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 | d1piia1 | Indole-3-glycerophosphate synthase, IPGS | Ribulose-phoshate binding barrel | TIM beta/alpha-barrel | α/β |
| Hit | d1r7aa2 | Sucrose phosphorylase | (Trans)glycosidases | TIM beta/alpha-barrel | α/β |
Query <-- 1.536 --> IntermediateDALI alignment (Z-score: 9.8 Raw score:983.50) query 1 ------------------mietpyylidkakltrnmeriahvreksGAKALLALKC---- 38 :::::::::: d1piia1 1 mqtvlakivadkaiwvearkqqqplasfqnevqpstrhfydalqgaRTAFILECKKasps 60 query 39 ------faTWSV-FDLMRDYMDGTTSSS--------LFEVRLGRERFGKETHAYSVAYGD 83 :::: ::::::::::::::: :::::::::::::::::::::::: d1piia1 61 kgvirddfDPARiAAIYKHYASAISVLTdekyfqgsFNFLPIVSQIAPQPILCKDFIIDP 120 query 84 NEIDEVVS-HADKIIFNS----ISQLERFADKAA--GIARGLRLNPQrlgEWDVpkVERV 136 :::::::: ::::::::: :::::::::::: ::::::::::: :::: :::: d1piia1 121 YQIYLARYyQADACLLMLsvldDDQYRQLAAVAHslEMGVLTEVSNE--eEQER--AIAL 176 query 137 MdrINGFMIHNNcenkdfglFDRMLGEIEerfGALIARVdWVSLGGGIHFtgddypvDAF 196 : ::::::::: ::::::::: ::::::: :::::::::: ::: d1piia1 177 G--AKVVGINNR-dlrdlsiDLNRTRELA---PKLGHNV-TVISESGINT-------YAQ 222 query 197 SARLRAFsdrygvqIYLEPGEASITKSTtlevtvldtlynknlaivdssieahmldlliy 256 ::::::: :::::::::::::: d1piia1 223 VRELSHF------aNGFLIGSALMAHDD-------------------------------- 244 query 257 retakvlpnegshsymicgksclagdvfgefrfaeelkvgdrisfqdaagytmvkknwfn 316 d1piia1 245 ------------------------------------------------------------ 245 query 317 gvkmpaiaireldgsvrtvreftyadyeqsls 348 d1piia1 245 ----------------------lhaavrrvll 254 FAST alignment (Normalized score: 4.02 Raw score:1194.00) query 1 MIETPYYLIDKA------------------------------------------------ 12 d1piia1 1 ------------MQTVLAKIVADKAIWVEARKQQQPLASFQNEVQPSTRHFYDALQGART 48 query 13 --------------------KLTRNMERIAHVREKSG--AKALLALKCF------ATWSV 44 ::::::::::: ::::::: ::::: d1piia1 49 AFILECKKASPSKGVIRDDFDPARIAAIYKH------YASAISVLT---DEKYFQGSFNF 99 query 45 FDLMRDYM----DGTTS--SSLFEVRLGRERF-GKETHAYSVAYGDNEIDEVVSHA---- 93 ::::::: ::::: :::::::::::: :::::::::::::::::::::: d1piia1 100 LPIVSQI-APQPILCKDFIIDPYQIYLARYY-QADACLLMLSVLDDDQYRQLAAV-AHSL 156 query 94 ---DKIIFNSISQLERFADKAAG---IARGLRLNPQRLGE--------WDVPKVERV--- 136 :::::::::::::::: :::::: ::::::::: d1piia1 157 EMGVLTEVSNEEEQERAIA----LGAKVVGIN--------NRDLRDLSIDLNRTRELAPK 204 query 137 -MDRINGFMIHNNCENKDFGL--------FDRMLGEIEERFGALIARVDWVSLGGGIHFT 187 ::::: :::::: :::: :::::: d1piia1 205 LGHNVT---------------VISESGINTYAQVR----ELSH---FANGFL-------- 234 query 188 GDD--------YPVDAFSARLRAFSDRYGVQIYLEPGEASITKSTTLEVTVLDTLYNKNL 239 ::::::::::: d1piia1 235 ---IGSALMAHDDLHAAVRRVL-------------------------------------- 253 query 240 AIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRI 299 d1piia1 254 ------------------------------------------------------------ 254 query 300 SFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS- 348 d1piia1 254 -------------------------------------------------L 254 TMalign alignment (TM-score: 0.41 Raw score:143.11) query 1 ---------------------------------------------MIETPYYLIDKAKLT 15 d1piia1 1 MQTVLAKIVADKAIWVEARKQQQPLASFQNEVQPSTRHFYDALQG--------------- 45 query 16 RNMERIAHVREKSGAKALLALKC--------F--ATWSV-FDLMRDYMDGTTSSS----- 59 ::::::::::: : ::::: ::::::::::::::: d1piia1 46 ------------ARTAFILECKKASPSKGVIRDDFDPARIAAIYKHYASAISVLTDEKYF 93 query 60 ---LFEVRLGRERFGKETHAYSVAYGDNEIDEVVS-HADKIIFN---S-ISQLERFADKA 111 :::::::::::::::::::::::::::::::: :::::::: : ::::::::::: d1piia1 94 QGSFNFLPIVSQIAPQPILCKDFIIDPYQIYLARYYQADACLLMLSVLDDDQYRQLAAVA 153 query 112 A--GIARGLRLNPQRLGEWDVPKVERVMDRINGFMIHNN----CENKDFGLFDRMLGEIE 165 : ::::::::::: :::: :::::: ::::::::: ::: :: ::::::: d1piia1 154 HSLEMGVLTEVSNE---EEQE-RAIALG--AKVVGINNRDLRDLSI----DL-NRTRELA 202 query 166 ERFGALIARVDWVSLGGGIHFTGDDYPVDAFSARLRAFSDRYGVQIYLEPGEASITKST- 224 :: ::::::::::::::: : :::::::::: :: :::::::::::: d1piia1 203 ---PK-LGHNVTVISESGINT------Y-AQVRELSHFA-----NG-FLIGSALMAHDDL 245 query 225 --TLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGD 282 d1piia1 246 HA---------------------------------------------------------- 247 query 283 VFGEFRFAEELKVGDRISFQDAA------GYTMVKKNWFNGVKMPAIAIRELDGSVRTVR 336 : d1piia1 248 ----------------------AVRRVLL------------------------------- 254 query 337 EFTYADYEQSLS 348 d1piia1 255 ------------ 255 HHsearch alignment (Probability: 0.02 E-value:0.03) query 57 SSSLFEVRLGRERFGKETHAYSVAYGDNEIDEVVSHADKIIFNSISQLERFADKAAGIAR 116 :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: d1piia1 117 IIDPYQIYLARYYQADACLLMLSVLDDDQYRQLAAVAHSLEMGVLTEVSNEEEQERAIAL 176 query 117 GLRL 120 :::: d1piia1 177 GAKV 180
Intermediate <-- 1.201 --> HitDALI alignment (Z-score: 9.1 Raw score:1114.10) d1piia1 1 mqtvlakivadkaiwvearkqqqplasfqnevqpstrhfYDALqgartaFILECKKasps 60 :::: ::::::: d1r7aa2 1 ---------------------------------------MKNK------VQLITYA---- 11 d1piia1 61 kgvIRDDFDPARIAAIYK----HYASAISVLTDEKYF------------------qgSFN 98 ::::::::::::::: ::::::::::::::: ::: d1r7aa2 12 --dRLGDGTIKSMTDILRtrfdGVYDGVHILPFFTPFdgadagfdpidhtkvderlgSWD 69 d1piia1 99 FLPIVSQiaPQPILCkDFII---------------------------------------- 118 ::::::: :::::: :::: d1r7aa2 70 DVAELSK--THNIMV-DAIVnhmsweskqfqdvlakgeeseyypmfltmssvfpngatee 126 d1piia1 119 -----------------------------------------------DPYQIYLARYYQA 131 ::::::::::::: d1r7aa2 127 dlagiyrprpglpfthykfagktrlvwvsftpqqvdidtdsdkgweyLMSIFDQMAASHV 186 d1piia1 132 DACLLM-LSVL-------------DDDQYRQLAAVAHSLEMGVLTEVSN-EEEQERAIAl 176 :::::: :::: ::::::::::::::::::::::::: ::::::::: d1r7aa2 187 SYIRLDaVGYGakeagtscfmtpkTFKLISRLREEGVKRGLEILIEVHSyYKKQVEIAS- 245 d1piia1 177 GAKVVGINnrdlrdlsidlnRTRE-----------------laPKLGhnvTVISESG--- 216 :::::::: :::: :::: ::::::: d1r7aa2 246 KVDRVYDF------------ALPPlllhalstghvepvahwtdIRPN---NAVTVLDthd 290 d1piia1 217 ------------------------------------------------------------ 217 d1r7aa2 291 gigvidigsdqldrslkglvpdedvdnlvntihanthgesqaatgaaasnldlyqvnsty 350 d1piia1 217 --------inTYAQVRELSHFANGFLI-GSAL---------------------mAHDD-- 244 ::::::::::::::::: :::: :::: d1r7aa2 351 ysalgxndqhYIAARAVQFFLPGVPQVyYVGAlagkndmellrktnngrdinrhYYSTae 410 d1piia1 245 -----lhaavRRVLL--------- 254 ::::: d1r7aa2 411 idenlkrpvvKALNAlakfrneld 434 FAST alignment (Normalized score: 5.38 Raw score:1785.00) d1piia1 1 MQTVLAKIVADKAIWVEARKQQQPLASFQNEVQPSTRHFYDALQGAR--TAFILECKKAS 58 :::::: d1r7aa2 1 -----------------------------------------------MKNKVQLI----- 8 d1piia1 59 PSKGVIRD-------DFDPARIAAIYK----HYASAISVLTDEKYF-------------- 93 :::::::::::: :::::::: d1r7aa2 9 --------TYADRLGDGTIKSMTDILRTRFDGVYDGVHI-------LPFFTPFDGADAGF 53 d1piia1 94 -----------QGSFNFLPIVSQIAPQPILCKDFII------------------------ 118 :::::::::::: :::::::::: d1r7aa2 54 DPIDHTKVDERLGSWDDVAELSK--THNIMVDAIV-NHMSWESKQFQDVLAKGEESEYYP 110 d1piia1 119 ------------------------------------------------------------ 119 d1r7aa2 111 MFLTMSSVFPNGATEEDLAGIYRPRPGLPFTHYKFAGKTRLVWVSFTPQQVDIDTDSDKG 170 d1piia1 119 ---DPYQIYLARYYQADACLLMLSVL-------------------DDDQYRQLAAVAHSL 156 :::::::::::::::::: ::::::::::::::: d1r7aa2 171 WEYLMSIFDQMAASHVSYIRL-----DAVGYGAKEAGTSCFMTPKTFKLISRLREEGVKR 225 d1piia1 157 EMGVLTEVSNEE-EQERAIAL---GAKVVGINNRDLRDLSIDL----------------N 196 ::::::::: ::::::: ::::::: : d1r7aa2 226 GLEILIEVH---SYYKKQVE-IASKVDRVYD------------FALPPLLLHALSTGHVE 269 d1piia1 197 RTRELAPKLGHNV----TVISESGIN---------------------------------- 218 ::::::: :::: d1r7aa2 270 PVAHWTD------IRPNNAVT-----VLDTHDGIGVIDIGSDQLDRSLKGLVPDEDVDNL 318 d1piia1 219 ------------------------------------------TYAQVRELSHFANGFLIG 236 :::::::::::::::: d1r7aa2 319 VNTIHANTHGESQAATGAAASNLDLYQVNSTYYSALGANDQHYIAARAVQFFLPGVPQ-- 376 d1piia1 237 SALMAH--------------------------------DDLHAA-----VRRVLL----- 254 :::::: ::::: d1r7aa2 377 ------VYYVGALAGKNDMELLRKTNNGRDINRHYYSTAEIDENLKRPVVKALN-ALAKF 429 d1piia1 255 ----- 255 d1r7aa2 430 RNELD 434 TMalign alignment (TM-score: 0.50 Raw score:126.77) d1piia1 1 MQTVLAKIVADKAIWVEARKQQQPLASFQNEVQPSTRHFYDALQGARTAFILECKKASPS 60 ::: d1r7aa2 1 ---------------------------------------MKN------------------ 3 d1piia1 61 KGVIRDDFDPARIAAIYKHYASAISVLTDEKYFQGSFN-FLP-IVSQ-I--APQPILCKD 115 :::::::::: :::::: ::: :::: : ::::::::: d1r7aa2 4 --------------------KVQLITYADR--LGDGTIKSMTDILRTRFDGVYDGVHILP 41 d1piia1 116 ----------FI-I--DPYQ-----IYLARYYQA----DACLLMLSVL------------ 141 :: : :::: ::::::::: :::::::::: d1r7aa2 42 FFTPFDGADAGFDPIDHTKVDERLGSWDDVAELSKTHNIMVDAIVNHMSWESKQFQDVLA 101 d1piia1 142 ------------------------------------------------------------ 142 d1r7aa2 102 KGEESEYYPMFLTMSSVFPNGATEEDLAGIYRPRPGLPFTHYKFAGKTRLVWVSFTPQQV 161 d1piia1 142 --------DDDQYRQLAAVAHSLEM-GVLTE-VS----------NE--EEQERAIALG-- 177 ::::::::::::::::: ::::: :: :: :::::::::: d1r7aa2 162 DIDTDSDKGWEYLMSIFDQMAASHVSYIRLDAVGYGAKEAGTSCFMTPKTFKLISRLREE 221 d1piia1 178 A-----KVVGINNRDLRDLSIDLNRTRELAPKLGHNVTVISESGINTY--------A-QV 223 : ::::::: :: ::::::::::::::::::::::: : :: d1r7aa2 222 GVKRGLEILIEVH---------SY-YKKQVEIASKVDRVYDFALPPLLLHALSTGHVEPV 271 d1piia1 224 R-EL-SHFA-NGFLIG-------------------------------------------- 236 : :: :::: :::::: d1r7aa2 272 AHWTDIRPNNAVTVLDTHDGIGVIDIGSDQLDRSLKGLVPDEDVDNLVNTIHANTHGESQ 331 d1piia1 237 ----------------SALMA-H-DDLHAAVRRVLL------------------------ 254 ::::: : :::::::::::: d1r7aa2 332 AATGAAASNLDLYQVNSTYYSALGANDQHYIAARAVQFFLPGVPQVYYVGALAGKNDMEL 391 d1piia1 255 ------------------------------------------- 255 d1r7aa2 392 LRKTNNGRDINRHYYSTAEIDENLKRPVVKALNALAKFRNELD 434 HHsearch alignment (Probability: 0.00 E-value:0.44) d1piia1 76 IYKHYASAISVLT 88 ::::::::::::: d1r7aa2 181 MAASHVSYIRLDA 193