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 | d1edqa2 | Chitinase A, catalytic domain | (Trans)glycosidases | 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 <-- 1.495 --> HitDALI alignment (Z-score: 12.8 Raw score:1528.30) d1d3ga_ 1 matgderfyaehlmptlqglldpesahrlavrftsLGLLP--FQDSdMLEVrvlghkfrn 58 ::::: :::: :::: d1edqa2 1 -------------------------tdgshlaplkEPLLEknKPYKqNSGK--------- 26 d1d3ga_ 59 PVGIaagFDKH------gEAVD-GLYKmGFGFVEIGSVTPKP----QEGN-PRPRvfrlp 106 :::: :::: :::: :::: :::::::::::::: :::: :::: d1edqa2 27 VVGS---YFVEwgvygrnFTVDkIPAQ-NLTHLLYGFIPICGgngiNDSLkEIEG--sfq 80 d1d3ga_ 107 edqavinrygfnshGLSV------------------veHRLRARQQKQAKLTedGLPLGV 148 :::: :::::::::::::: :::::: d1edqa2 81 alqrscqgredfkvSIHDpfaalqkaqkgvtawddpykGNFGQLMALKQAHP--DLKILP 138 d1d3ga_ 149 NLG---------knktsVDAAEDYAEGVRVL--gPLADYLVVNVSS---PNTA-----gl 189 ::: :::::::::::::: :::::::::::: :::: d1edqa2 139 SIGgwtlsdpfffmgdkVKRDRFVGSVKEFLqtwKFFDGVDIDWEFpggKGANpnlgspq 198 d1d3ga_ 190 GKAELRRLLTKVLQERDGL--RRVHRPAVLVKIAPDLTsqDKEDI-ASVVKeLGIDGLIV 246 ::::::::::::::::::: ::::::::::::::::: ::::: ::::: :::::::: d1edqa2 199 DGETYVLLMKELRAMLDQLsvETGRKYELTSAISAGKD--KIDKVaYNVAQ-NSMDHIFL 255 d1d3ga_ 247 TNTTVSRpaglqgaLRSEtgglsgKPLRD-----------LSTQTIREMYALtQGRV-PI 294 ::::::: :::: ::::: :::::::::::: :::: :: d1edqa2 256 MSYDFYG-------AFDL--knlgHQTALnapawkpdtayTTVNGVNALLAQ-GVKPgKI 305 d1d3ga_ 295 IGVGG---vSSGQDALEKIRAGASLVQLYTalTFWGPPVVGKVKRELEallkeqgfggvt 351 ::::: ::::::::::::::::::::: :::::::::::::::: d1edqa2 306 VVGTAmdarSVQAKGKYVLDKQLGGLFSWE-iDADNGDILNSMNASLG------------ 352 d1d3ga_ 352 daigadhrr 360 d1edqa2 353 ---nsagvq 358 FAST alignment (Normalized score: 5.47 Raw score:1965.00) d1d3ga_ 1 MATGDERFYAEHLMPTLQGLLDPESAHRLAVRFTSLGLL------------------PFQ 42 ::: d1edqa2 1 ---------------------------------------TDGSHLAPLKEPLLEKNKPYK 21 d1d3ga_ 43 DSDMLEVRVLGHKFRNPVGIAAGFDKHGE--------------------AVDGLYK---M 79 : :::: : d1edqa2 22 Q----------------------------NSGKVVGSYFVEWGVYGRNFTVDK---IPAQ 50 d1d3ga_ 80 GFGFVEIGSVTPKPQEGNPRPRVFRLPEDQAVINRYGFNSHGLSV--------------- 124 ::::::::::: d1edqa2 51 NLTHLLYGFIP----------------------------------ICGGNGINDSLKEIE 76 d1d3ga_ 125 ---------------------VEHRLR---------------ARQQKQAKLTE--DGLPL 146 :::::: ::::::::::: ::::: d1edqa2 77 GSFQALQRSCQGREDFKVSIHDPFAALQKAQKGVTAWDDPYKGNFGQLMALKQAHPDLKI 136 d1d3ga_ 147 GVNLGKNKTSV--------------------DAAEDYAEGVRVLGPLADYLVVNVSSPNT 186 ::: :::::::::::: :::::::::: d1edqa2 137 LPS--------IGGWTLSDPFFFMGDKVKRDRFVGSVKEFLQT-WKFFDGVDID------ 181 d1d3ga_ 187 AGL-----------------GKAELRRLLTKVLQERDGLRR-----VHRPAVLVKIAPDL 224 :::::::::::::::::: :::::::::::: d1edqa2 182 ---WEFPGGKGANPNLGSPQDGETYVLLMKELRAMLDQ---LSVETGRKYELTSAISA-- 233 d1d3ga_ 225 TSQDKE--DIASVVKEL--GIDGLIVTNTTVSRPAGLQGALRSETGGLSGKPLRD----- 275 :::::: ::::: :::::: d1edqa2 234 GKDKIDKVAYNVA----QNSMDHIF------------------------------LMSYD 259 d1d3ga_ 276 ---------------------------LSTQTIREMYA-LTQGRVPIIGVGG--VSSGQD 305 ::::::::::: ::::: :::: :::::: d1edqa2 260 FYGAFDLKNLGHQTALNAPAWKPDTAYTTVNGVNALLAQGVKPG-KIVV---GTAMDARS 315 d1d3ga_ 306 ALEKIR----AGASLVQLYTALTFWGPPVV--------GKVKRELEALLKEQGFGGVTDA 353 :::::: ::::::: :::::::::: d1edqa2 316 VQAKGKYVLDKQLGGLF-------------SWEIDADNGDILNSMNAS------------ 350 d1d3ga_ 354 IGADHRR-------- 360 d1edqa2 351 -------LGNSAGVQ 358 TMalign alignment (TM-score: 0.57 Raw score:205.47) d1d3ga_ 1 ----------MATGDERFYAEHLMPTLQGLLDPESAHRLAVRFTSLGLLP-FQDSDMLEV 49 ::::: ::::: ::: d1edqa2 1 TDGSHLAPLK-----------------------------------EPLLEKNKPYK-QNS 24 d1d3ga_ 50 RVLGHKFRNPVGIAAGFDKHGE-----AVDGLYKMGFGFVEIGSVTPKP----Q-EGNPR 99 :: ::::: :::::: :::::::::::::::::::::: : ::::: d1edqa2 25 GK-------VVGSY--FVEWGVYGRNFTVDKIPAQNLTHLLYGFIPICGGNGINDSLKEI 75 d1d3ga_ 100 P-RVFRLPEDQAVINRYG-FNS--H--------GLS--V--VE-------------H-RL 129 : :: :: : ::: : :: : :: d1edqa2 76 EG--------------SFQ-ALQRSCQGREDFKVSIHDPFAALQKAQKGVTAWDDPYKGN 120 d1d3ga_ 130 RARQQKQAKLTEDGLPLGVNLG---KNKTS-VD----AA-EDYAEGVRVLG--PLADYLV 178 :::::::::::: ::::::::: ::::: :: :: ::::::::::: ::::::: d1edqa2 121 FGQLMALKQAHP-DLKILPSIGGWTLSDPFFFMGDKVKRDRFVGSVKEFLQTWKFFDGVD 179 d1d3ga_ 179 VNVSS----PNT--AGL-G-KAELRRLLTKVLQERDGL--RRVHRPAVLVKIAPDLTSQD 228 ::::: ::: ::: : :::::::::::::::::: :::::::::::::::::::: d1edqa2 180 IDWEFPGGKGANPNLGSPQDGETYVLLMKELRAMLDQLSVETGRKYELTSAISAGKDKID 239 d1d3ga_ 229 KEDIASVVKELGIDGLIVTNTTVSRPAGLQGALRSETGGL-SGKPLRD-----------L 276 ::::::::: ::::::::::: :: : : :::: : :::::: : d1edqa2 240 KVAYNVAQN--SMDHIFLMSYD-FY---G-A-FDLK---NL-GHQTALNAPAWKPDTAYT 287 d1d3ga_ 277 STQTIREMYA-LTQGRVPIIGVGGVSS--GQDALEKIR-AGASLVQLYTALTFWGPPVVG 332 :::::::::: :::: ::::::::::: ::::::::: ::::::::::::: :::::: d1edqa2 288 TVNGVNALLAQGVKP-GKIVVGTAMDARSVQAKGKYVLDKQLGGLFSWEIDA--DNGDIL 344 d1d3ga_ 333 KVKRELEALLKEQGFGGVT----DAIGADHRR 360 ::: :: :: ::: d1edqa2 345 NSM--NA-SL------GNSAGVQ--------- 358 HHsearch alignment (Probability: 0.61 E-value:0.01) d1d3ga_ 142 DGLPLGVNLGKNKT--------SVDAAEDYAEGVR-VLGPLA--DYLVVNVSSPNTAGLG 190 :::::::::::::: ::::::::::::: :::::: :::::::::::::::: d1edqa2 132 PDLKILPSIGGWTLSDPFFFMGDKVKRDRFVGSVKEFLQTWKFFDGVDIDWEFPGGKGAN 191 d1d3ga_ 191 ----KAEL----RRLLTKVLQERDGLRRVHRPAVLVKIAPDLTSQDKEDI-ASVVKELGI 241 :::: :::::::::::::::::::::::::::::::::::::: :::: :::: d1edqa2 192 PNLGSPQDGETYVLLMKELRAMLDQLSVETGRKYELTSAISAGKDKIDKVAYNVA-QNSM 250 d1d3ga_ 242 DGLIVT 247 :::::: d1edqa2 251 DHIFLM 256