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 | d1g5qa_ | Epidermin modifying enzyme (peptidyl-cysteine decarboxylase) EpiD | Homo-oligomeric flavin-containing Cys decarboxylases, HFCD | Homo-oligomeric flavin-containing Cys decarboxylases, HFCD | 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 <-- 1.329 --> HitDALI alignment (Z-score: 5.6 Raw score:498.50) d1im5a_ 1 --PEEALIVVDmqrdfmpggalpvpegdKIIPKVNEYIRKFKEK--GALIVATRDwhpen 56 ::::::::: :::::::::::::::: ::::::::: d1g5qa_ 1 myGKLLICATA----------------sINVININHYIVELKQHfdEVNILFSPS----- 39 d1im5a_ 57 hisfrerggpwprhcvqntpgAEFV--vDLPE---DAVIISkatepdkeaysgfeGTDLA 111 :::: :::: :::::: ::::: d1g5qa_ 40 --------------------sKNFIntdVLKLfcdNLYDEI-----------kdpLLNNI 68 d1im5a_ 112 KILRgnGVKRVYICGVATeYCVRAT------------ALDALkhgFEVYLLrdaVKGI-- 157 :::: :::::::::::: :::::: ::::: :::::: :::: d1g5qa_ 69 NIVE--NHEYILVLPASA-NTINKIangicdnllttvCLTGY---QKLFIF---PNMNir 119 d1im5a_ 158 --KPEDEERALEEMKSRGIKIV-------------------------------qf 179 :::::::::::::::::::: d1g5qa_ 120 mwGNPFLQKNIDLLKNNDVKVYspdmnksfeissgryknnitmpnienvlnfvln 174 FAST alignment (Normalized score: 4.12 Raw score:726.70) d1im5a_ 1 --PEEALIVVDMQRDFMPGGALP-VPEGDKIIPKVNEYIRKFKEKG--ALIVATRDWHPE 55 :::::::: ::::: ::::::::::: ::::::: d1g5qa_ 1 MYGKLLICAT-------------ASINVI----NINHYIVELKQ--HFDEVNILF----- 36 d1im5a_ 56 NHISFRERGGPWPRHCVQNTPGAEFVVDLPED-----------------AVIISKATEPD 98 :::::: d1g5qa_ 37 --------------------------------SPSSKNFINTDVLKLFCDNLYDE----- 59 d1im5a_ 99 KEAYSGF---EGTDLAKILRGNGVKRVYICGVA-TEYCVRAT----------ALDALKHG 144 :::::::::: ::::::::: :::::: :::::: d1g5qa_ 60 -------IKDPLLNNINIVE--NHEYILVLP--ASANTIN--KIANGICDNLLTTVCL-- 104 d1im5a_ 145 F----EVYLLRDAVKGI--------KPEDEERALEEMKSRGIKIVQF------------- 179 ::::: ::::::::::::::::::: d1g5qa_ 105 -TGYQKLFIF-------PNMNIRMWGNPFLQKNIDLLKNNDVKV---YSPDMNKSFEISS 153 d1im5a_ 180 --------------------- 180 d1g5qa_ 154 GRYKNNITMPNIENVLNFVLN 174 TMalign alignment (TM-score: 0.50 Raw score:90.25) d1im5a_ 1 -PEEALIVVDMQRDFMPGGALPVPEGDKIIPKVNEYIRKFKEK-GALIVATRDWHPENHI 58 :::::::::: :::::: ::::::::::: ::::::::: d1g5qa_ 1 MYGKLLICATA--------------SINVIN-INHYIVELKQHFDEVNILFSP------- 38 d1im5a_ 59 SFRERGGPWPRHCVQNTPGAEFVVDL--PEDAVIISK-ATEPDKEAYSGFEGTDLAKILR 115 :: ::::::::: ::::::::: :: ::::::::: d1g5qa_ 39 -----------SS----KNFINTDVLKLFCDNLYDEIK-DP----------LLNNINIVE 72 d1im5a_ 116 GNGVKRVYICGVATEYCVRA---------T--ALDALKHGFEVYLLRDAVKG-IKP-E-D 161 : ::::::::::::::::: : ::::: ::::::: ::: ::: : : d1g5qa_ 73 -N-HEYILVLPASANTINKIANGICDNLLTTVCLTGY---QKLFIFP--NMNIRMWGNPF 125 d1im5a_ 162 EERALEEMKSRGIKIV---------------------Q---F------- 179 :::::::::::::::: : : d1g5qa_ 126 LQKNIDLLKNNDVKVYSPDMNKSFEISSGRYKNNITMPNIENVLNFVLN 174 HHsearch alignment (Probability: 0.07 E-value:0.06) d1im5a_ 27 KIIPKVNEYIRKFKEKGALIVATR 50 :::::::::::::::::::::::: d1g5qa_ 13 INVININHYIVELKQHFDEVNILF 36