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 | d1thfd_ | Cyclase subunit (or domain) of imidazoleglycerolphosphate synthase HisF | Ribulose-phoshate binding barrel | 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 <-- 1.269 --> HitDALI alignment (Z-score: 11.4 Raw score:1272.90) d1j93a_ 1 tqpllldavrgkeVERPPVWLMRQ-----AGRYMKSyQLLCekyplfrdrsenvdLVVEI 55 ::::::::::: ::::::: :::: ::::: d1thfd_ 1 -------------MLAKRIIACLDvkdgrVVKGSNF-ENLR-----------dsgDPVEL 35 d1j93a_ 56 SLQPWKVFrPDGVILFSDiLTPLSgmnipfdiikgkgpvifdplrtaadvekvrefipek 115 :::::::: ::::::::: ::::: d1thfd_ 36 GKFYSEIG-IDELVFLDI-TASVE------------------------------------ 57 d1j93a_ 116 sVPYVGEALTILRKEVnnQAAVLGFVGAPftlasyvveggssknftkikrlafaepkvlh 175 ::::::::::::::: ::::::::::: d1thfd_ 58 kRKTMLELVEKVAEQI--DIPFTVGGGIH------------------------------- 84 d1j93a_ 176 allqkfatsMAKYIRYQADSGAQAVQIFDswatelspvdfeefSLPYlKQIVDSVKLTHP 235 :::::::::::::::::::: :::: :::::::::::: d1thfd_ 85 ---------DFETASELILRGADKVSINT-------------aAVEN-PSLITQIAQTFG 121 d1j93a_ 236 NLPLILYASGSG------------------GLLERLPLT---GVDVVSLDWT-------- 266 :::::::::::: ::::::::: :::::::::: d1thfd_ 122 SQAVVVAIDAKRvdgefmvftysgkkntgiLLRDWVVEVekrGAGEILLTSIdrdgtksg 181 d1j93a_ 267 vDMADGRRRL-GPNVAIQGNVDPGvlfgskefITNRINDTVKKAgkgKHILNlgHGIK-- 323 ::::::::: ::::::::::::: :::::::::::: ::::: :::: d1thfd_ 182 yDTEMIRFVRpLTTLPIIASGGAG--------KMEHFLEAFLAG---ADAAL--AASVfh 228 d1j93a_ 324 VGTPeeNFAHFFEIAKGLRY------- 343 :::: :::::::::::::: d1thfd_ 229 FREI--DVRELKEYLKKHGVnvrlegl 253 FAST alignment (Normalized score: 6.88 Raw score:2028.00) d1j93a_ 1 TQPLLLDAVRGKEV-ERPPVWLMRQAGRYMKSYQLLCEKYPLFRDR---SENVD------ 50 ::::::: :::: d1thfd_ 1 --------------MLAKRIIA------------------------CLDVKDG-RVVKGS 21 d1j93a_ 51 ---------LVVEISLQPWKVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRT 101 :::::::::::: :::::::: d1thfd_ 22 NFENLRDSGDPVELGKFYSEI-GIDELVFL------------------------------ 50 d1j93a_ 102 AADVEKVREFIPEKS--------VPYVGEALTILRKEVNNQAAVLGFVGAPFTLASYVVE 153 ::::::::::::::: ::::::: d1thfd_ 51 ---------------DITASVEKRKTMLELVEKVAEQI--DIPFTVG------------- 80 d1j93a_ 154 GGSSKNFTKIKRLAFAEPKVLHALLQKFATS----MAKYIRYQADSGAQAVQIFDSWATE 209 :::::::::::::::::: d1thfd_ 81 -------------------------------GGIHDFETASELILRGADKVSI------- 102 d1j93a_ 210 LSPVDFEEFSLPY------LKQIVDSVKLTHPNL---PLILYASG--------------- 245 :::::::::::: :::::: d1thfd_ 103 -------------NTAAVENPSLITQIAQTF---GSQAVVVAI--DAKRVDGEFMVFTYS 144 d1j93a_ 246 --------SGGLLERLPLTGVDVVSLDWTV--------------DMADGRRRLGPNVAIQ 283 ::::::::::::::::::: :::::::: :::::: d1thfd_ 145 GKKNTGILLRDWVVEVEKRGAGEILLT---SIDRDGTKSGYDTEMIRFVRPL--TTLPII 199 d1j93a_ 284 GNVDPGVLFGSKEFITNRINDTVKKAGKGKHILNLGHGI-----------KVGTPEE-NF 331 :::::: :::::::::: ::::: :: d1thfd_ 200 ASGGAG--------KMEHFLEAFL---------------AGADAALAASVFHFRE--IDV 234 d1j93a_ 332 AHFFEIAKGLRY---------- 343 ::::::::: d1thfd_ 235 RELKEYLKK---HGVNVRLEGL 253 TMalign alignment (TM-score: 0.46 Raw score:157.02) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQA--GRY------------MKSY-------------- 32 : : : ::::::::: ::: :::: d1thfd_ 1 -------M--L--A--KRIIACLDVKDGRVVKGSNFENLRDSGDPVELGKFYSEIGIDEL 47 d1j93a_ 33 ------QLLCEKYPLFRDRSENVDLVVEISLQPWKVFRPDGVILFSDILTPLSGMNIPFD 86 ::::: :: :::::::::::: ::::::::::: :: d1thfd_ 48 VFLDIT--------ASVEK-RK--TMLELVEKVAEQ-IDIPFTVGGGI-HD--------- 85 d1j93a_ 87 IIKGKGPVIFDPLRTAADVEKVREFIPEKSVPYVGEALTILRKEVNNQAAVLGFVGAPFT 146 : ::::::::::: :::::: d1thfd_ 86 --------------------------F----ETASELILRGA--------DKVSIN---- 103 d1j93a_ 147 LASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQKFATSMAKYIRYQADSGA-QAVQIFDS 205 :: ::::: ::::::::::: :::::::: d1thfd_ 104 TA--------------------------------AVENP-SLITQIAQTFGSQAVVVAID 130 d1j93a_ 206 WATELSPVDFE----------EFSLPYLKQIVDSVKLTHPNLPLILYAS--G-------S 246 :::::::::: :::::::::::::: :::::::: : : d1thfd_ 131 -AKRVDGEFMVFTYSGKKNTGILLRDWVVEVEKRG------AGEILLTSIDRDGTKSGYD 183 d1j93a_ 247 GGLLERLPLTGVDVVSLD--WT--VDMADGRRRLGPNVAIQGNVDPGVLFGSKEFITNRI 302 :::::::::::::::::: :: :::::::::: ::::::::::::::: :::::: d1thfd_ 184 TEMIRFVRPLTTLPIIASGGAGKMEHFLEAFLAG----ADAALAASVFHFREI-DVRELK 238 d1j93a_ 303 NDTVKKAGKGKHILNLGHGIKVGTPEENFAHFFEIAKGLRY 343 ::::::::: : : :::: d1thfd_ 239 EYLKKHGVN--V-R---------------------LEGL-- 253 HHsearch alignment (Probability: 0.27 E-value:0.01) d1j93a_ 116 SVPYVGEALTILRKEVNNQAAVL--GFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKV 173 ::::::::::::::::: :::: :::::: ::::::::::::::: ::::::::::: d1thfd_ 58 KRKTMLELVEKVAEQID--IPFTVGGGIHDF-ETASELILRGADKVS--INTAAVENPSL 112 d1j93a_ 174 LHALLQ 179 :::::: d1thfd_ 113 ITQIAQ 118