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 | d1n5da_ | Carbonyl reductase/20beta-hydroxysteroid 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 <-- 2.104 --> HitDALI alignment (Z-score: 6.8 Raw score:657.70) d1nyta1 1 dgvgllsdlerlsfirpGLRILLIG-AGGASRGVLLPLLSL-DCAVTITNRTVSRAEELA 58 :::::::: ::::::::::::::: :::::::::::::::::: d1n5da_ 1 --------------ssnTRVALVTGaNKGIGFAIVRDLCRQfAGDVVLTARDVARGQAAV 46 d1nyta1 59 KLFA-HTGSIQALSM--------DELEGH------EFDLIINATSS-------------- 89 :::: :::::::::: :::::: ::::::::::: d1n5da_ 47 KQLQaEGLSPRFHQLdiidlqsiRALCDFlrkeygGLDVLVNNAAIafqldnptpfhiqa 106 d1nyta1 90 -gISGD----IPAIpSSLIH---PGIYCYDMFYQ-------------------------- 115 :::: :::: ::::: ::::::::::: d1n5da_ 107 elTMKTnfmgTRNVcTELLPlikPQGRVVNVSSTegvralnecspelqqkfksetiteee 166 d1nyta1 116 ------------------------------KGKT-pflawcEQRG-------sKRNADGL 137 :::: :::: ::::::: d1n5da_ 167 lvglmnkfvedtkngvhrkegwsdstygvtKIGVsvlsriyARKLreqragdkILLNACC 226 d1nyta1 138 ----------------------------------------GMLVAQaahafllwhgvlpd 157 :::::: d1n5da_ 227 pgwvrtdmggpkapkspevgaetpvylallpsdaegphgqFVTDKK-------------- 272 d1nyta1 158 vepvikqLQEE--------ls 170 :::: d1n5da_ 273 -----vvEWGVppesypwvna 288 FAST alignment (Normalized score: 4.89 Raw score:1082.00) d1nyta1 1 DGVGLLSDLERLSFIRP---GLRILLI-GAGGASRGVLLPLLS-LDCAVTITNRTVSRAE 55 ::::::: ::::::::::::::: :::::::::::::::: d1n5da_ 1 -----------------SSNTRVALVTGANKGIGFAIVRDLCRQFAGDVVLTARDVARGQ 43 d1nyta1 56 ELAKLFAHT-GSIQAL--------SMDELEG------HEFDLIINATSSGISGDIPAI-- 98 ::::::::: :::::: ::::::: ::::::::: d1n5da_ 44 AAVKQLQAEGLSPRFHQLDIIDLQSIRALCDFLRKEYGGLDVLVNN------------AA 91 d1nyta1 99 --------------------------------PSSLIHPGIYCYDMFYQKGK-------- 118 ::::::::::::::::: d1n5da_ 92 IAFQLDNPTPFHIQAELTMKTNFMGTRNVCTELLPLIKPQGRVVNVSST---EGVRALNE 148 d1nyta1 119 -------------------------------------------------TPFLAWCEQRG 129 ::::::::: d1n5da_ 149 CSPELQQKFKSETITEEELVGLMNKFVEDTKNGVHRKEGWSDSTYGVTKIGVSVLSRI-- 206 d1nyta1 130 S-------------KRNADGL--GMLVAQAAHAFLLWHGVLPDVEPVIKQLQEELS---- 170 :::: :::: d1n5da_ 207 -YARKLREQRAGDKILLN---ACCPGW-----------------------------VRTD 233 d1nyta1 171 ------------------------------------------------------- 171 d1n5da_ 234 MGGPKAPKSPEVGAETPVYLALLPSDAEGPHGQFVTDKKVVEWGVPPESYPWVNA 288 TMalign alignment (TM-score: 0.59 Raw score:100.24) d1nyta1 1 ---DGVGLLSDLERLSFIRPGLRILLIG-AGGASRGVLLPLLSL-DCAVTITNRTVSRAE 55 :::::::: ::::::::::::::: ::::::::::::::: d1n5da_ 1 SSN-----------------TRVALVTGANKGIGFAIVRDLCRQFAGDVVLTARDVARGQ 43 d1nyta1 56 ELAKLFA--HTGSIQALSM------D--ELEG-H-----EFDLIINATSSG--------- 90 ::::::: ::: :::::: : :::: : :::::::::::: d1n5da_ 44 AAVKQLQAEGLS-PRFHQLDIIDLQSIRALCDFLRKEYGGLDVLVNNAAIAFQLDNPTPF 102 d1nyta1 91 ---I--SG-D---IP-AIPSSLIH-P-G-IYCYDMFY--QK-------------G----- 117 : :: : :: :::::::: : : :::::::: :: : d1n5da_ 103 HIQAELTMKTNFMGTRNVCTELLPLIKPQGRVVNVSSTEGVRALNECSPELQQKFKSETI 162 d1nyta1 118 -----------------------------------KTPFLAW-CEQ-RGSK--------R 132 ::::::: ::: ::: : d1n5da_ 163 TEEELVGLMNKFVEDTKNGVHRKEGWSDSTYGVTKIGVSVLSRIYAR-KLREQRAGDKIL 221 d1nyta1 133 NADGLGMLV----------AQA--AHA------------------------FLLWHGVLP 156 ::::: ::: :: :: d1n5da_ 222 LNACC-PGWVRTDMGGPKA-PKSP-EVGAETPVYLALLPSDAEGPHGQFVT--------- 269 d1nyta1 157 DVEPVIKQLQEELS--------- 170 :: :: :::::: d1n5da_ 270 -DK--KV-VEWGVPPESYPWVNA 288 HHsearch alignment (Probability: 0.98 E-value:0.00) d1nyta1 16 RPGLRILLIGA-GGASRGVLLPLLSL-DCAVTITNRTVSRAEELAKLFAHTGS-IQALSM 72 ::::::::::: :::::::::::::: :::::::::::::::::::::::::: :::::: d1n5da_ 2 SNTRVALVTGANKGIGFAIVRDLCRQFAGDVVLTARDVARGQAAVKQLQAEGLSPRFHQL 61 d1nyta1 73 D--------------ELEGHEFDLIINATSSGISGDI 95 : :::::::::::::::::::::: d1n5da_ 62 DIIDLQSIRALCDFLRKEYGGLDVLVNNAAIAFQLDN 98