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 | d1j5va_ | 2-keto-3-deoxygluconate kinase | Ribokinase-like | Ribokinase-like | 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 <-- 0.724 --> HitDALI alignment (Z-score: 3.5 Raw score:487.40) d1q6oa_ 1 --------lpmlqvaldnqtmdsayettrliaeevdiieVGTILCV-------------- 38 ::::::: d1j5va_ 1 hhhmkvvtfgeimlrlsppdhkrifqtdsfdvtyggaeaNVAAFLAqmgldayfvtklpn 60 d1q6oa_ 39 --------------GEGVR----------------avrdlkalyphkivladakiadagk 68 ::::: d1j5va_ 61 nplgdaaaghlrkfGVKTDyiarggnrigiyfleigasqrpskvvydrahsaiseakred 120 d1q6oa_ 69 ILSRMCFEaNADWVTVICCAD------INTAKGALDVAKEFNGDVQIELTGY-------w 115 :::::::: :::::::::::: ::::::::::::::::::::::::: d1j5va_ 121 FDWEKILD-GARWFHFSGITPplgkelPLILEDALKVANEKGVTVSCDLNYRarlwtkee 179 d1q6oa_ 116 TWEQAQQWRdAGIGQVVYHRSrdaqaagvaWGEADITAIKRLS-DMGF-KVTVTGG---- 169 ::::::::: ::::::::::: ::::::::::::: :::: ::::::: d1j5va_ 180 AQKVMIPFM-EYVDVLIANEEdiekvlgisNREAYAKIAEEVTrKYNFkTVGITLResis 238 d1q6oa_ 170 -laLEDL--plfKGIP-------------------------------------ihvfiaG 189 :::: :::: : d1j5va_ 239 atvNYWSvmvfeNGQPhfsnryeihivdrvgagdsfagaliygslmgfdsqkkaefaaaA 298 d1q6oa_ 190 RSIRD----------aaSPVEAARqfkrsiaelw 213 ::::: ::::::: d1j5va_ 299 SCLKHtipgdfvvlsieEIEKLAS---------- 322 FAST alignment (Normalized score: 2.69 Raw score:703.10) d1q6oa_ 1 LPMLQVALDNQTMDSAYETTRLIAEEVDIIEVGTILCVGEGVRAVRDLKALYPHKIVLAD 60 d1j5va_ 1 ------------------------------------------------------------ 1 d1q6oa_ 61 AKIADAGKI--------------------------------------------------- 69 d1j5va_ 1 ---------HHHMKVVTFGEIMLRLSPPDHKRIFQTDSFDVTYGGAEANVAAFLAQMGLD 51 d1q6oa_ 70 ------------------------------------------------------------ 70 d1j5va_ 52 AYFVTKLPNNPLGDAAAGHLRKFGVKTDYIARGGNRIGIYFLEIGASQRPSKVVYDRAHS 111 d1q6oa_ 70 ----------LSRMCFEANADWVTVICCA-------DINTAKGALDVAKEFNGDVQIELT 112 :::::: ::::::::::: ::::::::::::::::::::::: d1j5va_ 112 AISEAKREDFDWEKIL-DGARWFHFSGI-TPPLGKELPLILEDALKVANEKGVTVSCDL- 168 d1q6oa_ 113 GYW-----------TWEQAQQWRDAGIGQVVYHRSRDAQAAGVAW------------GEA 149 ::::::::: ::::::::: ::: d1j5va_ 169 ---NYRARLWTKEEAQKVMIPFM-EYVDVLIAN------------EEDIEKVLGISNREA 212 d1q6oa_ 150 DITAIKRLSD-MGF-KVTVTGGLALEDLPLFKGIPIHVFIAGRSIRDAASPVEAARQFKR 207 :::::::::: ::: ::::: d1j5va_ 213 YAKIAEEVTRKYNFKTVGIT---------------------------------------- 232 d1q6oa_ 208 SIAELW------------------------------------------------------ 213 d1j5va_ 233 ------LRESISATVNYWSVMVFENGQPHFSNRYEIHIVDRVGAGDSFAGALIYGSLMGF 286 d1q6oa_ 214 ------------------------------------ 214 d1j5va_ 287 DSQKKAEFAAAASCLKHTIPGDFVVLSIEEIEKLAS 322 TMalign alignment (TM-score: 0.45 Raw score:96.25) d1q6oa_ 1 -LPMLQVALDN------------------------------------------------- 10 :::::::::: d1j5va_ 1 HHHMKVVTFGEIMLRLSPPDHKRIFQTDSFDVTYGGAEANVAAFLAQMGLDAYFVTKLPN 60 d1q6oa_ 11 -----------------------------------------------------QTMDSAY 17 ::::::: d1j5va_ 61 NPLGDAAAGHLRKFGVKTDYIARGGNRIGIYFLEIGASQRPSKVVYDRAHSAISEAKRED 120 d1q6oa_ 18 ETTRLIAEEVDIIEVGTILCVG--EGVRAVRDLKALYP--HKIVLADAKIA-----DA-- 66 :::::::::::::::::::::: :::::::::::::: ::::::::::: : d1j5va_ 121 FDWEKILDGARWFHFSGITPPLGKELPLILEDALKVANEKGVTVSCDLNYRARLWT-KEE 179 d1q6oa_ 67 GKIL-SRMCFEANADWVTVICCA-------DI--NTAKGALDVAKEFNG-DVQIELTGY- 114 :: :::::::::::::::::: :: ::::::::::::::: ::::::::: d1j5va_ 180 --AQKVMIPFMEYVDVLIANEEDIEKVLGISNREAYAKIAEEVTRKYNFKTVGITLRESI 237 d1q6oa_ 115 ----WTWEQAQQWRD---AGIGQ--------VVYHRSRD--AQAAGVAW----------- 146 ::: :: ::: ::::: ::::: : d1j5va_ 238 SATVNYW-SV--MVFENGQPHFSNRYEIHIV---DRVGAGD-------SFAGALIYGSLM 284 d1q6oa_ 147 -GEADITAIKRLSDMGFK--VT--VT--------GGLALEDLPLFKGIP----IHVFIAG 189 :::::: :: :: ::: :: :::::: d1j5va_ 285 G-----------FDSQKKAEFAAAASCLKHTIPGDFV---VL-SIEEIEKLAS------- 322 d1q6oa_ 190 RSIRDAASPVEAARQFKRSIAELW 213 d1j5va_ 323 ------------------------ 323 HHsearch alignment (Probability: 0.01 E-value:0.34) d1q6oa_ 43 RAVRDLK 49 ::::::: d1j5va_ 66 AAAGHLR 72