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: T542_A.pdb A
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 <-- 1.735 --> IntermediateDALI alignment (Z-score: 11.0 Raw score:898.40) query 1 slqlrlalnqidstvgdiagnaeailrwtrhsaeqgahlvafpemaltgypvedlalrss 60 d1k92a1 1 ------------------------------------------------------------ 1 query 61 fveasrtalrelaarlaeegfgelpvlvgyldrsesaqpkygqpagaprnaaavlhrgrv 120 d1k92a1 1 ------------------------------------------------------------ 1 query 121 altfakhhlpnygvfdefryfvpgdtmpivrlhgvdialaicedlwqdggrvpaarsaga 180 d1k92a1 1 ------------------------------------------------------------ 1 query 181 glllsvnaspyerdkddtrlelvrkraqeagcttaylamiggqdelvfdgdsivvdrdge 240 d1k92a1 1 ------------------------------------------------------------ 1 query 241 vvarapqfsegcvvldldlpaaeaepptgvvddglridrlviseeplpayeaelaggyad 300 d1k92a1 1 ------------------------------------------------------------ 1 query 301 rldadeevysalvvGLRAyvakngfRSVLIGLSGGIDSALVAAIACDALGaqNVYGVSMP 360 :::: ::::::::::::::::::::::::: :::::::: d1k92a1 1 ---------ttilkHLPV------gQRIGIAFSGGLDTSAALLWMRQKGA--VPYAYTAN 43 query 361 SKY-SSDHsKGDAAELARRTGL-NFRTVSIEPMFDAYMASLG-----------ltGLAEE 407 ::: :::: ::::::::::::: ::::::::::::::::::: ::::: d1k92a1 44 LGQpDEED-YDAIPRRAMEYGAeNARLIDCRKQLVAEGIAAIqcgafhnttggltYFNTT 102 query 408 NLQSRLRGTTLMAISNQEGH-IVLAPGnkselaVGYST-lyGDSV--------gAYGPIK 457 :::::::::::::::::::: :::::: ::::: :::: :::::: d1k92a1 103 PLGRAVTGTMLVAAMKEDGVnIWGDGS-----tYKGNDierFYRYglltnaelqIYKPWL 157 query 458 -------dVYKTSIFRLAEWRNRaaaergqtppipeasITKPDypvldailelyvdrdtg 510 ::::::::::::::: ::::: d1k92a1 158 dtdfidelGGRHEMSEFMIACGF-------------dyKMSVE----------------- 187 query 511 adaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 568 d1k92a1 188 ---------------------------------------------------------k 188 FAST alignment (Normalized score: 4.46 Raw score:1458.00) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1k92a1 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1k92a1 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1k92a1 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1k92a1 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1k92a1 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGF----------RSVLIGLSGGIDSALVAAIACDALG 350 :::::::::::::::::::::: d1k92a1 1 -------------------------TTILKHLPVGQRIGIAFSGGLDTSAALLWMRQ--- 32 query 351 AQ---NVYGVSMPSKYSSDH------SKGDAAELARRTGL-NFRTVSIEPMFDAYMASLG 400 ::::::::: :::::::::::::: ::::::::::::::::: d1k92a1 33 --KGAVPYAYTANL------GQPDEEDYDAIPRRAMEYGAENARLIDCRKQLVAEGIA-- 82 query 401 LTG----------------LAEENLQSRLRGTTLMAISNQEG-HIVLAPGNKSELAVGYS 443 ::::::::::::::::::::::: :::::::::: d1k92a1 83 ---AIQCGAFHNTTGGLTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDGSTYK------- 132 query 444 TLY------GDSVG---------AYGPIKDVYKTS-----------IFRLAEWRNRAAAE 477 :::: :::: ::::::::::: d1k92a1 133 ---GNDIERFYRY-GLLTNAELQIYKP--------WLDTDFIDELGGRHEMSEFMIA--- 177 query 478 RGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYK 537 d1k92a1 178 ------------------------------------------------------------ 178 query 538 RRQYPPGTKISAKGFGKDRRLPITNRWREGH----------- 568 d1k92a1 178 -------------------------------CGFDYKMSVEK 188 TMalign alignment (TM-score: 0.25 Raw score:141.19) query 1 ---SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLAL 57 d1k92a1 1 TTI--------------------------------------------------------- 3 query 58 RSSFVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHR 117 d1k92a1 4 ------------------------------------------------------------ 4 query 118 GRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARS 177 d1k92a1 4 ------------------------------------------------------------ 4 query 178 AGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDR 237 :: d1k92a1 4 ----------------------------------------------LK------------ 5 query 238 DGEVVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGG 297 d1k92a1 6 ------------------------------------------------------------ 6 query 298 YADRLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGV 357 :: ::: ::::::::::::::::::::::::: ::::: d1k92a1 6 -----------------HL--PVG----QRIGIAFSGGLDTSAALLWMRQKGA--VPYAY 40 query 358 SMPSKYSSDHSKGDAAELARRTGL-NFRTVSIEPMFDAYMASLG---LT--------GLA 405 :::::::::::::::::::::::: ::::::::::::::::::: :: ::: d1k92a1 41 TANLGQPDEEDYDAIPRRAMEYGAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFN 100 query 406 EENLQSRLRGTTLMAISNQEGH-IVLAPGNKSELAVGYSTL-YGDS--V-------GAYG 454 :::::::::::::::::::::: :::::: :: ::::: ::: : :::: d1k92a1 101 TTPLGRAVTGTMLVAAMKEDGVNIWGDGS---TY--KGNDIE-RFYRYGLLTNAELQIYK 154 query 455 PIKD---VY-KTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTG 510 :::: :: ::::::::::::::: : ::: ::: :: d1k92a1 155 PWLDTDFIDE-LGGRHEMSEFMIACG-----F-DYK--MSV-EK---------------- 188 query 511 ADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1k92a1 189 ---------------------------------------------------------- 189 HHsearch alignment (Probability: 0.96 E-value:0.00) query 326 RSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGL-NFR 384 ::::::::::::::::::::::: ::::::::::::::::::::::::::::::: ::: d1k92a1 11 QRIGIAFSGGLDTSAALLWMRQK--GAVPYAYTANLGQPDEEDYDAIPRRAMEYGAENAR 68 query 385 TVSIEPMFDAYMASLGLTGLAEENLQSR-----------LRGTTLMAISNQEGHIVLAPG 433 :::::::::::::::::::::::::::: ::::::::::::::::::::: d1k92a1 69 LIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDG 128 query 434 ------NKSELAVGYSTLYGDSVGAYGPIKDVY-------KTSIFRLAEWRN 472 ::::::::::::::: ::::::::::: :::::::::::: d1k92a1 129 STYKGNDIERFYRYGLLTNAE-LQIYKPWLDTDFIDELGGRHEMSEFMIACG 179
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