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 | d1eh9a3 | Glycosyltrehalose trehalohydrolase, 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 <-- 1.271 --> HitDALI alignment (Z-score: 11.0 Raw score:1354.90) d1j93a_ 1 --tqplLLDAvrgkeverPPVWLMRqagrymksYQLLcekyplfrdrseNVDLVVEIsLQ 58 :::: ::::::: :::: :::::::: :: d1eh9a3 1 fnnetfLKKE--------DLIIYEI---hvgtfTPEG------------TFEGVIRK-LD 36 d1j93a_ 59 PWKVFRPDGVILFSDILtplsgmnipFDIIkgkgpvifdplrtaadvekvrEFIP---ek 115 ::::::::::::::::: :::: :::: d1eh9a3 37 YLKDLGITAIEIMPIAQ--------fPGKR-------------dwgydgvyLYAVqnsyg 75 d1j93a_ 116 SVPYVGEALTILRKEVnnqAAVLGFVGapFTLAsyvvEGGS--sknftkIKRLAF----- 168 :::::::::::::::: :::::::: :::: :::: :::::: d1eh9a3 76 GPEGFRKLVDEAHKKG---LGVILDVV--YNHV---gPEGNymvklgpyFSQKYKtpwgl 127 d1j93a_ 169 ---aePKVLHALLQKFATSMAKYIRYQAdsgAQAVQIF-DSWAtelspvDFEEfslPYLK 224 ::::::::::::::::::::::: ::::::: :::: :::: :::: d1eh9a3 128 tfnfdDAESDEVRKFILENVEYWIKEYN---VDGFRLDaVHAI------IDTS-pkHILE 177 d1j93a_ 225 QIVDSVKLthPNLPLILYAsgSGGLlERLP------LTGVDVVSLD--WTVD-------- 268 :::::::: ::::::::: :::: :::: :::::::::: :::: d1eh9a3 178 EIADVVHK--YNRIVIAES--DLND-PRVVnpkekcGYNIDAQWVDdfHHSIhayltger 232 d1j93a_ 269 ---------------MADGRR----------------RLGPNV--AIQGNVD-------- 287 :::::: :::::: ::::::: d1eh9a3 233 qgyytdfgnlddivkSYKDVFvydgkysnfrrkthgePVGELDgcNFVVYIQnhdqvgnr 292 d1j93a_ 288 ---pGVLF-GSKEFITNRINDTVKKAgkgkHILNLgHGIK-------------------- 323 :::: ::::::::::::::::: ::::: :::: d1eh9a3 293 gkgeRIIKlVDRESYKIAAALYLLSP----YIPMI-FMGEeygeenpfyffsdfsdskli 347 d1j93a_ 324 -----------------------------VGTPEENFAHFFEIAKGLRY---- 343 :::::::::::::::::::: d1eh9a3 348 qgvregrkkengqdtdpqdestfnasklsWKIDEEIFSFYKILIKMRKElsia 400 FAST alignment (Normalized score: 5.11 Raw score:1894.00) d1j93a_ 1 TQPLLLDAVRGKEVER----------PPVWLMRQA-GRYMKSYQLLCEKYPLFRDRSE-- 47 ::::: ::: ::::: d1eh9a3 1 ----------------FNNETFLKKEDLIIY-EIHVGTFTP-----------------EG 26 d1j93a_ 48 NVDLVVEISLQPWKVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEK 107 :::::::::::: :::::::::: d1eh9a3 27 TFEGVIRKLDYL-KDLGITAIEI------------------------------------- 48 d1j93a_ 108 VREFIPEKS----------------------------VPYVGEALTILRKEVNN-QAAVL 138 ::::::::::::: ::::: d1eh9a3 49 ---------MPIAQFPGKRDWGYDGVYLYAVQNSYGGPEGFRKLVDEAHK----KGLGVI 95 d1j93a_ 139 GFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVL------------------------ 174 :::: d1eh9a3 96 LDVV--------------------------------YNHVGPEGNYMVKLGPYFSQKYKT 123 d1j93a_ 175 ---------HALLQKFATSMAKYIRYQA-DSGAQAVQIFDSWATELSPVDFEEFSL---- 220 ::::::::::::::::::: ::::::::: d1eh9a3 124 PWGLTFNFDDAESDEVRKFILENVEYWIKEYNVDGFRL------------------DAVH 165 d1j93a_ 221 --------PYLKQIVDSVKLTHPNLPLILYASGSGGL---LERLP-------LTGVDVVS 262 :::::::::::: ::::::::: :::: :::::::: d1eh9a3 166 AIIDTSPKHILEEIADVVHK--YNRIVIAES------DLNDPRV-VNPKEKCGYNIDAQW 216 d1j93a_ 263 LDWTV--------------------------DMADGRRRLGPNVAI-------------- 282 : ::::::: d1eh9a3 217 V----DDFHHSIHAYLTGERQGYYTDFGNLDDIVKSYK--------DVFVYDGKYSNFRR 264 d1j93a_ 283 --------------QGNVDPGVL------------------FGSKEFITNRINDTVKKAG 310 :::: :::::::::::::::: d1eh9a3 265 KTHGEPVGELDGCNFVVY-----IQNHDQVGNRGKGERIIKLVDRESYKIAAALYLL--- 316 d1j93a_ 311 KGK--HILNLGHGIKVGT------------------------------------------ 326 :::: d1eh9a3 317 ---SPYIPM---------IFMGEEYGEENPFYFFSDFSDSKLIQGVREGRKKENGQDTDP 364 d1j93a_ 327 ------------------PEENFAHFFEIAKGLRY--- 343 ::::::::::::::: d1eh9a3 365 QDESTFNASKLSWKIDEEIFSFYKILIKMRKEL--SIA 400 TMalign alignment (TM-score: 0.58 Raw score:198.68) d1j93a_ 1 ---TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISL 57 ::::: : : :::::::::::::::: : ::::: d1eh9a3 1 FNN--ETFLK-K-E-----DLIIYEIHVGTFTPEG------------------T-FEGVI 32 d1j93a_ 58 QPWKVFR---PDGVILFSDILTPLSGMNIPFDIIKGK-GPVIFDPLRTAADVEKVREFIP 113 ::::::: :::::::::: : ::::::: :::: : : : d1eh9a3 33 RKLDYLKDLGITAIEIMPIA-Q--------FPGKRDWGYDGV-------------Y-L-Y 68 d1j93a_ 114 EKSVP---YVGEALTILRKEV-NNQAAVLGFVGAPFTLASYVVEGG-------SSKNFTK 162 ::: ::::::::::::: :::::::::::: ::: :::::: d1eh9a3 69 --AVQNSYGGPEGFRKLVDEAHKKGLGVILDVVY-NHV--GPEGNYMVKLGPY------- 116 d1j93a_ 163 IKRLAFA---EPKVLHA-LLQKFATSMAKYIRYQAD-SGAQAVQIFDSWATELSPVDFEE 217 ::::::: ::::::: :::::::::::::::::: ::::::::: : :: : :::: d1eh9a3 117 FSQKYKTPWGLTFNFDDAESDEVRKFILENVEYWIKEYNVDGFRLD-A-VH-A---IIDT 170 d1j93a_ 218 F-SLPYLKQIVDSVKLTHPNLPLILYASGSGGLLERLP------LTGVDVVSLD--WTV- 267 : ::::::::::::: : :::::::: : ::::::: :::::::::: ::: d1eh9a3 171 SP-KHILEEIADVVHK-Y-NRIVIAES--D-LNDPRVVNPKEKCGYNIDAQWVDDFHHSI 224 d1j93a_ 268 --------------------D--MA-DGR--R-------------RLG-PN-VAIQGNVD 287 : :: ::: : ::: :: :::::::: d1eh9a3 225 HAYLTGERQGYYTDFGNLDDIVKSYKDVFVYDGKYSNFRRKTHGEPVGELDGCNFVVYIQ 284 d1j93a_ 288 P-----------GVLF-GSKEFITNRINDTVKKAGKGKHILNLGHGI------KV----- 324 : :::: ::::::::::::::: :: ::::::::: :: d1eh9a3 285 NHDQVGNRGKGERIIKLVDRESYKIAAALYLL-SP---YIPMIFMGEEYGEENPFYFFSD 340 d1j93a_ 325 --------------------------------G-TP-EEN--FAHFFEIAKGL--RY--- 343 : :: ::: ::::::::::: :: d1eh9a3 341 FSDSKLIQGVREGRKKENGQDTDPQDESTFNASKLSWKIDEEIFSFYKILIKMRKELSIA 400 HHsearch alignment (Probability: 0.32 E-value:0.01) d1j93a_ 294 SKEFITNRINDTVKK 308 ::::::::::::::: d1eh9a3 379 IDEEIFSFYKILIKM 393