLIHRALQLAQRPVSLLASPW--TSPTWLKTNGAVNGKG--SL-KG--- 122 d1j93a_ 171 PKVLHALLQKFATSMAKYIRYQAD-SGAQAVQIFDSWAT------------ELSPVDFEE 217 :: ::::::::::::::::::::: :::::::::::::: ::::::::: d1ogsa2 123 QP-GDIYHQTWARYFVKFLDAYAEHKLQFWAVTAENEPSAGLLSGYPFQCLGFTPEHQRD 181 d1j93a_ 218 FSLPYLKQIVDSVKLTHPNLPLILYASGS-G--GLLE-RL----PLTGVDVVSLDW---- 265 ::::::::::::: :::::::::::::: : :::: :: :::::::::::: d1ogsa2 182 FIARDLGPTLANS--THHNVRLLMLDDQRLLLPHWAKVVLTDPEAAKYVHGIAVHWYLDF 239 d1j93a_ 266 -T-V--DMADGRRRLGPNVAIQGNVDPGV-----------LFGSKEFITNRINDTVKKAG 310 : : :::::::: :::::::::::::: :::::::::::::::::::: d1ogsa2 240 LAPAKATLGETHRL-FPNTMLFASEACVGSKFWEQSVRLGSWDRGMQYSHSIITNLLYHV 298 d1j93a_ 311 KGKHILNLGHGI-------------KVGTP------------EENFAHFFEIAKGLR--Y 343 ::::: ::: ::::: ::::::::::::::: : d1ogsa2 299 ---VGWTD-WNLALNPEGGPNWVRNFVDSPIIVDITKDTFYKQPMFYHLGHFSKFIPEGS 354 HHsearch alignment (Probability: 0.82 E-value:0.00) d1j93a_ 72 SDILTPLSGMNIPFDIIKGKGPVIFDPL----RTAADVEKVREFIP-EKSVPYVGEALTI 126 :::::::::::::::::::::::::::: ::::::: :::::: ::::::::::::: d1ogsa2 28 LKSYFSEEGIGYNIIRVPMASCDFSIRTYTYADTPDDFQ-LHNFSLPEEDTKLKIPLIHR 86 d1j93a_ 127 LRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQKFATSMA 186 ::::::::::: :::::::::::::::::::::::: :::::::::::::::: d1ogsa2 87 ALQLAQRPVSL---LASPWTSPTWLKTNGAVNGKGSLK------GQPGDIYHQTWARYFV 137 d1j93a_ 187 KYIRYQADSGAQAVQIF---D---------SWATE-LSPVDFEEFSLPYLKQIVDSVKLT 233 ::::::::::::::::: : ::::: :::::::::::::::::::: :: d1ogsa2 138 KFLDAYAEHKLQFWAVTAENEPSAGLLSGYPFQCLGFTPEHQRDFIARDLGPTLAN--ST 195 d1j93a_ 234 HPNLPLILYASGSG---GLLERL-----PLTGVDVVSLDWT--------VDMADGRRRLG 277 :::::::::::::: :::::: ::::::::::::: ::::::::::: d1ogsa2 196 HHNVRLLMLDDQRLLLPHWAKVVLTDPEAAKYVHGIAVHWYLDFLAPAKATLGETHRLFP 255 d1j93a_ 278 PNVAIQG-------NVDPGVLFGSKEFITNRINDTVKKAG 310 ::::::: :::::::::::::::::::::::::: d1ogsa2 256 NTMLFASEACVGSKFWEQSVRLGSWDRGMQYSHSIITNLL 295