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 | d1ujna_ | Dehydroquinate synthase, DHQS | Dehydroquinate synthase-like | Dehydroquinate synthase-like | multi |
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 <-- 1.850 --> HitDALI alignment (Z-score: 22.8 Raw score:2580.60) d1vlja_ 1 hhhmenfvFHNPTKIVFGRGTIPKIgEEIKnagiRKVLFLYGgGSIKknGVYDQVVDSLK 60 ::::::::::::::::: :::: :::::::: :::: ::::::::::: d1ujna_ 1 -mqrlevrEPVPYPILVGEGVLKEV-PPLA----GPAALLFD-RRVE--GFAQEVAKALG 51 d1vlja_ 61 khgiEWVEVSGVKPN-PVLS-KVHEAVEVAKKEKV---EAVLGVGGGSVVDSAKAVAAGA 115 ::::::::::: :::: :::::::::::::: :::::::::::::::::::::: d1ujna_ 52 ----VRHLLGLPGGEaAKSLeVYGKVLSWLAEKGLprnATLLVVGGGTLTDLGGFVAATY 107 d1vlja_ 116 LYegdiwdafigkyqiekALPIFDVLTISA--TGTEMNGNAVITNeKTKEKYGVSSkaLY 173 :: :::::::::::: ::::::::::::: :::::::::: :: d1ujna_ 108 LR----------------GVAYLAFPTTTLaiVDASVGGKTGINL-PEGKNLVGAF--HF 148 d1vlja_ 174 PKVSIIDPSVQFTLPKEQTVYGAVDAISHILEyyfdgsspeisneiAEGTirTIMKmTER 233 :::::::::::::::::::::::::::::::: :::: :::: ::: d1ujna_ 149 PQGVYAELRALKTLPLPTFKEGLVEAFKHGLI--------------AGDE--ALLK-VED 191 d1vlja_ 234 LIekPDDYEaRANLAWSATIALnGTMAVG-----RRGGE-WACHRIEHSLSAL--YDIAH 285 :: ::::: :::::::::::: :::::: ::::: ::::::::::::: ::::: d1ujna_ 192 LT--PQSPR-LEAFLARAVAVK-VRVTEEdplekGKRRLlNLGHTLGHALEAQtrHALPH 247 d1vlja_ 286 GAGLAIVFPAWMKYVY-RKNPaqferfakkifgfegegeelilkGIEAFKNWLKKVGAPv 344 :::::::::::::::: :::: ::::::::::::::: d1ujna_ 248 GMAVAYGLLYAALLGRaLGGE-----------------------DLLPPVRRLLLWLSP- 283 d1vlja_ 345 slkDAGIPEeDIDKIVDNVmllveknlkpkgaSLGR---------IMVLEREDVREILKL 395 :::::: ::::::::: :::: ::::::::::::::: d1ujna_ 284 ---PPLPPL-AFEDLLPYL------------sLHWVvplapgrlvVRPLPEGLLREAFAA 327 d1vlja_ 396 AAK-------- 398 ::: d1ujna_ 328 WREelkglgll 338 FAST alignment (Normalized score: 11.91 Raw score:4367.00) d1vlja_ 1 HHHMENFV-------FHNPTKIVFGRGTIPKIGEEIKNAGI-----RKVLFLYGGGSIKK 48 :::::::::::::::: :::::::: d1ujna_ 1 --------MQRLEVREPVPYPILVGEGVLKE----------VPPLAGPAALLFD------ 36 d1vlja_ 49 N-GVYDQVVDSLKKHGIEWVEVSGVKPN--------PVLSKVHEAVEVAKKEKV---EAV 96 ::::::::::::::: :::: :::::::::::::::::: ::: d1ujna_ 37 -RRVEGFAQEVAKALGV-RHLL------GLPGGEAAKSLEVYGKVLSWLAEKGLPRNATL 88 d1vlja_ 97 LGVGGGSVVDSAKAVAAGALYEGDIWDAFIGKYQIE-KALPIFDVLTISAT---GTEMNG 152 ::::::::::::::::::: ::::::::::::: :::::: d1ujna_ 89 LVVGGGTLTDLGGFVAATY-----------------LRGVAYLAFPTTTL-AIVDASVGG 130 d1vlja_ 153 NAVITNEKTKE-----KYGVSSKALYPKVSIIDPSVQFTLPKEQTVYGAVDAISHILEYY 207 :::::: ::::: :::::::::::::::::::::::::::::::::: d1ujna_ 131 KTGINL-----PEGKNLVGAF---HFPQGVYAELRALKTLPLPTFKEGLVEAFKHGLI-- 180 d1vlja_ 208 FDGSSPEISNEI--AEGTIRTIMKMTERLIEKPDDYEARANLAWSATIALNGTMAVGRRG 265 ::::: :::: ::::: :::::::::::::: :::::: d1ujna_ 181 ------------AGDEALL-KVED------LTPQS-PRLEAFLARAVAVK-VRVTEE--- 216 d1vlja_ 266 GEW------------ACHRIEHSLSALY--DIAHGAGLAIVFPAWMKYVYRKNPAQFERF 311 ::::::::::::: ::::::::::::::::::::: d1ujna_ 217 ---DPLEKGKRRLLNLGHTLGHALEAQTRHALPHGMAVAYGLLYAALLGRA--------- 264 d1vlja_ 312 AKKIFGFEGEGEE----LILKGIEAFKNWLKKVGAPVSLKD-AGIPEEDIDKIVDNVMLL 366 :::::::::::: ::::: ::::::::::: d1ujna_ 265 -------------LGGEDLLPPVRRLLLW---LSPPP----LPPLAFEDLLPY------- 297 d1vlja_ 367 VEKNLKPKGASLGR---------------IMVLEREDVREILKLAAK--------- 398 ::::::::::::::::: d1ujna_ 298 --------------LSLHWVVPLAPGRLVVRPLPEGLLREAFAAWR-EELKGLGLL 338 TMalign alignment (TM-score: 0.64 Raw score:255.65) d1vlja_ 1 ------HHHMENFVFHNPTKIVFGRGTIPKIGEEIKNAGIRKVLFLYGGGSIKKNGVYDQ 54 :::::::::::::::::: ::: ::::: :::: :::: ::::: d1ujna_ 1 MQRLEV-------REPVPYPILVGEGVLKEV--PPL--AGPAA-LLFD-RRVE--GFAQE 45 d1vlja_ 55 VVDSLKKHGIEWVEVSGVKPNPVLS-KVHEAVEVAKKEKV---EAVLGVGGGSVVDSAKA 110 ::::: : :::::::::::::::: :::::::::::::: ::::::::::::::::: d1ujna_ 46 VAKAL--G-VRHLLGLPGGEAAKSLEVYGKVLSWLAEKGLPRNATLLVVGGGTLTDLGGF 102 d1vlja_ 111 VAAGALYEGDIWDAFIGKYQIEKALPIFDVLTISA--TGTEMNGNAVITNEKTKEKYGVS 168 ::::::: :::::::::::: ::::::::::::: ::::::::: d1ujna_ 103 VAATYLR----------------GVAYLAFPTTTLAIVDASVGGKTGINL-PEGKNLVGA 145 d1vlja_ 169 SKALYPKVSIIDPSVQFTLPKEQTVYGAVDAISHILEYYFDGSSPEISNEIAEGTIRTIM 228 : ::::::::::::::::::::::::::::::::: : ::: :::: d1ujna_ 146 F--HFPQGVYAELRALKTLPLPTFKEGLVEAFKHGL--I------------AGD--EALL 187 d1vlja_ 229 KMTERLIEKPDDYEARANLAWSATIALNGTMAVG----RRGGE-WACHRIEHSLSA--LY 281 : ::::: ::: ::::::::::::::::::::: ::::: :::::::::::: :: d1ujna_ 188 K-VEDLT--PQS-PRLEAFLARAVAVKVRVTEEDPLEKGKRRLLNLGHTLGHALEAQTRH 243 d1vlja_ 282 DIAHGAGLAIVFPAWMKYVYRKNPAQFERFAKKIFGFEGEGEELILKGIEAFKNWLKKVG 341 :::::::::::::::::::::: : : : ::::::::::::: d1ujna_ 244 ALPHGMAVAYGLLYAALLGRAL-G--G-----------------E--DLLPPVRRLLLWL 281 d1vlja_ 342 APVSLKDAGIPEEDIDKIVDNVMLLVEKNLKPKGASLG--------RIMVLEREDVREIL 393 :: :::::::::: :::::: : ::: :::::::::::::: d1ujna_ 282 SP----PPLPPLAFED-LLPYLS--L---------HWVVPLAPGRLVVRPLPEGLLREAF 325 d1vlja_ 394 KLAA--------K 398 :::: : d1ujna_ 326 AAWREELKGLGLL 338 HHsearch alignment (Probability: 1.00 E-value:0.00) d1vlja_ 10 HNPTKIVFGRGTIPKIGEEIKNAGIRKVLFLYGGGSIKKNGVYDQVVDSLKKHGIEWVEV 69 ::::::::::::::::::: :::::::::::::: :::::::::::: ::::: d1ujna_ 9 PVPYPILVGEGVLKEVPPL-----AGPAALLFDRRVEG---FAQEVAKALGVR--HLLGL 58 d1vlja_ 70 SGVKPNPVLSKVHEAVEVAKKEKVE---AVLGVGGGSVVDSAKAVAAGALYEGDIWDAFI 126 ::::::::::::::::::::::::: ::::::::::::::::::::: d1ujna_ 59 PGGEAAKSLEVYGKVLSWLAEKGLPRNATLLVVGGGTLTDLGGFVAATY----------- 107 d1vlja_ 127 GKYQIEKALPIFDVLTIS--ATGTEMNGNAVITNEKTKEKYGVSSKALYPKVSIIDPSVQ 184 ::::::::::::: :::::::::::::::::::::: ::::::::::::::: d1ujna_ 108 -----LRGVAYLAFPTTTLAIVDASVGGKTGINLPEGKNLVG---AFHFPQGVYAELRAL 159 d1vlja_ 185 FTLPKEQTVYGAVDAISHILEYYFDG--------SSPEISNEIAEGTIRTIMKMTERLIE 236 :::::::::::::::::::::::::: ::::::::::::::::::: :::: d1ujna_ 160 KTLPLPTFKEGLVEAFKHGLIAGDEALLKVEDLTPQSPRLEAFLARAVAVKVR---VTEE 216 d1vlja_ 237 KPDDYEARANLAWSATIALNGTMAVGRRGGEWACHRIEHSLSAL--YDIAHGAGLAIVFP 294 :: :::::::::::::::::::::: :::::::::::::: d1ujna_ 217 DP--------------------LEKGKRRLLNLGHTLGHALEAQTRHALPHGMAVAYGLL 256 d1vlja_ 295 AWMKYVYRKNPAQFERFAKKIFGFEGEGEELILKGIEAFKNWLKKVGAPVSLKDAGIPEE 354 :: :::::::::: ::::::::::::::::: ::::: d1ujna_ 257 YA------------ALLGRALGGE---------DLLPPVRRLLLWLSPPP-LPPLA---- 290 d1vlja_ 355 DIDKIVDNVMLLVEKNLKPKGASLGRIMVLEREDVREILKLA 396 :::::::: :::: :::::::::::::::::::::::::: d1ujna_ 291 -FEDLLPYL-SLHW--VVPLAPGRLVVRPLPEGLLREAFAAW 328