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 | d1ja9a_ | 1,3,6,8-tetrahydroxynaphthalene reductase | 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 <-- 1.763 --> HitDALI alignment (Z-score: 7.2 Raw score:604.40) d1nyta1 1 dgvgllsdlerlsfiRPGLRILLIG-AGGASRGVLLPLLSLDCAVTITNRT-VSRAEELA 58 :::::::::: ::::::::::::::::::::::::: :::::::: d1ja9a_ 1 ------------skpLAGKVALTTGaGRGIGRGIAIELGRRGASVVVNYGSsSKAAEEVV 48 d1nyta1 59 KLFAHTG-SIQALSM---------DELEGH-----EFDLIINATSS-------------- 89 ::::::: ::::::: :::::: ::::::::::: d1ja9a_ 49 AELKKLGaQGVAIQAdiskpsevvALFDKAvshfgGLDFVMSNSGMevwcdelevtqelf 108 d1nyta1 90 giSGDI-----paipSSLIH---PGIYCYDMFY-----------------QKGKTpfLAW 124 :::: ::::: :::::::::: ::::: ::: d1ja9a_ 109 dkVFNLntrgqffvaQQGLKhcrRGGRIILTSSiaavmtgipnhalyagsKAAVEgfCRA 168 d1nyta1 125 CEQRG---sKRNAD------------------------------------------glgm 139 ::::: ::::: d1ja9a_ 169 FAVDCgakgVTVNCiapggvktdmfdenswhyapggykgmpqekideglanmnplkrigy 228 d1nyta1 140 lvaqaahafllwhgvlpdvepvikqlqeels 170 d1ja9a_ 229 padigravsalcqeesewingqvikltgggi 259 FAST alignment (Normalized score: 5.52 Raw score:1158.00) d1nyta1 1 DGVGLLSDLERLSFI---RPGLRILLI-GAGGASRGVLLPLLSLDCAVTITNR-TVSRAE 55 ::::::::: ::::::::::::::::::::::::: :::::: d1ja9a_ 1 ---------------SKPLAGKVALTTGAGRGIGRGIAIELGRRGASVVVNYGSSSKAAE 45 d1nyta1 56 ELAKLFAHTG-SIQAL------------SMDELEG-----HEFDLIINATSSGISGDIPA 97 :::::::::: ::::: :::: ::::::::: d1ja9a_ 46 EVVAELKKLGAQGVAIQADISKPSEVVALFDK---AVSHFGGLDFVMSN----------- 91 d1nyta1 98 I----------------------------------PSSLIHPGIYCYDMFYQKGK----- 118 ::::::::::::::: d1ja9a_ 92 -SGMEVWCDELEVTQELFDKVFNLNTRGQFFVAQQGLKHCRRGGRIILTS-----SIAAV 145 d1nyta1 119 --------------TPFLAWCEQRGS---------KRNADGLGMLVAQAAHAFLLWHGV- 154 ::::::::: ::::: d1ja9a_ 146 MTGIPNHALYAGSKAAVEGFCRA---FAVDCGAKGVTVNC-------------------I 183 d1nyta1 155 -----------------------LPDVEPVIKQLQEELS--------------------- 170 ::::::::::::: d1ja9a_ 184 APGGVKTDMFDENSWHYAPGGYKGMPQEKIDEGLAN---MNPLKRIGYPADIGRAVSALC 240 d1nyta1 171 ------------------- 171 d1ja9a_ 241 QEESEWINGQVIKLTGGGI 259 TMalign alignment (TM-score: 0.57 Raw score:97.52) d1nyta1 1 -DGVGLLSDLERLSFIRPG-LRILLIG-AGGASRGVLLPLLSLDCAVTITNRTVS-RAEE 56 :::: ::::::: ::::::::::::::::::::::::::: :::: d1ja9a_ 1 S--------------KPLAGKVALTTGAGRGIGRGIAIELGRRGASVVVNYGSSSKAAEE 46 d1nyta1 57 LAKLFAHT-GSIQALSM---------DELEG-H----EFDLIINATSSGI---------- 91 :::::::: :::::::: ::::: : ::::::::::::: d1ja9a_ 47 VVAELKKLGAQGVAIQADISKPSEVVALFDKAVSHFGGLDFVMSNSGMEVWCDELEVTQE 106 d1nyta1 92 ----SGD---IP--AIPSSLIH-P-G-IYCYDMFY--QK--------------GKTPFLA 123 ::: :: :::::::: : : :::::::: :: ::::::: d1ja9a_ 107 LFDKVFNLNTRGQFFVAQQGLKHCRRGGRIILTSSIAAVMTGIPNHALYAGSKAAVEGFC 166 d1nyta1 124 WCEQRGSK----RNADGLGMLVAQ----------------------------A-AHAFLL 150 :::::::: :::::: ::::: : :::::: d1ja9a_ 167 RAFAVDCGAKGVTVNCIA-PGGVKTDMFDENSWHYAPGGYKGMPQEKIDEGLANMNPLKR 225 d1nyta1 151 W-------------------------HGVLPDVEPVIK-QL----QEELS 170 : :: : d1ja9a_ 226 IGYPADIGRAVSALCQEESEWINGQV----------IKL-TGGGI----- 259 HHsearch alignment (Probability: 0.98 E-value:0.00) d1nyta1 15 IRPGLRILLIGA-GGASRGVLLPLLSLDCAVTIT-NRTVSRAEELAKLFAHTGSI-QAL- 70 :::::::::::: ::::::::::::::::::::: :::::::::::::::::::: ::: d1ja9a_ 3 PLAGKVALTTGAGRGIGRGIAIELGRRGASVVVNYGSSSKAAEEVVAELKKLGAQGVAIQ 62 d1nyta1 71 ----SMD---------ELEGHEFDLIINATSSGISGDIPAIPSSLIHP 105 ::: :::::::::::::::::::::::::::::::: d1ja9a_ 63 ADISKPSEVVALFDKAVSHFGGLDFVMSNSGMEVWCDELEVTQELFDK 110