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 | d1p9la1 | Dihydrodipicolinate reductase | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | 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 <-- 0.612 --> HitDALI alignment (Z-score: 5.5 Raw score:445.60) d1im5a_ 1 PEEALIVvdmqrdfmpggalpvpegdkiIPKVNEYIRKFKE---KGAL-IVATRdwhpen 56 ::::::: ::::::::::::: :::: ::::: d1p9la1 1 MRVGVLG-------------------akGKVGTTMVRAVAAaddLTLSaELDAG------ 35 d1im5a_ 57 hisfrerggpwprhcvqntpgaefvvdlpedaviiskatepdkeaysgfegTDLAkILRG 116 :::: :::: d1p9la1 36 ---------------------------------------------------DPLS-LLTD 43 d1im5a_ 117 NGVKRVYICGVAteYCVRATALDALKHGFEVYLlrdAVKGikpedEERALEEMKSRG--- 173 :::::::::::: ::::::::::::::::::: :::: :::::::::::: d1p9la1 44 GNTEVVIDFTHP--DVVMGNLEFLIDNGIHAVV---GTTG----fTAERFQQVESWLvak 94 d1im5a_ 174 ----IKIVQF-------------------------------- 179 :::::: d1p9la1 95 pntsVLIAPNftsfvpgvllavrriaerpgltvgleplldlh 136 FAST alignment (Normalized score: 4.81 Raw score:750.10) d1im5a_ 1 PEEALIVVDMQRDFMPGGALPVPEGDKI----IPKVNEYIRKFKEK-GAL-IVATRDWHP 54 ::::: :::::::::::::: ::: ::::: d1p9la1 1 MRVGV-----------------------LGAKGKVGTTMVRAVAAADDLTLSAELD---- 33 d1im5a_ 55 ENHISFRERGGPWPRHCVQNTPGAEFVVDLPEDAVIISKATEPDKEAYSGFEGTDLAKIL 114 :::: :::: d1p9la1 34 ---------------------------------------------------AGDP-LSLL 41 d1im5a_ 115 RGNGVKRVYICGVATEYCVRATALDALKHGFEVYLLRDAVKG-----IKPEDEERALEEM 169 :::::::::::: :::::::::::::::::::: ::::::::::::: d1p9la1 42 TDGNTEVVIDFT--HPDVVMGNLEFLIDNGIHAV--------VGTTGFTAERFQQVESWL 91 d1im5a_ 170 KS-RGIKIVQF------------------------------------ 179 :: :::::: d1p9la1 92 VAKPNTSVL--IAPNFTSFVPGVLLAVRRIAERPGLTVGLEPLLDLH 136 TMalign alignment (TM-score: 0.31 Raw score:54.78) d1im5a_ 1 PEEALIVVDMQRDFMPGGALPVPEGDKIIPKVNEYIR-KFKEKGALIVATRDWHPENHIS 59 : ::::: ::: : ::::: :::::: : :::::::::: d1p9la1 1 M--RVGVL-GAK--G----------KVGTT-MVRAVAAA--DDLTLSAELD--------- 33 d1im5a_ 60 FRERGGPWPRHCVQNTPGAE----FVVDL-PEDAV--II-------SKATEPDKEAYSGF 105 : :: : :::: : :::::: d1p9la1 34 -----------A------GDPLSL----LT-DGNTEV-VIDFTHPD--------VVMGNL 62 d1im5a_ 106 EGTDLAKILRGNGVKRVYICGVATEY--CVRAT-ALD-ALK-HG-FEVYLL--R--DA-- 153 : : ::::: : ::::: :::: ::: ::: ::: :: :::::: : :: d1p9la1 63 E-F-LIDNG----I--HAVVG-TTGFTA--ERFQQVESWLVAKPNTSVLIAPNFTSFVPG 111 d1im5a_ 154 ------------VKGIKPEDEERALEEMKSRGIKIV--QF--- 179 :::::: :: d1p9la1 112 VLLAVRRIAERP------------------GLTVGLEPLLDLH 136 HHsearch alignment (Probability: 0.04 E-value:0.10) d1im5a_ 31 KVNEYIRKFKEKGALIVATR 50 :::::::::::::::::::: d1p9la1 57 VVMGNLEFLIDNGIHAVVGT 76