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 | d1qcza_ | N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) | N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) | Flavodoxin-like | 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 <-- 0.788 --> HitDALI alignment (Z-score: 2.5 Raw score:357.10) d1d3ga_ 1 matgderfyaehlmptlqglldpesahrlavrftslgllpfqdsdmlevrvlghkfrnpv 60 d1qcza_ 1 ------------------------------------------------------------ 1 d1d3ga_ 61 giaagfdkhgeavdglykmgfgfveigsvtpkpqegnprprvfrlpedqavinrygfnsh 120 d1qcza_ 1 ------------------------------------------------------------ 1 d1d3ga_ 121 glsvvehrlrarqqkqakltedglplgvnlgknktsvdaaedyaegvrvlgpladylvvn 180 d1qcza_ 1 ------------------------------------------------------------ 1 d1d3ga_ 181 vsspntaglgkaelrrlltkvlqerdglrrvhrPAVLVKIAPD----------------- 223 :::::::::: d1qcza_ 1 ---------------------------------PARVAIVMGSksdwatmqfaaeifeil 27 d1d3ga_ 224 ------------lTSQDKEDIASVVKELGIDGLIVTnttvsrpaglqgalrsetgglsgk 271 ::::::::::::::::::::::: d1qcza_ 28 nvphhvevvsahrTPDKLFSFAESAEENGYQVIIAG------------------------ 63 d1d3ga_ 272 pLRDLstQTIREMYALTqgRVPIIGVGGV----SSGQDALEKIRA----GASLVQLYTA- 322 :::: :::::::::: :::::::::: :::::::::::: :::::::::: d1qcza_ 64 aGGAA--HLPGMIAAKT--LVPVLGVPVQsaalSGVDSLYSIVQMprgiPVGTLAIGKAg 119 d1d3ga_ 323 -----ltfwgppvvgkvkreleallkeqgfggvtdaigadhrr 360 d1qcza_ 120 aanaallaaqilathdkelhqrlndwrkaqtdevlenpdprga 162 FAST alignment (Normalized score: 2.48 Raw score:599.00) d1d3ga_ 1 MATGDERFYAEHLMPTLQGLLDPESAHRLAVRFTSLGLLPFQDSDMLEVRVLGHKFRNPV 60 d1qcza_ 1 ------------------------------------------------------------ 1 d1d3ga_ 61 GIAAGFDKHGEAVDGLYKMGFGFVEIGSVTPKPQEGNPRPRVFRLPEDQAVINRYGFNSH 120 d1qcza_ 1 ------------------------------------------------------------ 1 d1d3ga_ 121 GLSVVEHRLRARQQKQAKLTEDGL-PLGVNLGKNKTSVD--------------------- 158 :::::::: d1qcza_ 1 ------------------------PARVAIVMG------SKSDWATMQFAAEIFEILNVP 30 d1d3ga_ 159 ----------AAEDYAEGVRVLG----PLADYLVVNVSSPNTAGLGKAEL-----RRLLT 199 :::::::::: :::::::: ::::: d1qcza_ 31 HHVEVVSAHRTPDKLFSFAE---SAEENGYQVIIA---------------GAGGAAHLPG 72 d1d3ga_ 200 KVLQERDGLRRVH-RPAVLVKIAPDLTSQD------KEDIASVVKELGI-------DGLI 245 ::::: ::::::::: ::::::::: :::: d1qcza_ 73 MIAAK--------TLVPVLGVPV-------QSAALSGVDSLYSIV----QMPRGIPVGTL 113 d1d3ga_ 246 VTNTTVSRPAGLQGALRSETGGLSGKPLRDLSTQTIREMYALTQGRVPIIGVGGVSSGQD 305 : d1qcza_ 114 A----------------------------------------------------------- 114 d1d3ga_ 306 ALEKIRAGASLVQLYTALTFW-----------------------GPPVVGKVKRELEALL 342 :::::::::::::::: d1qcza_ 115 ---------------------IGKAGAANAALLAAQILATHDKELHQRLNDWRKAQTDEV 153 d1d3ga_ 343 KEQGFGGVTDAIGADHRR------- 360 :: d1qcza_ 154 LE----------------NPDPRGA 162 TMalign alignment (TM-score: 0.23 Raw score:84.17) d1d3ga_ 1 ---MATGDERFYAEHLMPTLQGLLDPESAHRLAVRFTSLGLLPFQDSDMLEVRVL----- 52 : d1qcza_ 1 PAR---------------------------------------------------VAIVMG 9 d1d3ga_ 53 --------GHKFRNPVGIAAGFDKHGEAVDGLYKMGFGFVEIGSVTPKPQEGNPRPRVFR 104 :::::: : : :: d1qcza_ 10 SKSDWATM---------QFAAEI--F--E--IL--------------------------- 27 d1d3ga_ 105 LPEDQAVINRYGFNSHGLSVVEHRLRARQQKQAKLTEDGLPLGVNLGKNKTSVDAAEDYA 164 : :::::: d1qcza_ 28 -------------------------------N---------VPHHVE------------- 34 d1d3ga_ 165 EGVRVLGPLADYLVVNVSSPNTAGLGKAELRRLLTKVLQERDGLRRVHRPAVLVKIAPDL 224 ::: ::::: ::::::::::::: :::::::::: : d1qcza_ 35 --------------VVS--------AHRTP-DKLFSFAESAEEN---GYQVIIAGAG--G 66 d1d3ga_ 225 TSQDKEDIASVVKELG-IDGLIVTNTTVSRPAGLQGALRSETGGLSGKPLRDLSTQTIRE 283 :: :::::::::: :::::::::: : : ::::::::: d1qcza_ 67 ---AA-HLPGMIAAKTLVPVLGVPVQS-A-A--------------------LSGVDSLYS 100 d1d3ga_ 284 MYALTQG--RVPIIGVGGVSSGQDALEKIRAGASLVQL---------------------- 319 ::: ::: :::::::::: : : :::: d1qcza_ 101 IVQ-MPRGIPVGTLAIGKA--------G----A-ANAALLAAQILATHDKELHQRLNDWR 146 d1d3ga_ 320 YTALTFWGPPVVGKVKR--------ELEALLKEQGFGGVTDAIGADHRR 360 :::::::: d1qcza_ 147 ---------KAQTDEVLENPDPRGA------------------------ 162 HHsearch alignment (Probability: 0.02 E-value:0.32) d1d3ga_ 146 LGVNLGKNKTSVDAAEDYAEGVRVLGPLADYLVVNVSSPNTAGLGKAELRRLLTKVLQER 205 ::::::::::: :::::::::::::: :: ::::::::: :: :::::::: d1qcza_ 4 VAIVMGSKSDW-ATMQFAAEIFEILN--VP-HHVEVVSAH----RT------PDKLFSFA 49 d1d3ga_ 206 DGLRRVHRPAVLVKIAP 222 :::::: :::::::::: d1qcza_ 50 ESAEEN-GYQVIIAGAG 65