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 | d1sg6a_ | 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 <-- 1.999 --> HitDALI alignment (Z-score: 25.4 Raw score:2870.70) d1vlja_ 1 hhhmenfvfHNPTKIVFGRGTIP-KIGEEIKN-AGIRKVLFLYGGGSIKKngVYDQVVDS 58 :::::::::::::: :::::::: ::::::::::::::::: :::::::: d1sg6a_ 1 ---ptkisiLGRESIIADFGLWRnYVAKDLISdCSSTTYVLVTDTNIGSI--YTPSFEEA 55 d1vlja_ 59 LKKHG------IEWVEVSGVKPN--PVLSKVHEAVEVAK----KEKV-EAVLGVGGGSVV 105 ::::: :::::::::::: :::::::::::::: :::: :::::::::::: d1sg6a_ 56 FRKRAaeitpsPRLLIYNRPPGEvsKSRQTKADIEDWMLsqnpPCGRdTVVIALGGGVIG 115 d1vlja_ 106 DSAKAVAAGALYegdiwdafigkyqiekALPIFDVLTISA--TGTEMNGNAVITNekTKE 163 :::::::::::: :::::::::::: ::::::::::::: ::: d1sg6a_ 116 DLTGFVASTYMR----------------GVRYVQVPTTLLamVDSSIGGKTAIDT--PLG 157 d1vlja_ 164 KY-GVSSkaLYPKVSIIDPSVQFTLPKEQTVYGAVDAISHILEyyfdgsspeisneIAEG 222 :: :::: :::::::::::::::::::::::::::::::::: :::: d1sg6a_ 158 KNlIGAI--WQPTKIYIDLEFLETLPVREFINGMAEVIKTAAI-------------SSEE 202 d1vlja_ 223 TIRTIMKMTERLIEKP------------dDYEARANLAWSATIALNGTMAVgRRGGE-WA 269 :::::::::::::::: :::::::::::::::::::::: ::::: :: d1sg6a_ 203 EFTALEENAETILKAVrrevtpgehrfegTEEILKARILASARHKAYVVSA-GLRNLlNW 261 d1vlja_ 270 CHRIEHSLSALYD--IAHGAGLAIVFPAWMKYVYRKNPaqferfakkifgfegegeelIL 327 ::::::::::::: ::::::::::::::::::::::: :: d1sg6a_ 262 GHSIGHAIEAILTpqILHGECVAIGMVKEAELARHLGI-------------------lKG 302 d1vlja_ 328 KGIEAFKNWLKKVGAPVSL--KDAG----iPEEDIDKIVDNVMLLveknlkpkgaSLGR- 380 ::::::::::::::::::: :::: ::::::::::::::: :::: d1sg6a_ 303 VAVSRIVKCLAAYGLPTSLkdARIRkltagKHCSVDQLMFNMALD----------KKIVl 352 d1vlja_ 381 -----------IMVLEREDVREILKlaak 398 :::::::::::::: d1sg6a_ 353 lsaigtpyetrASVVANEDIRVVLA---- 377 FAST alignment (Normalized score: 14.35 Raw score:5558.00) d1vlja_ 1 HHHMENFVFHNPT----------KIVFGRGTI-PKIGEEIK-NAGIRKVLFLYGGGSIKK 48 ::::::::: :::::::: ::::::::::: :::::: d1sg6a_ 1 -------------PTKISILGRESIIADFGLWRNYVAKDLISDCSSTTYVLVT-DTNIGS 46 d1vlja_ 49 NGVYDQVVDSLKKH-------GIEWVEVSGVKPN--------PVLSKVHEAVEVAKKEKV 93 :::::::::::: ::::::: ::::::::::::::: d1sg6a_ 47 -IYTPSFEEAFRK-RAAEITPSPRLLIY------NRPPGEVSKSRQTKADIEDWMLS--- 95 d1vlja_ 94 --------EAVLGVGGGSVVDSAKAVAAGALYEGDIWDAFIGKYQIE-KALPIFDVLTIS 144 :::::::::::::::::::::: :::::::::::: d1sg6a_ 96 QNPPCGRDTVVIALGGGVIGDLTGFVASTY-----------------MRGVRYVQVPTTL 138 d1vlja_ 145 AT---GTEMNGNAVITNEKTKE------KYGVSSKALYPKVSIIDPSVQFTLPKEQTVYG 195 : ::::::::::: ::::: :::::::::::::::::::::::: d1sg6a_ 139 L-AMVDSSIGGKTAID------TPLGKNLIGAI---WQPTKIYIDLEFLETLPVREFING 188 d1vlja_ 196 AVDAISHILEYYFDGSSPEISNEIAEGTIRTIMKMTERLIEKP--------------DDY 241 ::::::::::: ::::::::::::::::: ::: d1sg6a_ 189 MAEVIKTAAIS-------------SEEEFTALEENAETILK--AVRREVTPGEHRFEGTE 233 d1vlja_ 242 EARANLAWSATIALNGTMAVGRRGGE-------WACHRIEHSLSALY---DIAHGAGLAI 291 :::::::::::::: ::::: ::::::::::::: :::::::::: d1sg6a_ 234 EILKARILASARHK-AYVVS------AGLRNLLNWGHSIGHAIEAI-LTPQILHGECVAI 285 d1vlja_ 292 VFPAWMKYVYRKNPAQFERFAKKIFGFEGEGEEL----ILKGIEAFKNWLKKVGAPVSLK 347 ::::::::::: ::::::::::::::::::::: d1sg6a_ 286 GMVKEAELARH-----------------------LGILKGVAVSRIVKCLAAYGLPTSL- 321 d1vlja_ 348 DAGIPEE--------------DIDKIVDNVMLLVEKNLKPKGASLGR------------- 380 ::::::::::: d1sg6a_ 322 -------KDARIRKLTAGKHCSVDQLMFNMAL---------------DKKIVLLSAIGTP 359 d1vlja_ 381 ----IMVLEREDVREILKLAAK-- 398 :::::::::::: d1sg6a_ 360 YETRASVVANEDIRVV------LA 377 TMalign alignment (TM-score: 0.69 Raw score:274.65) d1vlja_ 1 -----HHHMENFVFHNPTKIVFGRGTI-PKIGEEIKN-AGIRKVLFLYGGGSIKKNGVYD 53 :::::::::::::: ::::::::: ::::::::::::::::: ::: d1sg6a_ 1 PTKIS--------ILGRESIIADFGLWRNYVAKDLISDCSSTTYVLVTDTNIGSI--YTP 50 d1vlja_ 54 QVVDSLKK-H------GIEWVEVSGVKPNPVLS-KVHEAVEVAKK---EKV--EAVLGVG 100 :::::::: : ::::::::::::::::: ::::::::::: ::: ::::::: d1sg6a_ 51 SFEEAFRKRAAEITPSPRLLIYNRPPGEVSKSRQTKADIEDWMLSQNPPCGRDTVVIALG 110 d1vlja_ 101 GGSVVDSAKAVAAGALYEGDIWDAFIGKYQIEKALPIFDVLTISAT-G-TEMNGNAVITN 158 ::::::::::::::::: ::::::::::::: : ::::::::::: d1sg6a_ 111 GGVIGDLTGFVASTYMR----------------GVRYVQVPTTLLAMVDSSIGGKTAIDT 154 d1vlja_ 159 EKTKEKYGVSSKALYPKVSIIDPSVQFTLPKEQTVYGAVDAISHILEYYFDGSSPEISNE 218 :::::::::: ::::::::::::::::::::::::::::::::: : : d1sg6a_ 155 -PLGKNLIGAI--WQPTKIYIDLEFLETLPVREFINGMAEVIKTAA--I---------S- 199 d1vlja_ 219 IAEGTIRTIMKMTERLIEKP---------DDY--E-ARANLAWSATIALNGTMAVGRRGG 266 ::::::::::::::::::: ::: : ::::::::::::::::::: :::: d1sg6a_ 200 -SEEEFTALEENAETILKAVRREVTPGEHRFEGTEEILKARILASARHKAYVVSA-GLRN 257 d1vlja_ 267 E-WACHRIEHSLSAL-YD-IAHGAGLAIVFPAWMKYVYRKNPAQFERFAKKIFGFEGEGE 323 : ::::::::::::: :: ::::::::::::::::::::::: : d1sg6a_ 258 LLNWGHSIGHAIEAILTPQILHGECVAIGMVKEAELARHLGI--L--------------- 300 d1vlja_ 324 ELILKGIEAFKNWLKKVGAPVSLKD--AG--I--PEEDIDKIVDNVMLLVEKNLKPKGAS 377 ::::::::::::::::::::::: :: : :::::::::::::: : :: d1sg6a_ 301 --KGVAVSRIVKCLAAYGLPTSLKDARIRKLTAGKHCSVDQLMFNMAL-D--------KK 349 d1vlja_ 378 LG-----------RIMVLEREDVREILKLAAK 398 :: ::::::::::::: :: d1sg6a_ 350 IVLLSAIGTPYETRASVVANEDIRVV-LA--- 377 HHsearch alignment (Probability: 1.00 E-value:0.00) d1vlja_ 13 TKIVFGRGTIPK--IGEEIKNAGIRKVLFLYGGGSIKKNGVYDQVVDSLKKHGIE----- 65 :::::::::::: :::::::::::::::::::::::: ::::::::::::::: d1sg6a_ 10 ESIIADFGLWRNYVAKDLISDCSSTTYVLVTDTNIGSI--YTPSFEEAFRKRAAEITPSP 67 d1vlja_ 66 ---WVEVSGVKPNPVLSKVHEAVEVAKKEK-----VEAVLGVGGGSVVDSAKAVAAGALY 117 ::::::::::::::::::::::::::: ::::::::::::::::::::::: d1sg6a_ 68 RLLIYNRPPGEVSKSRQTKADIEDWMLSQNPPCGRDTVVIALGGGVIGDLTGFVASTY-- 125 d1vlja_ 118 EGDIWDAFIGKYQIEKALPIFDVLTI--SATGTEMNGNAVITNEKTKEKYGVSSKALYPK 175 :::::::::::: ::::::::::::::::::::::::: :::: d1sg6a_ 126 --------------MRGVRYVQVPTTLLAMVDSSIGGKTAIDTPLGKNLIGAI---WQPT 168 d1vlja_ 176 VSIIDPSVQFTLPKEQTVYGAVDAISHILEYYFDGSSPEISNEIAEGTIRTIMKMTE-RL 234 :::::::::::::::::::::::::::::::::::::::::: ::::::::::::: :: d1sg6a_ 169 KIYIDLEFLETLPVREFINGMAEVIKTAAISSEEEFTALEEN--AETILKAVRREVTPGE 226 d1vlja_ 235 IEKPDDYEARANLAWSATIALNGTMAVGRRGGEWACHRIEHSLSAL--YDIAHGAGLAIV 292 :::::::::::::::::::::::::::::::::::::::::::::: :::::::::::: d1sg6a_ 227 HRFEGTEEILKARILASARHKAYVVSAGLRNLLNWGHSIGHAIEAILTPQILHGECVAIG 286 d1vlja_ 293 FPAWMKYVYRKNPAQFERFAKKIFGFEGEGEELILKGIEAFKNWLKKVGAPVSLKDAGIP 352 ::::: :::::::::: :::::::::::::::::::::::::: d1sg6a_ 287 MVKEA------------ELARHLGILK-------GVAVSRIVKCLAAYGLPTSLKDARIR 327 d1vlja_ 353 EED------IDKIVDNVMLLVEKNLKPKGASL---GRIMVLEREDVREIL 393 ::: ::::::::::::::: ::::::: ::::::::::::::: d1sg6a_ 328 KLTAGKHCSVDQLMFNMALDKKIV-LLSAIGTPYETRASVVANEDIRVVL 376