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 | d1yaca_ | YcaC | Isochorismatase-like hydrolases | Isochorismatase-like hydrolases | 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 <-- 1.649 --> HitDALI alignment (Z-score: 17.5 Raw score:1356.20) d1im5a_ 1 ---------PEEALIVVDMQRDFMpggaLPVP-EGDK-IIPKVNEYIRKFKEKGALIVAT 49 ::::::::::::::: :::: :::: :::::::::::::::::::::: d1yaca_ 1 tkpyvrldkNDAAVLLVDHQAGLL----SLVRdIEPDkFKNNVLALGDLAKYFNLPTILT 56 d1im5a_ 50 RDWhpenhisfrerggpwprhCVQNtpGAEFVVDL---PEDAVIISKAtepdkEAYSGFE 106 ::: :::: :::::::: :::::::::: ::::::: d1yaca_ 57 TSA------------------ETGP--NGPLVPELkaqFPDAPYIARP-----GNINAWD 91 d1im5a_ 107 GTDLAKILRGNGVKRVYICGVATEYCVRATALDALKHGFEVYLLRDAVKGIKPEDEERAL 166 :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: d1yaca_ 92 NEDFVKAVKATGKKQLIIAGVVTEVCVAFPALSAIEEGFDVFVVTDASGTFNEITRHSAW 151 d1im5a_ 167 EEMKSRGIKIVQF---------------------------------------- 179 ::::::::::::: d1yaca_ 152 DRMSQAGAQLMTWfgvacelhrdwrndiaglatlfsnhipdyrnlmtsydtlt 204 FAST alignment (Normalized score: 13.37 Raw score:2555.00) d1im5a_ 1 ---------PEEALIVVDMQRDFMPGGALPVP-------EGDKIIPKVNEYIRKFKEKGA 44 :::::::::::::: ::::::::::::::::::::: d1yaca_ 1 TKPYVRLDKNDAAVLLVDHQAGL---------LSLVRDIEPDKFKNNVLALGDLAKYFNL 51 d1im5a_ 45 LIVATRDWHPENHISFRERGGPWPRHCVQNTPGAEFVVDL-----------------PED 87 :::::: ::: d1yaca_ 52 PTILTT----------------------------------SAETGPNGPLVPELKAQFPD 77 d1im5a_ 88 AVIISKATEPD-KEAYSGFEG--TDLAKILRGNGVKRVYICGVATEYCVRATALDALKHG 144 ::::: ::::::: ::::::::::::::::::::::::::::::::::::: d1yaca_ 78 APYIA------RPGNINAW--DNEDFVKAVKATGKKQLIIAGVVTEVCVAFPALSAIEEG 129 d1im5a_ 145 FEVYLLRDAVKGIKPEDEERALEEMKSRGIKIVQF------------------------- 179 ::::::::::::::::::::::::::::::::: d1yaca_ 130 FDVFVVTDASGTFNEITRHSAWDRMSQAGAQLM--TWFGVACELHRDWRNDIAGLATLFS 187 d1im5a_ 180 ----------------- 180 d1yaca_ 188 NHIPDYRNLMTSYDTLT 204 TMalign alignment (TM-score: 0.75 Raw score:134.36) d1im5a_ 1 ---------PEEALIVVDMQRDFMPGGALPVP-EGD-KIIPKVNEYIRKFKEKGALIVAT 49 :::::::::::::::: ::: ::: ::::::::::::::::::::::: d1yaca_ 1 TKPYVRLDKNDAAVLLVDHQAGLLS----LVRDIEPDKFKNNVLALGDLAKYFNLPTILT 56 d1im5a_ 50 RDWHPENHISFRERGGPWPRHCVQNTPGAEFVVDL---PEDAVIISKATEPDKEAYSGFE 106 ::::: ::: : :::::: ::::::::: : ::::::: d1yaca_ 57 TSAET--------------GPN-----G-PLVPELKAQFPDAPYIAR-P----GNINAWD 91 d1im5a_ 107 GTDLAKILRGNGVKRVYICGVATEYCVRATALDALKHGFEVYLLRDAVKGIKPEDEERAL 166 :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: d1yaca_ 92 NEDFVKAVKATGKKQLIIAGVVTEVCVAFPALSAIEEGFDVFVVTDASGTFNEITRHSAW 151 d1im5a_ 167 EEMKSRGIKIVQ--F-------------------------------------- 179 :::::::::::: : d1yaca_ 152 DRMSQAGAQLMTWFGVACELHRDWRNDIAGLATLFSNHIPDYRNLMTSYDTLT 204 HHsearch alignment (Probability: 1.00 E-value:0.00) d1im5a_ 2 EEALIVVDMQRDFMPGGALPVPEGDKIIPKVNEYIRKFKEKGALIVATRDWHPENHISFR 61 :::::::::::::::: ::::::::::::::::::::::::::::::::::::: d1yaca_ 11 DAAVLLVDHQAGLLSL--VRDIEPDKFKNNVLALGDLAKYFNLPTILTTSAETGP----- 63 d1im5a_ 62 ERGGPWPRHCVQNTPGAEFVVDLPEDAVIISKATEPDKEAYSGFEGTDLAKILRGNGVKR 121 :::::::::::: ::::::::::::::::::::::::::::::: d1yaca_ 64 ---------------NGPLVPELKAQF--PDAPYIARPGNINAWDNEDFVKAVKATGKKQ 106 d1im5a_ 122 VYICGVATEYCVRATALDALKHGFEVYLLRDAVKGIKPEDEERALEEMKSRGIKIVQ 178 ::::::::::::::::::::::::::::::::::::::::::::::::::::::::: d1yaca_ 107 LIIAGVVTEVCVAFPALSAIEEGFDVFVVTDASGTFNEITRHSAWDRMSQAGAQLMT 163