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 | d1f61a_ | Isocitrate lyase | Phosphoenolpyruvate/pyruvate domain | 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 <-- 1.375 --> HitDALI alignment (Z-score: 13.2 Raw score:1479.20) d1piia1 1 -------------mqtvlakivadkaiwvearkqqqplasfqNEVQP--STRH--FYDAL 43 ::::: :::: ::::: d1f61a_ 1 asvvgtpksaeqiqqewdtnprwkdvtrtysaedvvalqgsvVEEHTlaRRGAevLWEQL 60 d1piia1 44 QGARTAFILECKkaspskgvirddfdPARIAAIYK-HYASAISVLTD-EKYFQG------ 95 :::::::::::: ::::::::: ::::::::::: :::::: d1f61a_ 61 HDLEWVNALGAL--------------TGNMAVQQVrAGLKAIYLSGWqVAGDANlsghty 106 d1piia1 96 ----------sFNFLPIVSQIA------------------PQPILCKDFII------DPY 121 ::::::::::: ::::::::::: ::: d1f61a_ 107 pdqslypansvPQVVRRINNALqradqiakiegdtsvenwLAPIVADGEAGfggalnVYE 166 d1piia1 122 QIYLARYYQADACLLMLSV--------------LDDDQYRQLAAVAHS------LEMGVL 161 ::::::::::::::::::: ::::::::::::::: :::::: d1f61a_ 167 LQKALIAAGVAGSHWEDQLasekkcghlggkvlIPTQQHIRTLTSARLaadvadVPTVVI 226 d1piia1 162 TEVS----------------------------------NEEEQERAIALG--AKVVGINN 185 :::: :::::::::::: :::::::: d1f61a_ 227 ARTDaeaatlitsdvderdqpfitgertregfyrtkngIEPCIARAKAYApfADLIWMET 286 d1piia1 186 rdlrdlsIDLN--RTRELAPKLG---HNVTVISESGIN-----------TYAQVRELSHF 229 :::: :::::::::: :::::::::::: ::::::::::: d1f61a_ 287 -------GTPDleAARQFSEAVKaeyPDQMLAYNCSPSfnwkkhlddatIAKFQKELAAM 339 d1piia1 230 -ANGFLIGSALMAHDD-------------------------------------------- 244 ::::::::::::::: d1f61a_ 340 gFKFQFITLAGFHALNysmfdlaygyaqnqmsayvelqerefaaeergytatkhqrevga 399 d1piia1 245 ---------lhaavrrvll 254 d1f61a_ 400 gyfdriattvdpnssttal 418 FAST alignment (Normalized score: 7.71 Raw score:2513.00) d1piia1 1 MQTVLAKIVADKAIWVEARKQQQPLASFQNEVQPST------------------------ 36 d1f61a_ 1 ------------------------------------ASVVGTPKSAEQIQQEWDTNPRWK 24 d1piia1 37 -----------------------------RHFYDALQG--ARTAFILECKKASPSKGVIR 65 ::::::: ::::::::: d1f61a_ 25 DVTRTYSAEDVVALQGSVVEEHTLARRGAEVLWEQL--HDLEWVNALGA----------- 71 d1piia1 66 DDFD-PARIAAIYK-HYASAISVLTDEKYFQG------------------------SFNF 99 ::::::::: :::::::::: :::: d1f61a_ 72 ----LTGNMAVQQVRAGLKAIYLSG-------WQVAGDANLSGHTYPDQSLYPANSVPQV 120 d1piia1 100 LPIVSQI------------------APQPILCKDFII----------DPYQIYLARYYQA 131 ::::::: :::::::: ::::::::::::: d1f61a_ 121 VRRINNALQRADQIAKIEGDTSVENWLAPIVAD----GEAGFGGALNVYELQKALIAAGV 176 d1piia1 132 DACLLMLS---------------VLDDDQYRQLAAVAHS------LEMGVLTEVS----- 165 ::::::: :::::::::::::::: ::::::::: d1f61a_ 177 AGSHWED-QLASEKKCGHLGGKVLIPTQQHIRTLTSARLAADVADVPTVVIART-DAEAA 234 d1piia1 166 ------------------------------NEEEQERAIAL---GAKVVGINNRDLRD-L 191 :::::::::: :::::::: : d1f61a_ 235 TLITSDVDERDQPFITGERTREGFYRTKNGIEPCIARAKA-YAPFADLIWME------TG 287 d1piia1 192 SIDLNRTRELAPKL----GHNVTVISESGIN---------------TYAQVRELSH-FAN 231 ::::::::::::: ::::::::: :::::::::: ::: d1f61a_ 288 TPDLEAARQFSEA-VKAEYPDQMLAYN----CSPSFNWKKHLDDATIAKFQKELAAMGFK 342 d1piia1 232 GFLIGSALMAHDDLHAAVRRVLL------------------------------------- 254 :::::::::: d1f61a_ 343 FQFITLAGFH-------------ALNYSMFDLAYGYAQNQMSAYVELQEREFAAEERGYT 389 d1piia1 255 ----------------------------- 255 d1f61a_ 390 ATKHQREVGAGYFDRIATTVDPNSSTTAL 418 TMalign alignment (TM-score: 0.64 Raw score:163.64) d1piia1 1 --------------------------------------MQTVLAKIVADKAIWVEARKQQ 22 d1f61a_ 1 ASVVGTPKSAEQIQQEWDTNPRWKDVTRTYSAEDVVAL---------------------- 38 d1piia1 23 QPLA--SFQNEVQ--PSTR-H-FYDALQGARTAFILECKKASPSKGVIRDDFDPARIAAI 76 : ::::: :::: : ::::::::::::::::: ::::::: d1f61a_ 39 ---QGS--VVEEHTLARRGAEVLWEQLHDLEWVNALGAL--------------TGNMAVQ 79 d1piia1 77 YK-HYASAISVLTD-EKYFQG---------------S-FNFLPIVSQ-I----------- 106 :: ::::::::::: :::::: : ::::::::: : d1f61a_ 80 QVRAGLKAIYLSGWQVAGDANLSGHTYPDQSLYPANSVPQVVRRINNALQRADQIAKIEG 139 d1piia1 107 ------APQPILCKDFII------DPYQIYLARYYQADACLLMLS--------------- 139 :::::::::::: ::::::::::::::::::::: d1f61a_ 140 DTSVENWLAPIVADGEAGFGGALNVYELQKALIAAGVAGSHWEDQLASEKKCGHLGGKVL 199 d1piia1 140 V---LDDDQYRQLAAVAH--SLEMGVLTEVS----------------------------- 165 : :::::::::::::: ::::::::::: d1f61a_ 200 IPTQQHIRTLTSARLAADVADVPTVVIARTDAEAATLITSDVDERDQPFITGERTREGFY 259 d1piia1 166 --------NEEEQERAIALGAKVVGINNRDLRDLSIDLN--RTRELAPKLG---HNVTVI 212 ::::::::: :::::::::: :::: :::::::::: :::::: d1f61a_ 260 RTKNGIEPCIARAKAYA-PFADLIWMET-------GTPDLEAARQFSEAVKAEYPDQMLA 311 d1piia1 213 SESGI---N--------TYAQVRELSHF-ANGFLIGSALMAH---D-------------- 243 ::::: : ::::::::::: ::::::::::::: : d1f61a_ 312 YNCSPSFNWKKHLDDATIAKFQKELAAMGFKFQFITLAGFHALNYSMFDLAYGYAQNQMS 371 d1piia1 244 -------DL--HA--AVR--------------------------------RVLL 254 :: : : d1f61a_ 372 AYVELQEREFA-AEE--RGYTATKHQREVGAGYFDRIATTVDPNSSTTAL---- 418 HHsearch alignment (Probability: 0.03 E-value:0.41) d1piia1 210 TVISESGINTYAQVRELSHFA 230 ::::::::::::::::::::: d1f61a_ 281 LIWMETGTPDLEAARQFSEAV 301