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 | d1d3ga_ | Dihydroorotate dehydrogenase | FMN-linked oxidoreductases | TIM beta/alpha-barrel | α/β |
| Hit | d1tyga_ | Thiazole biosynthesis protein ThiG | ThiG-like (Pfam 05690) | TIM beta/alpha-barrel | α/β |
Query <-- 1.647 --> IntermediateDALI alignment (Z-score: 7.2 Raw score:865.90) query 1 mietpyyLIDKAK-----------------------------------ltrnmeriahvr 25 :::::: d1d3ga_ 1 -------MATGDErfyaehlmptlqglldpesahrlavrftslgllpfqdsdmlevrvlg 53 query 26 eksgaKALLALKcfatwsvfDLMRD-YMDGTTSSSL------------------------ 60 ::::::: ::::: :::::::::: d1d3ga_ 54 hkfrnPVGIAAGfdkhgeavDGLYKmGFGFVEIGSVtpkpqegnprprvfrlpedqavin 113 query 61 ----------------fevrlgRERFG---KETHAYSVA---------YGDNEIDEVVSH 92 ::::: ::::::::: :::::::::::: d1d3ga_ 114 rygfnshglsvvehrlrarqqkQAKLTedgLPLGVNLGKnktsvdaaeDYAEGVRVLGPL 173 query 93 ADKIIFNS-------------ISQLERFADKAA------GIARGLRLNPQrlgewDVPKV 133 :::::::: :::::::::::: ::::::::::: ::::: d1d3ga_ 174 ADYLVVNVsspntaglgkaelRRLLTKVLQERDglrrvhRPAVLVKIAPD-ltsqDKEDI 232 query 134 ERVM--DRINGFMIHNN-------------------CENKdfglFDRMLGEIEErFGALI 172 :::: ::::::::::: :::: :::::::::: ::::: d1d3ga_ 233 ASVVkeLGIDGLIVTNTtvsrpaglqgalrsetgglSGKP---lRDLSTQTIREmYALTQ 289 query 173 ARVdWVSLGGGIHFtgddypvdAFSARLRAFSdrygvqIYLEPGEASITKSttlevtvld 232 ::: :::::::::: :::::::::: ::::::::::::: d1d3ga_ 290 GRV-PIIGVGGVSS-------gQDALEKIRAG-----aSLVQLYTALTFWG--------- 327 query 233 tlynknlaivdssieahmldlliyretakvlpnegshsymicgksclagdvfgefrfaee 292 d1d3ga_ 328 ------------------------------------------------------------ 328 query 293 lkvgdrisfqdaagytmvkknwfngvkmpaiaireldgsvrtvreftyadyeqsls 348 d1d3ga_ 328 -----------------------ppvvgkvkreleallkeqgfggvtdaigadhrr 360 FAST alignment (Normalized score: 4.17 Raw score:1474.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGA------------------------------ 30 d1d3ga_ 1 ------------------------------MATGDERFYAEHLMPTLQGLLDPESAHRLA 30 query 31 ----------------------------KALLALKCFA--TWSVFDLMR-DYMDGTTSS- 58 :::::::: ::::::::: ::::::: d1d3ga_ 31 VRFTSLGLLPFQDSDMLEVRVLGHKFRNPVGIAAGF--DKHGEAVDGLYKMGFGFVE--I 86 query 59 -----------------------------------SLFEVRLGRERFG------------ 71 :::::::::: d1d3ga_ 87 GSVTPKPQEGNPRPRVFRLPEDQAVINRYGFNSHGLSVVEHRLRA---RQQKQAKLTEDG 143 query 72 KETHAYSVAY------------GDNEIDEVVSHADKIIFN--------------SISQLE 105 ::::::: ::::::::::::::::: :::::: d1d3ga_ 144 LPLGVNL---GKNKTSVDAAEDYAEGVRVLGPLADYLVV-NVSSPNTAGLGKAELRRLLT 199 query 106 RFADKAA------GIARGLRLNPQRLGEW---------DVPKVERVMD-RINGFMIHNNC 149 ::::::: :::::::::: ::::::: :::::: d1d3ga_ 200 KVLQERDGLRRVHRPAVLVKIAP------DLTSQDKEDIASVVKE---LGIDGLI----- 245 query 150 ENK---------------------------DFGLFDRMLGEIEERFGALIARV----DWV 178 ::::::::::::::: ::: d1d3ga_ 246 ---VTNTTVSRPAGLQGALRSETGGLSGKPLRDLSTQTIREMYAL--------TQGRVPI 294 query 179 SLGGGIHFTGDDYPVDA-FSARLRAFSDRYGVQ--IYLEPGEASITKSTTLEVTVLDTLY 235 :::::: ::::::::::: ::::::::: d1d3ga_ 295 IGVGGV-----------SSGQDALEKIRA----GASLVQLYTAL---------------- 323 query 236 NKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKV 295 d1d3ga_ 324 ------------------------------------------------------------ 324 query 296 GDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS------- 348 d1d3ga_ 324 -----------------------------------------------------TFWGPPV 330 query 349 ------------------------------ 349 d1d3ga_ 331 VGKVKRELEALLKEQGFGGVTDAIGADHRR 360 TMalign alignment (TM-score: 0.36 Raw score:123.76) query 1 ---------MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCFATWS-------- 43 :: d1d3ga_ 1 MATGDERFY-----------------------------------------AEHLMPTLQG 19 query 44 -------VFDLMRDYMDGTTSSSLFE--VR----L-GRE---------------RFGKET 74 ::::: : : :: :::: d1d3ga_ 20 LLDPESA--------------HRLAVRF-TSLGLLP-FQDSDMLEVRVLGHKFR--NPVG 61 query 75 HAY--SVAYGDNEIDEVVSH-A-DKIIF-N------------------------------ 99 ::: ::::: :::::::: : ::::: : d1d3ga_ 62 IAAGFDKHGE--AVDGLYKMGFGFVEIGSVTPKPQEGNPRPRVFRLPEDQAVINRYGFNS 119 query 100 --SISQLERFA-D--KAA-G----IARGLRLNPQR-L--G-EWDVPKVERVMDRINGFMI 145 ::::::::: : ::: : ::::::::::: : : ::::::::::::::::::: d1d3ga_ 120 HGLSVVEHRLRARQQKQAKLTEDGLPLGVNLGKNKTSVDAAEDYAEGVRVLGPLADYLVV 179 query 146 HNNCEN---KDFGLFDRMLGEIEERFGALIA------RVDWVSLGGGIHFTGDDYPVDAF 196 :::::: :::::::::::::::::: ::::::::: ::: ::: :: d1d3ga_ 180 NVSSPNTAG----LGKAELRRLLTKVLQERDGLRRVHRPAVLVKIA-PDL----TSQ-DK 229 query 197 SARLRAFSDRYGVQIYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIY 256 :::::::::::::::::::::: ::::::: :::::: : d1d3ga_ 230 EDIASVVKELGIDGLIVTNTTV-SRPAGLQ---------------------GALRSE--T 265 query 257 RETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMV------ 310 : :::::: d1d3ga_ 266 -G----------------------------------------------GLSGKPLRDLST 278 query 311 ------------------------------------------------------------ 311 d1d3ga_ 279 QTIREMYALTQGRVPIIGVGGVSSGQDALEKIRAGASLVQLYTALTFWGPPVVGKVKREL 338 query 311 ----------------------KKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS 348 d1d3ga_ 339 EALLKEQGFGGVTDAIGADHRR-------------------------------------- 360 HHsearch alignment (Probability: 0.13 E-value:0.02) query 98 FNSISQLERFADKAAGIARGLRLNPQRLGEWDVPKVERVMDR-INGFMI----------- 145 :::::::::::::::::::::::::::::::::::::::::: :::::: d1d3ga_ 198 LTKVLQERDGLRRVHRPAVLVKIAPDLTSQDKEDIASVVKELGIDGLIVTNTTVSRPAGL 257 query 146 -----HNNCENKDFGLFDRMLGEIEERFGALIARVDWVSLGG 182 ::::::::::::::::::::::::::::::::::::: d1d3ga_ 258 QGALRSETGGLSGKPLRDLSTQTIREMYALTQGRVPIIGVGG 299
Intermediate <-- 2.119 --> HitDALI alignment (Z-score: 12.1 Raw score:1340.50) d1d3ga_ 1 matgderfyaehlmptlqglldpesahrlavrftslgllpfqdsdmlEVRVLGHKFRNPV 60 ::::::::::::: d1tyga_ 1 -----------------------------------------------MLTIGGKSFQSRL 13 d1d3ga_ 61 GIAAGF-dkhgeAVDGLYKMGFGFVEIGsvtpKPQEgnprprvfrlpedqavinrygfns 119 :::::: :::::::::::::::: :::: d1tyga_ 14 LLGTGKypsfdiQKEAVAVSESDILTFA---vRRMN------------------------ 46 d1d3ga_ 120 hglsvvehrLRARqqkQAKLtedgLPLGVNLGKnktsvdAAEDYAEGVRVLGP--LADYL 177 :::: :::: ::::::::: :::::::::::::: ::::: d1tyga_ 47 ifeasqpnfLEQL---DLSK----YTLLPNTAG----asTAEEAVRIARLAKAsgLCDMI 95 d1d3ga_ 178 VVNVsSPNTA--glgkAELRRLLTKVLQERdglrrvhrPAVLVKIAPdltsqDKEDIASV 235 :::: ::::: :::::::::::::: ::::::::: :::::::: d1tyga_ 96 KVEV-IGCSRsllpdpVETLKASEQLLEEG--------FIVLPYTSD-----DVVLARKL 141 d1d3ga_ 236 VKeLGIDGLIVTnttvsrpaglqgalrsetgglSGKPLRDLsTQTIREMYALTqgRVPII 295 :: ::::::::: :::::::: ::::::::::: ::::: d1tyga_ 142 EE-LGVHAIMPG-----------------aspiGSGQGILN-PLNLSFIIEQA--KVPVI 180 d1d3ga_ 296 GVGGVSSGQDALEKIRAGASLVQLYTALTFW-----GPPVVGKVKRELEALLKEQGfggv 350 ::::::::::::::::::::::::::::::: :::::::::::::::::::: d1tyga_ 181 VDAGIGSPKDAAYAMELGADGVLLNTAVSGAddpvkMARAMKLAVEAGRLSYEAGR---- 236 d1d3ga_ 351 tdaigadhrr 360 d1tyga_ 237 ----iplkqy 242 FAST alignment (Normalized score: 8.85 Raw score:2611.00) d1d3ga_ 1 MATGDERFYAEHLMPTLQGLLDPESAHRLAVRFTSLGLLPFQDSDMLEVRVLGHKFRNPV 60 ::::::::::::: d1tyga_ 1 -----------------------------------------------MLTIGGKSFQSRL 13 d1d3ga_ 61 GIAAGFDKH-----GEAVDGLYK-MGFGFVEIGSVTPKPQEGNPRPRVFRLPEDQAVINR 114 :::: ::::::::: ::::::: ::::: d1tyga_ 14 LLGT-----GKYPSFDIQKEAVAVSESDILT-FAVRR----------------------- 44 d1d3ga_ 115 YGFNSHGLSVVE---------HRLRARQQKQAKLTE---DGLPLGVNLGKNKTSVD---- 158 ::::: ::::::::: d1tyga_ 45 ------------MNIFEASQPNFLEQ----------LDLSKYTLLPNT--------AGAS 74 d1d3ga_ 159 AAEDYAEGVRVLG--PLADYLVVNVSSPNTAG---------LGKAELRRLLTKVLQERDG 207 ::::::::::::: ::::::::: ::::::::::::::: d1tyga_ 75 TAEEAVRIARLAKASGLCDMIKVE--------VIGCSRSLLPDPVETLKASEQLLE---- 122 d1d3ga_ 208 LRRVH-RPAVLVKIAPDLTSQDKEDIASVVKELGIDGLIVTNTTVSRPAGLQGALRSETG 266 ::::::::: :::::::::: :::::::: d1tyga_ 123 -----EGFIVLPYTS--DDVVLARKLE----ELGVHAIM--------------------- 150 d1d3ga_ 267 GLSGKPLRDL-------------STQTIREMYALTQGRVPIIGVGGVSSGQDALEKIRAG 313 :::::::::: ::::::::::::::::::::::::: d1tyga_ 151 ----------PGASPIGSGQGILNPLNLSFIIE--QAKVPVIVDAGIGSPKDAAYAMELG 198 d1d3ga_ 314 ASLVQLYTALT--FWGPPVVGKVKRELEALLKEQGFGGVTDAIGADHRR----------- 360 ::::::::::: :::::::::::::::::::: d1tyga_ 199 ADGVLLNTAVSGADDPVKMARAMKLAVEAGRLS----------------YEAGRIPLKQY 242 TMalign alignment (TM-score: 0.50 Raw score:180.09) d1d3ga_ 1 MATGDERFYAEHLMPTLQGLLDPESAHRLAVRFTSLGLLPFQDSDMLEVRVL-GHKFRNP 59 :::: ::::::: d1tyga_ 1 ------------------------------------------------MLTIGGKSFQSR 12 d1d3ga_ 60 VGIAAGFD--KHGEAVDGLYKMGFG-FVEIGSVTPKPQEGNPRPRVFRLPEDQAVINRYG 116 :::::::: ::::::::::::: ::::: : d1tyga_ 13 LLLGTGKYPS--FDIQKEAVAVSESDILTFA-V--------------------------- 42 d1d3ga_ 117 FNSHGLSV------VEHRLRARQQKQAKLTEDGLPLGVNLGKNKTSVDAAEDYAEGVRVL 170 ::::: :::::: :: :: ::::::::::: :::::::::::: d1tyga_ 43 ---RRMNIFEASQP---NFLEQL-DL-SK----YTLLPNTAGAS----TAEEAVRIARLA 86 d1d3ga_ 171 G--PLADYLVVNVSSPN--TAGLGKAELRRLLTKVLQERDGLRRVHRPAVLVKIAPDLTS 226 : :::::::::::::: :::::: :::::::::::: : ::::::::: : d1tyga_ 87 KASGLCDMIKVEVIGCSRSLLPDPV-ETLKASEQLLEE-G-------FIVLPYTSD-D-- 134 d1d3ga_ 227 QDKEDIASVVKELGIDGLIVTNTTVSRPAGLQGALRSETGGLSGKPLRDLSTQTIREMYA 286 ::::::::: :::::::::::: :::: :::::::::::::: d1tyga_ 135 --VVLARKLEE-LGVHAIMPGASP----------------IGSG--QGILNPLNLSFIIE 173 d1d3ga_ 287 LTQGRVPIIGV-GGVSSGQDALEKIRAGASLVQLYTAL-TF-WGPPVVGKVKRELEALLK 343 ::::::::: ::::: :::::::::::::::::::: :: :::::::::::::::::: d1tyga_ 174 --QAKVPVIVDAGIGSP-KDAAYAMELGADGVLLNTAVSGADDPVKMARAMKLAVEAGRL 230 d1d3ga_ 344 EQGFGGVTDAIGAD--HRR--- 360 : : :: :: : d1tyga_ 231 -S-Y----EA--GRIP--LKQY 242 HHsearch alignment (Probability: 0.99 E-value:0.00) d1d3ga_ 50 RVLGHKFRNPVGIAAGFDKHGEAV-DGLYKMGFGFVEIGSVTPKPQEGNPRPRVFRLPED 108 :::::::::::::::::::::::: :::::::::::::: :::::: d1tyga_ 3 TIGGKSFQSRLLLGTGKYPSFDIQKEAVAVSESDILTFA--------------VRRMNI- 47 d1d3ga_ 109 QAVINRYGFNSHGLSVVEHRLRARQQKQAKLTEDGLPLGVNLGKNKTSVDAAEDYAEGVR 168 ::::::::::::::: ::::::::::: ::::::::::: d1tyga_ 48 ---------FEASQPNFLEQLDLS----------KYTLLPNTAGA----STAEEAVRIAR 84 d1d3ga_ 169 VLGPLADYLVVNVSSPNTAGLGKAELRRLLTKVLQERDGLRRVHRPAVLVKI--APDLTS 226 :::: ::::::::::::::::::::::::::::::::::::::::: ::: d1tyga_ 85 LAKA-------SGLCDMIKVEVIGCSRSLLPDPVETLKASEQLLEEGFIVLPYTSDD--- 134 d1d3ga_ 227 QDKEDIASVVKELGIDGLIVTNTTVSRPAGLQGALRSETGGLSGKPLRDLSTQTIREMYA 286 ::::::::::::::::::::: :::::::: :::::::::: d1tyga_ 135 ---VVLARKLEELGVHAIMPGASP--------------IGSGQGIL----NPLNLSFIIE 173 d1d3ga_ 287 LTQGRVPIIGVGGVSSGQDALEKIRAGASLVQLYTALTF-WGPPVVGK 333 ::: :::::::::::::::::::::::::::::::::: :::::::: d1tyga_ 174 QAK--VPVIVDAGIGSPKDAAYAMELGADGVLLNTAVSGADDPVKMAR 219