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 | d1upaa1 | Carboxyethylarginine synthase | 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 <-- 1.121 --> HitDALI alignment (Z-score: 4.6 Raw score:457.40) d1vlja_ 1 hhhmenfvfhnptkivFGRGTipkigEEIKNA--GIRKVLFLYGgGSIKKNGVYDQVVDS 58 ::::: :::::: :::::::::: ::::::::::::::: d1upaa1 1 ----------------VADGW-qkaaDQAAALlaEAKHPVLVVG-AAAIRSGAVPAIRAL 42 d1vlja_ 59 LKKHgiEWVEVSG-------------vkpnpVLSK-----vhEAVEVAKkeKVEAVLGVG 100 :::: ::::::: :::: ::::::: ::::::::: d1upaa1 43 AERL--NIPVITTyiakgvlpvghelnygavTGYMdgilnfpALQTMFA--PVDLVLTVG 98 d1vlja_ 101 GGSvvdsaKAVAAGALyegdiwdafigkyqiekALPIFDVLTISATGtemNGNAvitnek 160 ::: :::::::: :::::::::::::: :::: d1upaa1 99 YDYaedlrPSMWQKGI-----------------EKKTVRISPTVNPI---PRVY------ 132 d1vlja_ 161 tkekygvsskalYPKVSIIDPsvqftlpkeqtvygavdaishileyyfdgsspeisneia 220 ::::::::: d1upaa1 133 ------------RPDVDVVTD--------------------------------------- 141 d1vlja_ 221 egtirtimkmterliekpddyearanlawsatialngtmavgrrggewachriehslsal 280 d1upaa1 142 ------------------------------------------------------------ 142 d1vlja_ 281 ydiahgaglaivfpawmkyvyrknpaqferfakkifgfegegeelilkgieafknwlkkv 340 d1upaa1 142 ------------------------------------------------------------ 142 d1vlja_ 341 gapvslkdagipeedidkivdnvmllveknlkpkgaslgrimvleredvreilklaak 398 d1upaa1 142 ----------------------vlafvehfetatasfgakqrhdieplrariaeflad 177 FAST alignment (Normalized score: 2.59 Raw score:686.90) d1vlja_ 1 HHHMENFVFHNPTKIVFGRGTIPKI--------GEEIKN--AGIRKVLFLYGGGSIKKNG 50 :::::: ::::::::::: ::::::: d1upaa1 1 -------------------------VADGWQKAADQAAALLAEAKHPVLVVG-AAAIRSG 34 d1vlja_ 51 VYDQVVDSLKKHGIEWVEVSGVKPNPVLSKV----------------------------- 81 ::::::::::::: :::: d1upaa1 35 AVPAIRALAERLN--IPVI------------TTYIAKGVLPVGHELNYGAVTGYMDGILN 80 d1vlja_ 82 -HEAVEVAKKEKVEAVLGVGGGS--------VVDSAKAVAAGALYEGDIWDAFIGKYQIE 132 ::::::: ::::::::: ::::: d1upaa1 81 FPALQTMF--APVDLVLTV----GYDYAEDLRPSMW------------------------ 110 d1vlja_ 133 K----ALPIFDVLTISATGTEMNGNAVITNEKTKEKYGVSSKA-------LYPKVSIIDP 181 :::::::::: ::::::: d1upaa1 111 -QKGIEKKTVRISPT----------------------------VNPIPRVYRPDVDV--- 138 d1vlja_ 182 SVQFTLPKEQTVYGAVDAISHILEYYFDGSSPEISNEIAEGTIRTIMKMTERLIEKPDDY 241 d1upaa1 139 ------------------------------------------------------------ 139 d1vlja_ 242 EARANLAWSATIALNGTMAVGRRGGEWACHRIEHSLSALYDIAHGAGLAIVFPAWMKYVY 301 d1upaa1 139 ------------------------------------------------------------ 139 d1vlja_ 302 RKNPAQFERFAKKIFGFEGEGEELILKGIEAFKNWLKKVGAPVSLKDAGIPEEDIDKIVD 361 d1upaa1 139 ------------------------------------------------------------ 139 d1vlja_ 362 NVMLLVEKNLKPKGASLGRIMVLEREDVREILKLAAK----------------------- 398 d1upaa1 139 -------------------------------------VTDVLAFVEHFETATASFGAKQR 161 d1vlja_ 399 ---------------- 399 d1upaa1 162 HDIEPLRARIAEFLAD 177 TMalign alignment (TM-score: 0.25 Raw score:98.06) d1vlja_ 1 HHHMENFVFHNPTKIVFGRGT-IPKIGEEIKNAGIRKVLFLYGGGSIKKNGVYDQVVDSL 59 :::::: :::::::::: ::::::::::: ::::::::::::::: d1upaa1 1 ---------------VADGWQKAADQAAALLA-EAKHPVLVVGA-AAIRSGAVPAIRALA 43 d1vlja_ 60 KKHGIEWVEVSGVKP--------------NPVLSKV-----HEAVEVAKKEKVEAVLGVG 100 :: ::::::::::: :::::: :::::::: ::::::::: d1upaa1 44 ER--LNIPVITTYIAKGVLPVGHELNYGA-VTGYMDGILNFPALQTMFA--PVDLVLTVG 98 d1vlja_ 101 GGSVVDSAKAVAAGALYEGDIWDAFIGKYQIEKALPIFDVLTISATGTEMNGNAVITNEK 160 ::::::::::::: :: :::::::::::: ::: ::: d1upaa1 99 YDYAEDLRPSMWQ-KG----------------IEKKTVRISPTV-NPI--PRV------- 131 d1vlja_ 161 TKEKYGVSSKALYPKVSIIDPSVQ----------------------------------FT 186 ::::::::: ::: d1upaa1 132 -----------YRPDVDVVT-DVLAFVEHFETATASFGAKQRHDIEPLRARIAEFLAD-- 177 d1vlja_ 187 LPKEQTVYGAVDAISHILEYYFDGSSPEISNEIAEGTIRTIMKMTERLIEKPDDYEARAN 246 d1upaa1 178 ------------------------------------------------------------ 178 d1vlja_ 247 LAWSATIALNGTMAVGRRGGEWACHRIEHSLSALYDIAHGAGLAIVFPAWMKYVYRKNPA 306 d1upaa1 178 ------------------------------------------------------------ 178 d1vlja_ 307 QFERFAKKIFGFEGEGEELILKGIEAFKNWLKKVGAPVSLKDAGIPEEDIDKIVDNVMLL 366 d1upaa1 178 ------------------------------------------------------------ 178 d1vlja_ 367 VEKNLKPKGASLGRIMVLEREDVREILKLAAK 398 d1upaa1 178 -------------------------------- 178 HHsearch alignment (Probability: 0.91 E-value:0.00) d1vlja_ 18 GRGTIPKIGEEIKNAGIRKVLFLYGGGSIKKNGVYDQVVDSLKKHGIEWVE-------VS 70 :::::::::::::: :::::::::::: :::::::::::::::::::::: :: d1upaa1 5 WQKAADQAAALLAE--AKHPVLVVGAAA-IRSGAVPAIRALAERLNIPVITTYIAKGVLP 61 d1vlja_ 71 GVKPNPVLSKV----------HEAVEVAKKEKVEAVLGVGGG 102 : :::::::: ::::::: ::::::::::::: d1upaa1 62 V--GHELNYGAVTGYMDGILNFPALQTM-FAPVDLVLTVGYD 100