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 | d1bf2a3 | Isoamylase, central domain | (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 <-- 1.140 --> HitDALI alignment (Z-score: 12.0 Raw score:1620.50) d1kfwa1 1 ---------pLTSTvnGYRNVGYFAQWG-VYGR-----------afQAKQLDvsGTAK-N 38 :::: :::::::::::: :::: :::::: :::: : d1bf2a3 1 pstqstgtkpTRAQ--KDDVIYEVHVRGfTEQDtsipaqyrgtyygAGLKAS--YLASlG 56 d1kfwa1 39 LTHINYSFG----------------------NINNqtlTCFMankaqgtgpngsdgagDA 76 ::::::::: :::: :::: :: d1bf2a3 57 VTAVEFLPVqetqndandvvpnsdanqnywgYMTE---NYFS---------------pDR 98 d1kfwa1 77 WAdfGMGYaadksvsgkadtWDQP-LAGSFNQLKQLKAKNpkLKVMISLGgwtWSKN--- 132 :: :::: :::: ::::::::::::::: :::::::: :::: d1bf2a3 99 RY--AYNK------------AAGGpTAEFQAMVQAFHNAG--IKVYMDVV---YNHTaeg 139 d1kfwa1 133 -----------------------------------------fSKAAATEASRQKLVSSCI 151 :::::::::::::::::: d1bf2a3 140 gtwtssdpttatiyswrgldnatyyeltsgnqyfydntgigaNFNTYNTVAQNLIVDSLA 199 d1kfwa1 152 DlYIKGnlpnfegrggagaaaGIFDGIDIDWEWP-------gtnsglagngvdtVNDRA- 203 : :::: ::::::::::::: ::::: d1bf2a3 200 Y-WANT---------------MGVDGFRFDLASVlgnsclngaytasapncpngGYNFDa 243 d1kfwa1 204 -nfkALLAEFRKQLDaygstnnKKYVLSAFLpanpadiDAGGWDDpaNFKSLdFGSIQ-G 261 ::::::::::: ::::::::: ::::::: ::::: ::::: : d1bf2a3 244 adsnVAINRILREFTvrpaaggSGLDLFAEP--waiggNSYQLGG--FPQGW-SEWNGlF 298 d1kfwa1 262 YDLhgawnptltghqaNLYD--DPADPRapsKKFSADK---aVKKYLAAG-IDPKQLGLG 315 ::: :::: :::::: ::::::: :::::::: ::::::::: d1bf2a3 299 RDS-------------LRQAqnELGSMT--iYVTQDANdfsgSSNLFQSSgRSPWNSINF 343 d1kfwa1 316 LA----------------------------------------------------adNIAT 323 :: :::: d1bf2a3 344 IDvhdgmtlkdvyscngannsqawpygpsdggtstnyswdqgmsagtgaavdqrraARTG 403 d1kfwa1 324 TKQKTDYivskgLGGGMWWeLSGDR-------------------------------NGEL 352 ::::::: ::::::: ::::: :::: d1bf2a3 404 MAFEMLS-----AGTPLMQ-GGDEYlrtlqcnnnaynldssanwltyswttdqsnfYTFA 457 d1kfwa1 353 vGAMSDKFRAAAP-GPVTeaapp 374 :::::::::::: :::: d1bf2a3 458 -QRLIAFRKAHPAlRPSS----w 475 FAST alignment (Normalized score: 4.34 Raw score:1828.00) d1kfwa1 1 PLTSTVNG---------------YRNVGYFAQ-WGVYGR---------AFQAKQLDVSGT 35 ::::::::: :::: ::::::::: d1bf2a3 1 --------PSTQSTGTKPTRAQKDDVIYEVHVRGFTE--QDTSIPAQYRGTYYGAGL--- 47 d1kfwa1 36 AK--------NLTHINYSFGNINNQTLTCFMANKAQGTGPNGSDGAGDAWADFGMGYAAD 87 :::::::: d1bf2a3 48 --KASYLASLGVTAVEFL------------------------------------------ 63 d1kfwa1 88 KSVSGKADTWDQPL-------------------------------------------AGS 104 ::: d1bf2a3 64 --------------PVQETQNDANDVVPNSDANQNYWGYMTENYFSPDRRYAYNKAAGGP 109 d1kfwa1 105 FNQLKQLKAKN---PKLKVMISLGGWTWSKNFSK-------------------------- 135 :::::::::: :::::::: d1bf2a3 110 TAEFQAMVQA-FHNAGIKVYMD------------VVYNHTAEGGTWTSSDPTTATIYSWR 156 d1kfwa1 136 ---------------------------AAATEASRQKLVSSCIDLYIKGNLPNFEGRGGA 168 ::::::::::::::: :::: d1bf2a3 157 GLDNATYYELTSGNQYFYDNTGIGANFNTYNTVAQNLIVDSL-AYWA------------- 202 d1kfwa1 169 GAAAG---IFDGIDIDWEWPGTNSGLAGNGVDTVNDRANFK------------------- 206 ::::::: d1bf2a3 203 -----NTMGVDGFRF--------------------------DLASVLGNSCLNGAYTASA 231 d1kfwa1 207 ----------------ALLAEFRKQLDAYGSTNN---------KKYVLSAFLPANPADID 241 ::::::::: :::::::: d1bf2a3 232 PNCPNGGYNFDAADSNVAINRILRE---------FTVRPAAGGSGLDLFAE--------- 273 d1kfwa1 242 A--------GGWDDPANFKSL-----DFGSIQGYDLHGAWNPTLTGHQANL--------- 279 :::: ::::: d1bf2a3 274 -PWAIGGNSYQLG--------GFPQGWSEWN--------------------GLFRDSLRQ 304 d1kfwa1 280 --YDDPADPRAPSKKFSADKAVK------------------KYLAAGIDPKQLGLGLAAD 319 :::: ::::::::::::::: d1bf2a3 305 AQNELG-----------------SMTIYVTQDANDFSGSSNLFQSSGRSPWNSINF---- 343 d1kfwa1 320 ----------------------------------------------------NIATTKQK 327 :::::::: d1bf2a3 344 IDVHDGMTLKDVYSCNGANNSQAWPYGPSDGGTSTNYSWDQGMSAGTGAAVDQRRAARTG 403 d1kfwa1 328 TDYIVSKGLGGGMWWELSGDRN----------------------------------GELV 353 ::::::::: :::: :::: d1bf2a3 404 MAFEMLSAG-TPLM--------QGGDEYLRTLQCNNNAYNLDSSANWLTYSWTTDQSNFY 454 d1kfwa1 354 GAMSDKFRAAAPGPVTEAAPP------------ 374 ::::::::: d1bf2a3 455 TFAQRLIAF------------RKAHPALRPSSW 475 TMalign alignment (TM-score: 0.58 Raw score:215.47) d1kfwa1 1 ---------PLTSTVNGYRNVGYFAQWGVYGRA--------F---QA-KQLDVSGTAKNL 39 ::::: ::::::::::::::::: : :: ::::::::: :: d1bf2a3 1 PSTQSTGTK-PTRAQ-KDDVIYEVHVRGFTEQDTSIPAQYRGTYYGAGLKASYLASL-GV 57 d1kfwa1 40 THINYSFGNINNQTLTCFMANKA-Q--------GTG---PNGSDGA--GDAWADFGMGY- 84 ::::::::: ::::: : ::: ::::: :::::: :::: d1bf2a3 58 TAVEFLPVQ---------ETQNDANDVVPNSDANQNYWG--YMTENYFSPDRRY-AYNKA 105 d1kfwa1 85 -AADKSVSGKADTWDQPLAGSFNQLKQLKAKNPKLKVMISLGGWTW-------------- 129 ::::::: ::::::::::: :::::::::::: d1bf2a3 106 A------------GGPTAEF-QAMVQAFHNAG--IKVYMDVVYNHTAEGGTWTSSDPTTA 150 d1kfwa1 130 --------------------------S-KNFSKAAATEASRQKLVSSCIDLYIKGNLPNF 162 : :::::::::::::::::::::: :::: d1bf2a3 151 TIYSWRGLDNATYYELTSGNQYFYDNTGIGANFNTYNTVAQNLIVDSLAY-WANT----- 204 d1kfwa1 163 EGRGGAGAAAGIFDGIDIDWEWPGT----------------NSGLAGNGVDTVNDRANFK 206 : :::::::::::::: :::::::::: d1bf2a3 205 --------M--GVDGFRFDLASVLGNSCLNGAYTASAPNCP---------NGGYNFDAAD 245 d1kfwa1 207 --ALLAEFRKQLDA-----YGSTNNKKYVLSAFLPANPADIDAGGWDDPANFKSLDFGSI 259 :::::::::::: ::::::::::: : :::::::::: ::::: :::: d1bf2a3 246 SNVAINRILREFTVRPAAG-----GSGLDLFAEPW-A-IGGNSYQLGG--FPQGW-SEWN 295 d1kfwa1 260 QGYDLHGAWNPTLTGHQANLYDDPADPRAP---SKKFS-ADK-AVKKYLAAG-IDPKQLG 313 ::::: ::::::::::::: : :: ::: ::::::::: ::::::: d1bf2a3 296 GLFRD----------SLRQAQNELGSMT-IYVT---QDANDFSGSSNLFQSSGRSPWNSI 341 d1kfwa1 314 LGLA-----AD-----------------------------------------------NI 321 :::: :: :: d1bf2a3 342 NFIDVHDGMTLKDVYSCNGANNSQAWPYGPSDGGTSTNYSWDQGMSAGTGAAVDQRRAAR 401 d1kfwa1 322 ATTKQKTDYIVSKGLGGGMWWELSGDR----------------------------N--GE 351 :::::::: : ::::::: ::::: : :: d1bf2a3 402 TGMAFEML-S----AGTPLMQ-GGDEYLRTLQCNNNAYNLDSSANWLTYSWTTDQSNFYT 455 d1kfwa1 352 LVGAMSDKFRAAAP-GPVT-EAAPP 374 :::::::::::::: :::: d1bf2a3 456 FAQRLIAFRKAHPALRPSSW----- 475 HHsearch alignment (Probability: 0.72 E-value:0.00) d1kfwa1 104 SFNQLKQLKAKNPKLKVMISLGG------------------------WTW---------- 129 ::::::::::: ::::::::::: ::: d1bf2a3 112 EFQAMVQAFHN-AGIKVYMDVVYNHTAEGGTWTSSDPTTATIYSWRGLDNATYYELTSGN 170 d1kfwa1 130 --SKNFSK-----AAATEASRQKLVSSCIDLYIKGNLPNFEGRGGAGAAAGIFDGIDID 181 :::::: ::::::::::::::::::::::: ::::::: d1bf2a3 171 QYFYDNTGIGANFNTYNTVAQNLIVDSLAYWANTMG----------------VDGFRFD 213