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 | d1kfwa1 | Psychrophilic chitinase B | (Trans)glycosidases | 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 <-- 0.890 --> HitDALI alignment (Z-score: 12.0 Raw score:1451.00) d1j93a_ 1 TQPLLldavrgkevERPPVWLMRQAGRymksYQLLcekyplfrdrsenvdlvveisLQPW 60 ::::: ::::::::::::: :::: :::: d1kfwa1 1 PLTST--------vNGYRNVGYFAQWG----VYGR-----------------afqaKQLD 31 d1j93a_ 61 -KVFR--PDGVILFSDILtpLSGM----nipFDIIKG-KGPVI----fdplrtaadvekv 108 :::: ::::::::::: :::: :::::: ::::: d1kfwa1 32 vSGTAknLTHINYSFGNI--NNQTltcfmanKAQGTGpNGSDGagdawadfgmgyaadks 89 d1j93a_ 109 refipeksvpyvgeaLTILRKEVN--NQAAVLGFVG---apfTLASyvveggssknftki 163 ::::::::: :::::::::: :::: d1kfwa1 90 vsgkadtwdqplagsFNQLKQLKAknPKLKVMISLGgwtwskNFSK-------------- 135 d1j93a_ 164 krlafaepkvlhaLLQKFATSMAKYIRY-QADS----------------GAQAVQIFDSW 206 ::::::::::::::: :::: ::::::::::: d1kfwa1 136 -----------aaATEASRQKLVSSCIDlYIKGnlpnfegrggagaaagIFDGIDIDWEW 184 d1j93a_ 207 ATEL--------spVDFEEFSLPYLKQIVDSVKLTH----PNLPLILYAS---GSGG--L 249 :::: :::::::::::::::::::::: :::::::::: :::: : d1kfwa1 185 PGTNsglagngvdtVNDRANFKALLAEFRKQLDAYGstnnKKYVLSAFLPanpADIDagG 244 d1j93a_ 250 LERlPLTG--VDVVSLDWT------------------------------vDMADGRRRL- 276 ::: :::: ::::::::: ::::::::: d1kfwa1 245 WDD-PANFksLDFGSIQGYdlhgawnptltghqanlyddpadprapskkfSADKAVKKYl 303 d1j93a_ 277 -GPNV--AIQGNVdPGVLfgsKEFITNRINDTVKKAGkgkHILNLgHGIKVgTPEENFAH 333 :::: :::::: :::: :::::::::::::::: ::::: ::::: :::::::: d1kfwa1 304 aAGIDpkQLGLGL-AADN---IATTKQKTDYIVSKGL---GGGMW-WELSGdRNGELVGA 355 d1j93a_ 334 FFEIAKGLRY--------- 343 :::::::::: d1kfwa1 356 MSDKFRAAAPgpvteaapp 374 FAST alignment (Normalized score: 5.33 Raw score:1908.00) d1j93a_ 1 TQPLLLDAVRGKEVE-------RPPVWLMRQAGRYMKSYQLLCEKYPLFRDRSENVDLVV 53 :::::: :::::: d1kfwa1 1 ---------------PLTSTVNGYRNVG-YFAQWG------------------------- 19 d1j93a_ 54 E------ISLQPWKVF-----RPDGVILFSDILTPLSGMNI---------------PFDI 87 ::::::: ::::::: :::: d1kfwa1 20 -VYGRAFQAKQLDV--SGTAKNLTHINY-------------SFGNINNQTLTCFMANKAQ 63 d1j93a_ 88 IKGKGPVIFDPLRTAADVEKVREFIPEKSV------------------------------ 117 : d1kfwa1 64 G-----------------------------TGPNGSDGAGDAWADFGMGYAADKSVSGKA 94 d1j93a_ 118 -------PYVGEALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAE 170 :::::::::::::: :::::::: d1kfwa1 95 DTWDQPLAGSFNQLKQLKAKN-PKLKVMIS------------------------------ 123 d1j93a_ 171 PKV---------------LHALLQKFATSMAKYIRYQAD--------------------S 195 :::::::::::::: : d1kfwa1 124 ---LGGWTWSKNFSKAAATEASRQKLVSSCID-------LYIKGNLPNFEGRGGAGAAAG 173 d1j93a_ 196 GAQAVQIFDSWAT-----------ELSPVDFEEFSLPYLKQIVDSVKLTH-----PNLPL 239 :::::::::: ::::::::::::::::::::::::: ::::: d1kfwa1 174 IFDGIDIDWE---WPGTNSGLAGNGVDTVNDRANFKALLAEFRKQLDAY-GSTNNKKYVL 229 d1j93a_ 240 ILYASG--SGGLL-------ERLPLTGVDVVSLDWT------------------------ 266 :::: ::::: ::::: :::::::: d1kfwa1 230 SAFL--PANPADIDAGGWDDPANFK-SLDFGSIQ--GYDLHGAWNPTLTGHQANLYDDPA 284 d1j93a_ 267 --------VDMADGRRR-----LGPNVAIQGNVDPGVL-------FGSKEFITNRINDTV 306 ::::::::: :::: ::::::::::::::: d1kfwa1 285 DPRAPSKKFSADKAVKKYLAAGIDPK------------QLGLGLAADNIATTKQKTDYIV 332 d1j93a_ 307 KKAGKGKHILNLGHGIKVGTP----------------EENFAHFFEIAKGLRY------- 343 : ::::::::::::::: d1kfwa1 333 S--------------------KGLGGGMWWELSGDRNGELVGAMSDKFRAAA-PGPVTEA 371 d1j93a_ 344 --- 344 d1kfwa1 372 APP 374 TMalign alignment (TM-score: 0.51 Raw score:176.22) d1j93a_ 1 TQPLLLDAVRGKEVERPPVWLMRQAG-RY---MKSYQ----------------LLC---- 36 ::::: : ::::::::::: :: ::::: : d1kfwa1 1 PLTST--V-------NGYRNVGYFAQWGVYGRAFQAKQLDVSGTAKNLTHINY--SFGNI 49 d1j93a_ 37 ---------EKYPL------------FRD-RSEN------------------VD-LVVEI 55 ::: ::: :::: :: ::::: d1kfwa1 50 NNQTLTCFM--ANKAQGTGPNGSDGAGDAWADFGMGYAADKSVSGKADTWDQPLAGSFNQ 107 d1j93a_ 56 SLQPWKVFRPDGVILFSDILTPLSGMNIPFDIIKGKGPVIFDPL-RTAADVEKVREFIPE 114 ::::::: :::::::::::: ::::::::: ::::::::::: d1kfwa1 108 LKQLKAK-NPKLKVMISLGG---------------WTWSKNFSKA----AATEASRQKLV 147 d1j93a_ 115 KSV-PYVGEA-------------LTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNF 160 ::: :::::: ::::: ::::::: ::::: :: :: : d1kfwa1 148 SSCIDLYIKGNLPNFEGRGGAGAAAGIF--------DGIDIDW-EWPGT--NS--GL--A 192 d1j93a_ 161 TKIKRLAFAEPKVLHALLQKFATSMAKYIRYQA-DS----GAQAVQIFDSWATELSPVDF 215 ::: : ::::::::::::::::::::: :: :::::::::: :::: :: d1kfwa1 193 GNG--V------DTVNDRANFKALLAEFRKQLDAYGSTNNKKYVLSAFLP--ANPA--DI 240 d1j93a_ 216 EEFSLPYLKQIVDSVKLTHPNLPLILYAS--G---------------------------- 245 : ::::::::::: : :::::::: : d1kfwa1 241 D-AGGWDDPANFK-S------LDFGSIQGYDLHGAWNPTLTGHQANLYDDPADPRAPSKK 292 d1j93a_ 246 --SGGLLERLPLTGVDVVSLDWTVDMADGRRRLGPNVAIQGNVDPGVLFGSKEFITNRIN 303 ::::::::::::::: ::::::::::: : :::: d1kfwa1 293 FSADKAVKKYLAAGIDP-------------------KQLGLGLAADN-------I-ATTK 325 d1j93a_ 304 DTVKKAGKGKHILNLGHGIKVGTPEENFAHFFEIAKGLRY---------- 343 ::::::::::::::: :::::::::::::::::::::::: d1kfwa1 326 QKTDYIVSKGLGGGM-WWELSGDRNGELVGAMSDKFRAAAPGPVTEAAPP 374 HHsearch alignment (Probability: 0.04 E-value:0.09) d1j93a_ 116 SVPYVGEALTILRKEVNNQAAVLGFVGAPFTLASYVVEGGSSKNFTKIKRLAFAEPKVLH 175 ::::::::::::::::::::::::: :: :: ::::::: ::::::::: d1kfwa1 100 PLAGSFNQLKQLKAKNPKLKVMISL-GG-WT---------WSKNFSK----AAATEASRQ 144 d1j93a_ 176 ALLQKFATSMAKYI 189 :::::::::::::: d1kfwa1 145 KLVSSCIDLYIKGN 158