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 | d1snya_ | Carbonyl reductase sniffer | 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 <-- 1.239 --> HitDALI alignment (Z-score: 6.4 Raw score:640.10) d1nyta1 1 dgvgllsdlerlsfirPGLRILLIGA-GGASRGVLLPLLS---LDCAVTITNRTVSRaEE 56 :::::::::: ::::::::::::: :::::::::::::: :: d1snya_ 1 ----------------HMNSILITGCnRGLGLGLVKALLNlpqPPQHLFTTCRNREQ-AK 43 d1nyta1 57 LAKLFA-HTGSIQALSM--------dELEGH--------EFDLIINATSS---------- 89 :::::: :::::::::: ::::: ::::::::::: d1snya_ 44 ELEDLAkNHSNIHILEIdlrnfdaydKLVADiegvtkdqGLNVLFNNAGIapksaritav 103 d1nyta1 90 ------gISGD----ipAIPSSLIH----------------pGIYCYDMFY--------- 114 :::: :::::::: ::::::::: d1snya_ 104 rsqelldTLQTntvvpiMLAKACLPllkkaakanesqpmgvgRAAIINMSSilgsiqgnt 163 d1nyta1 115 ----------QKGKTPFLAWCEQRG---sKRNADGLgMLVAQ-------AAHA------- 147 ::::::::::::::: ::::::: ::::: :::: d1snya_ 164 dggmyayrtsKSALNAATKSLSVDLypqrIMCVSLH-PGWVKtdmggssAPLDvptstgq 222 d1nyta1 148 ----fllwhgvlpdvepvikqLQEELs 170 ::::: d1snya_ 223 ivqtisklgekqnggfvnydgTPLAW- 248 FAST alignment (Normalized score: 4.25 Raw score:872.50) d1nyta1 1 DGVGLLSDLERLSFIRPG--LRILLI-GAGGASRGVLLPLLSLD----CAVTITNRT--- 50 :::::: :::::::::::::::: ::::::::: d1snya_ 1 ------------------HMNSILITGCNRGLGLGLVKALLNL-PQPPQHLFTTCRNREQ 41 d1nyta1 51 VSRAEELAKLFAHTGSIQAL------------SMDELEGH-----EFDLIINATSSGISG 93 :::::::::: ::::::: ::::::: :::::::: d1snya_ 42 AKELEDLAKN---HSNIHILEIDLRNFDAYDKLVADIEG-VTKDQGLNVLFNN------- 90 d1nyta1 94 DIPAI-----------------------------------PSSLIHP------------- 105 :::: d1snya_ 91 -----AGIAPKSARITAVRSQELLDTLQTNTVVPIMLAKACLPL---LKKAAKANESQPM 142 d1nyta1 106 ---GIYCYDMFYQKGK----------------------------TPFLAWCEQRGSKRNA 134 :::::::: ::::::::::: :::: d1snya_ 143 GVGRAAIINMS-----SILGSIQGNTDGGMYAYRTSKSALNAATKSLSVDLYPQR-IMCV 196 d1nyta1 135 DGLGMLVAQAAHAFLLWHGVLPDVEPVIKQLQEELS------------------------ 170 :: :::: d1snya_ 197 SL-HPGW-----------------------------VKTDMGGSSAPLDVPTSTGQIVQT 226 d1nyta1 171 ---------------------- 171 d1snya_ 227 ISKLGEKQNGGFVNYDGTPLAW 248 TMalign alignment (TM-score: 0.59 Raw score:100.82) d1nyta1 1 DGVGLLSDLERLSFIRPGLRILLIGA-GGASRGVLLPLLSL--DC-AVTITNRTVSRAEE 56 : ::::::::: :::::::::::::: :: :::::: ::::::: d1snya_ 1 ---------------H-MNSILITGCNRGLGLGLVKALLNLPQPPQHLFTTC-RNREQAK 43 d1nyta1 57 LAKLFA-HTGSIQALS--------M-DELE--G--H---EFDLIINATSSG--------- 90 :::::: ::::::::: : :::: : : :::::::::::: d1snya_ 44 ELEDLAKNHSNIHILEIDLRNFDAYDKLVADIEGVTKDQGLNVLFNNAGIAPKSARITAV 103 d1nyta1 91 -------IS---GDIP-AI--PS-SLIHP-G------------IYCYDMFY--QK----- 116 :: :::: :: :: ::::: : :::::::: :: d1snya_ 104 RSQELLDTLQTNTVVPIMLAKACLPLLKKAAKANESQPMGVGRAAIINMSSILGSIQGNT 163 d1nyta1 117 -----------GKTP-FLAWCEQRGS---KRNADGLGMLVAQ-------AAHA--FLL-- 150 :::: :::::::::: ::::::: ::::: :::: : d1snya_ 164 DGGMYAYRTSKSALNAATKSLSVDLYPQRIMCVSLH-PGWVKTDMGGSSAPLDVP--TST 220 d1nyta1 151 -------------------WHGVLPDVEPVIKQLQEELS 170 :::::: : :: d1snya_ 221 GQIVQTISKLGEKQNGGFV-------NYDGTP--L-AW- 248 HHsearch alignment (Probability: 0.97 E-value:0.00) d1nyta1 18 GLRILLIGA-GGASRGVLLPL---LSLDCAVTITNRTVSRAEELAKLFAHTGSIQALSMD 73 ::::::::: ::::::::::: :::::::::::::::::::::::::::::::::::: d1snya_ 2 MNSILITGCNRGLGLGLVKALLNLPQPPQHLFTTCRNREQAKELEDLAKNHSNIHILEID 61 d1nyta1 74 E----------------LEGHEFDLIINATSS 89 : ::::::::::::::: d1snya_ 62 LRNFDAYDKLVADIEGVTKDQGLNVLFNNAGI 93