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 | d1j0aa_ | 1-aminocyclopropane-1-carboxylate deaminase | Tryptophan synthase beta subunit-like PLP-dependent enzymes | Tryptophan synthase beta subunit-like PLP-dependent enzymes | α/β |
| Hit | d1h2ea_ | Broad specificity phosphatase PhoE (YhfR) | Phosphoglycerate mutase-like | Phosphoglycerate mutase-like | α/β |
Query <-- 0.705 --> IntermediateDALI alignment (Z-score: 6.6 Raw score:607.90) query 1 -----------------------------------------DADEEVY------salvVG 13 ::::::: :: d1j0aa_ 1 mhpkifallakfprvelipwetpiqylpnisreigadvyikRDDLTGLgiggnkirklEY 60 query 14 LRAYVAKNGFRSVLIGLS-GGIDSALVAAIACDALGaqNVYGVSMPskySSDHskGDAAE 72 :::::::::::::::::: ::::::::::::::::: :::::::: :::: ::::: d1j0aa_ 61 LLGDALSKGADVVITVGAvHSNHAFVTGLAAKKLGL--DAILVLRG---KEEL--KGNYL 113 query 73 LARRTGLNFRTVSIEpmfdaymaslgltglaeenlQSRLRGTTLMAISNQEG-----HIV 127 ::::::::::::::: ::::::::::::::::: ::: d1j0aa_ 114 LDKIMGIETRVYDAK--------------------DSFELMKYAEEIAEELKregrkPYV 153 query 128 LA-PGNKselavgystlygdsvgaygpIKDVYktsifrlaewrnraaaergqtppipeas 186 :: :::: ::::: d1j0aa_ 154 IPpGGAS------------------piGTLGY--------vravgeiatqsevkfdsivv 187 query 187 itkpdypvldailELYVdRDTGAdaivaagydrelvvkTLRM------vdtaEYKRRQYp 240 :::: ::::: :::: ::::::: d1j0aa_ 188 aagsggtlaglslGLSI-LNEDI---------------RPVGiavgrfgevmTSKLDNL- 230 query 241 pgtkisakGFGK-DRRL------------------------------------------- 256 :::: :::: d1j0aa_ 231 -----ikeAAELlGVKVevrpelydysfgeygkitgevaqiirkvgtregiildpvytgk 285 query 257 ------------------------------pitnrwregh 266 d1j0aa_ 286 afyglvdlarkgelgekilfihtggisgtfhygdkllsll 325 FAST alignment (Normalized score: 3.52 Raw score:1034.00) query 1 DADE---------------------------------------------------EVYSA 9 ::::: d1j0aa_ 1 ----MHPKIFALLAKFPRVELIPWETPIQYLPNISREIGADVYIKRDDLTGLGIGGNKIR 56 query 10 LVVGLRAYVAKNGFRSVLIGLSG--GIDSALVAAIACDALGAQ---NVYGVSMPSKYSSD 64 :::::::::::::::::::::: ::::::::::::: :::::: d1j0aa_ 57 KLEYLLGDALSKGADVVITVGA-VHSNHAFVTGLAAKK-----LGLDAILVL-------- 102 query 65 HS-----KGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENL--QSRLRGTTLM 117 ::::::::::::::::::: :::::::::: d1j0aa_ 103 --RGKEELKGNYLLDKIMGIETRVYD----------------------AKDSFELMKYAE 138 query 118 AISNQ-----EGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNRA 172 ::::: :::::: d1j0aa_ 139 EIAEELKREGRKPYVI-------------------------------------------- 154 query 173 AAERGQTPPIPEASITKPDY---------------------------------------P 193 : d1j0aa_ 155 --------------------PPGGASPIGTLGYVRAVGEIATQSEVKFDSIVVAAGSGGT 194 query 194 VLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKD 253 :::::::: ::::: d1j0aa_ 195 LAGLSLGL-SILNE---------------------------------------------- 207 query 254 RRLPITNRWREGH----------------------------------------------- 266 d1j0aa_ 208 -------------DIRPVGIAVGRFGEVMTSKLDNLIKEAAELLGVKVEVRPELYDYSFG 254 query 267 ------------------------------------------------------------ 267 d1j0aa_ 255 EYGKITGEVAQIIRKVGTREGIILDPVYTGKAFYGLVDLARKGELGEKILFIHTGGISGT 314 query 267 ----------- 267 d1j0aa_ 315 FHYGDKLLSLL 325 TMalign alignment (TM-score: 0.33 Raw score:88.80) query 1 ------DADEEV------------------------------------------------ 6 :::::: d1j0aa_ 1 MHPKIFALLAKFPRVELIPWETPIQYLPNISREIGADVYIKRDDLTGLGIGGNKIRKLEY 60 query 7 ------------------------------------------------------------ 7 d1j0aa_ 61 LLGDALSKGADVVITVGAVHSNHAFVTGLAAKKLGLDAILVLRGKEELKGNYLLDKIMGI 120 query 7 --------------------------------------------Y--SALVVGLRAYVAK 20 : ::::::::::: : d1j0aa_ 121 ETRVYDAKDSFELMKYAEEIAEELKREGRKPYVIPPGGASPIGTLGYVRAVGEIATQS-E 179 query 21 NGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELAR----- 75 :::::::::::::::::::::::::::: ::::::::::: :::::::::::::: d1j0aa_ 180 VKFDSIVVAAGSGGTLAGLSLGLSILNE-DIRPVGIAVGR-FGEVMTSKLDNLIKEAAEL 237 query 76 ----RTGLNFRTVSIEPM--FDAYM-ASL-------------GLTGLAEENLQS-RLRGT 114 :::::::::::::: ::::: :: :::: ::::: d1j0aa_ 238 LGVKVEVRPELYDYSFGEYGKITGEV-AQIIRKVGTREGIIL--------DPVYTGKAFY 288 query 115 TLMAISN-Q-EG--HIVLAPGNKSELAVGYST-----------LYGDSVGAYGPIKDVYK 159 ::::::: : :: ::::::: : :::: d1j0aa_ 289 GLVDLARKGELGEKILFIHTG---G---ISGTFHYGDKLLSLL----------------- 325 query 160 TSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDR 219 d1j0aa_ 326 ------------------------------------------------------------ 326 query 220 ELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 d1j0aa_ 326 ----------------------------------------------- 326 HHsearch alignment (Probability: 0.05 E-value:0.29) query 11 VVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDA 70 :::::::::::::::::::::::::::::::::::::::::: :::: :::::::::: d1j0aa_ 58 LEYLLGDALSKGADVVITVGAVHSNHAFVTGLAAKKLGLDAI--LVLR--GKEELKGNYL 113 query 71 AELARRTGLNFRTVS 85 ::::::::::::::: d1j0aa_ 114 LDKIMGIETRVYDAK 128
Intermediate <-- 0.606 --> HitDALI alignment (Z-score: 3.1 Raw score:448.80) d1j0aa_ 1 mhpkifallakfprvelipwetpiqylpnisreiGADVYIKrddltglgiggnkiRKLEY 60 ::::::: ::::: d1h2ea_ 1 ----------------------------------ATTLYLT------------rhGETKW 14 d1j0aa_ 61 LLGDalskgadvvitvgavhsnhafvtglaakklgldailvlrgkeelkgnylldkimgi 120 :::: d1h2ea_ 15 NVER-------------------------------------------------------- 18 d1j0aa_ 121 etrvydakdsfelmkyaeeiaeelkregrkpyvIPPGGASPigtlgyVRAVGEIATQS-E 179 :::::::: ::::::::::: : d1h2ea_ 19 --------------------------------rMQGWQDSP-ltekgRQDAMRLGKRLeA 45 d1j0aa_ 180 VKFDSIVVAAgSGGTLAGLSLGLSilNEDIRPVGIAVgrfgevmtskldnlikeaaellg 239 :::::::::: ::::::::::::: ::::::::::: d1h2ea_ 46 VELAAIYTST-SGRALETAEIVRG--GRLIPIYQDER-----------------lreihl 85 d1j0aa_ 240 vkvevrpelydysfgeygkitgevaqiirkvgtregiilDPVYTGKAFYGLVDLARkgel 299 ::::::::::::::::: d1h2ea_ 86 gdwegkthdeirqmdpiafdhfwqaphlyapqrgerfcdVQQRALEAVQSIVDRHE---- 141 d1j0aa_ 300 gEKILFIHT--GGIS----gtFHYGDK--------------------------------- 320 :::::::: :::: :::::: d1h2ea_ 142 gETVLIVTHgvVLKTlmaafkDTPLDHlwsppymygtsvtiievdggtfhvavegdvshi 201 d1j0aa_ 321 -llsll 325 d1h2ea_ 202 eevkev 207 FAST alignment (Normalized score: 2.52 Raw score:653.70) d1j0aa_ 1 MHPKIFALLAKFPRVELIPWETPIQYLPNISREIGADVYIKRDDLTGLGIGGNKIRKLEY 60 ::::::: d1h2ea_ 1 ----------------------------------ATTLYLT------------------- 7 d1j0aa_ 61 LLGDALSKGADVVITVGAVHSNHAFVTGLAAKKLGLDAILVLRGKEELKGNYLLDKIMGI 120 d1h2ea_ 8 ------------------------------------------------------------ 8 d1j0aa_ 121 ETRVYDAKDSFELMKYAEEIAEELKREGRKPYVIPP---------------GGASPIG-- 163 :::: d1h2ea_ 8 ------------------------------------RHGETKWNVERRMQGWQDS---PL 28 d1j0aa_ 164 ----TLGYVRAVGEIATQSEVKFDSIVVAAGSGGT-LAGLSLGLSI--LNEDIRPVGIAV 216 ::::::::::: ::::::::::: :::::::::: :::::::::: d1h2ea_ 29 TEKGRQDAMRLGKRL---EAVELAAIYTS------TSGRALETAEIVRGGRLIPIYQD-- 77 d1j0aa_ 217 GRFGEVMTSKLDNLIKEAAELLGVKVEVRPELYDYSFGEYGKITGEVAQIIRKVGTREGI 276 d1h2ea_ 78 ------------------------------------------------------------ 78 d1j0aa_ 277 ILDP-------------------------------------------------VYTGKAF 287 ::::::: d1h2ea_ 78 ----ERLREIHLGDWEGKTHDEIRQMDPIAFDHFWQAPHLYAPQRGERFCDVQQRALEAV 133 d1j0aa_ 288 YGLVDLARKGELG--EKILFIHTG------GISGTFHYGDKLLSLL-------------- 325 ::::::: :::::::: ::::: d1h2ea_ 134 QSIVDRH------EGETVLIVTH-GVVLKTLMAAF-----------KDTPLDHLWSPPYM 175 d1j0aa_ 326 -------------------------------- 326 d1h2ea_ 176 YGTSVTIIEVDGGTFHVAVEGDVSHIEEVKEV 207 TMalign alignment (TM-score: 0.25 Raw score:80.88) d1j0aa_ 1 ---------MHPKIFALLAKFPRVELI-PWETP--IQYLPNISREIGADVYIK------- 41 : :: ::: d1h2ea_ 1 ATTLYLTRH-----------------GE---TKWN---------------VERRMQGWQD 25 d1j0aa_ 42 RDDLTGLGIGGNKIRKLEYLLGDALSKGADVVITVGAVHSNHAFVTGLAAKKLGLDAILV 101 ::::: :: :::::::::::::: :::::::: : ::::::::::::::::::::: d1h2ea_ 26 -SPLTE----KG-RQDAMRLGKRLEAV-ELAAIYTS-T-SGRALETAEIVRGGRLIPIYQ 76 d1j0aa_ 102 LRG----------------------------------------------KEELKGNYLLD 115 ::: d1h2ea_ 77 DERLREIHLGDWEGKTHDEIRQMDPIAFDHFWQAPHLYAPQRGERFCDV----------- 125 d1j0aa_ 116 KIMGIETRVYDAKDSFELMKYAEEIAEELKREGRKPYVIPPGGASPIGTLGYVRAVGEIA 175 ::::::::::::::::: : ::::::: d1h2ea_ 126 -----------QQRALEAVQSIVDRHEG-E-----TVLIVTH------------------ 150 d1j0aa_ 176 TQSEVKFDSIVVAAGSGG----------TLAGLSLGLSILNEDIRPVGIAVGRFGEVMTS 225 ::::: :::::: d1h2ea_ 151 -------------GVVLKTLMAAFKDTP--------------------------LDHLWS 171 d1j0aa_ 226 KLDNLI------------------KEAAELL-----GVKVEVRPELYDYSFGEYGKITGE 262 :::: ::::::: : d1h2ea_ 172 --PPYMYGTSVTIIEVDGGTFHVAVEGDVSHIEEVK-------E---------------- 206 d1j0aa_ 263 VAQIIRKVGTREGIILDPVYTGKAFYGLVDLARKGELGEKILFIHTGGISGTFHYGDKLL 322 : d1h2ea_ 207 -------------------------------------------V---------------- 207 d1j0aa_ 323 SLL 325 d1h2ea_ 208 --- 208 HHsearch alignment (Probability: 0.06 E-value:0.24) d1j0aa_ 170 AVGEIATQSEVKFDSIVVAAGSGGTLAGLSLGLSI 204 :::::::::: :::::::::::::::::::::: d1h2ea_ 132 AVQSIVDRHE---GETVLIVTHGVVLKTLMAAFKD 163