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: T0542_Ad2+3.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1im5a_ | Pyrazinamidase/nicotinamidase | Isochorismatase-like hydrolases | Isochorismatase-like hydrolases | α/β |
| Hit | d1th8b_ | Anti-sigma factor antagonist SpoIIaa | Anti-sigma factor antagonist SpoIIaa | SpoIIaa-like | α/β |
Query <-- 0.845 --> IntermediateDALI alignment (Z-score: 2.3 Raw score:295.90) query 1 ------------------------------------------------------------ 1 d1im5a_ 1 peealivvdmqrdfmpggalpvpegdkiipkvneyirkfkekgalivatrdwhpenhisf 60 query 1 -------------------------------------DADE-evYSALvvGLRAYVAKNG 22 :::: :::: :::::::::: d1im5a_ 61 rerggpwprhcvqntpgaefvvdlpedaviiskatepDKEAysgFEGT--DLAKILRGNG 118 query 23 FRSVLIG-lsGGIDSALVAAIACDALGaqNVYGVSMpskySSDHSKGDAAELARRTGLNF 81 ::::::: ::::::::::::::::: ::::::: :::::::::::::::::::: d1im5a_ 119 VKRVYICgvaTEYCVRATALDALKHGF--EVYLLRDavkgIKPEDEERALEEMKSRGIKI 176 query 82 RTVsiepmfdaymaslgltglaeenlqsrlrgttlmaisnqeghivlapgnkselavgys 141 ::: d1im5a_ 177 VQF--------------------------------------------------------- 179 query 142 tlygdsvgaygpikdvyktsifrlaewrnraaaergqtppipeasitkpdypvldailel 201 d1im5a_ 180 ------------------------------------------------------------ 180 query 202 yvdrdtgadaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnr 261 d1im5a_ 180 ------------------------------------------------------------ 180 query 262 wregh 266 d1im5a_ 180 ----- 180 FAST alignment (Normalized score: 2.15 Raw score:469.10) query 1 DADEEVYSALV------------------------------------------------- 11 d1im5a_ 1 -----------PEEALIVVDMQRDFMPGGALPVPEGDKIIPKVNEYIRKFKEKGALIVAT 49 query 12 ----------------------------------------------------------VG 13 :: d1im5a_ 50 RDWHPENHISFRERGGPWPRHCVQNTPGAEFVVDLPEDAVIISKATEPDKEAYSGFEGTD 109 query 14 LRAYVAKNGFRSVLIGLS----GGIDSALVAAIACDALGAQ---NVYGVSMPSKY----- 61 ::::::::::::::: :::::::::::::: ::::: d1im5a_ 110 LAKILRGNGVKRVYI---CGVATEYCVRATALDALK-----HGFEVYLL------RDAVK 155 query 62 -SSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTLMAIS 120 ::::::::::::::::::::: d1im5a_ 156 GIKPEDEERALEEMKSRGIKIV-------------------------------------- 177 query 121 NQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTP 180 d1im5a_ 178 ------------------------------------------------------------ 178 query 181 PIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYP 240 d1im5a_ 178 ------------------------------------------------------------ 178 query 241 PGTKISAKGFGKDRRLPITNRWREGH-- 266 d1im5a_ 178 --------------------------QF 179 TMalign alignment (TM-score: 0.30 Raw score:81.01) query 1 --------------DADE------EVYSALVVGLRAYVAKN-G-FRSVLIGLSGG----- 33 ::: ::: ::::::::::::: : ::::::::::: d1im5a_ 1 PEEALIVVDMQRDF-MPGGALPVPEGD-KIIPKVNEYIRKFKEKGALIVATRDWHPENHI 58 query 34 -----------ID-SA---LVAAIACDALGAQNVYGVSMPSKYSSDHSK---GDAAELAR 75 :: : :::::: ::: :::::::: :::::: d1im5a_ 59 SFRERGGPWPRHCV-QNTPGAEFVV--DLP-EDAVIISK----ATEPDKEAY-------- 102 query 76 RTGLNFRTVSIEPMFDAYMASLGLTGLAEEN-LQSRLRGTTLMAISNQ--EGHIVLAPGN 132 : ::::::::::::::: ::::::: d1im5a_ 103 ------------------------------SG-FEGTDLAKILRGNGVKR---VYICGVA 128 query 133 KSELAVGYSTLYGDS---V-GAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASIT 188 :::: ::::::::: : ::::::::::: d1im5a_ 129 TEYC--VRATALDALKHGFEVYLLRDAVKGI----------------------------- 157 query 189 KPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAK 248 :: :: :: : :::::::: ::::::: d1im5a_ 158 -------KP-ED-EE----------------------R-ALEEMKSR-GIKIVQF----- 179 query 249 GFGKDRRLPITNRWREGH 266 d1im5a_ 180 ------------------ 180 HHsearch alignment (Probability: 0.10 E-value:0.05) query 13 GLRAYVAKNGFRSVLIGL---SGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGD 69 :::::::::::::::::: ::::::::::::: :::: :::::::::::::::::: d1im5a_ 109 DLAKILRGNGVKRVYICGVATEYCVRATALDALK---HGFE-VYLLRDAVKGIKPEDEER 164 query 70 AAELARRTGLN 80 ::::::::::: d1im5a_ 165 ALEEMKSRGIK 175
Intermediate <-- 0.744 --> HitDALI alignment (Z-score: 3.7 Raw score:329.90) d1im5a_ 1 ---------PEEALIVVDMQrdfmpggalpvpegdkiipkvneyirkfkekgalivatrd 51 ::::::::::: d1th8b_ 1 slaidlevkQDVLIVRLSGE---------------------------------------- 20 d1im5a_ 52 whpenhisfrerggpwprhcvqntpgaefvvdlpedaviiskatepdkEAYSgfegTDLA 111 :::: :::: d1th8b_ 21 ----------------------------------------------ldHHTAeelrEQVT 34 d1im5a_ 112 KILRGNGVKRVYICG---vateYCVRATALDALKHG----FEVYLLrdAVKGikpeDEER 164 ::::::::::::::: :::::::::::::: :::::: :::: :::: d1th8b_ 35 DVLENRAIRHIVLNLgqltfmdSSGLGVILGRYKQIknvgGQMVVC--AVSP----AVKR 88 d1im5a_ 165 ALE--EMKSrGIKIVQF----------- 179 ::: :::: ::::::: d1th8b_ 89 LFDmsGLFK-IIRVEADeqfalqalgva 115 FAST alignment (Normalized score: 3.45 Raw score:495.50) d1im5a_ 1 ---------PEEALIVVDMQRDFMPGGALPVPEGDKIIPKVNEYIRKFKEKGALIVATRD 51 :::::::: d1th8b_ 1 SLAIDLEVKQDVLIVRL------------------------------------------- 17 d1im5a_ 52 WHPENHISFRERGGPWPRHCVQNTPGAEFVVDLPEDAVIISKATEPDKEAYSGFEG---- 107 d1th8b_ 18 --------------------------------------------------------SGEL 21 d1im5a_ 108 ---------TDLAKILRGNGVKRVYIC----GVATEYCVRATALDALK----HGFEVYLL 150 ::::::::::::::::: ::::::::::::::::: ::::::: d1th8b_ 22 DHHTAEELREQVTDVLENRAIRHIVL-NLGQLTFMDSSGLGVILGRYKQIKNVGGQMVV- 79 d1im5a_ 151 RDAVKGIK---PEDEERALE--EMKSRGIKIVQF------------ 179 ::::::::: :::: :::::: d1th8b_ 80 --------CAVSPAVKRLFDMSGLFK-IIRVEA-DEQFALQALGVA 115 TMalign alignment (TM-score: 0.38 Raw score:68.41) d1im5a_ 1 ---------PEEALIVVDMQRDFMPGGALPVPEGDKIIPKVNEYIRKFKEKGALIVATRD 51 :::::::: :: : : d1th8b_ 1 SLAIDLEVKQDVLIVRL-SG--E------------------------------------L 21 d1im5a_ 52 WHPENHISFRERGGPWPRHCVQNTPGAEFVVDLPEDAVIISKATEPDKEAYS-GFEGTDL 110 : : :::: :: ::: d1th8b_ 22 -------D----------------------------------H-----HTAEELR--EQV 33 d1im5a_ 111 AKILRGNGVKRVYICG--VATEY-CVRATALDALKHGF----EVYLLRDAVKGIKPEDEE 163 :::::::::::::::: ::::: :::::::::::::: ::::: :::: : :: d1th8b_ 34 TDVLENRAIRHIVLNLGQLTFMDSSGLGVILGRYKQIKNVGGQMVVC--AVSP--A--VK 87 d1im5a_ 164 RALE-E-MKSRGIKIVQ---F-------- 179 :::: : ::: :::::: : d1th8b_ 88 RLFDMSGLFK-IIRVEADEQFALQALGVA 115 HHsearch alignment (Probability: 0.09 E-value:0.05) d1im5a_ 28 IIPKVNEYIRKFKEKGALIVAT 49 :::::::::::::::::::::: d1th8b_ 59 GLGVILGRYKQIKNVGGQMVVC 80