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 | d1jv1a_ | UDP-N-acetylglucosamine pyrophosphorylase | Nucleotide-diphospho-sugar transferases | Nucleotide-diphospho-sugar transferases | 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 <-- 1.303 --> HitDALI alignment (Z-score: 3.1 Raw score:453.50) d1im5a_ 1 ------------------------------------------------------------ 1 d1jv1a_ 1 mnindlkltlskagqehllrfwneleeaqqvelyaelqamnfeelnfffqkaiegfrmep 60 d1im5a_ 1 -----------------------------PEEALIVVDmqrdfmpGGAL---PVPE---- 24 ::::::::: :::: :::: d1jv1a_ 61 vprevlgsatrdqdqlqaweseglfqisqNKVAVLLLAggqgtrlGVAYpkgMYDVglps 120 d1im5a_ 25 gDKIIPKVNEYIRKFKE---------KGALIVATRDWHpenhisfrerggpwprhcvqnt 75 :::::::::::::::: :::::::::::: d1jv1a_ 121 rKTLFQIQAERILKLQQvaekyygnkCIIPWYIMTSGR---------------------- 158 d1im5a_ 76 pgAEFV--------vDLPED-AVIISKATEPD------------------kEAYS-GFEG 107 :::: ::::: ::::::::::: :::: :::: d1jv1a_ 159 tmESTKefftkhkyfGLKKEnVIFFQQGMLPAmsfdgkiileeknkvsmapDGNGgLYRA 218 d1im5a_ 108 T---DLAKILRGNGVKRVYICGVAT----------------------------------- 129 : ::::::::::::::::::::: d1jv1a_ 219 LaaqNIVEDMEQRGIWSIHVYCVDNilvkvadprfigfciqkgadcgakvvektnptepv 278 d1im5a_ 130 ------------------------------------eycvrataldaLKHG--------- 144 :::: d1jv1a_ 279 gvvcrvdgvyqvveyseislataqkrssdgrllfnagnianhfftvpFLRDvvnvyepql 338 d1im5a_ 145 -----------------fevyllrdavkgikpedeeraleemKSRG-------------- 173 :::: d1jv1a_ 339 qhhvaqkkipyvdtqgqlikpdkpngikmekfvfdifqfakkFVVYevlredefsplkna 398 d1im5a_ 174 ------------------------------------------------------------ 174 d1jv1a_ 399 dsqngkdnpttarhalmslhhcwvlnagghfidengsrlpaiprlkdandvpiqceispl 458 d1im5a_ 174 --------------------------ikivqf 179 d1jv1a_ 459 isyageglesyvadkefhapliidengvhelv 490 FAST alignment (Normalized score: 1.95 Raw score:576.50) d1im5a_ 1 P----------------------------------------------------------- 1 d1jv1a_ 1 -MNINDLKLTLSKAGQEHLLRFWNELEEAQQVELYAELQAMNFEELNFFFQKAIEGFRME 59 d1im5a_ 2 -------------------------------EEALIVVDMQRDFMPGGALPVPEGD---- 26 :::::: d1jv1a_ 60 PVPREVLGSATRDQDQLQAWESEGLFQISQNKVAVLL-------------------LAGG 100 d1im5a_ 27 ----------------------KIIPKVNEYIRKFKEK----------GALIVATRDWHP 54 ::::::::::::::: :::::::: d1jv1a_ 101 QGTRLGVAYPKGMYDVGLPSRKTLFQIQAERILKLQQ-VAEKYYGNKCIIPWYIMT---- 155 d1im5a_ 55 ENHISFRERGGPWPRHCVQNTPGAEFV-----------------VDLPE-DAVIISKATE 96 ::::: :::::::::: d1jv1a_ 156 ---------------------------SGRTMESTKEFFTKHKYFGLKKENVIFFQQGML 188 d1im5a_ 97 PDKEAYS-----------------------------GFEGTDLAKILRGNGVKRVYICGV 127 ::::::::::::::::::::: d1jv1a_ 189 -------PAMSFDGKIILEEKNKVSMAPDGNGGLYRALAAQNIVEDMEQRGIWSIHV--- 238 d1im5a_ 128 ATEYCVRATALDALKHGFEVYLLRDAVKGIKPEDEERALEEMKSRGIKIVQF-------- 179 d1jv1a_ 239 ----------------------------------------------------YCVDNILV 246 d1im5a_ 180 ------------------------------------------------------------ 180 d1jv1a_ 247 KVADPRFIGFCIQKGADCGAKVVEKTNPTEPVGVVCRVDGVYQVVEYSEISLATAQKRSS 306 d1im5a_ 180 ------------------------------------------------------------ 180 d1jv1a_ 307 DGRLLFNAGNIANHFFTVPFLRDVVNVYEPQLQHHVAQKKIPYVDTQGQLIKPDKPNGIK 366 d1im5a_ 180 ------------------------------------------------------------ 180 d1jv1a_ 367 MEKFVFDIFQFAKKFVVYEVLREDEFSPLKNADSQNGKDNPTTARHALMSLHHCWVLNAG 426 d1im5a_ 180 ------------------------------------------------------------ 180 d1jv1a_ 427 GHFIDENGSRLPAIPRLKDANDVPIQCEISPLISYAGEGLESYVADKEFHAPLIIDENGV 486 d1im5a_ 180 ---- 180 d1jv1a_ 487 HELV 490 TMalign alignment (TM-score: 0.50 Raw score:89.67) d1im5a_ 1 ------------------------------------------------------------ 1 d1jv1a_ 1 MNINDLKLTLSKAGQEHLLRFWNELEEAQQVELYAELQAMNFEELNFFFQKAIEGFRMEP 60 d1im5a_ 1 -----------------------------PEEALIVVDMQRDFMPGGALPVPEGDK---- 27 ::::::::::::::::::::::::::: d1jv1a_ 61 VPREVLGSATRDQDQLQAWESEGLFQISQNKVAVLLLAGGQGTRLGVAYPKGMYDVGLPS 120 d1im5a_ 28 --II-PKVNEYIRKFKE-K-------GALIVATRDWHPENHISFRERGGPWPRHCVQNTP 76 :: :::::::::::: : ::::::::::: :: :: : d1jv1a_ 121 RKTLFQIQAERILKLQQVAEKYYGNKCIIPWYIMTSG----------------RT-ME-S 162 d1im5a_ 77 GAEFV----VD-LPEDAVIISKATEPD-------------------KEAYS-GFEGT--- 108 ::::: :: ::::::::::::::: ::::: ::::: d1jv1a_ 163 TKEFFTKHKYFGLKKENVIFFQQGMLPAMSFDGKIILEEKNKVSMAPDGNGGLYRALAAQ 222 d1im5a_ 109 DLAKILRGNGVKRVYICGVAT-------------EYCVRATALDAL----KHGFEVYLLR 151 ::::::::::::::::::::: : :::::::: d1jv1a_ 223 NIVEDMEQRGIWSIHVYCVDNILVKVADPRFIGF-----------CIQKG--ADCGAKVV 269 d1im5a_ 152 -----DAVKGIKPEDEER-----------A---------------------LEE-M-K-- 170 :::::: : ::: : : d1jv1a_ 270 EKTNP-------TEPVGVVCRVDGVYQVVEYSEISLATAQKRSSDGRLLFNAGNIANHFF 322 d1im5a_ 171 ----------------------------------------------------S-----RG 173 : :: d1jv1a_ 323 TVPFLRDVVNVYEPQLQHHVAQKKIPYVDTQGQLIKPDKPNGIKMEKFVFDIFQFAKKFV 382 d1im5a_ 174 IKIV----Q--------------------------------------------------- 178 :::: : d1jv1a_ 383 VYEVLREDEFSPLKNADSQNGKDNPTTARHALMSLHHCWVLNAGGHFIDENGSRLPAIPR 442 d1im5a_ 179 -------------------F---------------------------- 179 : d1jv1a_ 443 LKDANDVPIQCEISPLISYAGEGLESYVADKEFHAPLIIDENGVHELV 490 HHsearch alignment (Probability: 0.09 E-value:0.03) d1im5a_ 102 YSGFEGTDLAKILRGNGVKRVYICGVAT 129 :::::::::::::::::::::::::::: d1jv1a_ 216 YRALAAQNIVEDMEQRGIWSIHVYCVDN 243