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 | d1q6oa_ | 3-keto-L-gulonate 6-phosphate decarboxylase | Ribulose-phoshate binding barrel | TIM beta/alpha-barrel | α/β |
| Hit | d1lucb_ | Bacterial luciferase beta chain, LuxB | Bacterial luciferase-like | TIM beta/alpha-barrel | α/β |
Query <-- 1.541 --> IntermediateDALI alignment (Z-score: 13.1 Raw score:1148.30) query 1 mietpyylidkakltrnmeriahvreksGAKALLALKC---fATWSVFDLMRDYMDGTTS 57 :::::::::: :::::::::::::::::: d1q6oa_ 1 ----------------------------LPMLQVALDNqtmdSAYETTRLIAEEVDIIEV 32 query 58 S-------SLFEVRLGRERFG-KETHAYS-VAYG-DNEIDEVVS-HADKIIFNS---ISQ 103 : ::::::::::::: ::::::: :::: ::::::::: ::::::::: ::: d1q6oa_ 33 GtilcvgeGVRAVRDLKALYPhKIVLADAkIADAgKILSRMCFEaNADWVTVICcadINT 92 query 104 LERFADKAA--GIARGLRLNPQrlgeWDVPKVERVM-DRINGFMIHNNCE-NKDFgLFDR 159 ::::::::: ::::::::::: :::::::::: ::::::::::::: :::: :::: d1q6oa_ 93 AKGALDVAKefNGDVQIELTGY----WTWEQAQQWRdAGIGQVVYHRSRDaQAAG-VAWG 147 query 160 mlGEIEERFGALIARVDWVSLGGGIHFtgddypvdAFSARLRAFSdrygvQIYLEPGEAS 219 ::::::::::::::::::::::::: :::::::::: :::::::::: d1q6oa_ 148 --EADITAIKRLSDMGFKVTVTGGLAL--------EDLPLFKGIP-----IHVFIAGRSI 192 query 220 -ITKSttlevtvldtlynknlaivdssieahmldlliyretakvlpnegshsymicgksc 278 :::: d1q6oa_ 193 rDAAS------------------------------------------------------- 197 query 279 lagdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkmpaiaireldgsvrtvref 338 d1q6oa_ 198 ------------------------------------------------------pveaar 203 query 339 tyadyeqsls 348 d1q6oa_ 204 qfkrsiaelw 213 FAST alignment (Normalized score: 5.19 Raw score:1413.00) query 1 MIETPYYL----------IDKAKLTRNMERIAHVREKSGAKALLALKCFA----TWSVFD 46 ::::::::::: :::::: ::::: :::: :::::: d1q6oa_ 1 --------LPMLQVALDNQTMDSAYETTR---LIAEEV-DIIEV-GTIL-CVGEGVRAVR 46 query 47 LMRDYM-----DGTTSS-----SLFEVRLGRERF--GKETHAYSVAYGDNEIDEVVSHA- 93 ::::: ::::: :::::::::: ::::: :::::::::::::::: d1q6oa_ 47 DLKAL-YPHKIVLADA-KIADAGKILSRMCFE--ANADWVT-VICCADINTAKGALDV-A 100 query 94 ----DKIIF-----NSISQLERFADKAAGIARGLRLNPQRLGEW---------------D 129 ::::: ::::::::::: ::: :::::: : d1q6oa_ 101 KEFNGDVQIELTGYWTWEQAQQWRD--AGI-GQVVYH-------RSRDAQAAGVAWGEAD 150 query 130 VPKVERVMDRI--NGFMIHNNCENKDFGL---FDRMLGEIEERFGALIARVDWVSLGGGI 184 ::::::::: :::::: ::::: ::::: ::::::: d1q6oa_ 151 ITAIKRLSD--MGFKVTVT----------GGLALEDL----PLFKG--IPIHVFI----- 187 query 185 HFTGDD--------YPVDAFSARLRAFSDRYGVQIYLEPGEASITKSTTLEVTVLDTLYN 236 ::::::::::::::::: d1q6oa_ 188 ------AGRSIRDAASPVEAARQFKRSIAEL----------------------------- 212 query 237 KNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVG 296 d1q6oa_ 213 ------------------------------------------------------------ 213 query 297 DRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS- 348 d1q6oa_ 213 ----------------------------------------------------W 213 TMalign alignment (TM-score: 0.43 Raw score:149.47) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCF---ATWSVFDLMRDYMDGTTS 57 ::::::::::: :::::::::::::::::: d1q6oa_ 1 ----------------------------LPMLQVALDNQTMDSAYETTRLIAEEVDIIEV 32 query 58 -S--S----LFEVRLGRERFG-KETHAYSVAY-G-DNEIDEVVS-HADKIIFN--S-ISQ 103 : : :::::::::::: :::::::::: : ::::::::: :::::::: : ::: d1q6oa_ 33 GTILCVGEGVRAVRDLKALYPHKIVLADAKIADAGKILSRMCFEANADWVTVICCADINT 92 query 104 LERFADKAA--GIARGLRLNPQRLGEWDVPKVERVMD-RINGFMIHNNCE-NK--DFGLF 157 ::::::::: ::::::::: : :::::::::::: :::::::::::: :: ::: d1q6oa_ 93 AKGALDVAKEFNGDVQIELT---G-YWTWEQAQQWRDAGIGQVVYHRSRDAQAAG--VAW 146 query 158 DRMLGEIEERFGALIARVDWVSLGGGIHFTGDDYPVDAFSARLRAFSDRYGVQIYLEPGE 217 : ::::::::::::::::::::::::: : ::::::::: :: :::::: d1q6oa_ 147 -G--EADITAIKRLSDMGFKVTVTGGLAL-----E---DLPLFKGIP----IH-VFIAGR 190 query 218 ASITKST----------------TLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAK 261 ::::::: d1q6oa_ 191 SIRDAASPVEAARQFKRSIAELW------------------------------------- 213 query 262 VLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMP 321 d1q6oa_ 214 ------------------------------------------------------------ 214 query 322 AIAIRELDGSVRTVREFTYADYEQSLS 348 d1q6oa_ 214 --------------------------- 214 HHsearch alignment (Probability: 0.38 E-value:0.02) query 16 RNMERIAHVREKSGAKALLALKCFATWSV-FDLMRDYMDGTTSSS--------LFEVRLG 66 :::::::::: ::::::::::::::::: ::::::::::::::: ::::::: d1q6oa_ 43 RAVRDLKALY--PHKIVLADAKIADAGKILSRMCFEANADWVTVICCADINTAKGALDVA 100 query 67 RERFGKETHAYSVAYGDNEIDEVVSHADKIIF-------------NSISQLERFADKAAG 113 :::::::::::::::::::::::::::::::: :::::::::::: :: d1q6oa_ 101 KEFNGDVQIELTGYWTWEQAQQWRDAGIGQVVYHRSRDAQAAGVAWGEADITAIKRL-SD 159 query 114 IARGLRLNPQRLGEWDVPKVERVMDRINGFMIHNNCENKDFGLFDRMLGEIEERFGAL 171 :::::::::::::::::::::::::::: ::::::::::::::::::::::::: d1q6oa_ 160 MGFKVTVTGGLALEDLPLFKGIPIHVFI-----AGRSIRDAASPVEAARQFKRSIAEL 212
Intermediate <-- 1.429 --> HitDALI alignment (Z-score: 12.4 Raw score:1268.80) d1q6oa_ 1 lPMLQVALDNQ---------TMDSAYETTRLIAEE-VDIIEVGT------ILCVgegVRA 44 :::::::::: ::::::::::::::: :::::::: :::: ::: d1lucb_ 1 -MKFGLFFLNFmnskrssdqVIEEMLDTAHYVDQLkFDTLAVYEnhfsnnGVVG-apLTV 58 d1q6oa_ 45 VRDLKALYPHKIVLAD-AKIA-DAGKILSRMCFEAN-----aDWVTVICC---------- 87 :::::::::::::::: :::: :::::::::::::: :::::::: d1lucb_ 59 AGFLLGMTKNAKVASLnHVITtHHPVRVAEEACLLDqmsegrFAFGFSDCeksadmrffn 118 d1q6oa_ 88 --------aDINTAKGALDVAKE------------------------FNGDVQIELtgyW 115 :::::::::::::: ::::::::: : d1lucb_ 119 rptdsqfqlFSECHKIINDAFTTgychpnndfysfpkisvnphafteGGPAQFVNA---T 175 d1q6oa_ 116 TWEQAQQWRDAGIgQVVYHRSrdaqaagvawgeaDITAIKRLSDMG-------------F 162 ::::::::::::: ::::::: :::::::::::: : d1lucb_ 176 SKEVVEWAAKLGL-PLVFRWD------------dSNAQRKEYAGLYhevaqahgvdvsqV 222 d1q6oa_ 163 KVTVTGGL------------------------------------------------ALED 174 :::::::: :::: d1lucb_ 223 RHKLTLLVnqnvdgeaaraearvyleefvresysntdfeqkmgellsenaigtyeeSTQA 282 d1q6oa_ 175 LPLFKGI-PIHVFIAGrsIRDA---ASPVEAARQFKRSIAelw 213 ::::::: :::::::: :::: ::::::::::::::: d1lucb_ 283 ARVAIECcGAADLLMS--FESMedkAQQRAVIDVVNANIV--- 320 FAST alignment (Normalized score: 8.63 Raw score:2253.00) d1q6oa_ 1 LPMLQVALDNQ-----------TMDSAYETTRLIAE-EVDIIEVGTILCVGE-------- 40 :::::::: :::::::::::::: :::::::: d1lucb_ 1 -MKFGLFFL--NFMNSKRSSDQVIEEMLDTAHYVDQLKFDTLAVY-------ENHFSNNG 50 d1q6oa_ 41 ----GVRAVRDLKALYPHKIVLADAKIAD-----------AGKILSRMCFEANA-----D 80 ::::::::::::::::::: ::::::::::: : d1lucb_ 51 VVGAPLTVAGFLLGMTKNAKVAS------LNHVITTHHPVRVAEEACLLDQ---MSEGRF 101 d1q6oa_ 81 WVTVICCA---------------------DINTAKGALDVAKEF---------------- 103 ::::: ::::::::::::: d1lucb_ 102 AFGFS---DCEKSADMRFFNRPTDSQFQLFSECHKIINDAFT--TGYCHPNNDFYSFPKI 156 d1q6oa_ 104 ----------NGDVQIELTGYWTWEQAQQWRDAGIGQVVYHRSRDAQAAGVA---WGEAD 150 :::::::: ::::::::::::: :::::: ::::: d1lucb_ 157 SVNPHAFTEGGPAQFVNA---TSKEVVEWAAKLG-LPLVFR-----------WDDSNAQR 201 d1q6oa_ 151 ITAIKRLSD---------MGFKVTVTGGL------------------------------- 170 ::::::::: ::::::::::: d1lucb_ 202 KEYAGLYHEVAQAHGVDVSQVRHKLTLLVNQNVDGEAARAEARVYLEEFVRESYSNTDFE 261 d1q6oa_ 171 -----------------ALEDLPLFK----GIPIHVFIAGRS-IRDAA---SPVEAARQF 205 :::::: ::::::::: ::::: ::::::::: d1lucb_ 262 QKMGELLSENAIGTYEESTQAAR---VAIECCGAADLLM---SFESMEDKAQQRAVIDVV 315 d1q6oa_ 206 KRSIAELW-- 213 ::: d1lucb_ 316 NAN-----IV 320 TMalign alignment (TM-score: 0.72 Raw score:153.76) d1q6oa_ 1 LPMLQVALDN-------QT--MDSAYETTRLIAEE-VDIIEVGT------ILCVGEGVRA 44 ::::::::: :: :::::::::::::: :::::::: :::: ::::: d1lucb_ 1 -MKFGLFFLNFMNSKRSSDQVIEEMLDTAHYVDQLKFDTLAVYENHFSNNGVVG-APLTV 58 d1q6oa_ 45 VRDLKALYPHKIVLAD-AKIA-DAGKILSRMCFEAN-----ADWVTVIC----------- 86 :::::::::::::::: :::: :::::::::::::: :::::::: d1lucb_ 59 AGFLLGMTKNAKVASLNHVITTHHPVRVAEEACLLDQMSEGRFAFGFSDCEKSADMRFFN 118 d1q6oa_ 87 ------C-ADINTAKGALDVAK---------------------EFN---GDVQIELTGYW 115 : :::::::::::::: ::: :::::::: : d1lucb_ 119 RPTDSQFQLFSECHKIINDAFTTGYCHPNNDFYSFPKISVNPHAFTEGGPAQFVNAT--S 176 d1q6oa_ 116 TWEQAQQWRDAGIGQVVYHRSRDAQAAGVAWGEADITAIKRLSD-M------G--FKVTV 166 : :::::::: :::::::::: : :::::::::::::: : : ::::: d1lucb_ 177 K-EVVEWAAK-LGLPLVFRWD--D------SNAQRKEYAGLYHEVAQAHGVDVSQVRHKL 226 d1q6oa_ 167 TGG-----------------------------------------LA------LE-DLPL- 177 ::: :: :: :::: d1lucb_ 227 TLLVNQNVDGEAARAEARVYLEEFVRESYSNTDFEQKMGELLSENAIGTYEESTQAARVA 286 d1q6oa_ 178 FKGIPIHVFIAGRSIRDA-A--SPVEAARQFKRSIAELW 213 :::::::::::: :::: : :::::::::::::: d1lucb_ 287 IECCGAADLLMS--FESMEDKAQQRAVIDVVNANIV--- 320 HHsearch alignment (Probability: 0.05 E-value:0.11) d1q6oa_ 173 EDLPLFKG-IPIHVFIAGRSIRDA-ASPVEAARQFKRS 208 :::::::: ::::::::::::::: ::::::::::::: d1lucb_ 281 QAARVAIECCGAADLLMSFESMEDKAQQRAVIDVVNAN 318