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 | d1vkya_ | Queuosine biosynthesis protein queA | QueA-like (Pfam 02547) | QueA-like (Pfam 02547) | multi |
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 <-- 0.765 --> HitDALI alignment (Z-score: 2.7 Raw score:340.50) d1im5a_ 1 ------------------------------------------------PEEALIVVD--- 9 ::::::::: d1vkya_ 1 sefdyelppeliaqepveprdasrlmvlhrktqriehrifreiieylePGDLLVLNVskv 60 d1im5a_ 10 -----------------------------------------------------------m 10 d1vkya_ 61 iparlyarkasieillierleegiwkclvrpgqkvkkgtelvidedlsavclgrgedgtr 120 d1im5a_ 11 qrdfmpggalpvpegdkiiPKVNE-yIRKFKEKGALIVATRDWHpenhisfrerggpwpr 69 ::::: :::::::::::::::::: d1vkya_ 121 ilkfqpqddrlifekgtagLHFTPelIEKLKKKGVQFAEVVLHV---------------- 164 d1im5a_ 70 hcvqntpgaefvvdlpedaviiskatepDKEAYSGfegTDLAKILRGNG--vKRVYICGv 127 ::::::: ::::::::::: ::::::: d1vkya_ 165 ----------------------------HEEFYQV--pKETVRKLRETRergNRIVAVG- 193 d1im5a_ 128 ateyCVRATALDALK--------------------hgfeVYLLrdaVKGIKP-EDEERAL 166 ::::::::::: :::: :::::: ::::::: d1vkya_ 194 ---tTTVRTLETIARlpeqeeyvgktdlfiyppfefklvDALV---TNFHLPrSTLLMLV 247 d1im5a_ 167 EEMKS---------------------rgiKIVQf 179 ::::: :::: d1vkya_ 248 AAFAGkdfvmeayreavkrryrffsfgdaMLIL- 280 FAST alignment (Normalized score: 1.11 Raw score:248.50) d1im5a_ 1 P-------------------------------------------------EEALIVVDMQ 11 :::::: d1vkya_ 1 -SEFDYELPPELIAQEPVEPRDASRLMVLHRKTQRIEHRIFREIIEYLEPGDLLVL---- 55 d1im5a_ 12 RDFMPGGALPVPEG---------------------------------------------- 25 d1vkya_ 56 --------------NVSKVIPARLYARKASIEILLIERLEEGIWKCLVRPGQKVKKGTEL 101 d1im5a_ 26 ----------------------------------DKIIPK-VNEYIRKFKEKGALIVATR 50 :::::: ::::::::::::::::::: d1vkya_ 102 VIDEDLSAVCLGRGEDGTRILKFQPQDDRLIFEKGTAGLHFTPELIEKLKKKGVQFAEVV 161 d1im5a_ 51 DWHPENHISFRERGGPWPRHCVQNTPGAEFVVDLPEDAVIISKATEPDKEAYSGFEGTDL 110 : d1vkya_ 162 L----------------------------------------------------------- 162 d1im5a_ 111 AKILRGNGVKRVYICGVATE----------YCVRATALDALKHGFEVYLLRDAVKGIKPE 160 ::::::::::::::::::: d1vkya_ 163 --------------------HVHEEFYQVPKETVRKLRETRERGNRIVA----------- 191 d1im5a_ 161 DEERALEEMKSRGIKIVQF----------------------------------------- 179 d1vkya_ 192 -------------------VGTTTVRTLETIARLPEQEEYVGKTDLFIYPPFEFKLVDAL 232 d1im5a_ 180 ------------------------------------------------ 180 d1vkya_ 233 VTNFHLPRSTLLMLVAAFAGKDFVMEAYREAVKRRYRFFSFGDAMLIL 280 TMalign alignment (TM-score: 0.44 Raw score:78.12) d1im5a_ 1 ------------PEEALIVVDMQRDFMPGG------ALPVPEGDKII-----------PK 31 :::: :::: :: d1vkya_ 1 SEFDYELPPELI--------------AQEPVEPRDA-------SRLMVLHRKTQRIEHRI 39 d1im5a_ 32 VNEYIRKFKEKGALIVATRDWHPENHIS-------------------------------- 59 ::::::::: ::::::::::: ::: d1vkya_ 40 FREIIEYLE--PGDLLVLNVSK---VIPARLYARKASIEILLIERLEEGIWKCLVRPGQK 94 d1im5a_ 60 ------------------------------------------FRERGGPWPRHCVQNTPG 77 : d1vkya_ 95 VKKGTELVIDEDLSAVCLGRGEDGTRILKFQPQDDRLIFEKG-----------------T 137 d1im5a_ 78 -AEFVV---DL--PE--DAVIISKATEP-DKEAYSGFEGT-DLAKILRGN-GVKRVYICG 126 :::: :: :: ::::::::::: :::: ::: ::::::::: ::::::::: d1vkya_ 138 A-GLHFTPELIEKLKKKGVQFAEVVLHVHEEFY----QVPKETVRKLRETRERGNRIVAV 192 d1im5a_ 127 VATEYCVRATALDALK--H-----------------GFEVYLLRDAVKGIKPE-DEERAL 166 : : ::::::::::: : ::::::: :::::::: :::::: d1vkya_ 193 G-T--TTVRTLETIARLPEQEEYVGKTDLFIYPPFEFKLVDAL--VTNFHLPRSTLLMLV 247 d1im5a_ 167 EEMKS---RGIKI---------------------VQF 179 ::::: : ::: d1vkya_ 248 AAFAGKDF----VMEAYREAVKRRYRFFSFGDAMLIL 280 HHsearch alignment (Probability: 0.31 E-value:0.01) d1im5a_ 91 ISKATEPDKEAYSGFEGTDLAKILRGNGVKRVYIC------GVATEYCVRATALDALKHG 144 ::::::::::::::::::::::::::::::::::: ::::::::::::::::::: d1vkya_ 127 QDDRLIFEKGTAGLHFTPELIEKLKKKGVQFAEVVLHVHEEFYQVPKETVRKLRETRERG 186 d1im5a_ 145 FEVYLL 150 :::::: d1vkya_ 187 NRIVAV 192