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 | d1kfwa1 | Psychrophilic chitinase B | (Trans)glycosidases | TIM beta/alpha-barrel | α/β |
| Hit | d1mxga2 | Bacterial alpha-amylase | (Trans)glycosidases | TIM beta/alpha-barrel | α/β |
Query <-- 1.326 --> IntermediateDALI alignment (Z-score: 6.4 Raw score:778.60) query 1 ------------------------------------------------------------ 1 d1kfwa1 1 pltstvngyrnvgyfaqwgvygrafqakqldvsgtaknlthinysfgninnqtltcfman 60 query 1 -----mietpyylidkAKLT----------------------RNMERIAHVREKSG-AKA 32 :::: :::::::::::::: ::: d1kfwa1 61 kaqgtgpngsdgagdaWADFgmgyaadksvsgkadtwdqplaGSFNQLKQLKAKNPkLKV 120 query 33 LLALK------------------cfATWSVFDLMR-----------------DYMDGTTS 57 ::::: :::::::::: :::::::: d1kfwa1 121 MISLGgwtwsknfskaaateasrqkLVSSCIDLYIkgnlpnfegrggagaaaGIFDGIDI 180 query 58 SS-----------------------LFEVRLGRERFG---------KETHAYSVA----Y 81 :: :::::::::::: ::::::::: : d1kfwa1 181 DWewpgtnsglagngvdtvndranfKALLAEFRKQLDaygstnnkkYVLSAFLPAnpadI 240 query 82 GDNEI--DEVVSHADKIIFN----------------------------------SISQLE 105 ::::: ::::::::::::: :::::: d1kfwa1 241 DAGGWddPANFKSLDFGSIQgydlhgawnptltghqanlyddpadprapskkfsADKAVK 300 query 106 RFA-DKAAgIARGLRLNPQrlgeWDVPKVERVM-DRINGFMIHNNCenkdfglFDRMlGE 163 ::: :::: :::::::::: :::::::::: :::::::::::: :::: :: d1kfwa1 301 KYLaAGIDpKQLGLGLAAD-niaTTKQKTDYIVsKGLGGGMWWELS------gDRNG-EL 352 query 164 IEeRFGALIA---RVDWvslgggihftgddypvdafsarlrafsdrygvqiylepgeasi 220 :: ::::::: :::: d1kfwa1 353 VG-AMSDKFRaaaPGPV------------------------------------------- 368 query 221 tksttlevtvldtlynknlaivdssieahmldlliyretakvlpnegshsymicgkscla 280 d1kfwa1 369 ------------------------------------------------------------ 369 query 281 gdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkmpaiaireldgsvrtvrefty 340 d1kfwa1 369 ------------------------------------------------------------ 369 query 341 adyeqsls 348 d1kfwa1 369 --teaapp 374 FAST alignment (Normalized score: 3.56 Raw score:1283.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREK------SGAKALLALKCFA-----------TWS 43 :::::::: ::: d1kfwa1 1 ---------------------------PLTSTVNGYRNVGY-----FAQWGVYGRAFQAK 28 query 44 VFD--LMRDYMDGTTSS------------------------------------------- 58 ::: :::::::::::: d1kfwa1 29 QLDVSGTAKNLTHINYSFGNINNQTLTCFMANKAQGTGPNGSDGAGDAWADFGMGYAADK 88 query 59 ---------------SLFEVRLGRERFG-KETHAYSVAY--------------------- 81 ::::::::::::: :::::: d1kfwa1 89 SVSGKADTWDQPLAGSFNQLKQLKAKNPKLKVMIS----LGGWTWSKNFSKAAATEASRQ 144 query 82 --GDNEIDEVV-----------------SHADKIIFN----------------------- 99 ::::::::: :::::::: d1kfwa1 145 KLVSSCIDLYIKGNLPNFEGRGGAGAAAGIFDGIDI-DWEWPGTNSGLAGNGVDTVNDRA 203 query 100 -SISQLERFADKAA----------GIARGLRLNPQRLGEWDVPK------------VERV 136 ::::::::::: ::::::::: :::: d1kfwa1 204 NFKALLAEFRKQ--LDAYGSTNNKKYVLSAFLP-----------ANPADIDAGGWDDPAN 250 query 137 MDRINGFMIHNNCENKDFG------------------------------LFDRMLGEIEE 166 ::::::::: :::: ::::::::::: d1kfwa1 251 FKSLDFGSI-QGYD-----LHGAWNPTLTGHQANLYDDPADPRAPSKKFSADKAVKKYLA 304 query 167 RFGALIARVD------WVSLGGGIHFTGDDYP----VDAFSARLRAFSDRYGVQIYLEPG 216 ::::: ::::::::::::::::: :::: d1kfwa1 305 ----------AGIDPKQLGLG-----------LAADNIATTKQKTDYIVSKGL-GGGM-- 340 query 217 EASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGK 276 d1kfwa1 341 ------------------------------------------------------------ 341 query 277 SCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVR 336 d1kfwa1 341 ------------------------------------------------------------ 341 query 337 EFTYADYEQSLS---------------------------------- 348 d1kfwa1 341 ------------WWELSGDRNGELVGAMSDKFRAAAPGPVTEAAPP 374 TMalign alignment (TM-score: 0.41 Raw score:142.97) query 1 -----------------MIETPYY-LID-KAKLTRNMERIAH-VREKSGAKALLALKC-- 38 : :: :: :::::::: ::::::::::::::: d1kfwa1 1 PLTSTVNGYRNVGYFAQ------WG-VYG--RA-FQAKQLDVSGTAKNLTHINYSFGNIN 50 query 39 -----------------------FAT--WS----------------------V-FDLMRD 50 ::: :: : :::::: d1kfwa1 51 NQTLTCFMANKAQGTGPNGSDGAGDAWADFGMGYAADKSVSGKADTWDQPLAGSFNQLKQ 110 query 51 YM------DGTTSSS-------L------------FE-VR--LGRER------------- 69 :: ::::::: : :: :: ::::: d1kfwa1 111 LKAKNPKLKVMISLGGWTWSKNFSKAAATEASRQKLVSSCIDLYIKGNLPNFEGRGGAGA 170 query 70 ---FGKETHAYSVAY---------------G--DN--EIDEVV-SH----------ADKI 96 :::::::::::: : :: :::::: :: :::: d1kfwa1 171 AAGIFDGIDIDWEWPGTNSGLAGNGVDTVNDRANFKALLAEFRKQLDAYGSTNNKKYVLS 230 query 97 I-FN--S--IS--QLERFADKAAGIARGLRLN---------------PQ----------- 123 : :: : :: :::: :::::::::::::: :: d1kfwa1 231 AFLPANPADIDAGGWDD-PANFKSLDFGSIQGYDLHGAWNPTLTGHQANLYDDPADPRAP 289 query 124 -R-LGEWD-VPKVERVMDRI-NGFMIHNNCENKDFGLFDRMLGEIEERFGALIARVDWVS 179 : ::::: ::::::::::: :::::::: :::::::::::::::: :::::: d1kfwa1 290 SKKFSADKAVKKYLAAGIDPKQLGLGLAA-------DNIATTKQKTDYIVSK--GLGGGM 340 query 180 LGGGIHFTGDDYPVDAFSARLRAFSDRY-GVQI------YLEPGEASITKSTTLEVTVLD 232 :::::::: :: ::::::::::::: :::: d1kfwa1 341 WWELSGDR----NG-ELVGAMSDKFRAAAPGPVTEAAPP--------------------- 374 query 233 TLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEE 292 d1kfwa1 375 ------------------------------------------------------------ 375 query 293 LKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS 348 d1kfwa1 375 -------------------------------------------------------- 375 HHsearch alignment (Probability: 0.05 E-value:0.48) query 99 NSISQLERFADKAAGIARGLRLNPQRLGEWDVPKVERVMDR------------------- 139 ::::::::::::::::::::::::::::::::::::::::: d1kfwa1 103 GSFNQLKQLKAKNPKLKVMISLGGWTWSKNFSKAAATEASRQKLVSSCIDLYIKGNLPNF 162 query 140 ------------INGFMIHN-------------NCENKDFGLFDRMLGEIEERFGALI-- 172 :::::::: ::::::::::::::::::::::::: d1kfwa1 163 EGRGGAGAAAGIFDGIDIDWEWPGTNSGLAGNGVDTVNDRANFKALLAEFRKQLDAYGST 222 query 173 ----ARVDWVSLGGGIHFTGDDYPVDAFSARLRAF 203 ::::::::::::::::::::::::::::::: d1kfwa1 223 NNKKYVLSAFLPANPADIDAGGWDDPANFKSLDFG 257
Intermediate <-- 1.345 --> HitDALI alignment (Z-score: 11.8 Raw score:1468.60) d1kfwa1 1 --plTSTVngYRNVGYFAqWGVYG----raFQAKQLDvsGTAK-NLTHINYSFG------ 47 :::: :::::::: ::::: ::::::: :::: :::::::::: d1mxga2 1 akylELEE--GGVIMQAFyWDVPGggiwwdHIRSKIP--EWYEaGISAIWLPPPskgmsg 56 d1kfwa1 48 -----NINNqtltCFMA---NKAQGtgpngsdgagDAWADFgmgyaadksvsgkadtwdq 99 :::: :::: ::::: :::::: d1mxga2 57 gysmgYDPY----DYFDlgeYYQKG-------tveTRFGSK------------------- 86 d1kfwa1 100 plAGSFNQLKQLKAKNpkLKVMISLGgwtWSKN--------------------------- 132 :::::::::::::: :::::::: :::: d1mxga2 87 --EELVRLIQTAHAYG--IKVIADVV---INHRaggdlewnpfvgdytwtdfskvasgky 139 d1kfwa1 133 -----------------------fSKAAATEASRQKLVS---SCIDLYIKGnlpnfegrg 166 ::::::::::::::: ::::::::: d1mxga2 140 tanyldfhpnelhccdegtfggfpDICHHKEWDQYWLWKsneSYAAYLRSI--------- 190 d1kfwa1 167 gagaaagIFDGIDIDWEWPgtnsglagngvdtvndraNFKALLAEFRKQLDaygstnnkk 226 :::::::::::: :::::::::::::: d1mxga2 191 -------GFDGWRFDYVKG------------------YGAWVVRDWLNWWG--------- 216 d1kfwa1 227 YVLSAFLPANPadidagGWDDpaNFKSLdFGSIQGydlhgawnptltghqANLYD--DPA 284 ::::::::::: :::: ::::: :::::: ::::: ::: d1mxga2 217 GWAVGEYWDTN----vdALLSwaYESGA-KVFDFP-------------lyYKMDEafDNN 258 d1kfwa1 285 DprapskkfsadkavKKYLaagIDPKQLGLGLA-------aDNIATTKQKTDYIvskglG 337 : :::: ::::::::::: ::::::::::::: : d1mxga2 259 N----ipalvyalqnGQTV-vsRDPFKAVTFVAnhdtdiiwNKYPAYAFILTYE-----G 308 d1kfwa1 338 GGMWWeLSGDRN---GELVGAMSDKFRAAAP--------------gpvteaapp 374 ::::: :::::: :::::::::::::::: d1mxga2 309 QPVIF-YRDFEEwlnKDKLINLIWIHDHLAGgsttivyydndelifvrngdsrr 361 FAST alignment (Normalized score: 4.30 Raw score:1580.00) d1kfwa1 1 PLTSTVN-------GYRNVGYF--AQWGVYGRAF-----QAKQLDVS---GTAK-NLTHI 42 ::::::: :::: ::::::: :::: ::::: d1mxga2 1 -------AKYLELEEGGVIMQ-AFYWDV------PGGGIWWDHIRS-KIPEWYEAGISAI 45 d1kfwa1 43 NYSFGNINNQTLTCFMANKAQGTGPNGSDGAGDAWADFGMGYAADKSVSGKADTWDQP-- 100 :::: d1mxga2 46 WLPP------------------------------------------------------PS 51 d1kfwa1 101 ----------------------------------LAGSFNQLKQLKAKNPKLKVMISLGG 126 ::::::::::::: :::::::: d1mxga2 52 KGMSGGYSMGYDPYDYFDLGEYYQKGTVETRFGSKEELVRLIQTAHA--YGIKVIAD--- 106 d1kfwa1 127 WTWSKNFSK--------------------------------------------------- 135 d1mxga2 107 ---------VVINHRAGGDLEWNPFVGDYTWTDFSKVASGKYTANYLDFHPNELHCCDEG 157 d1kfwa1 136 --------AAATEASRQK-------LVSSCIDLYIKGNLPNFEGRGGAGAAAGIFDGIDI 180 :::::::::: ::::::: :::::::: d1mxga2 158 TFGGFPDICHHKEWDQYWLWKSNESYAAYLRS--------------------IGFDGWRF 197 d1kfwa1 181 DWEWPGTNSGLAGNGVDTVN------DRANFKALLAEFRKQLDAYGSTNNKK--YVLSAF 232 ::::::::::: :::::: d1mxga2 198 --------------------DYVKGYGAWVVRDWLNW---------------WGGWAVGE 222 d1kfwa1 233 LPA-------NPADIDAGGWDDPANFKSL-DFGSIQGYDLHGAWNPTLTGHQANLYDDPA 284 : :::::::: ::::: d1mxga2 223 Y--WDTNVDALLSWAYES-----------GAKVFD------------------------- 244 d1kfwa1 285 DPRAPSKKFSAD---------------------------KAVKKYLAAGIDPKQLGLGLA 317 :::: :::::::::: d1mxga2 245 ------------FPLYYKMDEAFDNNNIPALVYALQNGQTVVS------RDPFKAVTFV- 285 d1kfwa1 318 ADNIA---------TTKQKTDYIVSKGLGGGMWWELSGDRN------GELVGAMSDKFRA 362 :::::::::::::: :::: :::: :::::::::::: d1mxga2 286 -----ANHDTDIIWNKYPAYAFILTYEG-QPVI-FYRD---FEEWLNKDKLINLIWIHD- 334 d1kfwa1 363 AAPGPVTEAAPP--------------------------- 374 d1mxga2 335 ------------HLAGGSTTIVYYDNDELIFVRNGDSRR 361 TMalign alignment (TM-score: 0.54 Raw score:201.50) d1kfwa1 1 P-LTSTVNGYRNVGYFAQ-WGVYGRAF--QAKQLDVSGTAKNLTHINYSFGNINNQTLTC 56 : ::::: :::::::::: :::::::: :::::::::::::::::::::: d1mxga2 1 AKYLELE-EGGVIMQAFYWDVPGGGIWWDHIRSKIPEWYEAGISAIWLPPP--------- 50 d1kfwa1 57 FMANKAQGT---GPNGSDGA--GDA--------WADFGMGYAADKSVSGKADTWDQPLAG 103 :::::::: ::::: ::: :::::: ::: d1mxga2 51 -SKGMSGGYSMG---YDPYDYFDLGEYYQKGTVETRFGS------------------KEE 88 d1kfwa1 104 SFNQLKQLKAKNPKLKVMISLGGWTW---------------------------------- 129 :::::::::: :: :::::::::::: d1mxga2 89 LVRLIQTAHA-YG-IKVIADVVINHRAGGDLEWNPFVGDYTWTDFSKVASGKYTANYLDF 146 d1kfwa1 130 -----------SK--NFSKAAATEASRQKLVS---SCIDLYIKGNLPNFEGRGGAGAAAG 173 :: ::::::::::::::::: :::::::: : d1mxga2 147 HPNELHCCDEGTFGGFPDICHHKEWDQYWLWKSNESYAAYLRS--------------I-- 190 d1kfwa1 174 IFDGIDIDWEWPGTNSGLAGNGVDTVNDRANFKALLAEFRKQLDAYGSTNNKKYVLSAFL 233 :::::::::::: : ::::::::::::: ::::::: d1mxga2 191 GFDGWRFDYVKG---------------Y---GAWVVRDWLNWWG---------GWAVGEY 223 d1kfwa1 234 PANPADIDAGGWDDPANFKSLDFGSIQGYDLHGAWNPTLTGHQANLYDDPAD--PRAPSK 291 :::: :: ::::::::::: ::::::::: : ::::::::: d1mxga2 224 WDTN--VD--ALLSWAYESGA-KVFDFPLYY----------K-MDEAFDNNNIP------ 261 d1kfwa1 292 KFSADKA--VKKYLAAGIDPKQLGLGLAA-------DNIATTKQKTDYIVSKGLGGGMWW 342 :::::: :::::: : ::::::::::: ::::::::::: : :: ::::: d1mxga2 262 -ALVYALQNGQTVVS-R-DPFKAVTFVANHDTDIIWNKYPAYAFILT--Y--EG-QPVIF 313 d1kfwa1 343 ELSGDRN---GELVGAMSDKFRAAAPGP-----------------VT---EAAPP 374 :::::: :::::::::::::::::: : d1mxga2 314 -YRDFEEWLNKDKLINLIWIHDHLAGGSTTIVYYDNDELIFVRNG-DSRR----- 361 HHsearch alignment (Probability: 0.30 E-value:0.01) d1kfwa1 143 RQKLVSSCIDLYIKGNLPNFEGRGGAGAAAGIFDGIDIDWE 183 :::::::::::::::: ::::::::: d1mxga2 176 LWKSNESYAAYLRSIG----------------FDGWRFDYV 200