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 | d1ua7a2 | 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 <-- 1.306 --> HitDALI alignment (Z-score: 11.8 Raw score:1429.10) d1kfwa1 1 pLTSTvngYRNVGYFAQWGvygraFQAKQLDvsGTAK-NLTHINYSFGninnqtltcfMA 59 :::: ::::::::::: ::::::: :::: :::::::::: :: d1ua7a2 1 -PSIK---SGTILHAWNWS---fnTLKHNMK--DIHDaGYTAIQTSPI----------NQ 41 d1kfwa1 60 NKAQGT--------gpngSDGA--gDAWADFGmgyaadksvsgkadtwdqpLAGSFNQLK 109 :::::: :::: ::::::: ::::::::: d1ua7a2 42 VKEGNQgdksmsnwywlyQPTSyqiGNRYLGT-------------------EQEFKEMCA 82 d1kfwa1 110 QLKAKNpkLKVMISLGgwtWSKN------------------------------------- 132 :::::: :::::::: :::: d1ua7a2 83 AAEEYG--IKVIVDAV---INHTtfdyaaisnevksipnwthgntqiknwsdrwdvtqns 137 d1kfwa1 133 ----fSKAAATEASRQKLVSSCIdLYIKGnlpnfegrggagaaagIFDGIDIDWEWPgtn 188 :::::::::::::::::: ::::: :::::::::::: d1ua7a2 138 llglyDWNTQNTQVQSYLKRFLE-RALND----------------GADGFRFDAAKH--- 177 d1kfwa1 189 sglagngvdtvnDRAN----fkALLAEFRKQLdaygstnnkkYVLSAFLPAnPADIdagG 244 :::: :::::::::: ::::::::: :::: : d1ua7a2 178 -----------iELPDdgsygsQFWPNITNTS---------aEFQYGEILQ-DSAS---R 213 d1kfwa1 245 WDDpaNFKSLdFGSIQgydlhgawnptltghqANLYDdpadprapskkfSADKaVKKYla 304 ::: ::::: ::::: ::::: :::: :::: d1ua7a2 214 DAA--YANYM-DVTAS-------------nygHSIRS--alknrnlgvsNISH-YASD-- 252 d1kfwa1 305 agIDPKQLGLGLA-------------aDNIATTKQKTDYIVSKGLGGGMWWE-------- 343 ::::::::::: ::::::::::::::::::::::::: d1ua7a2 253 --VSADKLVTWVEshdtyanddeestwMSDDDIRLGWAVIASRSGSTPLFFSrpegggng 310 d1kfwa1 344 -----------lSGDRNGE-lVGAMSDKFRAAAPgpvteaapp 374 ::::::: ::::::::::::: d1ua7a2 311 vrfpgksqigdrGSALFEDqaITAVNRFHNVMAG--------- 344 FAST alignment (Normalized score: 4.73 Raw score:1697.00) d1kfwa1 1 PLTSTVNG----YRNVGYFAQWGVYGRA--FQAKQLDVSGTA-------KNLTHINYSFG 47 ::::::: :::::::: :::::::::: d1ua7a2 1 --------PSIKSGTILHA---------WNWSFNTLKH----NMKDIHDAGYTAIQTSP- 38 d1kfwa1 48 NINNQTLTCFMANKAQGTGPNGSDGAGDAWADFGMGYAADKSVSGKADTWDQP------- 100 d1ua7a2 39 -----------------------------------------------------INQVKEG 45 d1kfwa1 101 ----------------------------LAGSFNQLKQLKAKNPKLKVMISLGGWTWSKN 132 ::::::::::::: :::::::: d1ua7a2 46 NQGDKSMSNWYWLYQPTSYQIGNRYLGTEQEFKEMCAAAEE--YGIKVIVD--------- 94 d1kfwa1 133 FSK--------------------------------------------------AAATEAS 142 ::::::: d1ua7a2 95 ---AVINHTTFDYAAISNEVKSIPNWTHGNTQIKNWSDRWDVTQNSLLGLYDWNTQNTQV 151 d1kfwa1 143 RQKLVSSCIDLYIKGNLPNFEGRGGAGAAA-GIFDGIDIDWEWPGTNSGLAGNGVDTVND 201 :::::::: :::: :::::::: d1ua7a2 152 QSYLKRFL-ERAL-----------------NDGADGFRF--------------------- 172 d1kfwa1 202 RANF---------------KALLAEFRKQLDAYGSTNNKK---YVLSAFLPANPADIDAG 243 ::::::::: ::::::::: :::: d1ua7a2 173 ----DAAKHIELPDDGSYGSQFWPNITN------------TSAEFQYGEILQ----DSAS 212 d1kfwa1 244 GWDDPANFKSLDFGSIQGYDLHGAWNPTLTGHQANLYDDPADPRAPSKKFSADKAVKKY- 302 : ::::::: ::::: d1ua7a2 213 R--DAAYANY-MDVTA-------------------------------------------S 226 d1kfwa1 303 ----------------------LAAGIDPKQLGLGLAA----------------DNIATT 324 ::::::::::::: :::::: d1ua7a2 227 NYGHSIRSALKNRNLGVSNISHYASDVSADKLVTW---VESHDTYANDDEESTWMSDDDI 283 d1kfwa1 325 KQKTDYIVSKGL--GGGMWWELSGDRNGELV----------------------------- 353 :::::::::: ::::: d1ua7a2 284 RLGWAVIASR--SGSTPLF------------FSRPEGGGNGVRFPGKSQIGDRGSALFED 329 d1kfwa1 354 ---GAMSDKFRAAAPGPVTEAAPP--- 374 ::::::::: d1ua7a2 330 QAITAVNRFHNV------------MAG 344 TMalign alignment (TM-score: 0.53 Raw score:197.88) d1kfwa1 1 PLTSTVNGYRNVGYFAQWGVYGRAFQAKQLDVSGTAK-NLTHINYSFGNINNQTLTCFMA 59 ::: :::::::::: ::: :::::::: :::: :::::::::: :: d1ua7a2 1 --PSI--KSGTILHAWN-WSF---NTLKHNMK-DIHDAGYTAIQTSPI----------NQ 41 d1kfwa1 60 NKAQGT---------GPN-GSDGAG-DAWA-DFGMGYAADKSVSGKADTWDQPLAGSFNQ 107 :::::: : :::::: :::: ::: ::::::: d1ua7a2 42 VKEGNQGDKSMSNWY--WLYQPTSYQIGNRYLGT-------------------EQEFKEM 80 d1kfwa1 108 LKQLKAKNPKLKVMISLGGWTWSK---------------N---------------FS--- 134 :::::: :: :::::::::::::: : :: d1ua7a2 81 CAAAEE-YG-IKVIVDAVINHTTFDYAAISNEVKSIPNWTHGNTQIKNWSDRWDVTQNSL 138 d1kfwa1 135 ----KAAATEASRQKLVSSCIDLYIKGNLPNFEGRGGAGAAAGIFDGIDIDWEWPGTNSG 190 :::::::::::::::::::::: : ::::::::::::: d1ua7a2 139 LGLYDWNTQNTQVQSYLKRFLERALN--------------D--GADGFRFDAAKHI---- 178 d1kfwa1 191 LAGNGVD-TVNDRANFKALLAEFRKQLDAYGSTNNKKYVLSAFLPANPADIDAGGWDDPA 249 :: ::::::: ::::::: :: : ::::::::: :: :::: :: : d1ua7a2 179 -----ELP-DDGSYGS-QFWPNIT-NT---S-----AEFQYGEIL--QD--SASR-DA-A 216 d1kfwa1 250 NFKSLDFGSIQGYDLHGAWNPTLTGHQANLYDDPA-----DPRAPSKKFSADKAVKKYLA 304 ::::: ::::::::: : :::::::: ::::::: d1ua7a2 217 YANYM-DVTASNYGH----------S-IRSALKNRNLGVS-----------NISHYAS-- 251 d1kfwa1 305 AGIDPKQLGLGLA-A------------DNIATTKQKTDYIVSKGLGGGMWWEL------- 344 : ::::::::::: : :::::::::::::::::::::::::: d1ua7a2 252 D-VSADKLVTWVESHDTYANDDEESTWMSDDDIRLGWAVIASRSGSTPLFFSRPEGGGNG 310 d1kfwa1 345 -----------SGDRNGELVGAMSDKFRAA-APGPVTEAAPP 374 :::::::: :::::::::: :::: d1ua7a2 311 VRFPGKSQIGDRGSALFED-QAITAVNRFHNVMAG------- 344 HHsearch alignment (Probability: 0.26 E-value:0.01) d1kfwa1 139 TEASRQKLVSSCIDLYIKGNLPNFEGRGGAGAAAGIFDGIDIDWE 183 :::::: ::::::::::::: ::::::::: d1ua7a2 148 NTQVQS-YLKRFLERALNDG----------------ADGFRFDAA 175