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 | d2tpsa_ | Thiamin phosphate synthase | Thiamin phosphate synthase | TIM beta/alpha-barrel | α/β |
| Hit | d1svva_ | Low-specificity threonine aldolase | PLP-dependent transferases | PLP-dependent transferases | α/β |
Query <-- 0.821 --> IntermediateDALI alignment (Z-score: 9.1 Raw score:858.90) query 1 ---------------mietpyylidkakltRNMERIAHVREKSGAKALLALKC------f 39 ::::::::::::::::::::::: d2tpsa_ 1 hgirmtrisremmkellsvyfimgsnntkaDPVTVVQKALKGGATLYQFREKGgdaltge 60 query 40 aTWSVFDLMRDYM-----DGTTSSslfEVRLGRERfGKETHAYSVAYGdnEIDEVVSHA- 93 :::::::::::: :::::: :::::::: :::::::::::: ::::::::: d2tpsa_ 61 aRIKFAEKAQAACreagvPFIVND---DVELALNL-KADGIHIGQEDA--NAKEVRAAIg 114 query 94 --DKIIFNSI-SQLERFADKAagIARGLRLNPQ-------RLGEWDVPKVERVM---DRI 140 :::::::: :::::::::: :::::::::: :::::::::::::: ::: d2tpsa_ 115 dmILGVSAHTmSEVKQAEEDG--ADYVGLGPIYptetkkdTRAVQGVSLIEAVRrqgISI 172 query 141 NGFMIHNncenkdfglfdrMLGEIEeRFGALiaRVDWVSLggGIHFTGddYPVDAFSARL 200 ::::::: :::::: ::::: ::::::: :::::: :::::::::: d2tpsa_ 173 PIVGIGG-----------iTIDNAA-PVIQA--GADGVSM--ISAISQ-aEDPESAARKF 215 query 201 RAFSDRYGvqiylepgeasitksttlevtvldtlynknlaivdssieahmldlliyreta 260 :::::::: d2tpsa_ 216 REEIQTYK---------------------------------------------------- 223 query 261 kvlpnegshsymicgksclagdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkm 320 d2tpsa_ 224 ------------------------------------------------------------ 224 query 321 paiaireldgsvrtvreftyadyeqsls 348 d2tpsa_ 224 -------------------------tgr 226 FAST alignment (Normalized score: 3.17 Raw score:888.50) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCFATWSVFDLMRDYM-------- 52 d2tpsa_ 1 ----------------------------------------------------HGIRMTRI 8 query 53 ----------DGTTSS--------SLFEVRLGRERF-GKETHAYSVAY-----------G 82 ::::: ::::::::::: ::::::: : d2tpsa_ 9 SREMMKELLSVYFIM-GSNNTKADPVTVVQKALKG-GATLYQFR----EKGGDALTGEAR 62 query 83 DNEIDEVVSHA-----DKIIFN-SISQLERFADKAAGIA---RGLRLNPQRLGE--WDVP 131 :::::::::: :::::: ::::::: ::::::: :::: d2tpsa_ 63 IKFAEKAQAA-CREAGVPFIVNDDVELALN---------LKADGIHIGQ-----EDANAK 107 query 132 KVERVMDRI--NGFMIHNNCENKDFGL--FDRMLGEIEERFGALIA-RVDWVSLGGGIHF 186 :::::: :::::: :::::::::: ::::::: d2tpsa_ 108 EVRAAI---GDMILGVS----------AHTMSEVKQAEE-------DGADYVGL------ 141 query 187 TGDDYPVDA----------------FSARLRAFSD-RYGVQIYLEPGEASITKSTTLEVT 229 :::::::::: ::::::::: :::: d2tpsa_ 142 ---------GPIYPTETKKDTRAVQGVSLIEAVRRQGISIPIVGI-GGIT---------- 181 query 230 VLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRF 289 d2tpsa_ 182 ------------------------------------------------------------ 182 query 290 AEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS- 348 d2tpsa_ 182 -----------------------------------------------------------I 182 query 349 -------------------------------------------- 349 d2tpsa_ 183 DNAAPVIQAGADGVSMISAISQAEDPESAARKFREEIQTYKTGR 226 TMalign alignment (TM-score: 0.41 Raw score:143.89) query 1 ----------------------------MIETPYYLIDKAKLTRNMERIAHVREKSGAKA 32 ::::::::::::::::::: d2tpsa_ 1 HGIRMTRISREMMKELLSVYFIMGSNNT-------------KADPVTVVQKALKGGATLY 47 query 33 LLALKC--F-A---TWSVFDLMRDYM-----DGTTSSSLFEVRLGRERFGKETHAYSVAY 81 :::::: : : :::::::::::: :::::: : :::::::::::::::::: d2tpsa_ 48 QFREKGGDALTGEARIKFAEKAQAACREAGVPFIVND---D-VELALNLKADGIHIGQED 103 query 82 GDNEIDEVVS-H--ADKIIFN-SISQLERFADKAAGIARGLRLNPQ--------RLGE-W 128 : ::::::: : ::::::: :::::::::::: :::::::::: :::: : d2tpsa_ 104 A--NAKEVRAAIGDMILGVSAHTMSEVKQAEEDG--ADYVGLGPIYPTETKKDTRAVQGV 159 query 129 D-VPKVERVMDRINGFMIHNNCENKDFGLFDRMLGEIEERFGALIARVDWVSLGGGIHFT 187 : ::::::::::::::::::: ::: : ::::::::: : :::::::::: d2tpsa_ 160 SLIEAVRRQGISIPIVGIGGI--------TID--N-AAPVIQAGA--D--GVSMISAISQ 204 query 188 GDDYPVDAFSARLRAFSDRYGV--QIYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSS 245 : ::::::::::::::::::: d2tpsa_ 205 A--EDPESAARKFREEIQTYKTGR------------------------------------ 226 query 246 IEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAA 305 d2tpsa_ 227 ------------------------------------------------------------ 227 query 306 GYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS 348 d2tpsa_ 227 ------------------------------------------- 227 HHsearch alignment (Probability: 0.39 E-value:0.03) query 9 IDKAKLTRNMERIAHVREKSGAKALLALKCFATWSVFDLMRDYMDGTTSSSLFEVRLGRE 68 :::::::::::::::::::::::::: :::::::::::::::::::::::::: :: d2tpsa_ 57 LTGEARIKFAEKAQAACREAGVPFIV----NDDVELALNLKADGIHIGQEDANAKE--VR 110 query 69 RFGKETHAYSVAYGDNEIDEVVSHADKII----------------FNSISQLERFADKAA 112 ::::::::::::::::::::::::::::: ::::::::::::::: d2tpsa_ 111 AAIGDMILGVSAHTMSEVKQAEEDGADYVGLGPIYPTETKKDTRAVQGVSLIEAVRRQGI 170 query 113 GIARGLRLNPQRLGEWDVPKVERVMDRINGFMIHNNCENKDFGLFDRMLGEIEERFGAL 171 :::::: ::::::::::::::::::::: ::::::::::::::::::::::::: d2tpsa_ 171 SIPIVG-----IGGITIDNAAPVIQAGADGVS--MISAISQAEDPESAARKFREEIQTY 222
Intermediate <-- 0.749 --> HitDALI alignment (Z-score: 2.7 Raw score:368.20) d2tpsa_ 1 -----------------------------------------------hgiRMTR------ 7 :::: d1svva_ 1 pysfvndysvgmhpkildlmardnmtqhagygqdshcakaarligellerPDADvhfisg 60 d2tpsa_ 8 ---isremMKELL---SVYFIM--------------------gsnNTKA--dPVTVVQKA 39 ::::: :::::: :::: :::::::: d1svva_ 61 gtqtnliaCSLALrpwEAVIATqlghisthetgaieatghkvvtaPCPDgklRVADIESA 120 d2tpsa_ 40 LKG-------GATLYQFRE-KGGDALtgeaRIKFAEKAQAACREAGVPFIVND------- 84 ::: ::::::::: :::::: ::::::::::::::::::::::: d1svva_ 121 LHEnrsehmvIPKLVYISNtTEVGTQ---yTKQELEDISASCKEHGLYLFLDGarlasal 177 d2tpsa_ 85 -------dVELALNLkADGIHIGQED-anaKEVRaaiGDMI--lgvsahtmsEVKQAEE- 133 ::::::: :::::::::: :::: :::: ::::::: d1svva_ 178 sspvndltLADIARL-TDMFYIGATKaggmFGEA--lIILNdalkpnarhliKQRGALMa 234 d2tpsa_ 134 -------------dgadyvglgpiyptetkkdtravqgvslieavrrqgisipivgiggi 180 d1svva_ 235 kgwllgiqfevlmkdnlffelgahsnkmaailkagleacgirlawpsasnqlfpilentm 294 d2tpsa_ 181 tidnaapviqagadgvsmisaisqaedpesaarkfreeiqtyktgr 226 d1svva_ 295 iaelnndfdmytveplkdgtcimrlctswateekechrfvevlkrl 340 FAST alignment (Normalized score: 2.19 Raw score:607.60) d2tpsa_ 1 HGIRMTRISREMMKELL------------------------------------------- 17 d1svva_ 1 -----------------PYSFVNDYSVGMHPKILDLMARDNMTQHAGYGQDSHCAKAARL 43 d2tpsa_ 18 ---------------------------------SVYFIMGSNNTKAD------------- 31 :::: d1svva_ 44 IGELLERPDADVHFISGGTQTNLIACSLALRPWEAVI----------ATQLGHISTHETG 93 d2tpsa_ 32 -------------------PVTVVQKALK-------GGATLYQFREKG-----GDALTGE 60 :::::::::: ::::::::: :::: d1svva_ 94 AIEATGHKVVTAPCPDGKLRVADIESALHENRSEHMVIPKLVYIS---NTTEVGTQY--- 147 d2tpsa_ 61 ARIKFAEKAQAACREAGVPFIVND----------------DVELALNLKADGIHIGQEDA 104 ::::::::::::::::::::: ::::::: :::::::::::: d1svva_ 148 -TKQELEDISASCKEHGLYLFL--DGARLASALSSPVNDLTLADIAR-LTDMFYIGATKA 203 d2tpsa_ 105 NAKEVRAAIGDMILGVSAHTMSEVKQAEEDGADYVGLGPIYPTETKKDTRAVQGVSLIEA 164 d1svva_ 204 ------------------------------------------------------------ 204 d2tpsa_ 165 VRRQGISIPIVGIGGITIDNAAPVIQAGADGVSMISAISQAEDPESAARKFREEIQTYKT 224 d1svva_ 204 ------------------------------------------------------------ 204 d2tpsa_ 225 GR---------------------------------------------------------- 226 d1svva_ 204 --GGMFGEALIILNDALKPNARHLIKQRGALMAKGWLLGIQFEVLMKDNLFFELGAHSNK 261 d2tpsa_ 227 ------------------------------------------------------------ 227 d1svva_ 262 MAAILKAGLEACGIRLAWPSASNQLFPILENTMIAELNNDFDMYTVEPLKDGTCIMRLCT 321 d2tpsa_ 227 ------------------- 227 d1svva_ 322 SWATEEKECHRFVEVLKRL 340 TMalign alignment (TM-score: 0.37 Raw score:83.06) d2tpsa_ 1 ----------------------------------------------------HGIRMTRI 8 d1svva_ 1 PYSFVNDYSVGMHPKILDLMARDNMTQHAGYGQDSHCAKAARLIGELLERPD-------- 52 d2tpsa_ 9 SREMMKELLSVYFIMGSNNTKADPVTVVQKALKGGATLY-------------------QF 49 :::::::::: :::: :: d1svva_ 53 ----ADVHFISGGT---------------------QTNLIACSLALRPWEAVIATQLGHI 87 d2tpsa_ 50 REKGGDALTGEARIKFAEKAQAACREAGVPFIVNDDVE--LALNLKADGIHIGQED-ANA 106 ::: : :: ::: :: :::: :::: ::::: ::: d1svva_ 88 STH---------E--TG--AIE-AT----GHKV-VTAPCP-----------DGKLRVADI 117 d2tpsa_ 107 KEVRA-A-----IGDMILGVSA-------HTMSEVKQAEEDG-----ADYVGLGPIYPTE 148 ::::: : :::::::::: ::::::::::::: ::::::::::: d1svva_ 118 ESALHENRSEHMVIPKLVYISNTTEVGTQYTKQELEDISASCKEHGLYLFLDGARLAS-- 175 d2tpsa_ 149 TKKDTRAVQGV---SLIEAVRRQGISIPIVGI-GGITIDNAAPVIQAGADG--------- 195 :::: :::::::: ::::::::: ::::::::: : ::: d1svva_ 176 -------ALSSPVNDLTLADIA-RLTDMFYIGATKAGGMFGE--A---LIILNDALKPNA 222 d2tpsa_ 196 ------VSMISAISQAEDPESAARKFRE-EIQTYK--TGR-------------------- 226 ::::::::: :::::: :: d1svva_ 223 RHLIKQ-------------RGALMAKGWLLGIQFEVL-MKDNLFFELGAHSNKMAAILKA 268 d2tpsa_ 227 ------------------------------------------------------------ 227 d1svva_ 269 GLEACGIRLAWPSASNQLFPILENTMIAELNNDFDMYTVEPLKDGTCIMRLCTSWATEEK 328 d2tpsa_ 227 ------------ 227 d1svva_ 329 ECHRFVEVLKRL 340 HHsearch alignment (Probability: 0.02 E-value:0.06) d2tpsa_ 65 FAEKAQAACREAGVPFIVNDDVELALNLKADGIHI 99 :::::::::::::::::::: :::::::::::::: d1svva_ 151 ELEDISASCKEHGLYLFLDG-ARLASALSSPVNDL 184