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 | d1t56a2 | Ethr repressor | Tetracyclin repressor-like, C-terminal domain | Tetracyclin repressor-like, C-terminal domain | All α |
| Hit | d2tcta2 | Tetracyclin repressor (Tet-repressor, TetR) | Tetracyclin repressor-like, C-terminal domain | Tetracyclin repressor-like, C-terminal domain | All α |
Query <-- 1.356 --> IntermediateDALI alignment (Z-score: 9.2 Raw score:578.80) query 1 fqeyeklvdyyldipedrpiTLEDMTFYLESVFDGLWSYRFFHRDLEYLLDSDPRLRQDY 60 :::::::::::::::::::::::::::::::::::::::: d1t56a2 1 ----------------adtdRENMWRTGINVFFETFGSHKAVTRAGQAARATSVEVAELW 44 query 61 REFTNRCLAAINRIFAKLADAGIIQPQPedLRSAMSLNVWLVITNWMAFL--KTAH---L 115 :::::::::::::::::::::::::::: :::::::::::::::::::: :::: : d1t56a2 45 STFMQKWIAYTAAVIDAERDRGAAPRTL--PAHELATALNLMNERTLFASfaGEQPsvpE 102 query 116 TELK-QGIYQVLTLEVPYltpeyrervlalrekyrp 150 :::: ::::::::::::: d1t56a2 103 ARVLdTLVHIWVTSIYGE------------------ 120 FAST alignment (Normalized score: 8.62 Raw score:1156.00) query 1 FQEYEKLVDYYLDIPEDRPI----TLEDMTFYLESVFDGLWSYRFFHRDLEYLLDSDPRL 56 :::::::::::::::::::::::::::::::::::: d1t56a2 1 --------------------ADTDRENMWRTGINVFFETFGSHKAVTRAGQAARATSVEV 40 query 57 RQDYREFTNRCLAAINRIFAKLADAGIIQPQ--PEDLRSAMSLNVWLVITNWMAFLKTAH 114 ::::::::::::::::::::::::::::::: :::::::::::::::::::: d1t56a2 41 AELWSTFMQKWIAYTAAVIDAERDRGAAPRTLPAHELATALNLMNERTLFASF------- 93 query 115 LTE--------LKQGIYQVLTLEVPYLTPEYRERVLALREKYRP----- 150 :::::::::::::: d1t56a2 94 ---AGEQPSVPEARVLDTLVHIWVT-------------------SIYGE 120 TMalign alignment (TM-score: 0.56 Raw score:84.62) query 1 FQEYEKLVDYYLDIPEDRPITL-EDMTFYLESVFDGLWSYRFFHRD-LEYLLDSDPRLRQ 58 ::::: ::::::::::::::::::::::: ::::::::: ::: d1t56a2 1 -----------------ADTDRENMWRTGINVFFETFGSHKAVTRAGQAARATSVE-VAE 42 query 59 DYREFTNRCLAAINRIFAKLADAGIIQPQPEDLRSAMSLNVWLVITNW-MAFL-K-TAH- 114 :::::::::::::::::::::::::::::: :::::::::::::::: :::: : ::: d1t56a2 43 LWSTFMQKWIAYTAAVIDAERDRGAAPRTL--PAHELATALNLMNERTLFASFAGEQPSV 100 query 115 LTELKQGI-YQVLTLEVPYLTPEYRERVLALREKYRP 150 :::::: ::::::::::::: d1t56a2 101 --PEARVLDTLVHIWVTSIYGE--------------- 120 HHsearch alignment (Probability: 0.73 E-value:0.00) query 23 EDMTFYLESVFDGLWSYRFFHRDLEYLLDSDPRLRQDYREFTNRCLAAINRIFAKLADAG 82 :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: d1t56a2 7 NMWRTGINVFFETFGSHKAVTRAGQAARATSVEVAELWSTFMQKWIAYTAAVIDAERDRG 66 query 83 IIQPQPEDLRSAMSLNVWLVITNWMAFLKT----AHLTELKQGIYQVL 126 :::::::::::::: ::::::::::::::: :::::::::::::: d1t56a2 67 AAPRTLPAHELATA-LNLMNERTLFASFAGEQPSVPEARVLDTLVHIW 113
Intermediate <-- 0.776 --> HitDALI alignment (Z-score: 8.3 Raw score:475.40) d1t56a2 1 adtdrenMWRTGINVFFETFGSHK----AVTRAGQAARatsveVAELWSTFMQKWIAYTA 56 ::::::::::::::::: :::::::::: ::::::::::::::::: d2tcta2 1 -lpaageSWQSFLRNNAMSFRRALlryrDGAKVHLGTR-----PDEKQYDTVETQLRFMT 54 d1t56a2 57 AVIdaerdrgaaprtlpAHELATALNLMNERTLFASFAGE-------------------- 96 ::: ::::::::::::::::::::::: d2tcta2 55 ENG-------------fSLRDGLYAISAVSHFTLGAVLEQqehtaalnlppllrealqim 101 d1t56a2 97 ---qpsvPEARVLDTLVHIWVTSIYGE---- 120 :::::::::::::::::::: d2tcta2 102 dsddgeqAFLHGLESLIRGFEVQLTALlqiv 132 FAST alignment (Normalized score: 2.53 Raw score:318.70) d1t56a2 1 ADTDRENMWRTGINVFFETFGSHKAVTRAGQAARATS----------------------- 37 d2tcta2 1 -------------------------------------LPAAGESWQSFLRNNAMSFRRAL 23 d1t56a2 38 -----------------------------------VEVAELWSTFMQKWIAYTAAVIDAE 62 ::::::::::::::::::::::::: d2tcta2 24 LRYRDGAKVHLGTRPDEKQYDTVETQLRFMTENGFSLRDGLYAISAVSHFTLGAVLEQQE 83 d1t56a2 63 RDRGAA---------------PRTLPAHELATALNLMNERTLFASF--AGEQPSVPEARV 105 :: ::::::::::::::::::::::::: :::: d2tcta2 84 HT----AALNLPPLLREALQIMDSDDGEQAFLHGLESLIRGFEVQLTALLQI-------- 131 d1t56a2 106 LDTLVHIWVTSIYGE- 120 d2tcta2 132 ---------------V 132 TMalign alignment (TM-score: 0.56 Raw score:66.69) d1t56a2 1 --A-DTDRENMWRTGINVFFETFGSHKAVTRAGQAARATSVEVAELWSTF--MQK-WIAY 54 : :::::::::::::::::::::: ::::::: : : :::: :: :::: d2tcta2 1 LPAAGESWQSFLRNNAMSFRRALLRY-RDGAKVH--L------G--TRPDEK-QYDTVET 48 d1t56a2 55 TAAVIDAERDRGAAPR-TLPAHELATALNLMNERTLFASFAGE------------QP--S 99 ::::::::: : : ::::::::::::::::::::::::: : : d2tcta2 49 QLRFMTENG----F-SL-RDGLYAISAVSHFTLGAVLEQQEHTAALNLPPLLREA-LQIM 101 d1t56a2 100 V--PEAR-VLDTLVHIWVTSIYGE-------- 120 : :::: :::::::: ::::::: d2tcta2 102 DSDDGEQAFLHGLESL-IRGFEVQLTALLQIV 132 HHsearch alignment (Probability: 0.10 E-value:0.17) d1t56a2 6 ENMWRTGINVFFETFGSHKAVTRAGQAARATSVEV 40 ::::::::::::::::::::::::::::::::::: d2tcta2 9 QSFLRNNAMSFRRALLRYRDGAKVHLGTRPDEKQY 43