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: T0582_Ad1.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1o5la1 | CRP-like transcriptional regulator TM1171, N-terminal domain | cAMP-binding domain-like | Double-stranded beta-helix | All β |
| Hit | d1omia1 | Listeriolysin regulatory protein PrfA, N-terminal domain | cAMP-binding domain-like | Double-stranded beta-helix | All β |
Query <-- 1.374 --> IntermediateDALI alignment (Z-score: 4.4 Raw score:279.00) query 1 meinadftkpvvidtdqlewrpspmkgverrMLDRiggevaraTSIVRYAPGSR-FSAHT 59 :::: ::::::::::: ::::: d1o5la1 1 --------------------------mdlkkLLPC--------GKVIVFRKGEIvKHQDD 26 query 60 HdgGEEFIVLDGVFQDE----------HGDYPAGTYV-RNPP----TTSH-VPGSAEGCT 103 : :::::::::::::: :::::::::: :::: :::: ::::::::: d1o5la1 27 P-iEDVLILLEGTLKTEhvsengktleIDEIKPVQIIaSGFIfssePRFPvNVVAGENSK 85 query 104 IFVKLWQ------------------------fdpadrtqfsknm 123 ::::::: d1o5la1 86 ILSIPKEvfldllmkdrelllfflkdvsehfrvvseklfflttk 129 FAST alignment (Normalized score: 3.30 Raw score:415.50) query 1 MEINADFTKPVVIDTDQLEWRPSPMKGVERRMLDRIGGEVAR--------ATSIVRYAPG 52 :::::::::: d1o5la1 1 ------------------------------------------MDLKKLLPCGKVIVFRKG 18 query 53 SRFSAHTHDG--------GEEFIVLDGVFQD-----------EHGDYPAGTYVRNPPTT- 92 :: :::::::::::: :::::::::: d1o5la1 19 EI--------VKHQDDPIEDVLILLEGTLK-TEHVSENGKTLEIDEIKPVQI-------I 62 query 93 ------------SHVPGSAEGCTIFVKLWQFDPADRTQFSKNM----------------- 123 ::::::::::::::: d1o5la1 63 ASGFIFSSEPRFPVNVVAGENSKILSI----------------PKEVFLDLLMKDRELLL 106 query 124 ----------------------- 124 d1o5la1 107 FFLKDVSEHFRVVSEKLFFLTTK 129 TMalign alignment (TM-score: 0.45 Raw score:55.05) query 1 ------MEINADFTKPVVIDTDQLEWRPSPMKGVERRMLDRIGGEVARATSIVRYAPGSR 54 : :: ::::::::::: d1o5la1 1 MDLKKL--------------L-----------------PC---------GKVIVFRKGEI 20 query 55 FSAHTHDGGEEFIVLDGVFQDE----------HGDYPAGTYV-R-NP----PTTSHVPGS 98 :::::::::::::::::::::: :::::::::: : :: ::::::::: d1o5la1 21 VKHQDDPIEDVLILLEGTLKTEHVSENGKTLEIDEIKPVQIIASGFIFSSEPRFPVNVVA 80 query 99 AEGCTIFVKLWQF--D-------------PADRT-QFSK---------------NM 123 :::::::::: :: : : :::: d1o5la1 81 GENSKILSIP-KEVFLDLLMKDRELLLFF----LKDVSEHFRVVSEKLFFLTTK-- 129 HHsearch alignment (Probability: 0.09 E-value:0.01) query 44 TSIVRYAPGSRFSAHTHDGGEEFIVLDGVFQ 74 ::::::::::::::::::::::::::::::: d1o5la1 10 GKVIVFRKGEIVKHQDDPIEDVLILLEGTLK 40
Intermediate <-- 1.414 --> HitDALI alignment (Z-score: 14.2 Raw score:819.70) d1o5la1 1 -MDLKK-LLPC-GKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENGKTLEIDEIK 57 ::::: :::: :::::::::::::::::::::::::::::::::::::::::::::::: d1omia1 1 gSEFKKyLETNgIKPKQFHKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYYK 60 d1o5la1 58 PVQIIAsgFIFSS-EPRFPVNVVAGE-NSKILSIPKEVFLDLLMKDRELLLFFLKDVSEH 115 :::::: ::::: :::::::::::: ::::::::::::::::::::::::::::::::: d1omia1 61 GAFVIM-sGFIDTeTSVGYYNLEVISeQATAYVIKINELKELLSKNLTHFFYVFQTLQKQ 119 d1o5la1 116 FRVVSEKLFFLTTK 129 :::::::::::::: d1omia1 120 VSYSLAKFNDFSIN 133 FAST alignment (Normalized score: 12.42 Raw score:1627.00) d1o5la1 1 MDLK------KLLP-CGKVIVFRKGEIVKHQDDPI--EDVLILLEGTLKTEHVSENGKTL 51 :::: :::::::::::::::::: ::::::::::::::::::::::: d1omia1 1 ----GSEFKKYLETNGIKPKQFHKKELIFNQWD--PQEYCIFLYDGITKLTSISENGTIM 54 d1o5la1 52 EIDEIKPVQIIASGFIF-----SSEPRF--PVNVVAG-ENSKILSIPKEVFLDLLMKDRE 103 :::::::::: :::::: ::::::: :::::::::::::::::::::: d1omia1 55 NLQYYKGAFV-------IMSGFIDTETSVGYYNLEVISEQATAYVIKINELKELLSKNLT 107 d1o5la1 104 LLLFFLKDVSEHFRVVSEKLFFLTTK- 129 ::::::::::::::::::::::::: d1omia1 108 HFFYVFQTLQKQVSYSLAKFNDFSI-N 133 TMalign alignment (TM-score: 0.74 Raw score:95.64) d1o5la1 1 MD-LKKLLP-C-GKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENGKTLEIDEIK 57 :: :::::: : :::::::::::::::::::::::::::::::::::::::::::::::: d1omia1 1 GSEFKKYLETNGIKPKQFHKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYYK 60 d1o5la1 58 PVQIIASGFIF-SSEPRFPVNVVAGE-NSKILSIPKEVFLDLLMKDRELLLFFLKDVSEH 115 ::::::: ::: :::::::::::::: ::::::::::::::::::::::::::::::::: d1omia1 61 GAFVIMS-GFIDTETSVGYYNLEVISEQATAYVIKINELKELLSKNLTHFFYVFQTLQKQ 119 d1o5la1 116 FRVVSE-K---LFFL--TTK 129 :::::: : : d1omia1 120 VSYSLAKFNDF---SIN--- 133 HHsearch alignment (Probability: 0.97 E-value:0.00) d1o5la1 9 CGKVIVFRKGEIVKHQDDPIEDVLILLEGTLKTEHVSENGKTLEIDEIKPVQIIASGFIF 68 :::::::::::::::::::::::::::::::::::::::::::::::: ::::::::::: d1omia1 12 GIKPKQFHKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYY-KGAFVIMSGFI 70 d1o5la1 69 SSEPR---FPVNVVAGENSKILSIPKEVFLDLLMKDRELLLFFLKDVSEHFRVVSEKLFF 125 ::::: :::: ::::::::::::::::::::::::::::::::::::::::::::::: d1omia1 71 DTETSVGYYNLE-VISEQATAYVIKINELKELLSKNLTHFFYVFQTLQKQVSYSLAKFND 129 d1o5la1 126 LT 127 :: d1omia1 130 FS 131