HorA Server Transitive Detail

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


Query <-- 1.326 --> Intermediate <-- 1.278 --> Hit

SVM
score
SVM
score

The query (T515_B.pdb B) is transitively linked to the hit (d1eh9a3) through the intermediate protein (d1kfwa1) by significant SVM score (>0.4).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1kfwa1 Psychrophilic chitinase B(Trans)glycosidasesTIM beta/​alpha-​barrelα/β
Hit d1eh9a3 Glycosyltrehalose trehalohydrolase,​ central domain(Trans)glycosidasesTIM beta/​alpha-​barrelα/β

Supporting Alignments

Query <-- 1.326 --> Intermediate
DALI 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 <-- 1.278 --> Hit
DALI alignment (Z-score: 13.2 Raw score:1674.50) d1kfwa1 1 -----plTSTVngyRNVGYFAQW-GVYGR--aFQAKQLDvsGTAK-NLTHINYSFGN--- 48 :::: ::::::::: ::::: ::::::: :::: ::::::::::: d1eh9a3 1 fnnetflKKED---LIIYEIHVGtFTPEGtfeGVIRKLD--YLKDlGITAIEIMPIAqfp 55 d1kfwa1 49 -----innqtlTCFMankaqgtgpngsdgagDAWADFgmgyaadksvsgkadtwdqpLAG 103 :::: :::::: ::: d1eh9a3 56 gkrdwgydgvyLYAV----------------QNSYGG--------------------PEG 79 d1kfwa1 104 SFNQLKQLKAKNpkLKVMISLGgwtWSKN-----------------------fSKAAA-- 138 :::::::::::: :::::::: :::: ::::: d1eh9a3 80 FRKLVDEAHKKG--LGVILDVV---YNHVgpegnymvklgpyfsqkyktpwglTFNFDda 134 d1kfwa1 139 -TEASRQKLVSSCIDlYIKGnlpnfegrggagaaaGIFDGIDIDWEWPgtnsglagngvd 197 :::::::::::::: :::: ::::::::::::: d1eh9a3 135 eSDEVRKFILENVEY-WIKE---------------YNVDGFRLDAVHA------------ 166 d1kfwa1 198 tvnDRANfkALLAEFRKQLDAYgstnnkKYVLSAFLPanpadidaggWDDPANFK----- 252 :::: ::::::::::::: ::::::::: :::::::: d1eh9a3 167 --iIDTSpkHILEEIADVVHKY------NRIVIAESD----------LNDPRVVNpkekc 208 d1kfwa1 253 --SLDFGSIQGydlhgawnptltghqANLYDD-paDPRApSKKF----SADKAVKKYL-- 303 ::::::::: :::::: :::: :::: :::::::::: d1eh9a3 209 gyNIDAQWVDD-------------fhHSIHAYltgERQGyYTDFgnldDIVKSYKDVFvy 255 d1kfwa1 304 ---------------AAGIDPKQLGLGLA--------------------adNIATTKQKT 328 :::::::::::::: ::::::::: d1eh9a3 256 dgkysnfrrkthgepVGELDGCNFVVYIQnhdqvgnrgkgeriiklvdresYKIAAALYL 315 d1kfwa1 329 DYivskgLGGGMWWeLSGDR---------------------------------------- 348 :: ::::::: ::::: d1eh9a3 316 LS-----PYIPMIF-MGEEYgeenpfyffsdfsdskliqgvregrkkengqdtdpqdest 369 d1kfwa1 349 --------------NGELvGAMSDKFRAAAPGpvteaapp 374 :::: ::::::::::::: d1eh9a3 370 fnasklswkideeiFSFY-KILIKMRKELSIA-------- 400 FAST alignment (Normalized score: 5.49 Raw score:2121.00) d1kfwa1 1 PLTSTVNG----------YRNVGYFAQWGVYGRAF--------------QAKQLDVSGTA 36 ::::::::: :::::::: d1eh9a3 1 --------FNNETFLKKEDLIIYEIHV--------GTFTPEGTFEGVIRKLDYLKDL--- 41 d1kfwa1 37 KNLTHINYSFGNINNQTLT-----------------CFMANKAQGTGPNGSDGAG----D 75 ::::::::: :::: : d1eh9a3 42 -GITAIEIMP---------IAQFPGKRDWGYDGVYLYAVQ---------------NSYGG 76 d1kfwa1 76 AWADFGMGYAADKSVSGKADTWDQPLAGSFNQLKQLKAKNPKLKVMISLGGWTWSKNFSK 135 ::: :::::::::: :::::::: d1eh9a3 77 PEG-------------------------FRKLVDEAHK--KGLGVILD------------ 97 d1kfwa1 136 AAA--------------------------------------TEASRQKLVSSCIDLYIKG 157 :::::::::::: :::: d1eh9a3 98 ---VVYNHVGPEGNYMVKLGPYFSQKYKTPWGLTFNFDDAESDEVRKFILENV-EYWI-- 151 d1kfwa1 158 NLPNFEGRGGAGAAAG---IFDGIDIDWEWPGTNSGLAGNGVDTVNDRANFK-------- 206 ::::::: d1eh9a3 152 ----------------KEYNVDGFRL--------------------------DAVHAIID 169 d1kfwa1 207 ----ALLAEFRKQLDAYGSTNNKKYVLSAFLPANPADIDAGG--WDDPANFK-------- 252 :::::::::::: :::::::: :::::: d1eh9a3 170 TSPKHILEEIADVVHK------YNRIVIAE------------SDLNDPRV--VNPKEKCG 209 d1kfwa1 253 -SLDFGSIQGYDLHGAWNPTLTGHQANLYDD-----------PADPRAPSKKFS------ 294 ::::::: ::::: d1eh9a3 210 YNIDAQWV-----------------------DDFHHSIHAYLTGERQ-------GYYTDF 239 d1kfwa1 295 -ADKAVKKYLA----------------------AGIDPKQLGLGLA-------------- 317 ::::::::: ::::::::::: d1eh9a3 240 GNLDDIVKSY-KDVFVYDGKYSNFRRKTHGEPVGELDGCNFVVY--IQNHDQVGNRGKGE 296 d1kfwa1 318 ----ADNIATTKQKTDYIVSKGLGGGMWWELSGDRN------------------------ 349 ::::::::::::::::::: :::: :::: d1eh9a3 297 RIIKLVDRESYKIAAALYLLSPY-IPMI-FMGE---EYGEENPFYFFSDFSDSKLIQGVR 351 d1kfwa1 350 -----------------------------GELVGAMSDKFRA--AAPGPVTEAAPP- 374 ::::::::::::: :::: d1eh9a3 352 EGRKKENGQDTDPQDESTFNASKLSWKIDEEIFSFYKILIKMRKELSI--------A 400 TMalign alignment (TM-score: 0.57 Raw score:212.57) d1kfwa1 1 ----PLTSTVNGYRNVGYFAQWGVYGRAF--QAKQLDVSGTAKNLTHINYSFGNINNQTL 54 ::::: :::::::::::::::::: ::::::::::::::::::::::: d1eh9a3 1 FNNE-TFLKK-EDLIIYEIHVGTFTPEGTFEGVIRKLDYLKDLGITAIEIMPIA------ 52 d1kfwa1 55 TCFMANKAQGT--GPNGSDGA-GDAWADFGMGYAADKSVSGKADTWDQPLAGSFNQLKQL 111 ::::::: :::::: :::::::: ::::::::::: d1eh9a3 53 ----QFPGKRDWG--YDGVYLYAVQNSYGG-------------------PEGFRKLVDEA 87 d1kfwa1 112 KAKNPKLKVMISLGGWTWS--------------------KNFSKAAAT--EA-SRQKLVS 148 ::: : ::::::::::::: ::::::::: :: ::::::: d1eh9a3 88 HKK-G-LGVILDVVYNHVGPEGNYMVKLGPYFSQKYKTPWGLTFNFDDAESDEVRKFILE 145 d1kfwa1 149 SCIDLYIKGNLPNFEGRGGAGAAAGIFDGIDIDWEWPGTNSGLAGNGVDTVNDRANFKAL 208 :::: :::: : : :::::::::::: :::::::: d1eh9a3 146 NVEY-WIKE-------------Y-N-VDGFRLDAVHAI--------------IDTSPKHI 175 d1kfwa1 209 LAEFRKQLDAYGSTNNKKYVLSAFLPANPADIDAGGWDDPANFK------SLDFGSIQGY 262 :::::::::: : :::::::: :: :::::::: :::::::::: d1eh9a3 176 LEEIADVVHK-Y-----NRIVIAES------DL---NDPRVVNPKEKCGYNIDAQWVDDF 220 d1kfwa1 263 DLHGAWNPTLTGHQANLYDDPADPRAPSKKFS---AD-KA---VKKYL------------ 303 :: :::::::::::::::::: :: :: ::::: d1eh9a3 221 HH------------SIHAYLTGERQGYYTDFGNLDDIVKSYKDVFVYDGKYSNFRRKTHG 268 d1kfwa1 304 -AAG-IDPKQLGLGLA------------ADN----IATTKQKTDYIVSKGLGGGMWWEL- 344 ::: ::::::::::: ::: :::::::::::::::: ::::::: d1eh9a3 269 EPVGELDGCNFVVYIQNHDQVGNRGKGERIIKLVDRESYKIAAALYLLSPY-IPMIFMGE 327 d1kfwa1 345 ----------------------------------------------SGDR-NGE-LVGAM 356 :::: ::: ::::: d1eh9a3 328 EYGEENPFYFFSDFSDSKLIQGVREGRKKENGQDTDPQDESTFNASKLSWKIDEEIFSFY 387 d1kfwa1 357 SDKFRAA--APGPVTEAAPP 374 ::::::: :::: d1eh9a3 388 KILIKMRKELSIA------- 400 HHsearch alignment (Probability: 0.58 E-value:0.00) d1kfwa1 104 SFNQLKQLKAKNPKLKVMISLGGW------------------------TWSKNFSKAAAT 139 :::::::::: ::::::::::::: :::::: ::::: d1eh9a3 79 GFRKLVDEAH-KKGLGVILDVVYNHVGPEGNYMVKLGPYFSQKYKTPWGLTFNF-DDAES 136 d1kfwa1 140 EASRQKLVSSCIDLYIKGNLPNFEGRGGAGAAAGIFDGIDIDWE 183 ::::::::::::::::::: ::::::::: d1eh9a3 137 DEVRKFILENVEYWIKEYN----------------VDGFRLDAV 164