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 | d1vlja_ | NADH-dependent butanol dehydrogenase A (TM0820) | Dehydroquinate synthase-like | Dehydroquinate synthase-like | multi |
| Hit | d1s5pa_ | NAD-dependent deacetylase CobB | DHS-like NAD/FAD-binding domain | DHS-like NAD/FAD-binding domain | α/β |
Query <-- 0.611 --> IntermediateDALI alignment (Z-score: 3.6 Raw score:436.20) query 1 ------------dadeeVYSALVVgLRAYVAKNGFRSVLIGLSGGID-saLVAAIACDAL 47 ::::::: :::::::::::::::::::::: :::::::::: d1vlja_ 1 hhhmenfvfhnptkivfGRGTIPK-IGEEIKNAGIRKVLFLYGGGSIkknGVYDQVVDSL 59 query 48 G--aqNVYGVSMpskyssdhskgdaaelarrtglnfrtvsiepmfdaymaslgltglaee 105 : ::::::: d1vlja_ 60 KkhgiEWVEVSG----------------------------------------------vk 73 query 106 nlQSRLRGTTLMAISNQEGH-IVLAPGNkselavgystlygDSVG--------------- 149 :::::::::::::::::: ::::::: :::: d1vlja_ 74 pnPVLSKVHEAVEVAKKEKVeAVLGVGG----------gsvVDSAkavaagalyegdiwd 123 query 150 -------------AYGPIkDVYKtsifrlaewrnraaaergqtppipeasitkpdypvld 196 ::::: :::: d1vlja_ 124 afigkyqiekalpIFDVL-TISA------------------------------------- 145 query 197 ailelyvdrdtgadaivaagydrelvvktlrmvdtaeYKRRQYP-PGTKIS--------- 246 ::::::: :::::: d1vlja_ 146 ---------------tgtemngnavitnektkekygvSSKALYPkVSIIDPsvqftlpke 190 query 247 ------------------------------------------------------------ 247 d1vlja_ 191 qtvygavdaishileyyfdgsspeisneiaegtirtimkmterliekpddyearanlaws 250 query 247 ------------------------------------------------------------ 247 d1vlja_ 251 atialngtmavgrrggewachriehslsalydiahgaglaivfpawmkyvyrknpaqfer 310 query 247 ------------------------------------------------------------ 247 d1vlja_ 311 fakkifgfegegeelilkgieafknwlkkvgapvslkdagipeedidkivdnvmllvekn 370 query 247 --------akgfgkdrrlpitnrwregh 266 d1vlja_ 371 lkpkgaslgrimvleredvreilklaak 398 FAST alignment (Normalized score: 2.06 Raw score:669.30) query 1 DADEEVYSALV----------------------VGLRAYVAKNGFRSVLIGLS------G 32 ::::::::::::::::::: : d1vlja_ 1 -----------HHHMENFVFHNPTKIVFGRGTIPKIGEEIKNAGIRKVLFLY-GGGSIKK 48 query 33 GIDSALVAAIACDALGAQ---NVYGVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPM 89 ::::::::::::: ::::: d1vlja_ 49 NGVYDQVVDSLKK-----HGIEWVEV---------------------------------- 69 query 90 FDAYMASLGLTGLAEENLQ-------SRLRGTTLMAISNQEG-HIVLAPGNKSELAVGYS 141 :::::::::::::::: ::::: d1vlja_ 70 -------------------SGVKPNPVLSKVHEAVEVAKKEKVEAVLG------------ 98 query 142 TLY-----GDSVG-----------------------------AYGPIKDVYKTSIFRLAE 167 :::: :::: d1vlja_ 99 ---VGGGSVVDS-AKAVAAGALYEGDIWDAFIGKYQIEKALPIFDV-------------- 140 query 168 WRNRAAAERGQTPPIPEASITKP------------------------------------- 190 d1vlja_ 141 -----------------------LTISATGTEMNGNAVITNEKTKEKYGVSSKALYPKVS 177 query 191 --------------------------------------------DYPVLDAILELYVDRD 206 :::::::::::::: d1vlja_ 178 IIDPSVQFTLPKEQTVYGAVDAISHILEYYFDGSSPEISNEIAEGTIRTIMKMTERLI-- 235 query 207 TGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 d1vlja_ 236 ------------------------------------------------------------ 236 query 267 ------------------------------------------------------------ 267 d1vlja_ 236 EKPDDYEARANLAWSATIALNGTMAVGRRGGEWACHRIEHSLSALYDIAHGAGLAIVFPA 295 query 267 ------------------------------------------------------------ 267 d1vlja_ 296 WMKYVYRKNPAQFERFAKKIFGFEGEGEELILKGIEAFKNWLKKVGAPVSLKDAGIPEED 355 query 267 ------------------------------------------- 267 d1vlja_ 356 IDKIVDNVMLLVEKNLKPKGASLGRIMVLEREDVREILKLAAK 398 TMalign alignment (TM-score: 0.39 Raw score:104.91) query 1 ---------------DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDS-ALVAAIAC 44 ::::::::::::: ::::::::::::::::::: :::::::: d1vlja_ 1 HHHMENFVFHNPTKI---VFGRGTIPKIGEE-IKNAGIRKVLFLYGGGSIKKNGVYDQVV 56 query 45 DALGA-QNVYGVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGL- 102 ::::: :::::::::: : : : d1vlja_ 57 DSLKKHGIEWVEVSGV--K---P-----------------------------------NP 76 query 103 AEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDSVG------------- 149 ::::::::::::::: : ::::::::: ::: : : :::::: d1vlja_ 77 --VLSKVHEAVEVAKKE-K--VEAVLGVGG-GSV---V-D-SAKAVAAGALYEGDIWDAF 125 query 150 ----------AYGPIKDVYKTS-------------------------------IFRLAEW 168 :::::::::::: ::::::: d1vlja_ 126 IGKYQIEKALPIFDVLTISATGTEMNGNAVITNEKTKEKYGVSSKALYPKVSIIDPSVQF 185 query 169 RNRAAAERGQTPPIPEASIT--K-PDYPVLDAILE----------------L-------- 201 : :: : ::::::::::: : d1vlja_ 186 ---------------T--LPKEQTVYGAVDAISHILEYYFDGSSPEISNEIAEGTIRTIM 228 query 202 -------------------------YV--DRD--T--GA--------------------- 209 :: ::: : :: d1vlja_ 229 KMTERLIEKPDDYEARANLAWSATIALNGTMAVGRRGGEWACHRIEHSLSALYDIAHGAG 288 query 210 ------------------DA-IVA--A----------------GYD--R------EL--- 221 :: ::: : ::: : : d1vlja_ 289 LAIVFPAWMKYVYRKNPAQFERFAKKIFGFEGEGEELILKGIEAFKNWLKKVGAP-VSLK 347 query 222 ---------------VVKTLRM--VDT---AEYK--RRQYPPGTKISAKGFGKDRRLPIT 259 : : : ::: d1vlja_ 348 DAGIPEEDIDKIVDN------VML--LVEK---NLK---------------------PKG 375 query 260 NRWREGH---------------- 266 ::::::: d1vlja_ 376 ASLGRIMVLEREDVREILKLAAK 398 HHsearch alignment (Probability: 0.06 E-value:0.07) query 14 LRAYVAKNGFRSVLIGLSGG-IDSALVAAIACDALGAQNVYGVS--MPSKYSSDHSKGDA 70 :::::::::::::::::::: ::::::::::::::::::::::: :::::::::::::: d1vlja_ 25 IGEEIKNAGIRKVLFLYGGGSIKKNGVYDQVVDSLKKHGIEWVEVSGVKPNPVLSKVHEA 84 query 71 AELARRTGLNFRT 83 ::::::::::::: d1vlja_ 85 VEVAKKEKVEAVL 97
Intermediate <-- 0.756 --> HitDALI alignment (Z-score: 4.7 Raw score:412.60) d1vlja_ 1 hhhmenfvfhnptkivfgrgtipkigeeiknagIRKVLFLYGgGSIKK------------ 48 ::::::::: ::::: d1s5pa_ 1 ---------------------------------KPRVLVLTG-AGISAesgirtfraadg 26 d1vlja_ 49 -----------------------------------------NGVYDQVVDSLKKHGiEWV 67 ::::::::::::::: ::: d1s5pa_ 27 lweehrvedvatpegfdrdpelvqafynarrrqlqqpeiqpNAAHLALAKLQDALGdRFL 86 d1vlja_ 68 EVSG----------------------------------------------------vkpn 75 :::: d1s5pa_ 87 LVTQnidnlheragntnvihmhgellkvrcsqsgqvldwtgdvtpedkcplrphvvwfge 146 d1vlja_ 76 pVLSKvHEAVEVAKkeKVEAVLGVGGGS---vvDSAKAVAAGAlyegdiwdafigkyqie 132 :::: :::::::: :::::::::::: :::::::::: d1s5pa_ 147 mPLGM-DEIYMALS--MADIFIAIGTSGhvypaAGFVHEAKLH----------------- 186 d1vlja_ 133 kALPIFDVLTisATGTemngnavitnektkekygvsskalYPKVSIIDPSVQftlpkeqt 192 ::::::::: :::: :::::::::::: d1s5pa_ 187 -GAHTVELNL--EPSQ------------------------EFAEKYYGPASQ-------- 211 d1vlja_ 193 vygavdaishileyyfdgsspeisneiaegtirtimkmterliekpddyearanlawsat 252 d1s5pa_ 212 ------------------------------------------------------------ 212 d1vlja_ 253 ialngtmavgrrggewachriehslsalydiahgaglaivfpawmkyvyrknpaqferfa 312 d1s5pa_ 212 ------------------------------------------------------------ 212 d1vlja_ 313 kkifgfegegeelilkgieafknwlkkvgapvslkdagipeedidkivdnvmllveknlk 372 d1s5pa_ 212 ------------------------------------------------------------ 212 d1vlja_ 373 pkgaslgrimvleredvreilklaak 398 d1s5pa_ 212 ------------vvpefvekllkglk 225 FAST alignment (Normalized score: 0.59 Raw score:177.30) d1vlja_ 1 HHHMENFVFHNPTKIVFGRGTIPKIGEEIKNAGIRKVLFLYGGGSIKKNGVYDQVVDSLK 60 d1s5pa_ 1 ------------------------------------------------------------ 1 d1vlja_ 61 KHGIEWVEVSGVKPNPVLSKVHEAVEVAKKEKVEAVLGVGGGSVVDSAKAVAAGALYEGD 120 d1s5pa_ 1 ------------------------------------------------------------ 1 d1vlja_ 121 IWDAFIGKYQIEKALPIFDVLTISATGTEMNGNAVITNEKTKEKYGVSSKALYPKVSIID 180 d1s5pa_ 1 ------------------------------------------------------------ 1 d1vlja_ 181 PSVQFTLPKEQTVYGAVDAISHILEYYFDGSSP--------------------------- 213 d1s5pa_ 1 ---------------------------------KPRVLVLTGAGISAESGIRTFRAADGL 27 d1vlja_ 214 ------------------------------------------------------------ 214 d1s5pa_ 28 WEEHRVEDVATPEGFDRDPELVQAFYNARRRQLQQPEIQPNAAHLALAKLQDALGDRFLL 87 d1vlja_ 214 ------------------------------------------------------------ 214 d1s5pa_ 88 VTQNIDNLHERAGNTNVIHMHGELLKVRCSQSGQVLDWTGDVTPEDKCPLRPHVVWFGEM 147 d1vlja_ 214 -------------------------EISNEIAEGTIRTIMKMTERLIEKPDDYEARANLA 248 ::::::::::::: d1s5pa_ 148 PLGMDEIYMALSMADIFIAIGTSGHVYPAAGFVHEAKL---------------------- 185 d1vlja_ 249 WSATIALNGTMAVGRRGGEWACHRIEHSLSALYDIAHGAGLAIVFPAWMKYVYRKNPAQF 308 d1s5pa_ 186 ------------------------------------------------------------ 186 d1vlja_ 309 ERFAKK----------------IFGFEGEGEELILKGIEAFKNWLKKVGAPVSLKDAGIP 352 :::::::::::::::::::::: d1s5pa_ 186 ------HGAHTVELNLEPSQEFAEKYYGPASQVVPEFVEKLLKG---------------- 223 d1vlja_ 353 EEDIDKIVDNVMLLVEKNLKPKGASLGRIMVLEREDVREILKLAAK-- 398 d1s5pa_ 224 ----------------------------------------------LK 225 TMalign alignment (TM-score: 0.20 Raw score:81.54) d1vlja_ 1 ------------------HHHMENFVFHNPTKIVFGRGTIPKIGEEIKNAGIRKVLFLYG 42 d1s5pa_ 1 KPRVLVLTGAGISAESGI------------------------------------------ 18 d1vlja_ 43 GGSIKKNGVYDQVVDSLKKHGIEWVEVSGVKPNPVLSKVHEAVEVAKKEKVEAVLGVGGG 102 :::::: :: : ::: d1s5pa_ 19 ------------------------------RTFRAA-DG----------------L-WEE 30 d1vlja_ 103 SVVDSAKAVAAGALYEGDIWDAFIGKYQIEKALPIFDVLTISATGTEMNGNAVITNEKTK 162 ::: ::: ::: d1s5pa_ 31 HRV---------------------------------EDV------ATP------------ 39 d1vlja_ 163 EKYGVSSKALYPKVSII--DPSVQFTLPKEQTVYGA------------------------ 196 ::: ::::::::::::::::: d1s5pa_ 40 --------------EGFDRDPELVQAFYNARRRQLQQPEIQPNAAHLALAKLQDALGDRF 85 d1vlja_ 197 ----VDAIS-H-------ILEYY----------FDGSSPEISNEIAEGTIRTIMKMTERL 234 ::::: : ::::: ::::: :: :: : d1s5pa_ 86 LLVTQNIDNLHERAGNTNVIHMHGELLKVRCSQ--------------SGQVL-DW-TG-D 128 d1vlja_ 235 IEKPDDYEA-RANLAWSATIALNGTMAVGRRG-GE-----WACHRIEH------------ 275 :::::: :::: :::::::::::::::: :: :: ::::: d1s5pa_ 129 ---VTPEDKC-PLRP-HVVWFGEMPLGMDEIYMALSMADIFI-AIGTSGHVYPAAGFVHE 182 d1vlja_ 276 ---------SLSALYDIAHGAGLAIVFPAWMKYVYRKNPAQFERFAKKIFGFEGEGEELI 326 d1s5pa_ 183 AKLHGAHTV--------------------------------------------------- 191 d1vlja_ 327 LKGIEAFKNWLKKVGAPVSLKDAGIPEEDIDKIVDNVMLLVEKNLKPKGASL-------G 379 ::::: ::::: :::: d1s5pa_ 192 -----------------------------------ELNLE--PSQEF-AEKYYGPASQV- 212 d1vlja_ 380 RIMVLEREDVREI----LKLAAK 398 ::::::::: d1s5pa_ 213 ----VPEFVEKLLKGLK------ 225 HHsearch alignment (Probability: 0.51 E-value:0.00) d1vlja_ 146 TGTEMNGNAVITNEKTKEKYGVSSKALYPKVSIIDPSVQFTLPKEQTV 193 ::::::::::::::: ::::::::: :::::::::::::::::::: d1s5pa_ 8 TGAGISAESGIRTFR--AADGLWEEH--RVEDVATPEGFDRDPELVQA 51