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 | d1f6ya_ | corrinoid/iron-sulfur protein methyltransferase MetR | Dihydropteroate synthetase-like | 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 <-- 0.653 --> HitDALI alignment (Z-score: 9.1 Raw score:1063.60) d1j93a_ 1 tqpllldavrgkeverPPVWLMRQagrymksyqllcekyplfRDRSE-NVDLVVEISLQP 59 :::::::: ::::: :::::::::::: d1f6ya_ 1 ----------------MLIIGERI-----------ngmfgdiKRAIQeRDPAPVQEWARR 33 d1j93a_ 60 WKVFRPDGVILFSDiltplsgmnipfdiikgkgpvifdplrtaadvekvrefipeKSVPY 119 :::::::::::::: ::::: d1f6ya_ 34 QEEGGARALDLNVG-----------------------------------------DKVSA 52 d1j93a_ 120 VGEALTILRKEVNnqAAVLGFVGapftlasyvveggssknftkikrlafaepkvlhallq 179 ::::::::::::: :::::::: d1f6ya_ 53 MEWLVEVTQEVSN--LTLCLDST------------------------------------- 73 d1j93a_ 180 kfatsMAKYIRYQADSG--aQAVQIFDSWAtelspvdfeeFSLPYLKQIVDSVklthpNL 237 :::::::::::: :::::::::: ::::::::::::: :: d1f6ya_ 74 -----NIKAIEAGLKKCknrAMINSTNAER----------EKVEKLFPLAVEH-----GA 113 d1j93a_ 238 PLILYAS----------GSGGLLERLPLTG--------VDVVSLDW-----------TVD 268 ::::::: ::::::::::::: :::::::: ::: d1f6ya_ 114 ALIGLTMnktgipkdsdTRLAFAMELVAAAdefglpmeDLYIDPLIlpanvaqdhapEVL 173 d1j93a_ 269 M--ADGRRRlGPNVAIQGNVdPGVLF---GSKEFITNRINDTVKKAgkgkHILNlghgik 323 : :::::: :::::::::: ::::: ::::::::::::::::: :::: d1f6ya_ 174 KtlQQIKMLaDPAPKTVLGL-SNVSQncqNRPLINRTFLAMAMACG---lMSAI------ 223 d1j93a_ 324 vgtpeenFAHFFEIAKGLRY------------------ 343 ::::::::::::: d1f6ya_ 224 ---adacDEALIETAATAEIllnqtvycdsfvkmfktr 258 FAST alignment (Normalized score: 3.85 Raw score:1146.00) d1j93a_ 1 TQPLLLDAVRGKEVERP-PVWLMRQAGRY----MKSYQLLCEKYPLFRDRSE-------- 47 :::::::::: :::::: d1f6ya_ 1 -----------------MLIIGERINGM-FGDIKRAIQE-------------RDPAPVQE 29 d1j93a_ 48 -------------------NVDLVVEISLQPWKVFRPDGVILFSDILTPLSGMNIPFDII 88 ::::::::::::::::: :::::: d1f6ya_ 30 WARRQEEGGARALDLNVGDKVSAMEWLVEVTQEVSN-LTLCLD----------------- 71 d1j93a_ 89 KGKGPVIFDPLRTAADVEKVREFIPEKSVPY--VGEALTILRKEVNNQAAVLGFVGAPFT 146 :::::::::::: :::::: d1f6ya_ 72 -------------------------------STNIKAIEAGLKKC--KNRAMI------- 91 d1j93a_ 147 LASYVVEGGSSKNFTKIKRLAFAEPKVLHAL-----LQKFATSMAKYIRYQADSGA--QA 199 :::::::::::::: :: d1f6ya_ 92 -------------------------------NSTNAEREKVEKLFPLAVE------HGAA 114 d1j93a_ 200 VQIFDSWATE---------LSPVDFEEFSLPYLKQIVDSVKLTHPNL------PLILYAS 244 ::: ::::::: :::::::::::: :::::: d1f6ya_ 115 LIG-------LTMNKTGIPKDSDTRL-AFAMELVAAADE--------FGLPMEDLYIDP- 157 d1j93a_ 245 G--------------SGGLLERLPLTGV------DVVSLDWTVDMADGRRRLGPNVAIQG 284 ::::::::: ::::: d1f6ya_ 158 -LILPANVAQDHAPEVLKTLQQIK----MLADPAPKTVL--------------------- 191 d1j93a_ 285 NVDPG-----VLFG--SKEFITNRINDTVKKAGKGKHILNLGHGIKVGTPEEN------- 330 :::: :::::::::::::: d1f6ya_ 192 -----GLSNVSQNCQNRPLINRTFLAMAMA-----------------------CGLMSAI 223 d1j93a_ 331 ----FAHFFEIAKGLRY--------------------- 343 :::::::::: d1f6ya_ 224 ADACDEALIETAAT---AEILLNQTVYCDSFVKMFKTR 258 TMalign alignment (TM-score: 0.43 Raw score:146.18) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEK---------------------- 38 :::::::::::::::::::::: d1f6ya_ 1 ----------------MLIIGERINGMFGDIKRAIQERDPAPVQEWARRQEEGGARALDL 44 d1j93a_ 39 -YPLFRDRSENVDLVVEISLQPWKVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFD 97 ::: ::: :::::::::::: ::::::::: : :: d1f6ya_ 45 N--VGD--KVS--AMEWLVEVTQEV-SNLTLCLDS-T-NI-------------------- 75 d1j93a_ 98 PLRTAADVEKVREFIPEKSVPYVGEALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSS 157 : ::::::::: : :: ::::::::: d1f6ya_ 76 -------------------K-AIEAGLKKC-K--NR---AMINSTNAE------------ 97 d1j93a_ 158 KNFTKIKRLAFAEPKVLHALLQKFATSMAKYIRYQADSGAQAVQIF-DSWATELSPVDFE 216 : :: ::::::::::::: ::::: ::::::::::::: d1f6ya_ 98 ---------------------R-EK--VEKLFPLAVEHGA-ALIGLTMNKTGIPKDSDTR 132 d1j93a_ 217 EFSLPYLKQIVDSVKLTHPNL-PLILYASGSG----GLLERLPLTGVDVVSLDWTVD-MA 270 :::::: :::::::::::: :::::::::: ::::: :: d1f6ya_ 133 --LAFAME-LVAAADEFGLPMEDLYIDPLILPANVA----------------QDHAPEVL 173 d1j93a_ 271 DGRRRLGPN----VAIQG-NV-DPGVLFGSKEFITNRINDTVKKAGKGKHILNLGHGIKV 324 ::::::::: ::::: :: ::::::::: :: :::::::::::::::::: : d1f6ya_ 174 KTLQQIKMLADPAPKTVLGLSNVSQNCQNRP-LI--NRTFLAMAMACGLMSAIA---D-- 225 d1j93a_ 325 GTPEENFAHFFEIAKGL-RY------------------ 343 :::::::::::: :: d1f6ya_ 226 -----ACDEALIETAATAEILLNQTVYCDSFVKMFKTR 258 HHsearch alignment (Probability: 0.96 E-value:0.00) d1j93a_ 171 PKVLHALLQKFATSMAKYIRYQADSGAQAVQIFDSWATELSPVDFEEFSLPYLKQIVDSV 230 ::::::::::::::::::::::::::::::::: ::: :::::::::::: d1f6ya_ 13 GDIKRAIQERDPAPVQEWARRQEEGGARALDLN--------VGD----KVSAMEWLVEVT 60 d1j93a_ 231 KLTHPNLPLILYASGSGGLLERLPL-TGVDVVS-LD---WTV-DMADGRRRLGPNVAIQG 284 ::: ::::::::::::::::::::: ::::::: :: ::: ::::::::::::::::: d1f6ya_ 61 QEV-SNLTLCLDSTNIKAIEAGLKKCKNRAMINSTNAEREKVEKLFPLAVEHGAALIGLT 119 d1j93a_ 285 NVDPGVLFGSKEFITNRINDTVKKAGKGKH-----ILNLGHGIKVGTPEENFAHFFEIAK 339 : :::::::::::::::::::::::::::: ::::::: ::::::::::::::::: d1f6ya_ 120 M-NKTGIPKDSDTRLAFAMELVAAADEFGLPMEDLYIDPLIL-PANVAQDHAPEVLKTLQ 177 d1j93a_ 340 GLR 342 ::: d1f6ya_ 178 QIK 180