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 | d1nyta1 | Shikimate 5-dehydrogenase AroE | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
| Hit | d1ks9a2 | Ketopantoate reductase PanE | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
Query <-- 0.853 --> IntermediateDALI alignment (Z-score: 3.8 Raw score:453.70) query 1 dadeevYSALVVGL--rAYVAkngfRSVLIGLSgGIDSALVAAIACDALGaqNVYGVSMp 58 :::::::: :::: :::::::: :::::::::::::::: ::::::: d1nyta1 1 -----dGVGLLSDLerlSFIR--pgLRILLIGA-GGASRGVLLPLLSLDC--AVTITNR- 49 query 59 skyssdhSKGDAAELARRTG----LNFRTVSiepmfdaymaslgltglaeenlqsrlrgt 114 ::::::::::::: ::::::: d1nyta1 50 -------TVSRAEELAKLFAhtgsIQALSMD----------------------------- 73 query 115 tlmaisNQEGH-IVLAPgnkselavGYSTLY-------gdsvgAYGPikdvyktsifrla 166 ::::: ::::: :::::: :::: d1nyta1 74 ----elEGHEFdLIINA----tssgISGDIPaipsslihpgiyCYDM------------- 112 query 167 ewrnraaaergqtppipeasitkpdypvldailelyvdrdtgadaivaagydrelvvktl 226 d1nyta1 113 ------------------------------------------------------------ 113 query 227 rmvdtaeyKRRQY-------------PPGTK-------------------iSAKGFG-KD 253 ::::: ::::: :::::: :: d1nyta1 113 ------fyQKGKTpflawceqrgskrNADGLgmlvaqaahafllwhgvlpdVEPVIKqLQ 166 query 254 RRlpitnrwregh 266 :: d1nyta1 167 EE---------ls 170 FAST alignment (Normalized score: 2.78 Raw score:591.60) query 1 DADEEV-YSALVVGLRAYVAKNGF-------RSVLIGLSGGIDSALVAAIACDALGAQ-N 51 :::::::::: ::::: :::::::::::::::: : d1nyta1 1 ------DGVGLLSDLER-------LSFIRPGLRILL-IGAGGASRGVLLPLLS-----LD 41 query 52 VYGVSMPSKYSSDH--SKGDAAELARRTG----LNFRTVSIEPMFDAYMASLGLTGLAEE 105 :::::: ::::::::::: :::::: d1nyta1 42 CAVTIT--------NRTVSRAEELAKL--FAHTGSIQAL--------------------- 70 query 106 NLQSRLRGTTLMAISNQEG---HIVLAPGNK-SELAVGYSTLYGDSVGAYGPIKDVYKTS 161 ::::::: :::::: :::::::::: d1nyta1 71 ------SMDELEG------HEFDLIINA---TSSGISGDIPA------------------ 97 query 162 IFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDREL 221 d1nyta1 98 ------------------------------------------------------------ 98 query 222 VVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH--------------- 266 d1nyta1 98 ---------------------------------------------IPSSLIHPGIYCYDM 112 query 267 ---------------------------------------------------------- 267 d1nyta1 113 FYQKGKTPFLAWCEQRGSKRNADGLGMLVAQAAHAFLLWHGVLPDVEPVIKQLQEELS 170 TMalign alignment (TM-score: 0.35 Raw score:94.08) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSK 60 :: :::::::::::::: :::::::::::::::::::::::: : :::::::: d1nyta1 1 --DG-VGLLSDLERLSFIR---PGLRILLIGAGGASRGVLLPLLSL-D--CAVTITNR-- 49 query 61 YSSDHSKGDAAELARRTGLNFRTVSIE-PM-------------FDAYMASLGLTGL-AEE 105 ::: :::::::::::::::::::::: : : :: d1nyta1 50 -TVS-RAEELAKLFAHTGSIQALSMDEL-EGHEFDLIINATSS------------GI-SG 93 query 106 NLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDS--V----G-AYGPIKDVY 158 : :: :::::::: : : :::::: :::::::: : : : : ::::::::: d1nyta1 94 D-IP-AIPSSLIH--P--G-IYCYDM---FYQKGKTP--F-LAWCEQRGSKRNADGLGML 140 query 159 KTSI-FRL--AEW------RNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGA 209 :::: :: : d1nyta1 141 VAQAA-HAFL--LWHGVLP----------------------------------------- 156 query 210 DAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 :::::::::::::: d1nyta1 157 -----------------------------------DVEPVIKQLQEELS-------- 170 HHsearch alignment (Probability: 0.04 E-value:0.17) query 7 YSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHS 66 ::::::::::::::::::::::::::::::::::::: ::::::::: ::: d1nyta1 2 GVGLLSDLERLSFIRPGLRILLIGAGGASRGVLLPLL--SLDCAVTIT---------NRT 50 query 67 KGDAAELARRTGLNFRTVSIE 87 ::::::::::::::::::::: d1nyta1 51 VSRAEELAKLFAHTGSIQALS 71
Intermediate <-- 1.549 --> HitDALI alignment (Z-score: 7.3 Raw score:508.30) d1nyta1 1 dgvgllsdlerlsfirpgLRILLIGAGGASRGVLLPLLSLDCAVTITNRTVSraEELA-- 58 :::::::::::::::::::::::::::::::::: :::: d1ks9a2 1 ------------------MKITVLGCGALGQLWLTALCKQGHEVQGWLRVPQ--PYCSvn 40 d1nyta1 59 --------KLFAhtgsIQALsmdeLEGH--EFDLIINATSsGISGDIP--AIPSSLIHpG 106 :::: :::: :::: :::::::::: ::::::: :::::::: : d1ks9a2 41 lvetdgsiFNES----LTAN----DPDFlaTSDLLLVTLK-AWQVSDAvkSLASTLPV-T 90 d1nyta1 107 IYCYDMFYQkGKTPflawcEQRGSkRNAD-----------------glgmlvaqaahafl 149 ::::::::: :::: ::::: :::: d1ks9a2 91 TPILLIHNG-MGTI--eelQNIQQ-PLLMgttthaarrdgnviihvangithigparqqd 146 d1nyta1 150 lwhgvlpdvepvikqlqeels 170 d1ks9a2 147 gdysyladilqtvlpdvawhn 167 FAST alignment (Normalized score: 4.56 Raw score:768.50) d1nyta1 1 DGVGLLSDLERLSFIRPGLRILLIGAGGASRGVLLPLLSLDCAVTITNRTVSRAEELAKL 60 :::::::::::::::::::::::::::::::: d1ks9a2 1 ------------------MKITVLGCGALGQLWLTALCKQGHEVQGWLRV---------- 32 d1nyta1 61 FAHTGSIQALSMDELEG-----------------------------HEFDLIINATSSGI 91 :::::::::: d1ks9a2 33 -----------------PQPYCSVNLVETDGSIFNESLTANDPDFLATSDLLLVTL---- 71 d1nyta1 92 SGDIPAI--------PSSL---IHPGIYCYDMFYQKGK--TPFLAWCEQRGSKRNAD--- 135 :::: ::::::::::: ::::::::::: :::: d1ks9a2 72 -------KAWQVSDAVKSLASTLPVTTPILLIH-----NGMGTIEELQNIQ-QPLL-MGT 117 d1nyta1 136 -------------------------------GLGMLVAQAAHAFLLWHGVLPDVEPVIKQ 164 ::::::::: d1ks9a2 118 TTHAARRDGNVIIHVANGITHIGPARQQDGDYSYLADILQ-------------------- 157 d1nyta1 165 LQEELS---------- 170 d1ks9a2 158 ------TVLPDVAWHN 167 TMalign alignment (TM-score: 0.54 Raw score:91.21) d1nyta1 1 DGVGLLSDLERLSFIRPGLRILLIGAGGASRGVLLPLLSLDCAVTITNRTVSRAEELAK- 59 :::::::::::::::::::::::::::::::::: :::::: d1ks9a2 1 ------------------MKITVLGCGALGQLWLTALCKQGHEVQGWLRVPQ-PYCSVNL 41 d1nyta1 60 --------LFAHTGSIQALSMDELE-GHEFDLIINATSSGISGDIP--AIPSSLIHPGIY 108 ::: :::: ::: :::::::::::: ::::::: ::::::::: :: d1ks9a2 42 VETDGSIFNES----LTAN---DPDFLATSDLLLVTLK-AWQVSDAVKSLASTLPVT-TP 92 d1nyta1 109 CYDMF-YQKGKTPFLAWCEQRGSKRNADGLGMLVAQA-----------AHAF-------- 148 ::::: ::::::: : :::::: ::::: :: :: :::: d1ks9a2 93 ILLIHNGMGTIEE--L--QNIQQP-LLMGT--TT-HAARRDGNVIIHVANGITHIGPARQ 144 d1nyta1 149 -----------------LLWHGVLPDVEPVIKQLQEELS 170 ::: :: : d1ks9a2 145 QDGDYSYLADILQTVLP--------DVA--WH--N---- 167 HHsearch alignment (Probability: 0.98 E-value:0.00) d1nyta1 20 RILLIGAGGASRGVLLPLLSLDCAVTITNRTVSRAEELAKLFAHTG--SIQALSMDELEG 77 :::::::::::::::::::::::::::::::::::::::::::::: :::::::::::: d1ks9a2 2 KITVLGCGALGQLWLTALCKQGHEVQGWLRVPQPYCSVNLVETDGSIFNESLTANDPDFL 61 d1nyta1 78 HEFDLIINATSSGISGDIPAIPSSLIHPGIYCYDMFYQKGKTPFLA 123 :::::::::::::::::::::::::::::::::::::::::::::: d1ks9a2 62 ATSDLLLVTLKAWQVSDAVKSLASTLPVTTPILLIHNGMGTIEELQ 107