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: T517_A.pdb A
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1vi2a1 | Putative shikimate dehydrogenase YdiB | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
| Hit | d2at2a2 | Aspartate carbamoyltransferase catalytic subunit | Aspartate/ornithine carbamoyltransferase | ATC-like | α/β |
Query <-- 0.883 --> IntermediateDALI alignment (Z-score: 4.6 Raw score:365.80) query 1 --------------GMENKKMNLLLfsgdydkALASLIIANAAREMEI-EVTIFCAFWgl 45 ::::::::::: :::::::::::::::: ::::::::: d1vi2a1 1 dgtghiraikesgfDIKGKTMVLLG------aGGASTAIGAQGAIEGLkEIKLFNRRD-- 52 query 46 LLLRdpekasqedkslyeqafssltpreaeelplskmnlggigkkmllemmkeekapkls 105 :::: d1vi2a1 53 EFFD-------------------------------------------------------- 56 query 106 dlLSGARKKE------VKFYAXQlsveimgfkkeelfpevqimDVKEYLKNALESDLQLF 159 :::::::: ::::::: ::::::::::::::::: d1vi2a1 57 kaLAFAQRVNentdcvVTVTDLA--------------------DQQAFAEALASADILTN 96 query 160 ------------------------------------------------------------ 160 d1vi2a1 97 gtkvgmkpleneslvndisllhpgllvtecvynphmtkllqqaqqagcktidgygmllwq 156 query 160 -------------------------i 160 d1vi2a1 157 gaeqftlwtgkdfpleyvkqvmgfga 182 FAST alignment (Normalized score: 4.17 Raw score:711.70) query 1 --------------GMENKKMNLLLFSGDYDK---ALASLIIANAAREME-IEVTIFCA- 41 ::::::::: ::::::::::::::: :::::::: d1vi2a1 1 DGTGHIRAIKESGFDIKGKTMVL---------LGAGGASTAIGAQGAIEGLKEIKLFNRR 51 query 42 FWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKEEKA 101 ::::: d1vi2a1 52 DEFFD------------------------------------------------------- 56 query 102 PK-LSDLLSGARK---KEVKFYAXQLSVEIMGFKKEELFPEVQIM--DVKEYLKNALESD 155 :::::::::: ::::::: ::::::::::::: d1vi2a1 57 --KALAFAQRVNENTDCVVTVTD----------------------LADQQAFAEALASAD 92 query 156 LQLFI------------------------------------------------------- 160 ::: d1vi2a1 93 ILT--NGTKVGMKPLENESLVNDISLLHPGLLVTECVYNPHMTKLLQQAQQAGCKTIDGY 150 query 161 -------------------------------- 161 d1vi2a1 151 GMLLWQGAEQFTLWTGKDFPLEYVKQVMGFGA 182 TMalign alignment (TM-score: 0.31 Raw score:49.46) query 1 ------GMENKKMNL------------LLFSGDYD-KALASLIIAN-AAR--EMEIEVTI 38 :::: ::::: :::::::::: ::: d1vi2a1 1 DGTGHI-----RAIKESGFDIKGKTMV---LLGAGGASTAIGAQGAIEGLKE-------- 44 query 39 FCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKE 98 ::::::::: : ::::::::::::: d1vi2a1 45 ----------------------------------IKLFNRRDE-F--FDKALAFAQRVNE 67 query 99 EK-APKLS------------DLLSGARKKEVKFYA----XQLS----VEIMG--FKKEEL 135 :: ::::: ::::: : ::: : :::: :::::: d1vi2a1 68 NTDCVVTVTDLADQQAFAEA--LASAD---I-LTNGTKV---GMKPL-ENESLVNDISLL 117 query 136 FPEV-Q---------------IMD-----VKEYLKNALESDLQL---------------- 158 :::: : ::: ::: ::: ::::: d1vi2a1 118 HPGLLVTECVYNPHMTKLLQQAQQAGCKT--IDG-YGM-LLWQGAEQFTLWTGKDFPLEY 173 query 159 ---------FI 160 d1vi2a1 174 VKQVMGFGA-- 182 HHsearch alignment (Probability: 0.01 E-value:0.14) query 102 PKLSDLLSGARKKEVKFY 119 :::::::::::::::::: d1vi2a1 130 PHMTKLLQQAQQAGCKTI 147
Intermediate <-- 1.156 --> HitDALI alignment (Z-score: 6.7 Raw score:565.00) d1vi2a1 1 dgtghiraikesgfdIKGKTMVLLGA---GGASTAIGAQGAIEGLkEIKLFNRrDEFFdk 57 ::::::::::: :::::::::::::::: ::::::: :::: d2at2a2 1 ---------------FKGLTVSIHGDikhSRVARSNAEVLTRLGA-RVLFSGP-SEWQ-- 41 d1vi2a1 58 alafAQRVnentdcvVTVTDLadqqaFAEAlASADILTNGTKV-----------gmkple 106 :::: :::::: :::: :::::::::::: d2at2a2 42 --deENTF-------GTYVSM-----DEAV-ESSDVVMLLRIQnerhqsavsqegylnky 86 d1vi2a1 107 nESLVndISLLHPGLLVTECVYnpHMTK--llQQAQQAGcKTIDgYGMLLWQGAEQFTLW 164 :::: ::::::::::::::: :::: ::::::: :::: ::::::::::::::: d2at2a2 87 gLTVE-rAERMKRHAIIMHPAP--VNRGveidDSLVESE-KSRI-FKQMKNGVFIRMAVI 141 d1vi2a1 165 TGKdfpleyvkqvmgfga 182 ::: d2at2a2 142 QCA--------lqtnvkr 151 FAST alignment (Normalized score: 5.01 Raw score:831.50) d1vi2a1 1 DGTGHIRAIKESGFDI-KGKTMVLLGA-----GGASTAIGAQGAIEGLKEIKLFNRRDEF 54 :::::::: ::::::::::::: ::::::::: d2at2a2 1 ----------------FKGLTVSIH--GDIKHSRVARSNAEVLTR-LGARVLFSG----- 36 d1vi2a1 55 FDKALAFAQRVNENTD---------CVVTVTDLADQQ-AFAEALASADILTNGTKVGMKP 104 :::::: :::: ::::::::: d2at2a2 37 ----------------PSEWQDEENTFGTYV------SMDEA-VESSDVVML-------- 65 d1vi2a1 105 LENESLV------------------------NDIS-LLHPGLLVTECVYNPHM------- 132 :::: ::::::::::::: d2at2a2 66 -------LRIQNERHQSAVSQEGYLNKYGLTVERAERMKRHAIIMHPAP----VNRGVEI 114 d1vi2a1 133 -TKLLQQAQQAGCKTI----DGYGMLLWQGAEQFTLWTGKDFPLEYVKQVMGFGA----- 182 ::::: :::::::::::::::::: d2at2a2 115 DDSLVE----------SEKSRIFKQMKNGVFIRMAVIQ-----------------CALQT 147 d1vi2a1 183 ---- 183 d2at2a2 148 NVKR 151 TMalign alignment (TM-score: 0.52 Raw score:95.34) d1vi2a1 1 DGTGHIRAIKESGFDIKGKTMVLLG-A--GGASTAIGAQGAIEGLKEIKLFNRRDEFFDK 57 :::::::::: : :::::::::::::::: ::::::::: :: d2at2a2 1 ---------------FKGLTVSIHGDIKHSRVARSNAEVLTRLGA-RVLFSGPSE-WQ-- 41 d1vi2a1 58 ALAFAQRVNENTDCVVTVTDLADQQAFAEALASADILTNGTKVG--------MKPL---- 105 :: : :: ::::: :: :::: ::::::::::::: : d2at2a2 42 DE-E--NT------FGTYV---SM--DEAV-ESSDVVMLLRIQNERHQSAVS---QEGYL 83 d1vi2a1 106 ---ENESLVNDISLLHPGLLVTECVYNPHMTK---L-LQQAQQAGCKTID-GYGMLLWQG 157 ::::::::::::::::::::: : :: : :::::: :::::: ::::::::: d2at2a2 84 NKY--GLTVERAERMKRHAIIMHPAP-V--NRGVEIDDSLVES-EKSRIFKQMKNGVFIR 137 d1vi2a1 158 AEQFTLWTG-KD--FPLEYVKQVMGFGA 182 ::::::::: :: d2at2a2 138 MAVIQCALQTNVKR-------------- 151 HHsearch alignment (Probability: 0.67 E-value:0.00) d1vi2a1 16 IKGKTMVLLGA---GGASTAIGAQGAIEGLKEIKLFNRRDEFFDKALAFAQRVNENTDCV 72 ::::::::::: ::::::::::::::::: :::::::::::: d2at2a2 1 FKGLTVSIHGDIKHSRVARSNAEVLTRLGAR-VLFSGPSEWQDE---------------- 43 d1vi2a1 73 VTVTDLADQQAFAEALASADILTNGTKVGMK 103 ::::::::::::::::::::: ::::::: d2at2a2 44 --ENTFGTYVSMDEAVESSDVVM-LLRIQNE 71