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 | d1gz6a_ | (3R)-hydroxyacyl-CoA dehydrogenase domain of estradiol 17 beta-Dehydrogenase 4 | 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 <-- 1.611 --> HitDALI alignment (Z-score: 7.7 Raw score:745.60) d1nyta1 1 dgvgllsdlerlsfiRPGLRILLIG-AGGASRGVLLPLLSLDCAVTITNRT--------- 50 :::::::::: ::::::::::::::::::::::::: d1gz6a_ 1 -----------splrFDGRVVLVTGaGGGLGRAYALAFAERGALVVVNDLGgdfkgvgkg 49 d1nyta1 51 VSRAEELAKLFAH-TGSIQALSM-----DELEGH------EFDLIINATSS--------- 89 ::::::::::::: ::::::::: :::::: ::::::::::: d1gz6a_ 50 SSAADKVVEEIRRrGGKAVANYDsveagEKLVKTaldtfgRIDVVVNNAGIlrdrsfsri 109 d1nyta1 90 -----giSGDI-----pAIPSSLIH-----PGIYCYDMFY----------------QKGK 118 :::: :::::::: :::::::::: :::: d1gz6a_ 110 sdedwdiIQRVhlrgsfQVTRAAWDhmkkqNYGRIIMTASasgiygnfgqanysaaKLGL 169 d1nyta1 119 TPFLAWCEQRG---sKRNADGLGM------------------------------------ 139 ::::::::::: ::::::::: d1gz6a_ 170 LGLANTLVIEGrknnIHCNTIAPNagsrmtetvmpedlvealkpeyvaplvlwlchesce 229 d1nyta1 140 ------LVAQAAhafllwhgvlpdvepvikqLQEE------------------------- 168 :::::: :::: d1gz6a_ 230 engglfEVGAGW-----------------igKLRWertlgaivrkrnqpmtpeavrdnwv 272 d1nyta1 169 ---------------------------ls 170 d1gz6a_ 273 kicdfsnaskpksiqestggiievlhkid 301 FAST alignment (Normalized score: 4.88 Raw score:1103.00) d1nyta1 1 DGVGLLSDLERLSFI----RPGLRILLI-GAGGASRGVLLPLLSLDCAVTITN------- 48 ::::::::: :::::::::::::::::::::::: d1gz6a_ 1 ---------------SPLRFDGRVVLVTGAGGGLGRAYALAFAERGALVVVNDLGGDFKG 45 d1nyta1 49 --RTVSRAEELAKLFAHT-GSIQALS------MDELEG------HEFDLIINATSSGISG 93 :::::::::::::::: :::::: :::::: ::::::::: d1gz6a_ 46 VGKGSSAADKVVEEIRRRGGKAVAN-YDSVEAGEKLVKTALDTFGRIDVVVNN------- 97 d1nyta1 94 DIPAI-------------------------------PSSLI------HPGIYCYDMFYQK 116 :::: :::::::: d1gz6a_ 98 -----AGILRDRSFSRISDEDWDIIQRVHLRGSFQVTRAA-WDHMKKQNYGRIIM----- 146 d1nyta1 117 GK---------------------------TPFLAWCEQRGSKRNADGLGMLVAQAAHAFL 149 ::::::::::: :::::: d1gz6a_ 147 --TASASGIYGNFGQANYSAAKLGLLGLANTLVIEGRKNN-IHCNTI------------- 190 d1nyta1 150 LWHGVLPDVEPVIKQLQEELS--------------------------------------- 170 d1gz6a_ 191 ---------------------APNAGSRMTETVMPEDLVEALKPEYVAPLVLWLCHESCE 229 d1nyta1 171 ------------------------------------------------------------ 171 d1gz6a_ 230 ENGGLFEVGAGWIGKLRWERTLGAIVRKRNQPMTPEAVRDNWVKICDFSNASKPKSIQES 289 d1nyta1 171 ------------ 171 d1gz6a_ 290 TGGIIEVLHKID 301 TMalign alignment (TM-score: 0.62 Raw score:105.32) d1nyta1 1 -DGVGLLSDLERLSFIRPG-LRILLIG-AGGASRGVLLPLLSLDCAVTITNRT------- 50 : :::: ::::::: ::::::::::::::::::::::::: d1gz6a_ 1 S---------P----LRFDGRVVLVTGAGGGLGRAYALAFAERGALVVVNDLGGDFKGVG 47 d1nyta1 51 -VS-RAEELAKLFAH-TGSIQALSM------DELE-GH----EFDLIINATSSGI----- 91 :: ::::::::::: ::::::::: :::: :: ::::::::::::: d1gz6a_ 48 KGSSAADKVVEEIRRRGGKAVANYDSVEAGEKLVKTALDTFGRIDVVVNNAGILRDRSFS 107 d1nyta1 92 ---------SGD---IP--AIPSSLIH--P---GIYCYDMFY--QK-------------G 117 ::: :: :::::::: : ::::::::: :: : d1gz6a_ 108 RISDEDWDIIQRVHLRGSFQVTRAAWDHMKKQNYGRIIMTASASGIYGNFGQANYSAAKL 167 d1nyta1 118 KTPFLAWCEQ-RGSK----RNADGLG--------------------------M------- 139 :::::::::: ::: ::::::: : d1gz6a_ 168 GLLGLANTLVI-EGRKNNIHCNTIAPNAGSRMTETVMPEDLVEALKPEYVAPLVLWLCHE 226 d1nyta1 140 --------LVAQAAHAFLLWHGVLPDVEPVIKQLQEE----------------------- 168 ::::: : : : :: :::: d1gz6a_ 227 SCEENGGLFEVGA-G---------W-I--GK--LRWERTLGAIVRKRNQPMTPEAVRDNW 271 d1nyta1 169 ------------LS----------------- 170 : d1gz6a_ 272 VKICDFSNASKP-KSIQESTGGIIEVLHKID 301 HHsearch alignment (Probability: 0.98 E-value:0.00) d1nyta1 13 SFIRPGLRILLIGA-GGASRGVLLPLLSLDCAVTIT---------NRTVSRAEELAKLFA 62 :::::::::::::: ::::::::::::::::::::: ::::::::::::::: d1gz6a_ 2 PLRFDGRVVLVTGAGGGLGRAYALAFAERGALVVVNDLGGDFKGVGKGSSAADKVVEEIR 61 d1nyta1 63 HTGSIQAL------------SMDELEGHEFDLIINATSSGISGDIPAIPSSLIHPGIYCY 110 :::::::: :::::::::::::::::::::::::::::::::: ::: d1gz6a_ 62 RRGGKAVANYDSVEAGEKLVKTALDTFGRIDVVVNNAGILRDRSFSRISDEDWD---IIQ 118 d1nyta1 111 DMFYQ 115 ::::: d1gz6a_ 119 RVHLR 123