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 | d1d8wa_ | L-rhamnose isomerase | Xylose isomerase-like | 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: 11.1 Raw score:1374.60) d1kfwa1 1 ----------------------pltstVNGYRNVGYFA----QWGV----yGRAF---QA 27 ::::::::::: :::: :::: :: d1d8wa_ 1 tqleqawelakqrfaavgidveealrqLDRLPVSMHCWqgddVSGFenypgKARNaseLR 60 d1kfwa1 28 KQLDVSG-taKNLTHINYSFGninnqtltcfmankaqgtgpngsdgagdawaDFGMGyaa 86 ::::::: ::::::::::: ::::: d1d8wa_ 61 ADLEQAMrliPGPKRLNLHAI------------------------------yLESDT--- 87 d1kfwa1 87 dksvsgkadtwdqplagsFNQLKQLKAKNPkLKVMISLGGWT----wsKNFSkAAATEAS 142 :::::::::::: ::::::::::: :::: ::::::: d1d8wa_ 88 -------pvsrdqikpehFKNWVEWAKANQ-LGLDFNPSCFShplsadGFTL-SHADDSI 138 d1kfwa1 143 RQKLVSSCIDlYIKGnlpnfegrggagaaAGIF------DGIDIDWEWpgtnsGLAGngv 196 :::::::::: :::: :::: ::::::::: :::: d1d8wa_ 139 RQFWIDHCKA-SRRV-------------sAYFGeqlgtpSVMNIWIPD-----GMKDitv 179 d1kfwa1 197 DTVNDRANFKALLAEFRKqlDAYGstnnKKYVLSAFLP--------anpADIDagGWDD- 247 :::::::::::::::::: :::: :::::::::: :::: :::: d1d8wa_ 180 DRLAPRQRLLAALDEVIS--EKLN---pAHHIDAVESKlfgigaesytvGSNE--FYMGy 232 d1kfwa1 248 -PANFkslDFGSIQGYDLHgawnptltghqanlyddpadprapsKKFSADKAVKKYLaAG 306 :::: ::::::::::: ::::::::::::: :: d1d8wa_ 233 aTSRQ---TALCLDAGHFH-------------------------PTEVISDKISAAM-LY 263 d1kfwa1 307 IDpkQLGLGLA---------ADNIA-TTKQKTDYIVSKGL---GGGMWWE----lsGDRN 349 :: ::::::: ::::: :::::::::::::: ::::::: :::: d1d8wa_ 264 VP--QLLLHVSrpvrwdsdhVVLLDdETQAIASEIVRHDLfdrVHIGLDFfdasinRIAA 321 d1kfwa1 350 -GELVGAMSDKFRAAA-------------------------------------------- 364 ::::::::::::::: d1d8wa_ 322 wVIGTRNMKKALLRALleptaelrkleapgdytarlalleeqkslpwqavwemycqrhdt 381 d1kfwa1 365 -----------pgpvteaapp 374 d1d8wa_ 382 pagsewlesvrayekeilsrr 402 FAST alignment (Normalized score: 3.42 Raw score:1325.00) d1kfwa1 1 PLTSTV----------------------------NGYRNVGYFAQWGVYGRAFQAKQLDV 32 :::: d1d8wa_ 1 ------TQLEQAWELAKQRFAAVGIDVEEALRQLDRLP---------------------- 32 d1kfwa1 33 SGTAKNLTHINYSFGNINNQTLTCFMANKAQGTGPNGSDGAGDAWADFGMGYAADKSVSG 92 :::: d1d8wa_ 33 -------VSMH------------------------------------------------- 36 d1kfwa1 93 KADTWDQPL--------------------AGSFNQLKQLKAKN-PKLKVMISLGGWTWSK 131 :::::::::::::: :::::::: d1d8wa_ 37 ---------CWQGDDVSGFENYPGKARNASELRADLEQAMRLIPGPKRLNLH-------- 79 d1kfwa1 132 NFSKAAATEASRQKL---------------VSSCIDLYIKGNLPNFEGRGGAGAAAGIF- 175 ::::::::: d1d8wa_ 80 ---------------AIYLESDTPVSRDQIKPEHFKNWV--------------------E 104 d1kfwa1 176 --------DGIDIDWEWPGTNSGLAGNGVD----------------TVNDRANFKALLAE 211 :::::: :::::::::::::: d1d8wa_ 105 WAKANQLGLDFNPS----------------CFSHPLSADGFTLSHADDSIRQFWIDHCKA 148 d1kfwa1 212 FRKQLDAYGSTNNKKYVLSAFLPANPADIDAGGWD------------------------D 247 ::::::::::::::::::: : d1d8wa_ 149 SRRVSAYFGEQLGTPSVMN----------------IWIPDGMKDITVDRLAPRQRLLAAL 192 d1kfwa1 248 PANFKSLDFG---------------------------------------------SIQGY 262 ::: ::::: d1d8wa_ 193 DEV-------ISEKLNPAHHIDAVESKLFGIGAESYTVGSNEFYMGYATSRQTALCLDAG 245 d1kfwa1 263 DLHGAWNPTLTGHQANLYDDPADPRAPS-KKFSADKAVKKYLAAGIDPK---QLGLGLAA 318 :: :::::::::::::: :::::: d1d8wa_ 246 HF--------------------------HPTEVISDKISAAML------YVPQLLLHV-- 271 d1kfwa1 319 DN--------------IATTKQKTDYIVSKGL----GGGM-WWELSGDRN-------GEL 352 ::::::::::::::: :::: :::::: ::: d1d8wa_ 272 --SRPVRWDSDHVVLLDDETQAIASEIVRHD-LFDRVHIGLDFFDAS---INRIAAWVIG 325 d1kfwa1 353 VGAMSDKFRAAAPGPVTEAAPP-------------------------------------- 374 :::::::::: d1d8wa_ 326 TRNMKKALLR------------ALLEPTAELRKLEAPGDYTARLALLEEQKSLPWQAVWE 373 d1kfwa1 375 ----------------------------- 375 d1d8wa_ 374 MYCQRHDTPAGSEWLESVRAYEKEILSRR 402 TMalign alignment (TM-score: 0.52 Raw score:193.56) d1kfwa1 1 --------------------------PLTSTVNGYRNVGYFA----QWGV---YGRA--- 24 :::::::::::: :::: :::: d1d8wa_ 1 TQLEQAWELAKQRFAAVGIDVEEALR----QLDRLPVSMHCWQGDDVSGFENYPGKARNA 56 d1kfwa1 25 -FQAKQLDVSG--TAKNLTHINYSFGN-INNQTLTCFMANKAQGTGPNGSDGAG-DAWAD 79 :::::::::: :::::::::::::: ::::: : : : : d1d8wa_ 57 SELRADLEQAMRLIPGPKRLNLHAIYLE--------SDTPV----------S-RD-Q--I 94 d1kfwa1 80 FGMGYAADKSVSGKADTWDQPLAGSFNQLKQLKAKNPKLKVMISLGGWT--W--SKNFSK 135 : ::: :::::::::::::::::::::::: : :::::: d1d8wa_ 95 K-------------------PEH--FKNWVEWAKANQLGLDFNPSCFSHPLSADGFTLSH 133 d1kfwa1 136 AAATEASRQKLVSSCIDLYIKG-NLPNFEGRGGAGAAAGI--FDGIDIDWEWPGTNSGLA 192 :::: ::: ::::::::::::: :::::: :::::::::: :::: : d1d8wa_ 134 ADDS-IRQ-FWIDHCKASRRVSA-----------YFGEQLGTPSVMNIWIPD--GMKD-I 177 d1kfwa1 193 GNGVDTVNDRANFKALLAEFRKQLDAYGSTNNKKYVLSAFLPAN-----PADIDAGGWDD 247 ::::::::::::::::::::: :::: :::::::::::: ::::::::::: d1d8wa_ 178 --TVDRLAPRQRLLAALDEVISE--KLNP---AHHIDAVESKLFGIGAESYTVGSNEFYM 230 d1kfwa1 248 PANF-KSLDFGSIQGYDLHGAWNPTLTGHQANLYDDPADPRAPSKKFSADKAVKKYLAA- 305 :::: ::::::::::: : ::::: :::::::: d1d8wa_ 231 GYATSRQTALCLDAGH-F---------------------------HPTEV-ISDKISAAM 261 d1kfwa1 306 GIDPKQLGLGLA------ADNIATTKQKTDYIVSKG----L---G-GGMWWELS--GDRN 349 :::::::::::: :::: ::::::::::::: : : :::::::: :::: d1d8wa_ 262 LYVPQLLLHVSRPVRWDSDHVV-LLDDETQAIASEIVRHDLFDRVHIGLDFFDASINRIA 320 d1kfwa1 350 --GELVGAMSDKFRAAAP------------------------------------------ 365 :::::::::::::::: d1d8wa_ 321 AWVIGTRNMKKALLRALLEPTAELRKLEAPGDYTARLALLEEQKSLPWQAVWEMYCQRHD 380 d1kfwa1 366 ----------------------GPVTEAAPP 374 d1d8wa_ 381 TPAGSEWLESVRAYEKEILSRR--------- 402 HHsearch alignment (Probability: 0.19 E-value:0.02) d1kfwa1 103 GSFNQLKQLKAKNPKLKVMISLGGWTWSKN-----FSKAAATEASRQKLVSSCIDLYI 155 ::::::::::::: :: :::::::::::: ::::::::::::::::::::::: d1d8wa_ 97 EHFKNWVEWAKAN-QL--GLDFNPSCFSHPLSADGFTLSHADDSIRQFWIDHCKASRR 151