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 | d1e43a2 | 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 <-- 1.458 --> HitDALI alignment (Z-score: 12.5 Raw score:1541.80) d1kfwa1 1 pltstvnGYRNVGYFAqWGVYG----raFQAKQLDvsGTAK-NLTHINYSFGninnqtlt 55 ::::::::: ::::: ::::::: :::: :::::::::: d1e43a2 1 -------VNGTLMQYFeWYTPNdgqhwkRLQNDAE--HLSDiGITAVWIPPA-------- 43 d1kfwa1 56 cfMANKAQgtgpngSDGA------------gDAWADFgmgyaadksvsgkadtwdqpLAG 103 :::::: :::: :::::: ::: d1e43a2 44 --YKGLSQ-sdngyGPYDlydlgefqqkgtvRTKYGT--------------------KSE 80 d1kfwa1 104 SFNQLKQLKAKNpkLKVMISLGgwtWSKN------------------------------- 132 :::::::::::: :::::::: :::: d1e43a2 81 LQDAIGSLHSRN--VQVYGDVV---LNHKagadatedvtavevnpanrnqetseeyqika 135 d1kfwa1 133 ------------------------------------------------------------ 133 d1e43a2 136 wtdfrfpgrgntysdfkwhwyhfdgadwdesrkisrifkfrgegkawdwevssengnydy 195 d1kfwa1 133 ---fskAAATEASRQKLVSSCIDlYIKGnlpnfegrggagaaaGIFDGIDIDWEWPgtns 189 ::::::::::::::::: :::: ::::::::::::: d1e43a2 196 lmyadvDYDHPDVVAETKKWGIW-YANE---------------LSLDGFRIDAAKH---- 235 d1kfwa1 190 glagngvdtvndranFKALLAEFRKQLDAYGStnnKKYVLSAFLP-ANPADIDagGWDDp 248 ::::::::::::::::: :::::::::: ::::::: :::: d1e43a2 236 --------------iKFSFLRDWVQAVRQATG---KEMFTVAEYWqNNAGKLE--NYLN- 275 d1kfwa1 249 ANFKSLdFGSIQ-GYDLhgawnptltghqANLY-dDPADprapskkfSADK-AVKKYlaa 305 :::::: ::::: :::: :::: :::: :::: ::::: d1e43a2 276 KTSFNQ-SVFDVpLHFN------------LQAAssQGGG---ydmrkLLNGtVVSKH--- 316 d1kfwa1 306 gidPKQLGLGLA----------------aDNIATTKQKTDYIvskgLGGGMWwELSGDR- 348 ::::::::: ::::::::::::: :::::: :::::: d1e43a2 317 ---PLKSVTFVDnhdtqpgqslestvqtwFKPLAYAFILTRE----SGYPQV-FYGDMYg 368 d1kfwa1 349 ------------NGELvGAMSDKFRAaapgpvteaapp 374 :::: ::::::::: d1e43a2 369 tkgdsqreipalKHKI-EPILKARKQ------------ 393 FAST alignment (Normalized score: 5.08 Raw score:1948.00) d1kfwa1 1 PLTSTVNGYRNVGY-FAQWGVYGRAF-----QAKQLDVSGTA-------KNLTHINYSFG 47 ::::::: ::::: ::::::: :::::::::: d1e43a2 1 -------VNGTLMQYFEWYT------PNDGQHWKRLQN----DAEHLSDIGITAVWIPP- 42 d1kfwa1 48 NINNQTLTCFMANKAQGTGPNGSDGAGDAWADFGMGYAADKSVSGKADTWDQPLAG---- 103 d1e43a2 43 --------------------------------------------------------AYKG 46 d1kfwa1 104 ------------------------------SFNQLKQLKAKN---PKLKVMISLGGWTWS 130 ::::::::::: :::::::: d1e43a2 47 LSQSDNGYGPYDLYDLGEFQQKGTVRTKYGTKSELQDAIGS-LHSRNVQVYGD------- 98 d1kfwa1 131 KNFSK------------------------------------------------------- 135 d1e43a2 99 -----VVLNHKAGADATEDVTAVEVNPANRNQETSEEYQIKAWTDFRFPGRGNTYSDFKW 153 d1kfwa1 136 ------------------------------------------------AAATEASRQKLV 147 :::::::::::: d1e43a2 154 HWYHFDGADWDESRKISRIFKFRGEGKAWDWEVSSENGNYDYLMYADVDYDHPDVVAETK 213 d1kfwa1 148 SSCIDLYIKGNLPNFEGRGGAGAAAG-----IFDGIDIDWEWPGTNSGLAGNGVDTVN-- 200 ::::: ::::::: d1e43a2 214 KWGIW---------------------YANELSLDGFRI--------------------DA 232 d1kfwa1 201 ----DRANFKALLAEFRKQLDAYGSTNNKKYVLSAF-LPANPADIDAGGWDDPANFKSL- 254 ::::::::::::::: :::::::::: :::::::::: d1e43a2 233 AKHIKFSFLRDWVQAVRQA-------TGKEMFTVAEYWQNNAGKLEN------------Y 273 d1kfwa1 255 -------DFGSIQGYDLHGAWNPTLTGHQANLYDDPADPRAPSKKFSAD----------- 296 ::::: d1e43a2 274 LNKTSFNQSVFD-------------------------------------VPLHFNLQAAS 296 d1kfwa1 297 --------------KAVKKYLAAGIDPKQLGLGLA-------------ADNIATTKQKTD 329 ::::: ::::::::: :::::::::::: d1e43a2 297 SQGGGYDMRKLLNGTVVSK------HPLKSVTFV-DNHDTQPGQSLESTVQTWFKPLAYA 349 d1kfwa1 330 YIVSKGL-GGGMWWELSGDRN---------------GELVGAMSDKFRAAAPGPVTEAAP 373 :::::: ::::: :::: :::::::::::: d1e43a2 350 FILTRE-SGYPQV-FYGD---MYGTKGDSQREIPALKHKIEPILKARK------------ 392 d1kfwa1 374 P- 374 d1e43a2 393 -Q 393 TMalign alignment (TM-score: 0.54 Raw score:202.88) d1kfwa1 1 PLTSTVNGYRNVGYFAQWGVYGRAF--QAKQLDVSGTAK-NLTHINYSFGNINNQTLTCF 57 ::::::::::::::::::: ::::::: :::: :::::::::: d1e43a2 1 ------VNGTLMQYFEWYTPNDGQHWKRLQNDAE-HLSDIGITAVWIPPA---------- 43 d1kfwa1 58 MANKAQGT--GPNGSDGA--GDA-------WADFGMGYAADKSVSGKADTWDQPLAGSFN 106 :::::::: ::::: ::: ::::::: :::::: d1e43a2 44 YKGLSQSDNG---YGPYDLYDLGEFQQKGTVRTKYGT-----------------KSELQD 83 d1kfwa1 107 QLKQLKAKNPKLKVMISLGGWTW------------------------------------- 129 ::::::: :: :::::::::::: d1e43a2 84 AIGSLHS-RN-VQVYGDVVLNHKAGADATEDVTAVEVNPANRNQETSEEYQIKAWTDFRF 141 d1kfwa1 130 ------------------------------------------------------SKNFSK 135 :::::: d1e43a2 142 PGRGNTYSDFKWHWYHFDGADWDESRKISRIFKFRGEGKAWDWEVSSENGNYDYLMYADV 201 d1kfwa1 136 AAATEASRQKLVSSCIDLYIKGNLPNFEGRGGAGAAAGIFDGIDIDWEWPGTNSGLAGNG 195 ::::::::::::::::: :::: : : ::::::::::: d1e43a2 202 DYDHPDVVAETKKWGIW-YANE-------------L-S-LDGFRIDAAKH---------- 235 d1kfwa1 196 VDTVNDRANFKALLAEFRKQLDAYGSTNNKKYVLSAFLPANPADIDAGGWDD-PANFKSL 254 : :: ::::::::::::::: ::::::::::::: :: :::: ::::::: d1e43a2 236 -----I--KF-SFLRDWVQAVRQATG---KEMFTVAEYWQNN--AG--KLENYLNKTSFN 280 d1kfwa1 255 DFGSIQGYDLHGAWNPTLTGHQANLYDDPADPRAPSKK-FS-ADKAVKKYLAAGIDPKQL 312 :::::::::: ::::::::::: : : ::::::::: :: :::: d1e43a2 281 QSVFDVPLHF-----------NLQAASSQGGG-----YD-MR-KLLNGTVVS-KH-PLKS 320 d1kfwa1 313 GLGLAA------------DNIATTKQKTDYIVSKGLGGGMWWELSGDR----------N- 349 :::::: :::::::::::::::::::::::::::::: : d1e43a2 321 VTFVDNHDTQPGQSLESTVQTWFKPLAYAFILTRESGYPQVFYGDMYGTKGDSQREIPAL 380 d1kfwa1 350 GELVGAMSDKFRAAAPGPVTEAAPP 374 ::::::::::::: d1e43a2 381 KHKIEPILKARKQ------------ 393 HHsearch alignment (Probability: 0.16 E-value:0.01) d1kfwa1 138 ATEASRQKLVSSCIDLYIKGNLPNFEGRGGAGAAAGIFDGIDIDW 182 ::::::::::::::::::::: :::::::: d1e43a2 204 DHPDVVAETKKWGIWYANELS----------------LDGFRIDA 232