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: T0611_Ad2.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1ui5a2 | A-factor receptor homolog CprB | Tetracyclin repressor-like, C-terminal domain | Tetracyclin repressor-like, C-terminal domain | All α |
| Hit | d1rkta2 | Hypothetical transcriptional regulator YfiR | Tetracyclin repressor-like, C-terminal domain | Tetracyclin repressor-like, C-terminal domain | All α |
Query <-- 1.085 --> IntermediateDALI alignment (Z-score: 10.2 Raw score:639.30) query 1 fqeyeklvdyyldipedrpITLEDMTFYLESVFDGLWS---YRFFHRDL-EYLLdsdprL 56 ::::::::::::::::::: :::::::: :::: : d1ui5a2 1 ------------------ySSLEALMRLTFGMARLCVQgpvLRAGLRLAtAGVP-----V 37 query 57 RQDyREFTNRCLAAINRIFAKLADAGIIQPQPedLRSAMSLNVWLVITNWMAFlktahlt 116 ::: :::::::::::::::::::::::::::: ::::::::::::::::::: d1ui5a2 38 RPL-PHPFTEWREIATSRLLDAVRQSDVHQDI--DVDSVAHTLVCSVVGTRVV------- 87 query 117 ELKQGIYQVLTLEV-PYLTPEYRERVLALREKYRP-- 150 :::::::::::::: :::::::::::::::::::: d1ui5a2 88 REPRRLAEMWYILIrGMVPVTRRARYVTLAARLEQet 124 FAST alignment (Normalized score: 8.29 Raw score:1131.00) query 1 FQEYEKLVDYYLDIPEDRPI--TLEDMTFYLESVFDGLWS---YRFFHRDLEYLLDSDPR 55 :::::::::::::::::: ::::::::: d1ui5a2 1 --------------------YSSLEALMRLTFGMARLCVQGPVLRAGLRLAT-------- 32 query 56 LRQDYR---------EFTNRCLAAINRIFAKLADAGIIQPQPED---LRSAMSLNVWLVI 103 :::::::::::::::::::::::: ::::::::::::: d1ui5a2 33 ------AGVPVRPLPHPFTEWREIATSRLLDAVRQSDVH-----QDIDVDSVAHTLVCSV 81 query 104 TNWMAFLKTA------HLTEL-KQGIYQVLTLEVPYLTPEYRERVLALREKYRP----- 150 ::::: :::::::: :::::::::::::::::: d1ui5a2 82 ----------VGTRVVREPRRLAEMWYILI---RGMVPVTRRARYVTLAAR---LEQET 124 TMalign alignment (TM-score: 0.61 Raw score:90.97) query 1 FQEYEKLVDYYLDIPEDRPITLEDMTFYLESVFDGLW-S--YRFFHRD-LEYLLDSDPRL 56 ::::: :::::::::::::: : ::::::: :: :: : : d1ui5a2 1 -----------------YSSLE-ALMRLTFGMARLCVQGPVLRAGLRLATA-GV---P-V 37 query 57 RQDYREFTNRCLAAINRIFAKLADAGIIQPQPEDLRSAMSLNVWLVITNWMAF-LKTAHL 115 ::::: :::::::::::::::::::::::::: :::::::::::::::: :: d1ui5a2 38 RPLPH-PFTEWREIATSRLLDAVRQSDVHQDI--DVDSVAHTLVCSVVGT-RVV------ 87 query 116 TELKQGIYQVL-TLEVPYLTPEYRERVLALREK-YR--P 150 :::::::::: ::::::::::::::::::::: :: d1ui5a2 88 -REPRRLAEMWYILIRGMVPVTRRARYVTLAARLEQET- 124 HHsearch alignment (Probability: 0.32 E-value:0.01) query 46 LEYLLDSDPRLRQDYREF------------TNRCLAAINRIFAKLADAGIIQPQPEDLRS 93 :::::::::::::::::: :::::::::::::::::::::::::::: : d1ui5a2 14 MARLCVQGPVLRAGLRLATAGVPVRPLPHPFTEWREIATSRLLDAVRQSDVHQDIDVD-S 72 query 94 AMSLNVWLVITNWMAFLKTAHLTELKQGIYQVLTLEVPYLTPEYRERVLA 143 ::::::::::::::::::::::: ::::::::::::::::::: d1ui5a2 73 ----VAHTLVCSVVGTRVVREPRRLAE----MWYILIRGMVPVTRRARYV 114
Intermediate <-- 1.300 --> HitDALI alignment (Z-score: 8.1 Raw score:483.10) d1ui5a2 1 ySSLEALMRLTFGMARLCVQG--PVLRAGLRLAtAGVP----VRPL-PHPFTEWREIATS 53 :::::::::::::::::::: :::::::::: :::: :::: ::::::::::::: d1rkta2 1 -SVWASISSYLDELTEGLRDVadTLAPVQFEYL-VTAWrneeRRQYlEKRYDLFVERFSR 58 d1ui5a2 54 RLLDAVRQSDVHQDIDVDSVAHTLVCSVVG---------trvvREPRRLAEMWYILIRGM 104 :::::::::::::::::::::::::::::: ::::::::::::::::: d1rkta2 59 LLQKGIDQGEFQPVQPLATIAKFFLNMNDGiiqnalyfdeekaDVSGLAESAKLYLKTVL 118 d1ui5a2 105 VpvtRRARyvtlaarleqet 124 : :::: d1rkta2 119 Q---ADEK------------ 123 FAST alignment (Normalized score: 7.88 Raw score:973.10) d1ui5a2 1 YS-SLEALMRLTFGMARLCVQG--PVLRAGLRLATAGVPVRPLP-------------HPF 44 ::::::::::::::::::: ::::::::::: ::: d1rkta2 1 --SVWASISSYLDELTEGLRDVADTLAPVQFEYLV---------TAWRNEERRQYLEKRY 49 d1ui5a2 45 TEWREIATSRLLDAVRQSDVH--QDIDVDSVAHTLVCSVVGTRV--------------VR 88 ::::::::::::::::::: :::::::::::::::: :: d1rkta2 50 DLFVERFSRLLQKGIDQGE--FQPVQPLATIAKFFLNMN-----DGIIQNALYFDEEKAD 102 d1ui5a2 89 EPRRLAEMWYILIRGMVPVTRRARYVTLAARLEQET------ 124 ::::::::::::::: d1rkta2 103 VSGLAESAKLYLKTV---------------------LQADEK 123 TMalign alignment (TM-score: 0.63 Raw score:78.20) d1ui5a2 1 YSSLEALMRLTFGMARLCVQG--PVLRAGLRLATAG--V--PVRPL-PHPFTEWREIATS 53 :::::::::::::::::::: ::::::::::::: : ::::: :: :::::::::: d1rkta2 1 -SVWASISSYLDELTEGLRDVADTLAPVQFEYLVTAWRNEERRQYLEKR-YDLFVERFSR 58 d1ui5a2 54 RLLDAVRQSDVHQDIDVDSVAHTLVCSVVGT-RV---------VREPRRLAEMWYILIRG 103 ::::::::::::::::::::::::::::::: :: :::::::::::::::: d1rkta2 59 LLQKGIDQGEFQPVQPLATIAKFFLNMNDGIIQNALYFDEEKA-DVSGLAESAKLYLKTV 117 d1ui5a2 104 MVPVTRRARYVTLAARLEQET 124 ::: :: : d1rkta2 118 LQA--DE-K------------ 123 HHsearch alignment (Probability: 0.98 E-value:0.00) d1ui5a2 19 VQGPVLRAGLRLATAGVPVRPL----PHPFTEWREIATSRLLDAVRQSDVHQDIDVDSVA 74 :::::::::::::::::::::: :::::::::::::::::::::::::::::::::: d1rkta2 20 VADTLAPVQFEYLVTAWRNEERRQYLEKRYDLFVERFSRLLQKGIDQGEFQPVQPLATIA 79 d1ui5a2 75 HTLVCSVVGTRVVR---EPRR-----LAEMWYI-LIRGMVPV 107 :::::::::::::: :::: ::::::: :::::::: d1rkta2 80 KFFLNMNDGIIQNALYFDEEKADVSGLAESAKLYLKTVLQAD 121