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_Ad1.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1jfla2 | Aspartate racemase | Aspartate/glutamate racemase | ATC-like | α/β |
| Hit | d1gsoa2 | Glycinamide ribonucleotide synthetase (GAR-syn), N-domain | PreATP-grasp domain | PreATP-grasp domain | α/β |
Query <-- 0.802 --> IntermediateDALI alignment (Z-score: 1.0 Raw score:191.90) query 1 slqLRLALNQ-------------------------------IDST------VGDIAGNAE 23 ::::::: :::: ::::::::: d1jfla2 1 --fKKAGLLAttgtivsgvyekefskygveimtptedeqkdVMRGiyegvkAGNLKLGRE 58 query 24 AILRWTRHSAEQGAHLVAF-PEMAltgypvedlalrssfveasrtalrelAARLaeegfg 82 ::::::::::::::::::: :::: :::: d1jfla2 59 LLLKTAKILEERGAECIIAgCTEV----------------------svvlKQDD-----l 91 query 83 ELPVLvgyldrsesaqpkygqpagaprnaaavlhrgrvaltfakhhlpnygvfdefryfv 142 ::::: d1jfla2 92 KVPLI------------------------------------------------------- 96 query 143 pgdtmpivrlhgvdialaicedlwqdggrvpaarsagaglllsvnaspyerdkddtrlel 202 d1jfla2 97 ------------------------------------------------------------ 97 query 203 vrkraqeagcttaylamiggqdelvfdgdsivvdrdgevvarapqfsegcvvldldlpaa 262 d1jfla2 97 ------------------------------------------------------------ 97 query 263 eaepptgvvddglridrlviseeplpayeaelaggyadrl 302 d1jfla2 97 -----------------------dpmdviaevavkvalek 113 FAST alignment (Normalized score: 1.26 Raw score:232.10) query 1 SLQLRLALNQIDSTVGDIAGNAEAI---------------LRWTRHSAEQGAHLVAFPEM 45 :::::::::::: d1jfla2 1 -------------------------FKKAGLLATTGTIVSGVYEKEFSKYGV-------- 27 query 46 ALTGYPVEDLALRSSFVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPA 105 d1jfla2 28 ------------------------------------------------------------ 28 query 106 GAPRNAAAVLHRGRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDL 165 d1jfla2 28 ------------------------------------------------------------ 28 query 166 WQDG----------------------------------GRVPAARSAGAGLLLSVNASPY 191 :::::::::::::::: d1jfla2 28 ----EIMTPTEDEQKDVMRGIYEGVKAGNLKLGRELLLKTAKILEERGAECIIA------ 77 query 192 ERDKD--DTRLELVRK-RAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAPQF 248 :::::: ::::::::::: d1jfla2 78 -----GCTEVSVV---LKQDDLKVPLID-------------------------------- 97 query 249 SEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRL------ 302 d1jfla2 98 ------------------------------------------------------PMDVIA 103 query 303 ---------- 303 d1jfla2 104 EVAVKVALEK 113 TMalign alignment (TM-score: 0.20 Raw score:60.72) query 1 -SLQLR-LA-LN-QIDSTV-GDIAGN--AEAI--LRWT-RHSAEQGAHLV-AF-----PE 44 : : : :::: : : :: :: :::::: : d1jfla2 1 F----KK-AG-LL--ATTGT-----IVS---GVY--EKE-FS--KYGVEIM-TPTEDE-- 36 query 45 MA-LTG-YPV---EDLALRSSFVEASRTALRELAARLAEEGFGELPVLVG-Y--LDRSES 96 : ::: ::: :: :::::::::::::::::::: : : ::::: : :: d1jfla2 37 -QKDVMRGIYEGVKA-GNLKLGRELLLKTAKILEER-G----A--ECIIAGCTEVS---- 83 query 97 AQPKYGQPAGAPRNAAA--VLHRGRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHG 154 ::::: :::::::: d1jfla2 84 ------------VVLKQDD-----LKVPLIDP---------------------------- 98 query 155 VDIALAICEDLWQDGGRVPAARSAGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTT 214 :::: : : : : :::::: d1jfla2 99 ----MDVI--A------E----------V-------------------A--VKVALE--- 112 query 215 AYLAMIGGQDELVFDGDSIVVDRDGEVVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDG 274 : d1jfla2 113 -----------------------K------------------------------------ 113 query 275 LRIDRLVISEEPLPAYEAELAGGYADRL 302 d1jfla2 114 ---------------------------- 114 HHsearch alignment (Probability: 0.06 E-value:0.03) query 16 GDIAGNAEAILRWTRHSAEQGAHLVAF 42 ::::::::::::::::::::::::::: d1jfla2 51 GNLKLGRELLLKTAKILEERGAECIIA 77
Intermediate <-- 0.835 --> HitDALI alignment (Z-score: 5.2 Raw score:299.40) d1jfla2 1 -fKKAGLLATTGTIVsGVYEKEFSKYGV-EIMTP-----------tedEQKDVmrgiyeg 47 ::::::::::::: :::::::::::: ::::: ::::: d1gsoa2 1 efMKVLVIGNGGREH-ALAWKAAQSPLVeTVFVApgnagtalepalqnVAIGV------- 52 d1jfla2 48 vkagnlklgreLLLKTAKILEERGAECIIAGCTEVSVVLKQDDL---KVPLIDPmdviae 104 ::::::::::::::::::::::::::::::::: ::::::: d1gsoa2 53 ----------tDIPALLDFAQNEKIDLTIVGPEAPLVKGVVDTFraaGLKIFGP------ 96 d1jfla2 105 vavkvalek 113 d1gsoa2 97 tagaaqleg 105 FAST alignment (Normalized score: 4.74 Raw score:516.70) d1jfla2 1 -FKKAGLLATTGTIVSGVYEKEFSKYG---VEIMTPTEDEQKDVMRGIYEGVKAGNLKL- 55 ::::::::::::: :::::::::: ::::: d1gsoa2 1 EFMKVLVIGNGGRE--HALAWKAAQS-PLVETVFV------------------------A 33 d1jfla2 56 --------------------GRELLLKTAKILEERGAECIIAGCTEVSVVL--KQDD--- 90 :::::::::: :::::::::::::::: :::: d1gsoa2 34 PGNAGTALEPALQNVAIGVTDIPALLDFAQ---NEKIDLTIVGPEAPLV--KGVVDTFRA 88 d1jfla2 91 LKVPLIDPMDVIAEVAVKVALEK------------ 113 ::::: d1gsoa2 89 AGLKI------------------FGPTAGAAQLEG 105 TMalign alignment (TM-score: 0.51 Raw score:58.05) d1jfla2 1 -FKKAGLLATTGTIVSGVYEKEFSKYG-V-EIMTP--------------TEDEQKDVMRG 43 ::::::::: ::: :::::::::::: : ::::: :: : :: : d1gsoa2 1 EFMKVLVIGN-GGR-EHALAWKAAQSPLVETVFVAPGNAGTALEPALQNVA-I--GV--T 53 d1jfla2 44 IYEGVKAGNLKLGRELLLKTAKILEERGAECIIAGCTEVSVVLKQDDL---KVPLIDPM- 99 ::::::::::::::::::::::::::::::::: :::::: : d1gsoa2 54 ---------------DIPALLDFAQNEKIDLTIVGPEAPLVKGVVDTFRAAGLKIFG-PT 97 d1jfla2 100 --------DVIAEVAVKVALEK 113 d1gsoa2 98 AGAAQLEG-------------- 105 HHsearch alignment (Probability: 0.04 E-value:0.06) d1jfla2 1 FKKAGLLATTGTIVSGVYEKEFSKYG-VEIMT--PTEDEQKDVMRGIYEGVKAGNLKLGR 57 :::::::::::: :::::::::::: ::::: ::::::::: :::::: :::: d1gsoa2 2 FMKVLVIGNGGR--EHALAWKAAQSPLVETVFVAPGNAGTALE--PALQNV-----AIGV 52 d1jfla2 58 ELLLKTAKILEERGAECIIAGCTEVSVVLKQ----DDLKVPLIDPMDVIAE 104 ::::::::::::::::::::: ::::::::: :::::::::::::::: d1gsoa2 53 TDIPALLDFAQNEKIDLTIVG-PEAPLVKGVVDTFRAAGLKIFGPTAGAAQ 102