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 | d1sgma2 | Putative transcriptional regulator YxaF | 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 <-- 1.857 --> HitDALI alignment (Z-score: 9.0 Raw score:508.40) d1t56a2 1 adTDRENMWRTGINVFFET-----fGSHKavTRAGQAARATSVEVAELWSTFMQKWIAYT 55 ::::::::::::::::: :::: ::::::::::::::::::::::::::::: d1sgma2 1 --SDPVEAIQLFIKKTASQfdntesIKGIpvGLLASETALISEPLRTVCMKVFKSWEAVF 58 d1t56a2 56 AAVIDAERdrgaaprtLPAHELATALNLMNERTLFASFAGeqpsvPEARVLDTLVHIWVT 115 :::::::: :::::::::::::::::::::::: ::::::::::::::: d1sgma2 59 ARKLMENG-----faeEEANQLGTLINSMIEGGIMLSLTN-----KDKTPLLLIAEQIPV 108 d1t56a2 116 SIYge 120 ::: d1sgma2 109 LVR-- 111 FAST alignment (Normalized score: 9.23 Raw score:1065.00) d1t56a2 1 ADTDRENMWRTGINVFFETFGSHK-----------AVTRAGQAARATSVEVAELWSTFMQ 49 :::::::::::::::: ::::::::::::::::::::::::: d1sgma2 1 --SDPVEAIQLFIKKTAS------QFDNTESIKGIPVGLLASETALISEPLRTVCMKVFK 52 d1t56a2 50 KWIAYTAAVIDAERDRGAAPRTL------PAHELATALNLMNERTLFASFAGEQPSVPE- 102 :::::::::::: ::::::::::::::::::::: d1sgma2 53 SWEAVFARKLME-----------NGFAEEEANQLGTLINSMIEGGIMLSL---------T 92 d1t56a2 103 ---ARVLDTLVHIWVTSIYGE- 120 ::::::::::::::: d1sgma2 93 NKDKTPLLLIAEQIPVLV---R 111 TMalign alignment (TM-score: 0.63 Raw score:75.40) d1t56a2 1 ADTDRENMWRTGINVFF-E-----TFGSHKAVTRAG-QAARATSVEVAELWSTFMQKWIA 53 ::::: :::::::::: : :::::::::: ::::::::::::::::::::::: d1sgma2 1 -SDPVE-AIQLFIKKTASQFDNTE--SIKGIPVGLLASETALISEPLRTVCMKVFKSWEA 56 d1t56a2 54 YTAAVIDAERDRGAAPR-TLPAHELATALNLMNERTLFASFAGEQPSVPEARVLDTLVHI 112 ::::::::::: : :::::::::::::::::::::: : ::::::::::::: d1sgma2 57 VFARKLMENGF-----AE-EEANQLGTLINSMIEGGIMLSL-T----NKDKTPLLLIAEQ 105 d1t56a2 113 WVTSIYGE 120 :::::: d1sgma2 106 IPVLVR-- 111 HHsearch alignment (Probability: 0.98 E-value:0.00) d1t56a2 3 TDRENMWRTGINVFFETFGSH-----KAVTRAGQAARATSVEVAELWSTFMQKWIAYTAA 57 ::::::::::::::::::::: :::::::::::::::::::::::::::::::::: d1sgma2 1 SDPVEAIQLFIKKTASQFDNTESIKGIPVGLLASETALISEPLRTVCMKVFKSWEAVFAR 60 d1t56a2 58 VIDAERDRGAAPRTLPAHELATALNLMNERTLFASFAGEQPSVPEARVLDTLVHI 112 ::::: :::: ::::::::::::::::::::::::::: ::::::::::::: d1sgma2 61 KLMEN---GFAE--EEANQLGTLINSMIEGGIMLSLTNKDK-TPLLLIAEQIPVL 109