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 | d1pvna1 | Inosine monophosphate dehydrogenase (IMPDH) | Inosine monophosphate dehydrogenase (IMPDH) | 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 <-- 1.368 --> HitDALI alignment (Z-score: 10.7 Raw score:1295.80) d1j93a_ 1 ---------------------------tqplllDAVR-------GKEVerpPVWLMrqag 26 :::: :::: ::::: d1pvna1 1 akyynepchtfneyllipglstvdcipsnvnlsTPLVkfqkgqqSEINlkiPLVSA---- 56 d1j93a_ 27 rymksyqllcekyplfrdrsenvdlVVEISLQPWKvfRPDGVILFsdILTPlsgmnipfd 86 :::::::::: :::::::: :::: d1pvna1 57 -------------------imqsvsGEKMAIALAR--EGGISFIF--GSQS--------- 84 d1j93a_ 87 iikgkgpvifdplrtaadvekvrefipeksVPYVGEALTILRKEVNnqaAVLGFVGAPft 146 :::::::::::::::: ::::::::: d1pvna1 85 ------------------------------IESQAAMVHAVKNFRY---LVGAGINTR-- 109 d1j93a_ 147 lasyvveggssknftkikrlafaepkvlhallqkfatSMAKYIRYQADSGAQAVQIFDSW 206 ::::::::::::::::::::::: d1pvna1 110 -------------------------------------DFRERVPALVEAGADVLCIDSSD 132 d1j93a_ 207 ATelspvdfeefsLPYLKQIVDSVKLTHP-NLPLILYASgSGGL-LERLPLTGVDVVSLD 264 :: :::::::::::::::: ::::::::: :::: ::::::::::::::: d1pvna1 133 GF-----------SEWQKITIGWIREKYGdKVKVGAGNI-VDGEgFRYLADAGADFIKIG 180 d1j93a_ 265 ------------------WTVDMADGRRRLG-------PNVAIQGNVDPGvlfgskefIT 299 ::::::::::::: :::::::::::: :: d1pvna1 181 igggsicitreqkgigrgQATAVIDVVAERNkyfeetgIYIPVCSDGGIV--------YD 232 d1j93a_ 300 NRINDTVKKAgkgkHILNlgHGIK------------------------------------ 323 :::::::::: :::: :::: d1pvna1 233 YHMTLALAMG---aDFIM--LGRYfarfeesptrkvtingsvmkeywgegssrarnwqry 287 d1j93a_ 324 -----------------VGTPE---ENFAHFFEIAKGLR--------------------- 342 ::::: :::::::::::::: d1pvna1 288 dlggkqklsfeegvdsyVPYAGklkDNVEASLNKVKSTMcncgaltipqlqskakitlvs 347 d1j93a_ 343 --------------y 343 d1pvna1 348 svsiveggahdvivk 362 FAST alignment (Normalized score: 6.06 Raw score:2135.00) d1j93a_ 1 TQPLLLDAVRG----------------------------------------------KEV 14 ::: d1pvna1 1 -----------AKYYNEPCHTFNEYLLIPGLSTVDCIPSNVNLSTPLVKFQKGQQSEINL 49 d1j93a_ 15 ERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDL-------VVEISLQPWKVFRP-- 65 :: :::: :::::::::: d1pvna1 50 KI-PLVS------------------------------AIMQSVSGEKMAIALAR----EG 74 d1j93a_ 66 DGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEK----SVPYVG 121 ::::: :::::: d1pvna1 75 GISFI---------------------------------------------FGSQSIESQA 89 d1j93a_ 122 EALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQKF 181 :::::::: :::::::::: d1pvna1 90 AMVHAVKN---FRYLVGAGIN--------------------------------------- 107 d1j93a_ 182 ATSMAKYIRYQADSGAQAVQIFDSWATELSPVDFEEFS-----LPYLKQIVDSVKLTH-P 235 :::::::::::::::::::::: ::::::::::::::: : d1pvna1 108 TRDFRERVPALVEAGADVLCID----------------SSDGFSEWQKITIGWIREKYGD 151 d1j93a_ 236 NLPL-ILYASGSGGLLERLPLTGVDVVSLDWTV-----------------------DMAD 271 :::: ::::: ::::::::::::::::: :::: d1pvna1 152 KVKVGAGNIV-DGEGFRYLADAGADFIK-----IGIGGGSICITREQKGIGRGQATAVID 205 d1j93a_ 272 GRRRLGP----------NVAIQG--NVDPGVLFGSKEFITNRINDTVKKAGKGK---HIL 316 :::: :::: ::::: :::::::::: ::: d1pvna1 206 VVAE---RNKYFEETGIYIPV--CSDGGIV--------YDYHMTLALA------MGADFI 246 d1j93a_ 317 NLGHGIK----------------------------------------------------- 323 : d1pvna1 247 M------LGRYFARFEESPTRKVTINGSVMKEYWGEGSSRARNWQRYDLGGKQKLSFEEG 300 d1j93a_ 324 --VGTP-----EENFAHFFEIAKGLRY--------------------------------- 343 :::: :::::::::::: d1pvna1 301 VDSYVPYAGKLKDNVEASLNKVK----STMCNCGALTIPQLQSKAKITLVSSVSIVEGGA 356 d1j93a_ 344 ------ 344 d1pvna1 357 HDVIVK 362 TMalign alignment (TM-score: 0.40 Raw score:138.62) d1j93a_ 1 ------------------------------------------TQPLLLDAVR-------- 10 :::::::::: d1pvna1 1 AKYYNEPCHTFNEYLLIPGLSTVDCIPSNVNLSTPLVKFQKGQQSEINLKIPLVSAIMQS 60 d1j93a_ 11 ----------GKEVERPPVWLMRQAGRYMKSYQ----------------LLCEKYPLFRD 44 ::::::::::::::::::: : d1pvna1 61 VSGEKMAIAL----AREGGISFIFGSQSIESQAAMVHAVKNFRYLVGAG----------I 106 d1j93a_ 45 RSENVDLVVEISLQPWKVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAAD 104 ::::::::::: :: :: :: :::::::::::: : d1pvna1 107 NTRDFRERVPA-LV-EA--GA-DVLCIDSSDGFS-E------------------------ 136 d1j93a_ 105 VEKVREFIPEKSVPYVGEALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIK 164 : :::::::::::::::: :::::::: d1pvna1 137 --------W--QKITIGWIREKYGDKV-----KVGAGNIV-------------------- 161 d1j93a_ 165 RLAFAEPKVLHALLQKFATSMAKYIRYQADSGAQAVQIFDSWATE----L------SPVD 214 ::::::::::::: : :::::::::: : : d1pvna1 162 ----------------DGEGFRYLADAGA---D--FIKIGIGGGSICITREQKGIG---R 197 d1j93a_ 215 FEEFSLPYLKQIVDSVKL-THPNLPLILYASGSG-GLLERLPLTGVDVVSLDWTVDMADG 272 :::::::::::::::::: ::::::::::::::: ::::::::::::::::::: d1pvna1 198 GQATAVIDVVAERNKYFEETGIYIPVCSDGGIVYDYHMTLALAMGADFIMLGRY------ 251 d1j93a_ 273 RRRLGPNVAIQGNVDPG-VLFGS--------KEF-------------------------- 297 ::::: ::::: : d1pvna1 252 ------------FARFEESPTRKVTINGSVM--KEYWGEGSSRARNWQRYDLGGKQKLSF 297 d1j93a_ 298 ---------ITNRINDTVKK-AG--K--------GKH----------------------- 314 ::::::::::: :: : ::: d1pvna1 298 EEGVDSYVPYAGKLKDNVEASLNKVKSTMCNCGALTIPQLQSKAKITLVSSVSIVEGGAH 357 d1j93a_ 315 -----ILNLGHGIKVGTPEENFAHFFEIAKGLRY 343 d1pvna1 358 DVIVK----------------------------- 362 HHsearch alignment (Probability: 0.09 E-value:0.03) d1j93a_ 111 FIPEKSVPYVGEALTILRKEVNNQAAVL 138 :::::::::::::::::::::::::::: d1pvna1 129 DSSDGFSEWQKITIGWIREKYGDKVKVG 156