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 | d1k92a1 | Argininosuccinate synthetase, N-terminal domain | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1kjqa2 | Glycinamide ribonucleotide transformylase PurT, N-domain | PreATP-grasp domain | PreATP-grasp domain | α/β |
Query <-- 1.588 --> IntermediateDALI alignment (Z-score: 11.2 Raw score:922.90) query 1 dadeevysalvvGLRAyvakngfRSVLIGLSGGIDSALVAAIACDALGaqNVYGVSMPSK 60 :::: ::::::::::::::::::::::::: :::::::::: d1k92a1 1 -------ttilkHLPV------gQRIGIAFSGGLDTSAALLWMRQKGA--VPYAYTANLG 45 query 61 Y-SSDHsKGDAAELARRTGL-NFRTVSIEPMFDAYMASLG-----------ltGLAEENL 107 : :::: ::::::::::::: ::::::::::::::::::: ::::::: d1k92a1 46 QpDEED-YDAIPRRAMEYGAeNARLIDCRKQLVAEGIAAIqcgafhnttggltYFNTTPL 104 query 108 QSRLRGTTLMAISNQEGH-IVLAPGNKselavGYST-lyGDSV--------gAYGPIKD- 156 :::::::::::::::::: :::::::: :::: :::: ::::::: d1k92a1 105 GRAVTGTMLVAAMKEDGVnIWGDGSTY-----KGNDierFYRYglltnaelqIYKPWLDt 159 query 157 --vyktSIFRLAEWRNRAAAergqtppipeasITKPDYpvldailelyvdrdtgadaiva 214 :::::::::::::: :::::: d1k92a1 160 dfidelGGRHEMSEFMIACG---------fdyKMSVEK---------------------- 188 query 215 agydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 266 d1k92a1 189 ---------------------------------------------------- 189 FAST alignment (Normalized score: 6.79 Raw score:1519.00) query 1 DADEEVYSALVVGLRAYVAKNGF----------RSVLIGLSGGIDSALVAAIACDALGAQ 50 :::::::::::::::::::::: d1k92a1 1 -----------------------TTILKHLPVGQRIGIAFSGGLDTSAALLWMRQ----- 32 query 51 ---NVYGVSMPSKYSSDH------SKGDAAELARRTG-LNFRTVSIEPMFDAYMA---SL 97 ::::::::: ::::::::::::: ::::::::::::::::: :: d1k92a1 33 KGAVPYAYTANL------GQPDEEDYDAIPRRAMEYGAENARLIDCRKQLVAEGIAAIQC 86 query 98 GLTG----------LAEENLQSRLRGTTLMAISNQEG-HIVLAPGNKSELAVGYSTLY-- 144 :: ::::::::::::::::::::::: :::::::::: d1k92a1 87 GA--FHNTTGGLTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDGSTYK----------GN 134 query 145 ----GDSVG---------AYGPIKD----------VYKTSIFRLAEWRNRAAAERGQTPP 181 :::: :::: :::::::::::: d1k92a1 135 DIERFYRY-GLLTNAELQIYKP---WLDTDFIDELGGRHEMSEFMIA------------- 177 query 182 IPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPP 241 d1k92a1 178 ------------------------------------------------------------ 178 query 242 GTKISAKGFGKDRRLPITNRWREGH----------- 266 d1k92a1 178 -------------------------CGFDYKMSVEK 188 TMalign alignment (TM-score: 0.49 Raw score:130.18) query 1 ----DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVS 56 ::: :: :::::::::::::::::::::::::: :::::: d1k92a1 1 TTIL-----------KHL---PV---GQRIGIAFSGGLDTSAALLWMRQKGA--VPYAYT 41 query 57 MPSKYSSDHSKGDAAELARRTGL-NFRTVSIEPMFDAYMASLG---LT--------GLAE 104 ::::::::::::::::::::::: ::::::::::::::::::: :: :::: d1k92a1 42 ANLGQPDEEDYDAIPRRAMEYGAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNT 101 query 105 ENLQSRLRGTTLMAISNQEGH-IVLAPGNKSELAVGYSTL-YGDS--V-------GAYGP 153 ::::::::::::::::::::: :::::: :: ::::: ::: : ::::: d1k92a1 102 TPLGRAVTGTMLVAAMKEDGVNIWGDGS---TY--KGNDIE-RFYRYGLLTNAELQIYKP 155 query 154 IKD---VY-KTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGA 209 ::: :: ::::::::::::::: : ::: ::: :: d1k92a1 156 WLDTDFIDE-LGGRHEMSEFMIACG-----F-DYK--MSV-EK----------------- 188 query 210 DAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 d1k92a1 189 --------------------------------------------------------- 189 HHsearch alignment (Probability: 0.97 E-value:0.00) query 24 RSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGL-NFR 82 ::::::::::::::::::::::: ::::::::::::::::::::::::::::::: ::: d1k92a1 11 QRIGIAFSGGLDTSAALLWMRQK--GAVPYAYTANLGQPDEEDYDAIPRRAMEYGAENAR 68 query 83 TVSIEPMFDAYMASLGLTGLAEENLQSR-----------LRGTTLMAISNQEGHIVLAPG 131 :::::::::::::::::::::::::::: ::::::::::::::::::::: d1k92a1 69 LIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDG 128 query 132 ------NKSELAVGYSTLYGDSVGAYGPIKDVY-------KTSIFRLAEWRNRAAAERGQ 178 :::::::::::::::::: :::::::: :::::::::::::::::::: d1k92a1 129 STYKGNDIERFYRYGLLTNAELQI-YKPWLDTDFIDELGGRHEMSEFMIACGFDYKMSVE 187 query 179 T 179 : d1k92a1 188 K 188
Intermediate <-- 1.607 --> HitDALI alignment (Z-score: 5.8 Raw score:430.40) d1k92a1 1 -ttilkhlpvGQRIGIAFSGGlDTSAALLWMRQKGAVPYAYTAnlgqpdeedYDAIprRA 59 ::::::::::: ::::::::::::::::::::: :::: :: d1kjqa2 1 tllgtalrpaATRVMLLGSGE-LGKEVAIECQRLGVEVIAVDR---------YADA--PA 48 d1k92a1 60 MEYgAENARLIDcrkqlvaegiaaiqcgafhnttggltyfnttplgraVTGTMLVAAMKE 119 ::: :::::::: :::::::::::: d1kjqa2 49 MHV-AHRSHVIN-----------------------------------mLDGDALRRVVEL 72 d1k92a1 120 DGVNIWGDGSTykgndierFYRYGLLTN-AELQIYKpwldtdfidelggrhemsefmiac 178 ::::::::::: ::::::::: ::::::: d1kjqa2 73 EKPHYIVPEIE------aiATDMLIQLEeEGLNVVP------------------------ 102 d1k92a1 179 gfdykmsvek 188 d1kjqa2 103 -caratkltm 111 FAST alignment (Normalized score: 5.17 Raw score:746.10) d1k92a1 1 TTILKHLPV------GQRIGIAFSGGLDTSAALLWMRQKGAVPYAYTANLGQPDEEDYDA 54 :::: :::::: ::::::::::::::::::::::::: d1kjqa2 1 ----TLLG-TALRPAATRVML-LGSGELGKEVAIECQRLGVEVIAVD------------- 41 d1k92a1 55 IP----RRAMEYGAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNTTPLGRAV-- 108 ::::: :::::::: d1kjqa2 42 --RYADAPAMH-VAHRSHVI--------------------------------------NM 60 d1k92a1 109 ----TGTMLVAAMKEDGVNIWGDGSTYKGNDI------ERFYRYGLLTNAELQIYKPWLD 158 ::::::: ::::::::: ::::::::: ::::: d1kjqa2 61 LDGDALRRVVE---LEKPHYIVP---------EIEAIATDMLIQLEE--EGLNV------ 100 d1k92a1 159 TDFIDELGGRHEMSEFMIACGFDYKMSVEK----------- 188 d1kjqa2 101 ------------------------------VPCARATKLTM 111 TMalign alignment (TM-score: 0.40 Raw score:74.82) d1k92a1 1 TTILKHLPVG-------QRIGIAFSGGLDTSAALLWMRQKGAVPYAYTANLGQPDEEDYD 53 : ::: ::::::::: ::::::::::::::::::::: : :: d1kjqa2 1 -----T-LLGTALRPAATRVMLLGSG-ELGKEVAIECQRLGVEVIAVD-R--------YA 44 d1k92a1 54 AIPRRAMEYGAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNTTPLGRAVTGT-M 112 :: ::::: ::::::: : : :: : : d1kjqa2 45 DA--PAMHV-AHRSHVI-N---------------------------------M-LD-GDA 65 d1k92a1 113 LVAAMKEDGVNIWGDGSTYKGND--IERFYRYGLLTN-AELQIYK---------PWLDTD 160 ::::::::::::::::: : :: ::::::: ::::::: d1kjqa2 66 LRRVVELEKPHYIVPEI-----EAI--AT-DMLIQLEEEGLNVVPCARATKLTM------ 111 d1k92a1 161 FIDELGGRHEMSEFMIACGFDYKMSVEK 188 d1kjqa2 112 ---------------------------- 112 HHsearch alignment (Probability: 0.28 E-value:0.01) d1k92a1 5 KHLPVGQRIGIAFSGGLDTSAALLWMRQKGAVPYAYTAN 43 ::::::::::: ::::::::::::::::::::::::::: d1kjqa2 6 ALRPAATRVML-LGSGELGKEVAIECQRLGVEVIAVDRY 43