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 | d1twda_ | Copper homeostasis protein CutC | CutC-like (Pfam 03932) | 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 <-- 1.461 --> HitDALI alignment (Z-score: 11.4 Raw score:1247.10) d1j93a_ 1 tqpllldavrgkeverPPVWLMRQagrymksyqllcekyplfrdrsenvdlVVEISLQPW 60 :::::::: ::::::::: d1twda_ 1 ----------------ALLEICCY---------------------------SMECALTAQ 17 d1j93a_ 61 KVFrPDGVILFSDiltplsgmnipfdiikgkgpvifdplrtaadvekvrefipeksvpyV 120 ::: ::::::::: : d1twda_ 18 QNG-ADRVELCAA--------------------------------------pkeggltpS 38 d1j93a_ 121 GEALTILRKEVnnQAAVLGFVG--apFTLAsyvveggssknftkikrlafaepkvlhalL 178 ::::::::::: ::::::::: :::: : d1twda_ 39 LGVLKSVRQRV--TIPVHPIIRprggDFCY-----------------------------S 67 d1j93a_ 179 QKFATSMAKYIRYQADSGAQAVQIFDswATELSPvdfeefSLPYLKQIVDSVKlthpNLP 238 :::::::::::::::::::::::::: :::::: ::::::::::::: ::: d1twda_ 68 DGEFAAILEDVRTVRELGFPGLVTGV--LDVDGN-----vDMPRMEKIMAAAG----PLA 116 d1j93a_ 239 LILY-ASGS---GGLL-ERLPLTGVDVVSLDWTV--------DMADGRRRlGPNVAIQGN 285 :::: :::: :::: ::::::::::::::::: :::::::: ::::::::: d1twda_ 117 VTFHrAFDMcanPLYTlNNLAELGIARVLTSGQKsdalqglsKIMELIAH-RDAPIIMAG 175 d1j93a_ 286 VDPgvlfgskefITNRINDTVKKAGkgkHILNLghGIKVG--------------tpEENF 331 ::: ::::::::::::: ::::: ::::: :::: d1twda_ 176 AGV---------RAENLHHFLDAGV---LEVHS--SAGAWqaspmryrnysryivdGAAV 221 d1j93a_ 332 AHFFEIAKGLRY- 343 :::::::::::: d1twda_ 222 AEMKGIIERHQAk 234 FAST alignment (Normalized score: 6.81 Raw score:1928.00) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDL---VVEISL 57 ::::: :::::: d1twda_ 1 ----------------ALLEI------------------------------CCYSMECAL 14 d1j93a_ 58 QPWKVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSV 117 :::: ::::::::: d1twda_ 15 TAQQ-NGADRVELC---------------------------------------------- 27 d1j93a_ 118 PY----------VGEALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLA 167 :::::::::::: ::::::: d1twda_ 28 --AAPKEGGLTPSLGVLKSVRQRV--TIPVHPI--------------------------- 56 d1j93a_ 168 FAEPKVLHAL----------LQKFATSMAKYIRYQADSGAQAVQIFDSWATELSPVDFEE 217 ::::::::::::::::::::::::::: d1twda_ 57 ----------IRPRGGDFCYSDGEFAAILEDVRTVRELGFPGLVTGV------------- 93 d1j93a_ 218 F-------SLPYLKQIVDSVKLTHPNLPLILYASG---------SGGLLERLPLTGVDVV 261 ::::::::::: :::::::: :::::::::::::::: d1twda_ 94 -LDVDGNVDMPRMEKIMAA----AGPLAVTF----HRAFDMCANPLYTLNNLAELGIARV 144 d1j93a_ 262 SLDWTV------------DMADGRRRLG--PNVAIQGNVDPGVLFGSKEF------ITNR 301 :: ::::::: ::::: :::: d1twda_ 145 LT----SGQKSDALQGLSKIMELIA---HRDAPII---------------MAGAGVRAEN 182 d1j93a_ 302 INDTVKKAGKGKHILNLGHGIKVG---------------------------TPEENFAHF 334 :::::: ::::::::: d1twda_ 183 LHHFLD------------------AGVLEVHSSAGAWQASPMRYRNYSRYIVDGAAVAEM 224 d1j93a_ 335 FEIAKGLRY---- 343 :::::: d1twda_ 225 KGIIER---HQAK 234 TMalign alignment (TM-score: 0.42 Raw score:142.45) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQPW 60 : d1twda_ 1 -----------------A------------------------------------------ 1 d1j93a_ 61 KVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPLRTAADVEKVREFIPEKSVPYV 120 :::::: : : d1twda_ 2 ----LLEICC-Y-----------------------------------------------S 9 d1j93a_ 121 GEALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGS--SKNFTKIKRLAFAEPKVLHALL 178 ::::::::::: ::::::::: : :: d1twda_ 10 MECALTAQQNG--ADRVELCAA----P-------KEGG---------------------- 34 d1j93a_ 179 QKFATSMAKYIRYQADSG-AQAVQIFD-SWATELSPVDFEEFSLPYLKQIVDSVKLTHPN 236 :: ::::::::::::: :::::::: :::::: :::::::::::::::::::: : d1twda_ 35 --LT-PSLGVLKSVRQRVTIPVHPIIRPRGGDFC----YSDGEFAAILEDVRTVRELG-F 86 d1j93a_ 237 LPLILYASGS-GGLLE-RLPLTG--V----DVVS-LDWTV-DMADGRRRL-GPNVAIQGN 285 :::::::::: ::::: :::::: : :::: ::::: ::::::::: ::::::::: d1twda_ 87 PGLVTGVLDVDGNVDMPRMEKIMAAAGPLAVTFHRAFDMCANPLYTLNNLAELGIARVLT 146 d1j93a_ 286 -VDPG-VLFGSKEFITNRINDTVKKAGKGKHILNLGHGIKVGT-PEENFAHFFEIAKGL- 341 :::: :::: :: :::::::: ::::::::: ::: : :: ::::::::::: d1twda_ 147 SGQKSDALQG----LS-KIMELIAH-RDAPIIMAG--AGV--RA-EN-LHHFLDAGVLEV 194 d1j93a_ 342 ----------------------------------------RY 343 d1twda_ 195 HSSAGAWQASPMRYRNYSRYIVDGAAVAEMKGIIERHQAK-- 234 HHsearch alignment (Probability: 0.86 E-value:0.00) d1j93a_ 186 AKYIRYQADSGAQAVQIFDSWATELSPVDFEEFSLPYLKQIVDSVKLTHPNLPLILYA-- 243 ::::::::::::::::: ::::::: ::::::::::::::: :::::::: d1twda_ 75 LEDVRTVRELGFPGLVT-----GVLDVDG--NVDMPRMEKIMAAAG----PLAVTFHRAF 123 d1j93a_ 244 ---SGSGGLLERLPLTGVDVVSLDWTV--------DMADGRRRLGPN-VAIQGNVDPGVL 291 :::::::::::::::::::::::: :::::::::::: ::::::::: d1twda_ 124 DMCANPLYTLNNLAELGIARVLTSGQKSDALQGLSKIMELIAHRDAPIIMAGAGVRA--- 180 d1j93a_ 292 FGSKEFITNRINDTVKKAGKGKHILNLGHGIK------------VGTPEENFAHFFEIAK 339 ::::::::: ::::::: ::::: :::::::::::::::: d1twda_ 181 --------ENLHHFLDA-GVLEVHS--SAGAWQASPMRYRNYSRYIVDGAAVAEMKGIIE 229