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 | d1xi3a_ | Thiamin phosphate synthase | Thiamin phosphate synthase | TIM beta/alpha-barrel | α/β |
| Hit | d1m6sa_ | Low-specificity threonine aldolase | PLP-dependent transferases | PLP-dependent transferases | α/β |
Query <-- 0.898 --> IntermediateDALI alignment (Z-score: 9.4 Raw score:847.60) query 1 --mietpyylidkakltRNMERIAHVREKSGAKALLAlKCFATWSV-FDLM---RDYM-- 52 :::::::::::::::::::: :::::::: :::: :::: d1xi3a_ 1 nlrnklklyvitdrrlkPEVESVREALEGGATAIQMR-IKNAPTREmYEIGktlRQLTre 59 query 53 ----DGTTSsslfEVRLGrERFGK-ETHAYSvaygdnEIDEVVS----HADKIIFNSISQ 103 ::::: ::::: ::::: :::::: ::::::: :::::::::::: d1xi3a_ 60 ydalFFVDD----RVDVA-LAVDAdGVQLGP---edmPIEVAKEiapnLIIGASVYSLEE 111 query 104 LERFADKAagIARGLRLNPQ--RLGEWDVP--KVERVMDRINGFMIHnncenkdfglfdr 159 :::::::: :::::::::: :::::::: ::::::::::::::: d1xi3a_ 112 ALEAEKKG-aDYLGAGSVFPtdARVIGLEGlrKIVESVKIPVVAIGG------------i 158 query 160 MLGEIEErFGALiaRVDWVSLGG-GIHFtgddYPVDAFSARLRAFSDRYGvqiylepgea 218 ::::::: :::: ::::::::: :::: :::::::::::::::::: d1xi3a_ 159 NKDNARE-VLKT--GVDGIAVISaVMGA----EDVRKATEELRKIVEEVL---------- 201 query 219 sitksttlevtvldtlynknlaivdssieahmldlliyretakvlpnegshsymicgksc 278 d1xi3a_ 202 ------------------------------------------------------------ 202 query 279 lagdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkmpaiaireldgsvrtvref 338 d1xi3a_ 202 ------------------------------------------------------------ 202 query 339 tyadyeqsls 348 d1xi3a_ 202 ---------g 202 FAST alignment (Normalized score: 3.44 Raw score:911.10) query 1 MIETPYY---------------------------------------LIDKAKLTRNMERI 21 :::::::::::::: d1xi3a_ 1 -------NLRNKLKLYVITDRRLKPEVESVREALEGGATAIQMRIKNAPTREMYEIGKTL 53 query 22 AHVREKSGAKALLALKCFATWSVFDLMRD-YMDGTTSSSLF--EVRLGRERFGKETHAYS 78 ::::::::::::: ::::::::: ::::::: ::: :::::::::: d1xi3a_ 54 RQLTREYDALFFV----DDRVDVALA---VDADGVQL-GPEDMPIEVAKEIAP------- 98 query 79 VAYGDNEIDEVVSHA---DKIIFNSISQLERFADKAAG---IARGLRLNPQRLGEW---- 128 :::::::::::::::: ::::: d1xi3a_ 99 ---------------NLIIGASVYSLEEALEAEK----KGADYLGA----------GSVF 129 query 129 -------DVPKVERVMDRINGFMIHNNCENKDFGL----------FDRMLGEIEERFGAL 171 :::::::::::: :::: :::::: d1xi3a_ 130 PTDARVIGLEGLRKIVESV----------------KIPVVAIGGINKDN----AREVLK- 168 query 172 IARVDWVSLGGGIHFTGDD--------YPVDAFSARLRAFSDRYGVQIYLEPGEASITKS 223 ::::::: :::::::::::::::: d1xi3a_ 169 -TGVDGIA-----------VISAVMGAEDVRKATEELRKIVEE----------------- 199 query 224 TTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDV 283 d1xi3a_ 200 ------------------------------------------------------------ 200 query 284 FGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADY 343 d1xi3a_ 200 ------------------------------------------------------------ 200 query 344 EQSLS--- 348 d1xi3a_ 200 -----VLG 202 TMalign alignment (TM-score: 0.41 Raw score:141.96) query 1 -----------------MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCF-A-T 41 :::::::::::::::::::::::: : : d1xi3a_ 1 NLRNKLKLYVITDRRLK---------------PEVESVREALEGGATAIQMRIKNAPTRE 45 query 42 WSV-FDLMRDYM-----DGTTSSSLFEVRLGRERFGKETHAYSVAYGDNEIDEVVS-H-- 92 ::: :::::::: :::::: : ::::::::::::::: ::: :::::::: : d1xi3a_ 46 MYEIGKTLRQLTREYDALFFVDD---R-VDVALAVDADGVQLG-PED-MPIEVAKEIAPN 99 query 93 AD-KIIFNSISQLERFADKAAGIARGLRLNPQ--RLGEWDVPKVERVMDR-INGFMIHNN 148 :: :::::::::::::::::: :::::::::: :::::::::::::::: ::::::::: d1xi3a_ 100 LIIGASVYSLEEALEAEKKGA-DYLGAGSVFPTDARVIGLEGLRKIVESVKIPVVAIGGI 158 query 149 CENKDFGLFDRMLGEIEERFGALIARVDWVSLGGG-IHFTGDDYPVDAFSARLRAFSDRY 207 ::::::: :::: :::::::::: ::: ::::::::::::::::: d1xi3a_ 159 -----------NKDNARE-VLKT--GVDGIAVISAVMGA----EDVRKATEELRKIVEEV 200 query 208 GVQIYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEG 267 :: d1xi3a_ 201 LG---------------------------------------------------------- 202 query 268 SHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRE 327 d1xi3a_ 203 ------------------------------------------------------------ 203 query 328 LDGSVRTVREFTYADYEQSLS 348 d1xi3a_ 203 --------------------- 203 HHsearch alignment (Probability: 0.58 E-value:0.01) query 6 YYLIDKAKLTRNMERIAHVREKSGAKALLALKCFATW-------SVFDLMRDYMDGTTSS 58 ::::::::::::::::::::::::::::::::::::: :::::::::::::::: d1xi3a_ 8 LYVITDRRLKPEVESVREALEGGATAIQMRIKNAPTREMYEIGKTLRQLTREYDALFFVD 67 query 59 SLFEVRLGRERF-----------------GKETHAYSVAYGDNEIDEVVSHA-DKIIFNS 100 :::::::::::: ::::::::::::::::::::::: ::::::: d1xi3a_ 68 DRVDVALAVDADGVQLGPEDMPIEVAKEIAPNLIIGASVYSLEEALEAEKKGADYLGAGS 127 query 101 I-------SQLERFADKAAGIARGLRLNPQRLGEWDVPKVERVMDRINGFMIHNNCENKD 153 : ::::::::::::::::::: ::::::::::::::::::::: ::::::: d1xi3a_ 128 VFPTDARVIGLEGLRKIVESVKIPVVA---IGGINKDNAREVLKTGVDGIA--VISAVMG 182 query 154 FGLFDRMLGEIEERFGA 170 ::::::::::::::::: d1xi3a_ 183 AEDVRKATEELRKIVEE 199
Intermediate <-- 0.906 --> HitDALI alignment (Z-score: 3.8 Raw score:378.00) d1xi3a_ 1 ------------------------------------------------------------ 1 d1m6sa_ 1 midlrsdtvtkpteemrkamaqaevgddvygedptinelerlaaetfgkeaalfvpsgtm 60 d1xi3a_ 1 ----nLRNKL---KLYVIT------------------------DRRL-kPEVESVREALE 28 ::::: :::::: :::: ::::::::::: d1m6sa_ 61 gnqvsIMAHTqrgDEVILEadshifwyevgamavlsgvmphpvPGKNgaMDPDDVRKAIR 120 d1xi3a_ 29 G------GATAIQMRIK-----NAPTreMYEIGKTLRQLTREYDALFFVDD--------- 68 : :::::::::: :::: ::::::::::::::::::::::: d1m6sa_ 121 PrnihfpRTSLIAIENThnrsgGRVV--PLENIKEICTIAKEHGINVHIDGarifnasia 178 d1xi3a_ 69 ----RVDVALavDADGVQLGPEdmpievakeiapNLII---------------------- 102 :::::: :::::::::: :::: d1m6sa_ 179 sgvpVKEYAG--YADSVMFCLS--xglcapvgsvVVGDrdfierarkarkmlgggmrqag 234 d1xi3a_ 103 ---------gasvysleealeaekkgadylgagsvfptdarvigleglrkivesvkipvv 153 d1m6sa_ 235 vlaaagiialtkmvdrlkedhenarflalklkeigysvnpedvktnmvilrtdnlkvnah 294 d1xi3a_ 154 aigginkdnarevlktgvdgiavisavmgaedvrkateelrkiveevlg 202 d1m6sa_ 295 gfiealrnsgvlanavsdteirlvthkdvsrndieealnifeklfrkfs 343 FAST alignment (Normalized score: 2.10 Raw score:554.00) d1xi3a_ 1 NLRNKLKLYVITDRRLKPEVESVREALEGGATAIQMRIKNAPTREMYEIGKTLRQLTREY 60 d1m6sa_ 1 ------------------------------------------------------------ 1 d1xi3a_ 61 DALFFVDDRVDVALAVD------------------------------------------- 77 d1m6sa_ 1 -----------------MIDLRSDTVTKPTEEMRKAMAQAEVGDDVYGEDPTINELERLA 43 d1xi3a_ 78 ----------------------------ADGVQLGPEDMPIEV---------------AK 94 ::::: :: d1m6sa_ 44 AETFGKEAALFVPSGTMGNQVSIMAHTQRGDEV----------ILEADSHIFWYEVGAMA 93 d1xi3a_ 95 EIAPN-LIIGASV-------YSLEEALEAEK--------KGADYLGAGSVFPT------- 131 :: :::::: ::::::::: :::::::: d1m6sa_ 94 VL---SGVMPHP-VPGKNGAMDPDDVRKA--IRPRNIHFPRTSLIAI------ENTHNRS 141 d1xi3a_ 132 DARVIGLEGLRKIVES---VKIPVVAIGGINKD--------------NAREVLKTGVDGI 174 :::::::::::::::: ::::::: ::::::: ::::: d1m6sa_ 142 GGRVVPLENIKEICTIAKEHGINVHI-------DGARIFNASIASGVPVKEYAG-YADSV 193 d1xi3a_ 175 AVISA--VMGAEDVRKATEELRKIVEEVLG------------------------------ 202 :: :::: d1m6sa_ 194 MF---CLSAGL-------------------CAPVGSVVVGDRDFIERARKARKMLGGGMR 231 d1xi3a_ 203 ------------------------------------------------------------ 203 d1m6sa_ 232 QAGVLAAAGIIALTKMVDRLKEDHENARFLALKLKEIGYSVNPEDVKTNMVILRTDNLKV 291 d1xi3a_ 203 ---------------------------------------------------- 203 d1m6sa_ 292 NAHGFIEALRNSGVLANAVSDTEIRLVTHKDVSRNDIEEALNIFEKLFRKFS 343 TMalign alignment (TM-score: 0.39 Raw score:79.79) d1xi3a_ 1 ------------------------------------------------NLRN-KLK-L-Y 9 :: :: : : d1m6sa_ 1 MIDLRSDTVTKPTEEMRKAMAQAEVGDDVYGEDPTINELERLAAETFG--KEA-ALFVPS 57 d1xi3a_ 10 VITDRRLKPEVESVREAL-EGGATAI----------------QMRIKNAPTREMYEIGKT 52 :: :: :::: ::::: : :: : d1m6sa_ 58 GT--------------MGN---QVSIMAHTQRGDEVILEADSHIFWY------E--VG-A 91 d1xi3a_ 53 LRQLTREYDALFFVDDRVDVALAVDADGVQLGPE---DM--PIEVAKEI----APNLIIG 103 ::: : : :::::::::: :: :::::::: ::::::: d1m6sa_ 92 MAV-L------S------------GVMPHPVPGKNGAMDPDDVRKAIRPRNIHFPRTSLI 132 d1xi3a_ 104 AS-V---------YSLEEALEAEKKG----ADYLGAG-SVFPTDARVIG--LEGLRKIVE 146 :: : ::::::::::::: ::::::: :::: ::: :::::::: d1m6sa_ 133 AIENTHNRSGGRVVPLENIKEICTIAKEHGINVHIDGARIFN----ASIASGVPVKEYA- 187 d1xi3a_ 147 SVKIPVVAIGGIN---KDNAREVLKTGVDG--------------IAVISAVMGAEDVRKA 189 :: :::::: ::: ::::: :: :::: :: d1m6sa_ 188 GY-ADSVMF-CLSAGLCAPVG-SV--VVGDRDFIERARKARKML-------------GG- 228 d1xi3a_ 190 TE--EL-RKI--VEEV-------------------------------------------- 200 :: :: :: :: d1m6sa_ 229 GMRQAGV-LAAA--GIIALTKMVDRLKEDHENARFLALKLKEIGYSVNPEDVKTNMVILR 285 d1xi3a_ 201 ----------------------------------------------------------LG 202 d1m6sa_ 286 TDNLKVNAHGFIEALRNSGVLANAVSDTEIRLVTHKDVSRNDIEEALNIFEKLFRKFS-- 343 HHsearch alignment (Probability: 0.44 E-value:0.00) d1xi3a_ 46 MYEIGKTLRQLTREYDALFFVDDRVDVALAVD---ADGVQLGPEDMPIEVAKEIAPNLII 102 :::::::::::::::::::::::: ::::::: ::::::::::::::::::::::::: d1m6sa_ 147 PLENIKEICTIAKEHGINVHIDGA-RIFNASIASGVPVKEYAGYADSVMFCLSXGLCAPV 205 d1xi3a_ 103 GASVYSLEEALEAEKKGADYLGAGSV 128 :::::::::::::::::::::::::: d1m6sa_ 206 GSVVVGDRDFIERARKARKMLGGGMR 231