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 | d1knwa1 | Diaminopimelate decarboxylase LysA | Alanine racemase C-terminal domain-like | Domain of alpha and beta subunits of F1 ATP synthase-like | All β |
| Hit | d1vhoa1 | Putative endoglucanase TM1048 | Aminopeptidase/glucanase lid domain | Domain of alpha and beta subunits of F1 ATP synthase-like | All β |
Query <-- 1.321 --> IntermediateDALI alignment (Z-score: 15.0 Raw score:988.00) query 1 ---------------------MIETPYYLIdkakltrnmeriahvreksgakallalkcf 39 ::::::::: d1knwa1 1 phslfstdtdltaenllrlpaEFGCPVWVY------------------------------ 30 query 40 atwsvfdlmrdymdgttssslfevrlgrerfgkethaysvaygdneidevvshadkiifn 99 d1knwa1 31 ------------------------------------------------------------ 31 query 100 sisqlerfadkaagiarglrlnpqrlgewdvpkvervmdringfmihnncenkdfglfdr 159 d1knwa1 31 ------------------------------------------------------------ 31 query 160 mlgeieerfgaliarvdwvslgggihftgddypvdafsarlrafsdrygvqiylepgeas 219 d1knwa1 31 ------------------------------------------------------------ 31 query 220 itkstTLEVTVLDTLYN--KNLAIVDSSIeAHMLDLLIYRETAKVL---------pneGS 268 :::::::::::: :::::::::: :::::::::::::::: :: d1knwa1 31 -----VLITQVRSVKQMgsRHFVLVDAGF-NDLMRPAMYGSYHHISalaadgrslehaPT 84 query 269 HSYMICGKSCLAGDVFG--------EFRFaEELKVGDRISFQDAAGYTMVKKNWFNGVKM 320 ::::::::::::::::: :::: :::::::::::::::::::::::::::::: d1knwa1 85 VETVVAGPLCESGDVFTqqeggnveTRAL-PEVKAGDYLVLHDTGAYGASMSSNYNSRPL 143 query 321 PAIAIRELdGSVRTVREFTYadYEQSLS------ 348 :::::::: ::::::::::: :::::: d1knwa1 144 LPEVLFDN-GQARLIRRRQT--IEELLAlellhh 174 FAST alignment (Normalized score: 8.04 Raw score:1978.00) query 1 ---------------------MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCF 39 ::::::: d1knwa1 1 PHSLFSTDTDLTAENLLRLPAEFGCPVW-------------------------------- 28 query 40 ATWSVFDLMRDYMDGTTSSSLFEVRLGRERFGKETHAYSVAYGDNEIDEVVSHADKIIFN 99 d1knwa1 29 ------------------------------------------------------------ 29 query 100 SISQLERFADKAAGIARGLRLNPQRLGEWDVPKVERVMDRINGFMIHNNCENKDFGLFDR 159 d1knwa1 29 ------------------------------------------------------------ 29 query 160 MLGEIEERFGALIARVDWVSLGGGIHFTGDDYPVDAFSARLRAFSDRYGVQIYLEPGEAS 219 d1knwa1 29 ------------------------------------------------------------ 29 query 220 ITKS-TTLEVTVLDTLYN----KNLAIVDSSIEAHMLDLLIYRETAKVLPNEG------- 267 ::::::::::: ::::::::: :::::::::::::::: d1knwa1 29 ----VYVLITQVRSVK--QMGSRHFVLVDAG-FNDLMRPAMYGSYHHI-----SALAADG 76 query 268 -------SHSYMICGKSCLAGDV--------FGEFRFAEELKVGDRISFQDAAGYTMVKK 312 :::::::::::::::: :::::: :::::::::::::::::::::: d1knwa1 77 RSLEHAPTVETVVAGPLCESGDVFTQQEGGNVETRAL-PEVKAGDYLVLHDTGAYGASMS 135 query 313 NWFNGVKMPAIAIRELDGSVRTV-REFTYADYEQSLS----- 348 ::::::::::::::: ::::::: ::::::::::: d1knwa1 136 SNYNSRPLLPEVLFD-NGQARLIRRRQTIEELLAL--ELLHH 174 TMalign alignment (TM-score: 0.35 Raw score:120.59) query 1 ---------------------MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCF 39 ::::::::: d1knwa1 1 PHSLFSTDTDLTAENLLRLPAEFGCPVWVY------------------------------ 30 query 40 ATWSVFDLMRDYMDGTTSSSLFEVRLGRERFGKETHAYSVAYGDNEIDEVVSHADKIIFN 99 d1knwa1 31 ------------------------------------------------------------ 31 query 100 SISQLERFADKAAGIARGLRLNPQRLGEWDVPKVERVMDRINGFMIHNNCENKDFGLFDR 159 d1knwa1 31 ------------------------------------------------------------ 31 query 160 MLGEIEERFGALIARVDWVSLGGGIHFTGDDYPVDAFSARLRAFSDRYGVQIYLEPGEAS 219 d1knwa1 31 ------------------------------------------------------------ 31 query 220 ITKSTTLEVTVLDTLYN--KNLAIVDSSIEAHMLDLLIYRETAKVLP--------NE-GS 268 :::::::::::: :::::::::: ::::::::::::::::: :: :: d1knwa1 31 -----VLITQVRSVKQMGSRHFVLVDAGF-NDLMRPAMYGSYHHISALAADGRSLEHAPT 84 query 269 HSYMICGKSCLAGDVFG--------EFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKM 320 ::::::::::::::::: ::::: ::::::::::::::::::::::::::::: d1knwa1 85 VETVVAGPLCESGDVFTQQEGGNVETRALP-EVKAGDYLVLHDTGAYGASMSSNYNSRPL 143 query 321 PAIAIRELDGSVRTVRE-FTYADYEQSLS--- 348 :::::::: :::::::: ::::::::::: d1knwa1 144 LPEVLFDN-GQARLIRRRQTIEELLALELLHH 174 HHsearch alignment (Probability: 1.00 E-value:0.00) query 193 VDAFSARLRAFSDRYGVQIYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLD 252 ::::::::::::::::::::::::::::::::::::::::::::::::::::::: :::: d1knwa1 1 PHSLFSTDTDLTAENLLRLPAEFGCPVWVYVLITQVRSVKQMGSRHFVLVDAGFN-DLMR 59 query 253 LLIYRETAKVLP---------NEGSHSYMICGKSCLAGDVFGEF-------RFAEELKVG 296 :::::::::::: ::::::::::::::::::::::: ::::::::: d1knwa1 60 PAMYGSYHHISALAADGRSLEHAPTVETVVAGPLCESGDVFTQQEGGNVETRALPEVKAG 119 query 297 DRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQS 346 :::::::::::::::::::::::::::::::::::::::::::::::::: d1knwa1 120 DYLVLHDTGAYGASMSSNYNSRPLLPEVLFDNGQARLIRRRQTIEELLAL 169
Intermediate <-- 1.279 --> HitDALI alignment (Z-score: 1.3 Raw score:151.40) d1knwa1 1 phslfstdtdltaenllrlpaefgcpvwvyvlITQVRSVKQmgsrHFVLVDAgfndlmrp 60 ::::::::: ::::::: d1vhoa1 1 --------------------------------GFVVSKVEG----QFARLEP-------- 16 d1knwa1 61 amygSYHHISALAadGRSL------ehaptvetvvagplceSGDVFtqqeggnvetRALP 114 ::::::::: :::: ::::: :::: d1vhoa1 17 ---vYASKVRIYT--KNGIergvigmlaphlqdsesrkkvpTYDEI------fvdlSLCE 65 d1knwa1 115 -EVKAGDYLVlhdtgaygasmssnynsrpllpevlfdngqarlirrrqtieellalellh 173 ::::::::: d1vhoa1 66 rGVRVGDIAV-------------------------------------------------- 75 d1knwa1 174 h 174 d1vhoa1 76 - 76 FAST alignment (Normalized score: 1.79 Raw score:204.40) d1knwa1 1 PHSLFSTDTDLTAENLLRLPAEFGCPVWVYVLITQVRSVKQMGS-RHFVLVDAGFNDLMR 59 ::::::: :::::: d1vhoa1 1 --------------------------------GFVVSKV-----EGQFARL--------- 14 d1knwa1 60 PAMYGSY-----HHISALAADGRSLEHAPTVETVVAGPLCE------------------- 95 :::::: :::::: d1vhoa1 15 -------EPVYASKVRIY-TKNGIE----------------RGVIGMLAPHLQDSESRKK 50 d1knwa1 96 --SGDVFTQQEGGNVETRAL---------PEVKAGDYLVLHDTGAYGASMSSNYNSRPLL 144 :::: ::::::::: d1vhoa1 51 VPTYDE--------------IFVDLSLCERGVRVGDIA---------------------- 74 d1knwa1 145 PEVLFDNGQARLIRRRQTIEELLALELLHH- 174 d1vhoa1 75 ------------------------------V 75 TMalign alignment (TM-score: 0.22 Raw score:38.21) d1knwa1 1 PHSLFSTDTDLTAENLLRLPAEFGCPVWVYVLITQVRSVKQMGSRHFVLVDAGFNDLMRP 60 :::::::: : :::::: :: : d1vhoa1 1 ------------------------------GFVVSKVE-G------QFARLE---PV-Y- 18 d1knwa1 61 AMYGSYHHISALAADGRSLEHAPT----VETV-------------VAGPLCESG-DVFTQ 102 ::::::::: :::: : :: ::: :::: d1vhoa1 19 ----ASKVRIYTK-----NGIE-RGVIG--MLAPHLQDSESRKKV------PTYDEIFV- 59 d1knwa1 103 QEGGNVETRALPEVKAGD-YLVLHDTGAYGASMSSNYNSRPLLPEVLFDNGQARLIRRRQ 161 ::::::::: : ::::: d1vhoa1 60 ------DLSLCERGV--RVGDIAV------------------------------------ 75 d1knwa1 162 TIEELLALELLHH 174 d1vhoa1 76 ------------- 76 HHsearch alignment (Probability: 0.00 E-value:0.19) d1knwa1 114 PEVKAGDYLV 123 :::::::::: d1vhoa1 66 RGVRVGDIAV 75