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 | d1ebfa1 | Homoserine dehydrogenase | 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 <-- 0.722 --> HitDALI alignment (Z-score: 4.9 Raw score:435.60) d1nyta1 1 dgvgllsdlerlsfiRPGLRILLIGAGGASRGVLLPLLSL----DCAV-TITNRTV-sra 54 ::::::::::::::::::::::::: :::: ::::::: d1ebfa1 1 --------------sTKVVNVAVIGAGVVGSAFLDQLLAMkstiTYNLvLLAEAERslis 46 d1nyta1 55 eelaklFAHT------gsiqalSMDE--LEGHE-----fDLIINATSSGisgdipaipsS 101 :::: :::: ::::: :::::::::: : d1ebfa1 47 kdfsplNVGSdwkaalaasttkTLPLddLIAHLktspkpVILVDNTSSA---yiagfytK 103 d1nyta1 102 LIHPGIYCYDMFY--QKGKtpflaWCEQR--gSKRNADGlGMLVAQAahafllwhgvlpd 157 ::::::::::::: :::: ::::: ::::::: ::::::: d1ebfa1 104 FVENGISIATPNKkaFSSDlatwkALFSNkptNGFVYHE-ATVGAGL-------aavtaa 155 d1nyta1 158 vepvikqlqeels 170 d1ebfa1 156 gvlgdvikiaqrl 168 FAST alignment (Normalized score: 3.91 Raw score:661.00) d1nyta1 1 DGVGLLSDLERLSFIRPGLRILLIGAGGASRGVLLPLLS-----LDCAV-TITNRTVSRA 54 :::::::::::::::::::::::: ::::: ::::: d1ebfa1 1 --------------STKVVNVAVIGAGVVGSAFLDQLL-AMKSTITYNLVLLAEA----- 40 d1nyta1 55 EELAKLFAHTGSIQ----------------------------ALSMDELEGHEF------ 80 ::::::::: d1ebfa1 41 --------------ERSLISKDFSPLNVGSDWKAALAASTTKTLPLDDLIA---HLKTSP 83 d1nyta1 81 --DLIINATSSGISGDIPAI-------PSSLIH--PGIYCYDMFYQKGKTP--------- 120 :::::::: :::: ::::::::: d1ebfa1 84 KPVILVDNTS----------SAYIAGFYTKF--VENGISIATPN-------KKAFSSDLA 124 d1nyta1 121 FLAWCEQRGS------KRNADGLGMLVAQAAHAFLLWHGVLPDVEPVIKQLQEELS---- 170 :::::: :::: ::::: d1ebfa1 125 TWKALF----SNKPTNGFVY--HEATV-----------------------------GAGL 149 d1nyta1 171 ------------------- 171 d1ebfa1 150 AAVTAAGVLGDVIKIAQRL 168 TMalign alignment (TM-score: 0.48 Raw score:81.59) d1nyta1 1 DGVGLLSDLERLSFIRPGLRILLIGAGGASRGVLLPLLSL----DCAV-TITNRTVSRAE 55 : ::::::::::::::::::::::::: :::: :::: ::: :: d1ebfa1 1 ------------S--TKVVNVAVIGAGVVGSAFLDQLLAMKSTITYNLVLLAE-AER-SL 44 d1nyta1 56 --------ELAKLFAHTGS--IQ--A-L-SMD--EL-EGH--E--FDLIINATSSGISGD 94 :::::: :: : : ::: :: ::: : :::::::::: : d1ebfa1 45 ISKDFSPL-----NVGSDWKAALAASTTKTLPLDDLIAHLKTSPKPVILVDNTSS----A 95 d1nyta1 95 IP-AIPSSLIHPGIYCYDMFYQKGKTPF--LAW-CEQR-G--SKRNAD-GLGMLVA--QA 144 :: ::::::::::::::::::: ::::: :: :::: : :::::: ::::::: :: d1ebfa1 96 YIAGFYTKFVENGISIATPNKK-AFSSDLA-TWKALFSNKPTNGFVYHEATVGAGLAAVT 153 d1nyta1 145 -AH-------------AFLLWHGVLPDVEPVIKQLQEELS 170 : d1ebfa1 154 A-AGVLGDVIKIAQRL------------------------ 168 HHsearch alignment (Probability: 0.90 E-value:0.00) d1nyta1 17 PGLRILLIGAGGASRGVLLPLLSLDCA--VTITNRTVSRAEELA-------------KLF 61 ::::::::::::::::::::::::::: ::::::::::::::: ::: d1ebfa1 3 KVVNVAVIGAGVVGSAFLDQLLAMKSTITYNLVLLAEAERSLISKDFSPLNVGSDWKAAL 62 d1nyta1 62 AH----TGSIQALSMDELEGHEFDLIINATSSGISGDIPAIPSSLIHPGIYCYDMFYQKG 117 :: ::::::::::::::::::::::::::: :::::::::::::::::::::::: d1ebfa1 63 AASTTKTLPLDDLIAHLKTSPKPVILVDNTSSA---YIAGFYTKFVENGISIATPNKKAF 119 d1nyta1 118 KT------PFLAWCEQRGSKR----NADGLGML 140 :: ::::::::::::: :::::::: d1ebfa1 120 SSDLATWKALFSNKPTNGFVYHEATVGAGLAAV 152