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 | d1adoa_ | Fructose-1,6-bisphosphate aldolase | Aldolase | 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 <-- 1.039 --> HitDALI alignment (Z-score: 10.7 Raw score:1331.30) d1j93a_ 1 -----------------tqpLLLDavrgkeveRPPVWLMR----qaGRYMK--syQLLCe 37 :::: :::::::: ::::: :::: d1adoa_ 1 phshpaltpeqkkelsdiahRIVA--------PGKGILAAdestgsIAKRLqsigTENT- 51 d1j93a_ 38 kyplfrdrsenvDLVVEISLQPWKV-----frPDGVILFSdiltplsgmnipfdiikgkg 92 ::::::::::::: :::::::: d1adoa_ 52 -----------eENRRFYRQLLLTAddrvnpcIGGVILFH-------------------- 80 d1j93a_ 93 pvifdplrtaadvekvrefipeksvpyvgEALT-------ILRKEV-NNQAAVLGFVGAp 144 :::: :::::: :::::::::::: d1adoa_ 81 -----------------------------ETLYqkaddgrPFPQVIkSKGGVVGIKVDK- 110 d1j93a_ 145 fTLASyvveggssknftkiKRLAFaepkvlhallqkFATSMAKYIRYQADSGAQAVQIFD 204 :::: ::::: :::::::::::::::::::::::: d1adoa_ 111 -GVVP--------------LAGTN------getttqGLDGLSERCAQYKKDGADFAKWRC 149 d1j93a_ 205 sWATE----LSPVDFEEfSLPYLKQIVDSVKLTHpnLPLILYASG--------------S 246 :::: :::::::: :::::::::::::::: ::::::::: : d1adoa_ 150 -VLKIgehtPSALAIME-NANVLARYASICQQNG--IVPIVEPEIlpdgdhdlkrcqyvT 205 d1j93a_ 247 GGLLERLPLTG--------vDVVSLDWTV-----------------DMADGRRRLGPNV- 280 ::::::::::: ::::::::: ::::::::::::: d1adoa_ 206 EKVLAAVYKALsdhhiylegTLLKPNMVTpghactqkysheeiamaTVTALRRTVPPAVt 265 d1j93a_ 281 AIQGNVDPGVLfgskEFITNRINDTVKK--aGKGKHILNlgHGIKvgTPEE--------- 329 ::::::::::: ::::::::::::: :::::::: :::: :::: d1adoa_ 266 GVTFLSGGQSE----EEASINLNAINKCpllKPWALTFS--YGRAlqASALkawggkken 319 d1j93a_ 330 ------NFAHFFEIAKGL------------------------ry 343 :::::::::::: d1adoa_ 320 lkaaqeEYVKRALANSLAcqgkytssgqagaaaseslfisnhay 363 FAST alignment (Normalized score: 5.62 Raw score:1983.00) d1j93a_ 1 TQPLLLDAVRGKEVER-------------------------PPVWLMR---QAGRYMKSY 32 ::::: ::::: d1adoa_ 1 ----------------PHSHPALTPEQKKELSDIAHRIVAPGKGIL--AADESTGS---- 38 d1j93a_ 33 QLLCEKYPLFRDRS-----------ENVDLVVEISLQPWKVFR---------PDGVILFS 72 :::::::::::::: :::::: d1adoa_ 39 --------------IAKRLQSIGTENTEENRRFYRQLLL----TADDRVNPCIGGVIL-- 78 d1j93a_ 73 DILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSVPYVGEALT------- 125 ::::: d1adoa_ 79 -----------------------------------------------FHETL-YQKADDG 90 d1j93a_ 126 -ILRKEVNN----QAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQK 180 ::::: ::::::: d1adoa_ 91 RPFPQV---IKSKGGVVGIK---------------------------------------- 107 d1j93a_ 181 ------------------FATSMAKYIRYQADSGAQAVQIFDSWATELS---------PV 213 :::::::::::::::::::::::: :: d1adoa_ 108 VDKGVVPLAGTNGETTTQGLDGLSERCAQYKKDGADFAKWRC-------VLKIGEHTPSA 160 d1j93a_ 214 DFEEFSLPYLKQIVDSVKLTHPNLPLILYASG----------------SGGLLERLPLTG 257 ::::::::::::::::::: ::::::::: :::::::::: d1adoa_ 161 LAIMENANVLARYASICQQ--NGIVPIVEP--EILPDGDHDLKRCQYVTEKVLAAVYK-- 214 d1j93a_ 258 V-----------DVVSLDWTV----------------DMADGRRR----LGPNVAIQGNV 286 :::::: :::::::: ::::: d1adoa_ 215 -ALSDHHIYLEGTLLKPN---MVTPGHACTQKYSHEEIAMATVTALRRTVPPAV------ 264 d1j93a_ 287 DPGVL--------FGSKEFITNRINDTVKKAGKG--------KHILNLGHGIKVGT---- 326 ::::::::::::::: :::: d1adoa_ 265 -----TGVTFLSGGQSEEEASINLNAIN------KCPLLKPWALTF----------SYGR 303 d1j93a_ 327 -------------------PEENFAHFFEIAKGLRY------------------------ 343 ::::::::::::: d1adoa_ 304 ALQASALKAWGGKKENLKAAQEEYVKRALANS----LACQGKYTSSGQAGAAASESLFIS 359 d1j93a_ 344 ---- 344 d1adoa_ 360 NHAY 363 TMalign alignment (TM-score: 0.55 Raw score:188.56) d1j93a_ 1 --------------TQPLLLDAVRGKEVERPPVWLMRQAG------RYMKSYQLLCEKYP 40 :::::: ::::::::::::::: :::::::: d1adoa_ 1 PHSHPALTPEQKKE----LSDIAH-RIVAPGKGILAADESTGSIAK-----RLQSIGTE- 49 d1j93a_ 41 LFRDRSENVDLVVEISLQPWKVFR-PDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPL 99 :::::: ::::::::::::::: :::::::: d1adoa_ 50 NTEENR---RFYRQLLLTADDRVNPCIGGVILF--------------------------- 79 d1j93a_ 100 RTAADVEKVREFIPEKSVPYVGEAL----TILRKEV-NNQAAVLGFVGAPFTLASYVVEG 154 : :::::: ::::::: :::::::::::: ::: d1adoa_ 80 -----------------H-ETLYQKADDGRPFPQVIKSKGGVVGIKVDK---GVV----- 113 d1j93a_ 155 GSSKNFTKIKRLAFA--EPKVLHALLQKFATSMAKYIRYQADSGAQAVQIFDSWATE--- 209 :: :::: :: : ::::::::::::::::::::::::: :::: d1adoa_ 114 --------PL-AGTNGE----TT--T-QGLDGLSERCAQYKKDGADFAKWRC-VLKIGEH 156 d1j93a_ 210 LSPVDFEEFSLPYLKQIVDSVKLTHPNLPLILYASG-------------SG-GLLERLP- 254 ::::::::::::::::::::::: : :::::::::: :: ::::::: d1adoa_ 157 TPSALAIMENANVLARYASICQQ-N-GIVPIVEPEILPDGDHDLKRCQYVTEKVLAAVYK 214 d1j93a_ 255 LT----G-V--DVVSLDWT-----------------VDMADGRRRLGPNVAIQGNVD-PG 289 :: : : :::::::: ::::::::::::::::::::: :: d1adoa_ 215 ALSDHHIYLEGTLLKPNMVTPGHACTQKYSHEEIAMATVTALRRTVPPAVTGVTFLSGGQ 274 d1j93a_ 290 VLFGSKEFITNRINDTVKKAGKGKHILNLGHGIK-VGT-P--------------E--ENF 331 :::::: :::::::::::::: ::::::::::: ::: : : ::: d1adoa_ 275 SEEEAS-INLNAINKCPLLKP--WALTFSYGRALQASALKAWGGKKENLKAAQEEYVKRA 331 d1j93a_ 332 AHFFEIAKGL----------------------RY 343 :::::::::: d1adoa_ 332 LANSLACQGKYTSSGQAGAAASESLFISNHAY-- 363 HHsearch alignment (Probability: 0.05 E-value:0.06) d1j93a_ 175 HALLQKFATSMAKYIRYQADSGAQAVQIFDSWATE---LSPVDFEEFSLPYLKQIVDSVK 231 ::::::::::::::::::::::: :::::::::: :::::::::::::::::::::: d1adoa_ 160 ALAIMENANVLARYASICQQNGI--VPIVEPEILPDGDHDLKRCQYVTEKVLAAVYKALS 217 d1j93a_ 232 L 232 : d1adoa_ 218 D 218