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: T515_B.pdb B
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1tqja_ | D-ribulose-5-phosphate 3-epimerase | Ribulose-phoshate binding barrel | TIM beta/alpha-barrel | α/β |
| Hit | d1d3ga_ | Dihydroorotate dehydrogenase | FMN-linked oxidoreductases | TIM beta/alpha-barrel | α/β |
Query <-- 2.347 --> IntermediateDALI alignment (Z-score: 13.0 Raw score:1145.60) query 1 mietpyylidkakltrnmeriahvreksGAKALLALKCF---aTWSVFDLMRD-YMDGTT 56 ::::::::::: :::::::::: :::::: d1tqja_ 1 ---------------------------kNIVVAPSILSAdfsrLGEEIKAVDEaGADWIH 33 query 57 SSS------------LFEVRLGRERFGKETHAYSV--AYGDnEIDEVVS-HADKIIFNS- 100 ::: :::::::::::::::::::: :::: ::::::: ::::::::: d1tqja_ 34 VDVmdgrfvpnitigPLIVDAIRPLTKKTLDVHLMivEPEK-YVEDFAKaGADIISVHVe 92 query 101 ---ISQLERFADKAA--GIARGLRLNPQrlgeWDVPKVERVMDRINGFMIHN-NCENkdf 154 :::::::::::: ::::::::::: :::::::::::::::::::: :::: d1tqja_ 93 hnaSPHLHRTLCQIRelGKKAGAVLNPS----TPLDFLEYVLPVCDLILIMSvNPQS--- 145 query 155 glFDRMLGEIEeRFGALIA---RVDWVSLGGGIHFtgddypvdaFSARLRAFSdrygvqI 211 ::::::::: ::::::: ::::::::::::: ::::::::: : d1tqja_ 146 -fIPEVLPKIR-ALRQMCDergLDPWIEVDGGLKP--------nNTWQVLEAG-----aN 190 query 212 YLEPGEASITKsttlevtvldtlynknlaivdssieahmldlliyretakvlpnegshsy 271 ::::::::::: d1tqja_ 191 AIVAGSAVFNA------------------------------------------------- 201 query 272 micgksclagdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkmpaiaireldgs 331 d1tqja_ 202 ------------------------------------------------------------ 202 query 332 vrtvreftyadyeqsls 348 d1tqja_ 202 --pnyaeaiagvrnskr 216 FAST alignment (Normalized score: 7.32 Raw score:2007.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREKS-GAKALLALK-CFA--TWSVFDLMRD-YMDGT 55 ::::::::: ::: :::::::::: ::::: d1tqja_ 1 ----------------------------KNIVVAPSILSADFSRLGEEIKAVDEAGADWI 32 query 56 TS------------SSLFEVRLGRERFGKETHAYSVAY----GDNEIDEVVS-HADKIIF 98 :: ::::::::::::::::::::: :::::::::: ::::::: d1tqja_ 33 HVDVMDGRFVPNITIGPLIVDAIRPLTKKTLDVHL---MIVEPEKYVEDFAKAGADIISV 89 query 99 N--SISQ---LERFADKA---AGIARGLRLNPQRLGE-WDVPKVERVMDRINGFMIHNNC 149 :::: ::::::: ::::::::::: :::::::::::::::::::: d1tqja_ 90 -HVEHNASPHLHRTLCQ-IRELGKKAGAVLNP-----STPLDFLEYVLPVCDLILIMS-- 140 query 150 ENKD------FGLFDRMLGEIEERFGALIARV----DWVSLGGGIHFTGDDYPVDA---F 196 ::::::::::::::::: ::::::::: : d1tqja_ 141 ----VNPQSFIPEVLPKIRALRQMCDE-----RGLDPWIEVDGGL-----------KPNN 180 query 197 SARLRAFSDRYGVQ---IYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDL 253 :::::: ::::::::: d1tqja_ 181 TWQVLE--------AGANAIVAGSAV---------------------------------- 198 query 254 LIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKN 313 d1tqja_ 199 ------------------------------------------------------------ 199 query 314 WFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS------------------ 348 d1tqja_ 199 -----------------------------------FNAPNYAEAIAGVRNSKR 216 TMalign alignment (TM-score: 0.43 Raw score:149.23) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCF-A--TWSVFDLMRD-YMDGTT 56 :::::::::::: : :::::::::: :::::: d1tqja_ 1 ---------------------------KNIVVAPSILSADFSRLGEEIKAVDEAGADWIH 33 query 57 S-S-----------SLFEVRLGRERFGKETHAYSVA--YGDNEIDEVVS-HADKIIFNS- 100 : : :::::::::::::::::::::: ::: ::::::: ::::::::: d1tqja_ 34 VDVMDGRFVPNITIGPLIVDAIRPLTKKTLDVHLMIVEPEK-YVEDFAKAGADIISVHVE 92 query 101 ---ISQLERFADKAA--GIARGLRLNPQRLGEWDVPKVERVMDRINGFMIHNN--CENKD 153 :::::::::::: ::::::::::: :::: ::::::::::::::::: ::: d1tqja_ 93 HNASPHLHRTLCQIRELGKKAGAVLNPS---TPLD-FLEYVLPVCDLILIMSVNPQSF-- 146 query 154 FGLFDRMLGEIEERFGALIA---RVDWVSLGGGIHFTGDDYPVDAFSARLRAFSDRYGVQ 210 : ::::::::::::::: ::::::::::::: ::: :: :: ::: : d1tqja_ 147 ---I-PEVLPKIRALRQMCDERGLDPWIEVDGGLKP----NNT--WQ-VL-EAG-----A 189 query 211 IYLEPGEASITKST-------------TLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYR 257 :::::::::::::: d1tqja_ 190 NAIVAGSAVFNAPNYAEAIAGVRNSKR--------------------------------- 216 query 258 ETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNG 317 d1tqja_ 217 ------------------------------------------------------------ 217 query 318 VKMPAIAIRELDGSVRTVREFTYADYEQSLS 348 d1tqja_ 217 ------------------------------- 217 HHsearch alignment (Probability: 0.21 E-value:0.01) query 75 HAYSVAYGDNEIDEVVSHADKIIFN--SISQLERFADKAAG--IARGLRLNPQRLGEWDV 130 ::::::::::::::::::::::::: :::::::::::::: :::::::::: ::: d1tqja_ 68 MIVEPEKYVEDFAKAGADIISVHVEHNASPHLHRTLCQIRELGKKAGAVLNPS----TPL 123 query 131 PKVERVMDRINGFMIHNNCENKDFGLFDRMLGEIEERFGALIARVDW-VSLG 181 ::::::::::::::::::::::::::::::::::::::::::::::: :::: d1tqja_ 124 DFLEYVLPVCDLILIMSVNPQSFIPEVLPKIRALRQMCDERGLDPWIEVDGG 175
Intermediate <-- 2.554 --> HitDALI alignment (Z-score: 13.6 Raw score:1437.00) d1tqja_ 1 -------------------------------------------------------knIVV 5 ::: d1d3ga_ 1 matgderfyaehlmptlqglldpesahrlavrftslgllpfqdsdmlevrvlghkfrNPV 60 d1tqja_ 6 APSILSAdfsrlgeeIKAVDEAGADWIHVDVMD---------------------grfVPN 44 ::::::: :::::::::::::::::: ::: d1d3ga_ 61 GIAAGFD---khgeaVDGLYKMGFGFVEIGSVTpkpqegnprprvfrlpedqavinrYGF 117 d1tqja_ 45 ITI----GPLIVDAIRPLTK------KTLDVHLMIV--------EPEKYVEDFAKaGADI 86 ::: ::::::::::::: :::::::::: ::::::::::: :::: d1d3ga_ 118 NSHglsvVEHRLRARQQKQAkltedgLPLGVNLGKNktsvdaaeDYAEGVRVLGP-LADY 176 d1tqja_ 87 ISVHVE---------hnaSPHLHRTLCQIREL----GKKAGAVLNPST---PLDFL-EYV 129 :::::: :::::::::::::: :::::::::::: ::::: ::: d1d3ga_ 177 LVVNVSspntaglgkaelRRLLTKVLQERDGLrrvhRPAVLVKIAPDLtsqDKEDIaSVV 236 d1tqja_ 130 L-PVCDLILIMSVN------------------pQSFI-PEVLPKIRALRQMCDergLDPW 169 : :::::::::::: :::: ::::::::::::::: :::: d1d3ga_ 237 KeLGIDGLIVTNTTvsrpaglqgalrsetgglsGKPLrDLSTQTIREMYALTQ---GRVP 293 d1tqja_ 170 IEVDGGLKPNN-TWQVLEAGANAIVAGSAVfNAPNYaEAIAGVR-NSKR----------- 216 ::::::::::: :::::::::::::::::: ::::: ::::::: :::: d1d3ga_ 294 IIGVGGVSSGQdALEKIRAGASLVQLYTAL-TFWGP-PVVGKVKrELEAllkeqgfggvt 351 d1tqja_ 217 --------- 217 d1d3ga_ 352 daigadhrr 360 FAST alignment (Normalized score: 8.98 Raw score:2503.00) d1tqja_ 1 KNI--------------------------------------------------------- 3 d1d3ga_ 1 ---MATGDERFYAEHLMPTLQGLLDPESAHRLAVRFTSLGLLPFQDSDMLEVRVLGHKFR 57 d1tqja_ 4 -VVAPSILSADFSRL----GEEIKAVDEAGADWIH-VDVMDGRFVPNITI---------- 47 ::::::: :::::::::::::::: :::: d1d3ga_ 58 NPVGIAAG-------FDKHGEAVDGLYKMGFGFVEIGSVT----------PKPQEGNPRP 100 d1tqja_ 48 ------------------------GPLIVDAIRPLT-------KKTLDVHLMI-----VE 71 ::::::::::: ::::::::: :: d1d3ga_ 101 RVFRLPEDQAVINRYGFNSHGLSVVEHRLRARQQK-QAKLTEDGLPLGVNLG-KNKTSVD 158 d1tqja_ 72 PEKYVEDFAK---AGADIISVHVEHNASP------------HLHRTLCQIRE-------- 108 :::::::::: ::::::::: ::::::::::: d1d3ga_ 159 AAEDYAEGVRVLGPLADYLVVN-------VSSPNTAGLGKAELRRLLTKVLQERDGLRRV 211 d1tqja_ 109 LGKKAGAVLNPSTPLDFLEYVLP-----VCDLILIMSVNPQSF----------------- 146 ::::::::::::::::::::::: :::::: d1d3ga_ 212 HRPAVLVKIAPDLTSQDKEDIASVVKELGIDGLI---------VTNTTVSRPAGLQGALR 262 d1tqja_ 147 -----------IPEVLPKIRALRQMCDERGL---DPWIEVDGGL-KPNNTWQVLEAGANA 191 :::::::::::::: :::::::::: ::::::::::::::: d1d3ga_ 263 SETGGLSGKPLRDLSTQTIREMYAL------TQGRVPIIGVGGVSSGQDALEKIRAGASL 316 d1tqja_ 192 IVAGSAVFNAPNYAEAIAGVRNSKR------------------------- 216 :::::::: ::::::::::: d1d3ga_ 317 VQLYTALT--FWGPPVVGKVK----RELEALLKEQGFGGVTDAIGADHRR 360 TMalign alignment (TM-score: 0.56 Raw score:120.25) d1tqja_ 1 ------------------------------------------------------K----- 1 : d1d3ga_ 1 MATGDERFYAEHLMPTLQGLLDPESAHRLAVRFTSLGLLPFQDSDMLEVRVLGHKFRNPV 60 d1tqja_ 2 ------------------------------------------------------------ 2 d1d3ga_ 61 GIAAGFDKHGEAVDGLYKMGFGFVEIGSVTPKPQEGNPRPRVFRLPEDQAVINRYGFNSH 120 d1tqja_ 2 ----------------------NIVVAPSILSA--D--F-SRLGEEIKAVDEAGADWIHV 34 ::::::::::: : : :::::::::::: ::::::: d1d3ga_ 121 GLSVVEHRLRARQQKQAKLTEDGLPLGVNLGKNKTSVDAAEDYAEGVRVLGP-LADYLVV 179 d1tqja_ 35 DVMDGRFVPNITI---GP-LIVDAIRPLTK-------KTLDVHLMIVEPE-KY--VEDFA 80 :::: :::::: :: ::::::::::: ::::::::::::: :: ::::: d1d3ga_ 180 NVSS---PNTAGLGKAELRRLLTKVLQERDGLRRVHRPAVLVKIAPDLTSQDKEDIASVV 236 d1tqja_ 81 -KAGADIISVH------------------------VEHNASPHLHRTLCQIRELGKKAGA 115 :::::::::: ::::::::::::::::::::::::: d1d3ga_ 237 KELGIDGLIVTNTTVSRPAGLQGALRSETGGLSGKPLRDLSTQTIREMYALTQGRVPIIG 296 d1tqja_ 116 VLNPSTPL-DFLEYVLP-VCDLILIMSVNPQSFIPEVLPKIRALRQMCDE-R------GL 166 ::: ::: :::::::: :::::::::: :::::::::::::::::: : :: d1d3ga_ 297 VGG--VSSGQDALEKIRAGASLVQLYTA----LTFWGPPVVGKVKRELEALLKEQGFGGV 350 d1tqja_ 167 DP--------WIEVDGGLKPNNTWQVLEAGANAIVAGSAVFNAPNYAEAIAGVRNSKR 216 :: d1d3ga_ 351 TDAIGADHRR------------------------------------------------ 360 HHsearch alignment (Probability: 0.97 E-value:0.00) d1tqja_ 6 APSILSADFSRLGEEIKAVDEAGADWIH------------------VDVMDGRFVPNITI 47 :::::::::::::::::::::::::::: :::::::::::::: d1d3ga_ 58 NPVGIAAGFDKHGEAVDGLYKMGFGFVEIGSVTPKPQEGNPRPRVFRLPEDQAVINRYGF 117 d1tqja_ 48 GPLIV----DAIRPLT---------KKTLDVHLMIV-----EPEKYVEDFAKA--GADII 87 ::::: ::::::: ::::::::::: :::::::::::: ::::: d1d3ga_ 118 NSHGLSVVEHRLRARQQKQAKLTEDGLPLGVNLGKNKTSVDAAEDYAEGVRVLGPLADYL 177 d1tqja_ 88 SVHVEHN---------ASPHLHRTL---CQIREL-GKKAGAVLNPSTPLDFLEYVLPV-- 132 ::::::: ::::::::: :::::: ::::::::::::::::::::::: d1d3ga_ 178 VVNVSSPNTAGLGKAELRRLLTKVLQERDGLRRVHRPAVLVKIAPDLTSQDKEDIASVVK 237 d1tqja_ 133 ---CDLILIMS-------------------VNPQSFIPEVLPKIRALRQMCDERGLDPWI 170 :::::::: ::::::::::::::::::::: :::::: d1d3ga_ 238 ELGIDGLIVTNTTVSRPAGLQGALRSETGGLSGKPLRDLSTQTIREMYALT---QGRVPI 294 d1tqja_ 171 EVDGGL-KPNNTWQVLEAGANAIVAGSAV-FNAPNYAEAIA 209 :::::: :::::::::::::::::::::: ::::::::::: d1d3ga_ 295 IGVGGVSSGQDALEKIRAGASLVQLYTALTFWGPPVVGKVK 335