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 | d1qw9a2 | Alpha-L-arabinofuranosidase, 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 <-- 1.416 --> HitDALI alignment (Z-score: 11.8 Raw score:1422.10) d1j93a_ 1 tqpllldavrgkevERPP--VWLMRQ----AGRYmksyqlLCEKyplfrdrsenvdlvve 54 :::: :::::: :::: :::: d1qw9a2 1 --------------EIDKriYGSFIEhlgrAVYG---giyEPGH------pqadengfrq 37 d1j93a_ 55 islqpWKVFRPDGVILF----sdILTPLS----gmniPFDI-ikgKGPVifdplrtaadv 105 :::::::::::: :::::: :::: :::: d1qw9a2 38 dvielVKELQVPIIRYPggnfvsGYNWEDgvgpkeqrPRRLdlawKSVE----------- 86 d1j93a_ 106 ekvrefipeksvpYVGEALtILRKEVnnQAAVLGFVGaPFTLasyvveggssknftkikr 165 :::::: :::::: ::::::::: :::: d1qw9a2 87 ---------tneiGLNEFM-DWAKMV--GAEVNMAVN-LGTR------------------ 115 d1j93a_ 166 lafaepkvlhallqkFATSMAKYIRYQAD------------------SGAQAVQIFDSwA 207 :::::::::::::: ::::::::::: : d1qw9a2 116 ---------------GIDAARNLVEYCNHpsgsyysdlriahgykepHKIKTWCLGNA-M 159 d1j93a_ 208 TEL---spvDFEEfSLPYLKQIVDSVKLTHPNLPLILYASG------SGGLLER-LPLT- 256 ::: :::: ::::::::::::::::::::::::::: ::::::: :::: d1qw9a2 160 DGPwqighkTAVE-YGRIACEAAKVMKWVDPTIELVVCGSSnrnmptFAEWEATvLDHTy 218 d1j93a_ 257 -GVDVVSLDW-------------------tvDMADGRRRLG---------PNVAIQGnvD 287 ::::::::: :::::::::: ::::::: : d1qw9a2 219 dHVDYISLHQyygnrdndtanylalslemddFIRSVVAIADyvkakkrskKTIHLSFdeW 278 d1j93a_ 288 PGV------------------------lfGSKEFITNRINDTVKkaGKGK-HILNLgHGI 322 ::: ::::::::::::::: :::: ::::: ::: d1qw9a2 279 NVWyhsneadkliepwtvappllediynfEDALLVGCMLITLMK--HADRvKIACL-AQL 335 d1j93a_ 323 KV------------gtPEENFAHFFEIAKGLRy 343 :: :::::::::::::::: d1qw9a2 336 VNviapimtekngpawKQTIYYPFMHASVYGR- 367 FAST alignment (Normalized score: 5.22 Raw score:1850.00) d1j93a_ 1 TQPLLLDAVRGKEVERP-----PVWLMRQAGRYMKSYQLLCEKYPLF-----RDRSENVD 50 :::: :::: d1qw9a2 1 -----------------EIDKRIYGS---------------------FIEHLGRAV---- 18 d1j93a_ 51 LVVEISLQP------------------------WKVFRPDGVILFSD---ILTPLSGMNI 83 :::::::::: ::::: d1qw9a2 19 ---------YGGIYEPGHPQADENGFRQDVIELVKELQVPIIR----YPGGNFVS----- 60 d1j93a_ 84 PFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSVP------------------------- 118 ::::: d1qw9a2 61 --------------------------GYNWE----DGVGPKEQRPRRLDLAWKSVETNEI 90 d1j93a_ 119 YVGEALTILRKEVNN-QAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLHAL 177 ::::::::::: ::::::::: d1qw9a2 91 GLNEFMDWAKM----VGAEVNMAVN----------------------------------- 111 d1j93a_ 178 LQK----FATSMAKYIRYQAD--------------------SGAQAVQIFDSWATELSPV 213 :::::::::::: ::::::: d1qw9a2 112 ---LGTRGIDAARNLVEYC--NHPSGSYYSDLRIAHGYKEPHKIKTWC------------ 154 d1j93a_ 214 DF---------------EEFSLPYLKQIVDSVKLTHPNLPLILYASG---------SGGL 249 ::::::::::::::::::::::::::: :::: d1qw9a2 155 --LGNAMDGPWQIGHKTAVEYGRIACEAAKVMKWVDPTIELVVC---GSSNRNMPTFAEW 209 d1j93a_ 250 LERLPLT----GVDVVSLDWTV-----------------------DMADGRRRLGP---- 278 :::::: ::::::: :::::::: d1qw9a2 210 EATVLD-HTYDHVDYISL----HQYYGNRDNDTANYLALSLEMDDFIRSVVAI---ADYV 261 d1j93a_ 279 --------NVAIQGNVDPGVLFG-----------------------------------SK 295 :::: :: d1qw9a2 262 KAKKRSKKTIHL-----------SFDEWNVWYHSNEADKLIEPWTVAPPLLEDIYNFEDA 310 d1j93a_ 296 EFITNRINDTVKKAGKGK----HILNLGHGIKVGT-----------------------PE 328 ::::::::::::: :::: :: d1qw9a2 311 LLVGCMLITLMKH-----ADRVKIAC---------LAQLVNVIAPIMTEKNGPAWKQTIY 356 d1j93a_ 329 ENFAHFFEIAKGLRY- 343 :::::::::: d1qw9a2 357 YPFMHASVYG-----R 367 TMalign alignment (TM-score: 0.49 Raw score:168.75) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAG-RYMK--SYQL--------L-------------- 35 :::::::::::::: :::: :::: : d1qw9a2 1 ------------EIDKRIYGSFIEHLGRAVYGGIYEPGHPQADENGFRQDVIELVKELQV 48 d1j93a_ 36 ------------------C---EK-YPLFR------DRSENVDLVVEISLQPWKVFRPDG 67 : :: ::::: ::::: ::::::::::::: :: : d1qw9a2 49 PIIRYPGGNFVSGYNWEDGVGPKEQRPRRLDLAWKSVETNE-IGLNEFMDWAKMV-GA-E 105 d1j93a_ 68 VILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSVPYVGEALTI- 126 ::::::::::: ::: ::::::::::: d1qw9a2 106 VNMAVNLGTRG--------------------------------IDA--ARNLVEYCNHPS 131 d1j93a_ 127 ------------L-RKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKV 173 : :::: :::::::: ::: :: : ::: : : : d1qw9a2 132 GSYYSDLRIAHGYK-EPHK---IKTWCLGN-AMD-GP--W-QIG--H--K---T------ 169 d1j93a_ 174 LHALLQKFATSMAKYIRYQADSGAQAVQIFDSWATELSPVDFEEFSLPYLKQIVDSVKLT 233 :: :::::::::::::::::: :: ::::::::::::::: :: ::::::::::: :: d1qw9a2 170 AV-EYGRIACEAAKVMKWVDP-TI-ELVVCGSSNRNMPTF-AE-WEATVLDHTYD-HV-- 221 d1j93a_ 234 HPNLPLILYASG-------------SGGLLERLPLTGVDVVSLDWTVDMADGRRRLGP-- 278 :::::::: :::::::::::::: d1qw9a2 222 ----DYISLHQYYGNRDNDTANYLA-------------------LSLEMDDFIRSVVAIA 258 d1j93a_ 279 N------------VAIQG-NVDPGV-------------------LFGSKEFITNRINDTV 306 : ::::: :::::: :::: ::::::::::: d1qw9a2 259 DYVKAKKRSKKTIHLSFDEWNVWYHSNEADKLIEPWTVAPPLLEDIYN-FEDALLVGCML 317 d1j93a_ 307 KKA-GKGK-H-ILNLGHGI-KVGT--P------EENF--AHFFEIAKGLRY 343 ::: :::: : :::: ::: :::: : :::: :::::::::::: d1qw9a2 318 ITLMKHADRVKIACL-AQLVNVIAPIMTEKNGPAWKQTIYYPFMHASVYGR 367 HHsearch alignment (Probability: 0.02 E-value:0.09) d1j93a_ 82 NIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSVPYVGEALTILRKEVNNQAAVLGF- 140 :::::::::::::::::::::::::::::: :::: ::::::::: :::: ::::: d1qw9a2 59 VSGYNWEDGVGPKEQRPRRLDLAWKSVETN----EIGL-NEFMDWAKM-VGAE-VNMAVN 111 d1j93a_ 141 VGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQKFATSMA-KYIRYQADSG--- 196 ::: :::::::::::::::::: :::::::::: d1qw9a2 112 LGT-------------------------RGIDAARNLVEYCNHPSGSYYSDLRIAHGYKE 146 d1j93a_ 197 ---AQAVQIFD-SWA----TELSPVDFEEFSLPYLKQIVDSVKLTHPNLPLIL 241 :::::::: ::: :::::::::: :::::::::::::::::::: d1qw9a2 147 PHKIKTWCLGNAMDGPWQIGHKTAVEYGR----IACEAAKVMKWVDPTIELVV 195