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 | d1a4ma_ | Adenosine deaminase (ADA) | Metallo-dependent hydrolases | 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 <-- 1.177 --> HitDALI alignment (Z-score: 10.4 Raw score:1283.90) d1j93a_ 1 tqpllldavrgkeverpPVWLM---RQAGRymKSYQLLCE-KYPL--------------- 41 ::::: ::::: :::::::: :::: d1a4ma_ 1 ---------tpafnkpkVELHVhldGAIKP--ETILYFGKkRGIAlpadtveelrniigm 49 d1j93a_ 42 ----------------FRDRSENVDLVVEISLQPWKVFR----pDGVIlfsDILT-pLSG 80 ::::::::::::::::::::::: :::: :::: ::: d1a4ma_ 50 dkplslpgflakfdyyMPVIAGCREAIKRIAYEFVEMKAkegvvYVEV-rySPHLlaNSK 108 d1j93a_ 81 MnIPFDIIkgkgpvifdplrtaadvekvrefipekSVPYVGEALTILRKEVN--NQAAVL 138 : :::::: ::::::::::::::::: :::::: d1a4ma_ 109 V-DPMPWN--------------------qtegdvtPDDVVDLVNQGLQEGEQafGIKVRS 147 d1j93a_ 139 GFVGApFTLAsyvveggssknftkikrlafaepkvlhallqKFATSMAKYIRYQADSGAQ 198 ::::: :::: ::::::::::::::::::: d1a4ma_ 148 ILCCM-RHQP-------------------------------SWSLEVLELCKKYNQKTVV 175 d1j93a_ 199 AVQIFDsWATELspvdfeeFSLP--YLKQIVDSVKLTHpnLPLILYA-SGSG-GLLERLP 254 :::::: ::::: :::: ::::::::::::: ::::::: :::: ::::::: d1a4ma_ 176 AMDLAG-DETIE-------GSSLfpGHVEAYEGAVKNG--IHRTVHAgEVGSpEVVREAV 225 d1j93a_ 255 L-TGVDVVSLdWTVD-madgRRRLG-PNVAIQGNVDPGVLfgskefitnrinDTVKKAG- 310 : :::::::: :::: ::::: :::::::::::::: ::::::: d1a4ma_ 226 DiLKTERVGHgYHTIedealYNRLLkENMHFEVCPWSSYL---tgawdpkttHAVVRFKn 282 d1j93a_ 311 -KGKHILNLgHGIKVGTpeenFAHFF--------eiakGLRY------------------ 343 :::::::: ::::::: ::::: :::: d1a4ma_ 283 dKANYSLNT-DDPLIFK--stLDTDYqmtkkdmgfteeEFKRlninaakssflpeeekke 339 d1j93a_ 344 ---------- 344 d1a4ma_ 340 llerlyreyq 349 FAST alignment (Normalized score: 4.13 Raw score:1429.00) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKS-------------------YQLLCEKYPL 41 :::::: d1a4ma_ 1 -------------------------------TPAFNKPKVELHVHLDGAIKPETIL---- 25 d1j93a_ 42 F-----------------------------------------RDRSENVDLVVEISLQPW 60 :::::::::::::::::: d1a4ma_ 26 -YFGKKRGIALPADTVEELRNIIGMDKPLSLPGFLAKFDYYMPVIAGCREAIKRIAYEFV 84 d1j93a_ 61 K---VFRPDGVILFSDILTPL--------------SGMNIPFDIIKGKGPVIFDPLRTAA 103 : :::: :::::: d1a4ma_ 85 EMKAKEGV-------------VYVEVRYSPHLLANSKVDPM------------------- 112 d1j93a_ 104 DVEKVREFIPEKS-----------VPYVGEALTILRKEVNN----QAAVLGFVGAPFTLA 148 :::::::::::::: :::::::::: d1a4ma_ 113 -------------PWNQTEGDVTPDDVVDLVNQGLQEG---EQAFGIKVRSILCC----- 151 d1j93a_ 149 SYVVEGGSSKNFTKIKRLAFAEPKVLHAL---LQKFATSMAKYIRYQA--DSGAQAVQIF 203 :::::::::::::: :::::::::: d1a4ma_ 152 -----------------------------MRHQPSWSLEVLELCKK--YNQKTVVAMDLA 180 d1j93a_ 204 DSW-ATELSPVDFEEFS-----LPYLKQIVDSVKLTHPNLPLILYASGS------GGLLE 251 :::: ::::::::::::: :::::::: ::::: d1a4ma_ 181 ---GDETI---------EGSSLFPGHVEAYEGAVK--NGIHRTVH----AGEVGSPEVVR 222 d1j93a_ 252 RLP-LTGVDVVSLDWTVD--------MADGRRRLGP----NVAIQGNVDPGVLFGSKEFI 298 ::: ::::::: ::::::: :::: d1a4ma_ 223 EAVDILKTERV-------GHGYHTIEDEALYNR---LLKENMHF---------------- 256 d1j93a_ 299 T------------------NRINDTVKKAGKGKHILNLGHGIKVGTPEEN--------FA 332 :::::::: :::::::::: :: d1a4ma_ 257 -EVCPWSSYLTGAWDPKTTHAVVRFKN--DKANYSLNTD-----------DPLIFKSTLD 302 d1j93a_ 333 HFFEIAKGLRY---------------------------------------- 343 ::::::: d1a4ma_ 303 TDYQMTK----KDMGFTEEEFKRLNINAAKSSFLPEEEKKELLERLYREYQ 349 TMalign alignment (TM-score: 0.48 Raw score:166.31) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVVEISLQPW 60 : : : d1a4ma_ 1 -----------------------------------------------------T--P--A 3 d1j93a_ 61 KV-FRPDGVILFSDILT---PL-SGM-NI-PFDII-------KGK-------------G- 92 :: ::::::::::::: :: ::: :: ::::: ::: : d1a4ma_ 4 FNK-PKVELHVHLDGAIKPETILYFGKKRGIALPADTVEELRNIIGMDKPLSLPGFLAKF 62 d1j93a_ 93 -PVIFDPLRTAADVEKVREFIPEKSVPYVGEALTILRKEVNNQAAVLGFVGAPFTLASYV 151 ::::::: : :::::: ::::::::::::: :: : :::::::::::: : d1a4ma_ 63 DYYMPVIA-----G--CREAIK-RIAYEFVEMKAKE--GV-V---YVEVRYSPHLLA--N 106 d1j93a_ 152 V-EGGSSKNFTKIKRLA-FAEPKVLHALLQKFATSMAKYIRYQAD--SGAQAVQIFDSWA 207 : ::::: :: ::::::::::::::::::::::: :::::::::: : d1a4ma_ 107 SK----------VDPMPW-NQ-TEGDVTPDDVVDLVNQGLQEGEQAFGIKVRSILCC--M 152 d1j93a_ 208 TELSPVDFEEFSLPYLKQIVDSVKLTHPNLPLILYAS-G----SG-G--LLERLPLT--- 256 ::: : ::: :::::: :::::::: :::::::: : :: : :::::::: d1a4ma_ 153 RHQ-P-SWS---LEVLEL-CKKYNQKT--VVAMDLAGDETIEGSSLFPGHVEAYEGAVKN 204 d1j93a_ 257 GVDVVSLDW--T--VDMADGRRRLGPNVAIQGNVDPGVLFGSKEFITNRINDTVKKAGKG 312 ::::::::: : ::::::::::: ::::::::: : : ::::::::::::: d1a4ma_ 205 GIHRTVHAGEVGSPEVVREAVDILK--TERVGHGYH-T-------I-EDEALYNRLLKEN 253 d1j93a_ 313 KHILNLGH-GIKV----GTPEENFAHFFEIAKGLR------------------------- 342 ::::::: :::: :::::::::::::::::: d1a4ma_ 254 -MHFEVCPWSSYLTGAWDPKTTHAVVRFKNDKANYSLNTDDPLIFKSTLDTDYQMTKKDM 312 d1j93a_ 343 -------------------------------------Y 343 d1a4ma_ 313 GFTEEEFKRLNINAAKSSFLPEEEKKELLERLYREYQ- 349 HHsearch alignment (Probability: 0.24 E-value:0.11) d1j93a_ 24 QAGRYMKSYQLLCEKYPLFRDRS-ENVDLVVEISLQPWKVFRPDGVILFSDILTPLSGMN 82 ::::::::::::::: ::::: :::::::::::::::::::::::: d1a4ma_ 50 DKPLSLPGFLAKFDY---YMPVIAGCREAIKRIAYEFVEMKAKEGVVY------------ 94 d1j93a_ 83 IPFDIIKGKGPVIF-DPLRTAADVE-KVREFIPEKSVPYVGEALTILRKEVNNQAAVLGF 140 :::::: :::: :::::::::: :::::::::::::::::::::::::::::::::: d1a4ma_ 95 VEVRYS----PHLLANSKVDPMPWNQTEGDVTPDDVVDLVNQGLQEGEQAFGIKVRSILC 150 d1j93a_ 141 VGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLHALLQKFATSMAKYIRYQADSGAQAV 200 :::::::::::::::::: ::::::: d1a4ma_ 151 -------------------------CMRHQPSWSLEVLELCKK--------YNQKTVV-- 175 d1j93a_ 201 QIFDSWAT--ELSPVDFEEFSLPYLKQIVDSVKLTHPNLPLILYA---SGSGGLLERLPL 255 ::::::: ::::::::::: ::::::::: :::::::: :::::::::::: d1a4ma_ 176 -AMDLAGDETIEGSSLFPGHV-----EAYEGAVKN--GIHRTVHAGEVGSPEVVREAVDI 227 d1j93a_ 256 TGVDVVSLDWTV--DMADGRRRLGPNVAIQGNVDPGVLFGSKEFITNR-INDTVKKAGKG 312 :::::::::::: :::::::::::::::::::::::::::::::::: ::::::: :: d1a4ma_ 228 LKTERVGHGYHTIEDEALYNRLLKENMHFEVCPWSSYLTGAWDPKTTHAVVRFKND--KA 285 d1j93a_ 313 KHILNLGHGIKVGTPEE 329 ::::::::::::::::: d1a4ma_ 286 NYSLNTDDPLIFKSTLD 302