Citrus Sinensis ID: 017920

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360----
MAITTTRSLSVTPVTRRSATPINPLRSSSLSYSLTRPFGSNLTLKVPSFRVSASSMSSIHAPESASRTSFLDRRESGFLHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKLCDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGKQSFTVHTGAGLIVPEIQDDGKVKVDMGEPILKASDVPTSLSANKDQSVVKSELDVDGVKWNVTCVSMGNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQLKMRVWERGAGATLACGTGACAVVVAAVLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTGPAEVVFYGSVLLN
ccEEEEEEEEEcccccccccccccccccccccccccccccEEEcccccccEEccccccccccccccccHHccccccccEEEEccccccccEEEEEccccccccccHHHHHHHHcccccccccEEEEEEcccccccEEEEEEcccccHHcccHHHHHHHHHHHHHHcccccccEEEEEEccEEEEEEEEccccEEEEccccccccccccccccccccccEEEEEEEEccEEEEEEEEEccccEEEEEEcccccccccccccHHHccccccccccccccccEEEEEEEcccEEEEEEEcccccHHccccccHHHHHHHHHHHccccccEEEEEccccEEEEEEccccEEEEEccccEEEEEEEEcc
cEEEEEEEcccccccccccccccccccccccccccccccccEEEEcccccEEEcccccccccccccHHHccccccccEEEEEEcccccccEEEEEccccccccccHHHHHHHHHHcccccccEEEEEEcccccccEEEEEEEccccEEccccccHHHHHHHHHHHcccccccEEEEEEcccEEEEEEccccEEEEccccccccccccccccccccccEEEEEEEEEcccEEEEEEEEcccEEEEEEEEccccccccccccHHHHHHHHHcccccccccEEEEEEEEEccEEEEEEEEcccEEccccHHHHHHHHHHHHHHcccccEEEEEEccEEEEEEEccccccEEEEEccEEEEEEEcccc
maitttrslsvtpvtrrsatpinplrssslsysltrpfgsnltlkvpsfrvsassmssihapesasrtsfldrreSGFLHFVKYhglgndfilvdnrnstepritpeqAAKLCdrnfgigadgvifampgvngtdyTMRIfnsdgsepemcgngVRCFARFIAELENlngkqsftvhtgaglivpeiqddgkvkvdmgepilkasdvptslsankdqsvvkseldvdgvkWNVTCvsmgnphcvtfgtkegqnlkvdklnlaeigpkfehhsvfpartntefveiispsqlKMRVWErgagatlacgTGACAVVVAAVLEGhaerrctvdlpggpldiewkeednhvymtgPAEVVFYGSVLLN
maitttrslsvtpvtrrsatpinplrssslsyslTRPFGSNLTLKVPSFRVSASsmssihapesasrtsfLDRRESGFLHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKLCDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGKQSFTVHTGAGLIVPEIQDDGKVKVDMGEPILkasdvptslsankdqsvvksELDVDGVKWNVTCVSMGNPHCVtfgtkegqnlKVDKLNLAEIGPKfehhsvfpartntEFVEIISPSQLKMRVWERGAGATLACGTGACAVVVAAVLEGHaerrctvdlpggpLDIEWKEEDNHVYMTGPAEVVFYGSVLLN
MAITTTRSLSVTPVTRRSATPINPlrssslsyslTRPFGSNLTLKVPSFRVSASSMSSIHAPESASRTSFLDRRESGFLHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKLCDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGKQSFTVHTGAGLIVPEIQDDGKVKVDMGEPILKASDVPTSLSANKDQSVVKSELDVDGVKWNVTCVSMGNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQLKMRVWERgagatlacgtgacavvvaavLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTGPAEVVFYGSVLLN
**************************************************************************ESGFLHFVKYHGLGNDFILVDNR**********QAAKLCDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGKQSFTVHTGAGLIVPEIQDDGKVKV**************************SELDVDGVKWNVTCVSMGNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQLKMRVWERGAGATLACGTGACAVVVAAVLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTGPAEVVFYGSVL**
*****T**LSV*****************************NLTLKVPSFRVSA*************************LHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKLCDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGKQSFTVHTGAGLIVPEIQDDGKVKVDMGEPILKASDVPTSLSANKDQSVVKSELDVDGVKWNVTCVSMGNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQLKMRVWERGAGATLACGTGACAVVVAAVLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTGPAEVVFYGSVLLN
******************ATPINPLRSSSLSYSLTRPFGSNLTLKVPSFR********************LDRRESGFLHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKLCDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGKQSFTVHTGAGLIVPEIQDDGKVKVDMGEPILKASDVPTSLSANKDQSVVKSELDVDGVKWNVTCVSMGNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQLKMRVWERGAGATLACGTGACAVVVAAVLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTGPAEVVFYGSVLLN
MAITTTRSLSVT*************************FGSNLTLKVPSFRVSAS***************F***RESGFLHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKLCDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGKQSFTVHTGAGLIVPEIQDDGKVKVDMGEPILKASDVPTSLSANKDQSVVKSELDVDGVKWNVTCVSMGNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQLKMRVWERGAGATLACGTGACAVVVAAVLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTGPAEVVFYGSVLLN
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MAITTTRSLSVTPVTRRSATPINPLRSSSLSYSLTRPFGSNLTLKVPSFRVSASSMSSIHAPESASRTSFLDRRESGFLHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKLCDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGKQSFTVHTGAGLIVPEIQDDGKVKVDMGEPILKASDVPTSLSANKDQSVVKSELDVDGVKWNVTCVSMGNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQLKMRVWERGAGATLACGTGACAVVVAAVLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTGPAEVVFYGSVLLN
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query364 2.2.26 [Sep-21-2011]
Q9LFG2362 Diaminopimelate epimerase yes no 0.989 0.994 0.745 1e-160
Q2QNF7354 Diaminopimelate epimerase yes no 0.879 0.903 0.736 1e-138
A2ZLS4357 Putative diaminopimelate N/A no 0.879 0.896 0.733 1e-137
Q116P1278 Diaminopimelate epimerase yes no 0.75 0.982 0.676 1e-110
P74667279 Diaminopimelate epimerase N/A no 0.752 0.982 0.656 1e-106
Q8YVD0279 Diaminopimelate epimerase yes no 0.758 0.989 0.626 1e-104
B1XP39281 Diaminopimelate epimerase yes no 0.763 0.989 0.622 1e-103
Q5N013280 Diaminopimelate epimerase yes no 0.755 0.982 0.639 1e-103
Q31LW2280 Diaminopimelate epimerase yes no 0.755 0.982 0.639 1e-103
B2J3A7279 Diaminopimelate epimerase yes no 0.758 0.989 0.616 1e-100
>sp|Q9LFG2|DAPF_ARATH Diaminopimelate epimerase, chloroplastic OS=Arabidopsis thaliana GN=DAPF PE=1 SV=1 Back     alignment and function desciption
 Score =  565 bits (1456), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 272/365 (74%), Positives = 302/365 (82%), Gaps = 5/365 (1%)

Query: 1   MAITTTRSLSVTPVTRR--SATPINPLRSSSLSYSLTRPFGSNLTLKVPSFRVSASSMSS 58
           M I    ++SV P +RR  +A   N    SSLS+     F      K PS RVSA++   
Sbjct: 1   MEIAAVSTVSVAPQSRRVSNAFSRNLGSVSSLSFGF---FEKEYCFKSPSLRVSAAASMD 57

Query: 59  IHAPESASRTSFLDRRESGFLHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKLCDRNFG 118
               E  S  SFLD++E+G LHFVKYHGLGNDFILVDNR+S+EP+IT EQAAKLCDRNFG
Sbjct: 58  AVTAEKFSPASFLDKKETGVLHFVKYHGLGNDFILVDNRDSSEPKITQEQAAKLCDRNFG 117

Query: 119 IGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGKQSFTVHT 178
           +GADGVIFAMPGVNGTDY MRIFNSDGSEPEMCGNGVRCFARFIAELENL GK SFT+HT
Sbjct: 118 VGADGVIFAMPGVNGTDYAMRIFNSDGSEPEMCGNGVRCFARFIAELENLQGKHSFTIHT 177

Query: 179 GAGLIVPEIQDDGKVKVDMGEPILKASDVPTSLSANKDQSVVKSELDVDGVKWNVTCVSM 238
           GAGLIVPEIQDDG+VKVDMG PILKA DVPT LS NK ++VV++EL VDGV WNVTCVSM
Sbjct: 178 GAGLIVPEIQDDGQVKVDMGTPILKAQDVPTKLSGNKGEAVVEAELVVDGVSWNVTCVSM 237

Query: 239 GNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQLKMRVWER 298
           GNPHC+TFG K G NLKVD LNL EIGPKFEHH +FPARTNTEFVE++S S LKMRVWER
Sbjct: 238 GNPHCITFGKKGGPNLKVDDLNLPEIGPKFEHHEMFPARTNTEFVEVLSRSHLKMRVWER 297

Query: 299 GAGATLACGTGACAVVVAAVLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTGPAEVVFY 358
           GAGATLACGTGACA+VVAAVLEG A+R+CTVDLPGGPL+IEWK+EDNH+YMTGPAE VFY
Sbjct: 298 GAGATLACGTGACALVVAAVLEGRADRKCTVDLPGGPLEIEWKQEDNHIYMTGPAEAVFY 357

Query: 359 GSVLL 363
           GS LL
Sbjct: 358 GSALL 362
Racemase that operates by a 'two-base' mechanism, which involves one active-site cysteine acting as a base to abstract the alpha-proton of an amino acid, while a second cysteine thiol functions as an acid to reprotonate the resulting planar carbanionic intermediate from the opposite face.
Arabidopsis thaliana (taxid: 3702)
EC: 5EC: .EC: 1EC: .EC: 1EC: .EC: 7
>sp|Q2QNF7|DAPF_ORYSJ Diaminopimelate epimerase, chloroplastic OS=Oryza sativa subsp. japonica GN=DAPF PE=2 SV=1 Back     alignment and function description
>sp|A2ZLS4|DAPF_ORYSI Putative diaminopimelate epimerase, chloroplastic OS=Oryza sativa subsp. indica GN=DAPF PE=3 SV=1 Back     alignment and function description
>sp|Q116P1|DAPF_TRIEI Diaminopimelate epimerase OS=Trichodesmium erythraeum (strain IMS101) GN=dapF PE=1 SV=1 Back     alignment and function description
>sp|P74667|DAPF_SYNY3 Diaminopimelate epimerase OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=dapF PE=1 SV=1 Back     alignment and function description
>sp|Q8YVD0|DAPF2_NOSS1 Diaminopimelate epimerase 2 OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=dapF2 PE=1 SV=2 Back     alignment and function description
>sp|B1XP39|DAPF_SYNP2 Diaminopimelate epimerase OS=Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) GN=dapF PE=1 SV=1 Back     alignment and function description
>sp|Q5N013|DAPF_SYNP6 Diaminopimelate epimerase OS=Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) GN=dapF PE=1 SV=1 Back     alignment and function description
>sp|Q31LW2|DAPF_SYNE7 Diaminopimelate epimerase OS=Synechococcus elongatus (strain PCC 7942) GN=dapF PE=1 SV=1 Back     alignment and function description
>sp|B2J3A7|DAPF_NOSP7 Diaminopimelate epimerase OS=Nostoc punctiforme (strain ATCC 29133 / PCC 73102) GN=dapF PE=1 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query364
225439868370 PREDICTED: diaminopimelate epimerase, ch 0.994 0.978 0.808 1e-163
255584553369 Diaminopimelate epimerase, putative [Ric 0.989 0.975 0.767 1e-162
15231841362 diaminopimelate epimerase [Arabidopsis t 0.989 0.994 0.745 1e-158
297741545307 unnamed protein product [Vitis vinifera] 0.840 0.996 0.885 1e-156
297816660362 diaminopimelate epimerase family protein 0.989 0.994 0.736 1e-155
223673992317 Chain A, Crystal Structure Of Diaminopim 0.854 0.981 0.817 1e-153
449448669364 PREDICTED: diaminopimelate epimerase, ch 0.972 0.972 0.740 1e-151
224087786314 predicted protein [Populus trichocarpa] 0.848 0.984 0.817 1e-150
358248766359 diaminopimelate epimerase, chloroplastic 0.986 1.0 0.699 1e-149
356572353359 PREDICTED: diaminopimelate epimerase, ch 0.986 1.0 0.696 1e-149
>gi|225439868|ref|XP_002278566.1| PREDICTED: diaminopimelate epimerase, chloroplastic [Vitis vinifera] Back     alignment and taxonomy information
 Score =  579 bits (1493), Expect = e-163,   Method: Compositional matrix adjust.
 Identities = 300/371 (80%), Positives = 326/371 (87%), Gaps = 9/371 (2%)

Query: 1   MAITTTRSLSVTP-----VTRRSATPINPLRSSSLSYSLTRPFGSNL---TLKVPSFRVS 52
           MAI  T SL +T      VTRRS T +N   SSS S S  +P    L     + P+FRVS
Sbjct: 1   MAIAATISLPLTSPTRHSVTRRSITSLNVSPSSSSSSSSVQPSFLTLETVAFRNPNFRVS 60

Query: 53  ASSMSSIHAPESASRTSFLDRRESGFLHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKL 112
           A+SMS I A E  S+TSFLDR+ESGFLHFVKYHGLGNDFILVDNR+S+EP++TPEQA KL
Sbjct: 61  ATSMS-IEALEKGSQTSFLDRKESGFLHFVKYHGLGNDFILVDNRDSSEPKLTPEQAVKL 119

Query: 113 CDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGKQ 172
           CDRNFGIGADGVIFAMPG+NGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENL+GKQ
Sbjct: 120 CDRNFGIGADGVIFAMPGINGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLHGKQ 179

Query: 173 SFTVHTGAGLIVPEIQDDGKVKVDMGEPILKASDVPTSLSANKDQSVVKSELDVDGVKWN 232
           SFT+HTGAGLIVPEIQDDGKVKVDMG+PILKA DVPT L ANKDQSVVKSEL+VDGV WN
Sbjct: 180 SFTLHTGAGLIVPEIQDDGKVKVDMGKPILKALDVPTKLPANKDQSVVKSELNVDGVSWN 239

Query: 233 VTCVSMGNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQLK 292
           VTCVSMGNPHCVTFGTK GQNL+VD+LNLA+IGPKFEHH++FPARTNTEFV++IS S LK
Sbjct: 240 VTCVSMGNPHCVTFGTKGGQNLQVDELNLADIGPKFEHHAMFPARTNTEFVQVISRSHLK 299

Query: 293 MRVWERGAGATLACGTGACAVVVAAVLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTGP 352
           MRVWERGAGATLACGTGACAVVVAAVLEGHA R CTVDLPGGPLDIEW+EEDNHVYMTGP
Sbjct: 300 MRVWERGAGATLACGTGACAVVVAAVLEGHAGRSCTVDLPGGPLDIEWREEDNHVYMTGP 359

Query: 353 AEVVFYGSVLL 363
           AE+VFYGSV L
Sbjct: 360 AEIVFYGSVPL 370

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255584553|ref|XP_002533003.1| Diaminopimelate epimerase, putative [Ricinus communis] gi|223527214|gb|EEF29378.1| Diaminopimelate epimerase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|15231841|ref|NP_190926.1| diaminopimelate epimerase [Arabidopsis thaliana] gi|75263858|sp|Q9LFG2.1|DAPF_ARATH RecName: Full=Diaminopimelate epimerase, chloroplastic; Short=DAP epimerase; Flags: Precursor gi|6729509|emb|CAB67665.1| diaminopimelate epimerase-like protein [Arabidopsis thaliana] gi|22022530|gb|AAM83223.1| AT3g53580/F4P12_280 [Arabidopsis thaliana] gi|23505901|gb|AAN28810.1| At3g53580/F4P12_280 [Arabidopsis thaliana] gi|332645592|gb|AEE79113.1| diaminopimelate epimerase [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297741545|emb|CBI32677.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|297816660|ref|XP_002876213.1| diaminopimelate epimerase family protein [Arabidopsis lyrata subsp. lyrata] gi|297322051|gb|EFH52472.1| diaminopimelate epimerase family protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|223673992|pdb|3EJX|A Chain A, Crystal Structure Of Diaminopimelate Epimerase From Arabidopsis Thaliana In Complex With Ll-Azidap gi|223673993|pdb|3EJX|B Chain B, Crystal Structure Of Diaminopimelate Epimerase From Arabidopsis Thaliana In Complex With Ll-Azidap gi|223673994|pdb|3EJX|C Chain C, Crystal Structure Of Diaminopimelate Epimerase From Arabidopsis Thaliana In Complex With Ll-Azidap gi|223673995|pdb|3EJX|D Chain D, Crystal Structure Of Diaminopimelate Epimerase From Arabidopsis Thaliana In Complex With Ll-Azidap gi|223673996|pdb|3EJX|E Chain E, Crystal Structure Of Diaminopimelate Epimerase From Arabidopsis Thaliana In Complex With Ll-Azidap gi|223673997|pdb|3EJX|F Chain F, Crystal Structure Of Diaminopimelate Epimerase From Arabidopsis Thaliana In Complex With Ll-Azidap gi|223674010|pdb|3EKM|A Chain A, Crystal Structure Of Diaminopimelate Epimerase Form Arabidopsis Thaliana In Complex With Irreversible Inhibitor Dl-Azidap gi|223674011|pdb|3EKM|B Chain B, Crystal Structure Of Diaminopimelate Epimerase Form Arabidopsis Thaliana In Complex With Irreversible Inhibitor Dl-Azidap gi|223674012|pdb|3EKM|C Chain C, Crystal Structure Of Diaminopimelate Epimerase Form Arabidopsis Thaliana In Complex With Irreversible Inhibitor Dl-Azidap gi|223674013|pdb|3EKM|D Chain D, Crystal Structure Of Diaminopimelate Epimerase Form Arabidopsis Thaliana In Complex With Irreversible Inhibitor Dl-Azidap gi|223674014|pdb|3EKM|E Chain E, Crystal Structure Of Diaminopimelate Epimerase Form Arabidopsis Thaliana In Complex With Irreversible Inhibitor Dl-Azidap gi|223674015|pdb|3EKM|F Chain F, Crystal Structure Of Diaminopimelate Epimerase Form Arabidopsis Thaliana In Complex With Irreversible Inhibitor Dl-Azidap Back     alignment and taxonomy information
>gi|449448669|ref|XP_004142088.1| PREDICTED: diaminopimelate epimerase, chloroplastic-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|224087786|ref|XP_002308231.1| predicted protein [Populus trichocarpa] gi|222854207|gb|EEE91754.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|358248766|ref|NP_001240192.1| diaminopimelate epimerase, chloroplastic-like [Glycine max] gi|255636095|gb|ACU18392.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|356572353|ref|XP_003554333.1| PREDICTED: diaminopimelate epimerase, chloroplastic-like [Glycine max] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query364
TAIR|locus:2084011362 AT3G53580 [Arabidopsis thalian 0.991 0.997 0.686 7.9e-133
TIGR_CMR|CHY_1493274 CHY_1493 "diaminopimelate epim 0.744 0.989 0.430 5.3e-56
TIGR_CMR|GSU_0531282 GSU_0531 "diaminopimelate epim 0.747 0.964 0.414 5.6e-52
TIGR_CMR|DET_0740284 DET_0740 "diaminopimelate epim 0.755 0.968 0.340 3.4e-45
TIGR_CMR|SO_4308275 SO_4308 "diaminopimelate epime 0.75 0.992 0.363 2.4e-44
UNIPROTKB|P0A6K1274 dapF "diaminopimelate epimeras 0.744 0.989 0.371 5.2e-42
TIGR_CMR|BA_5170288 BA_5170 "diaminopimelate epime 0.728 0.920 0.373 7.5e-41
TIGR_CMR|CPS_0077276 CPS_0077 "diaminopimelate epim 0.739 0.974 0.342 4.2e-40
UNIPROTKB|Q9KVL6276 dapF "Diaminopimelate epimeras 0.736 0.971 0.336 2.6e-38
TIGR_CMR|VC_0126276 VC_0126 "diaminopimelate epime 0.736 0.971 0.336 2.6e-38
TAIR|locus:2084011 AT3G53580 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1302 (463.4 bits), Expect = 7.9e-133, P = 7.9e-133
 Identities = 250/364 (68%), Positives = 280/364 (76%)

Query:     1 MAITTTRSLSVTPVTRRSATPINPXXXXXXXXXXTRPFGSNLTLKVPSFRVSAS-SMSSI 59
             M I    ++SV P +RR +   +              F      K PS RVSA+ SM ++
Sbjct:     1 MEIAAVSTVSVAPQSRRVSNAFSRNLGSVSSLSFGF-FEKEYCFKSPSLRVSAAASMDAV 59

Query:    60 HAPESASRTSFLDRRESGFLHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKLCDRNFGI 119
              A E  S  SFLD++E+G LHFVKYHGLGNDFILVDNR+S+EP+IT EQAAKLCDRNFG+
Sbjct:    60 TA-EKFSPASFLDKKETGVLHFVKYHGLGNDFILVDNRDSSEPKITQEQAAKLCDRNFGV 118

Query:   120 GADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGKQSFTVHTG 179
             GADGVIFAMPGVNGTDY MRIFNSDGSEPEMCGNGVRCFARFIAELENL GK SFT+HTG
Sbjct:   119 GADGVIFAMPGVNGTDYAMRIFNSDGSEPEMCGNGVRCFARFIAELENLQGKHSFTIHTG 178

Query:   180 AGLIVPEIQDDGKVKVDMGEPILKASDVPTSLSANKDQSVVKSELDVDGVKWNVTCVSMG 239
             AGLIVPEIQDDG+VKVDMG PILKA DVPT LS NK ++VV++EL VDGV WNVTCVSMG
Sbjct:   179 AGLIVPEIQDDGQVKVDMGTPILKAQDVPTKLSGNKGEAVVEAELVVDGVSWNVTCVSMG 238

Query:   240 NPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQLKMRVWERX 299
             NPHC+TFG K G NLKVD LNL EIGPKFEHH +FPARTNTEFVE++S S LKMRVWER 
Sbjct:   239 NPHCITFGKKGGPNLKVDDLNLPEIGPKFEHHEMFPARTNTEFVEVLSRSHLKMRVWERG 298

Query:   300 XXXXXXXXXXXXXXXXXXXLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTGPAEVVFYG 359
                                LEG A+R+CTVDLPGGPL+IEWK+EDNH+YMTGPAE VFYG
Sbjct:   299 AGATLACGTGACALVVAAVLEGRADRKCTVDLPGGPLEIEWKQEDNHIYMTGPAEAVFYG 358

Query:   360 SVLL 363
             S LL
Sbjct:   359 SALL 362
GO:0005737 "cytoplasm" evidence=IEA
GO:0005739 "mitochondrion" evidence=ISM
GO:0008837 "diaminopimelate epimerase activity" evidence=IEA;IGI;ISS
GO:0009089 "lysine biosynthetic process via diaminopimelate" evidence=IEA
GO:0009507 "chloroplast" evidence=IDA
GO:0009570 "chloroplast stroma" evidence=IDA
GO:0006744 "ubiquinone biosynthetic process" evidence=RCA
TIGR_CMR|CHY_1493 CHY_1493 "diaminopimelate epimerase" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_0531 GSU_0531 "diaminopimelate epimerase" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
TIGR_CMR|DET_0740 DET_0740 "diaminopimelate epimerase" [Dehalococcoides ethenogenes 195 (taxid:243164)] Back     alignment and assigned GO terms
TIGR_CMR|SO_4308 SO_4308 "diaminopimelate epimerase" [Shewanella oneidensis MR-1 (taxid:211586)] Back     alignment and assigned GO terms
UNIPROTKB|P0A6K1 dapF "diaminopimelate epimerase" [Escherichia coli K-12 (taxid:83333)] Back     alignment and assigned GO terms
TIGR_CMR|BA_5170 BA_5170 "diaminopimelate epimerase" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms
TIGR_CMR|CPS_0077 CPS_0077 "diaminopimelate epimerase" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
UNIPROTKB|Q9KVL6 dapF "Diaminopimelate epimerase" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)] Back     alignment and assigned GO terms
TIGR_CMR|VC_0126 VC_0126 "diaminopimelate epimerase" [Vibrio cholerae O1 biovar El Tor (taxid:686)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q8YVD0DAPF2_NOSS15, ., 1, ., 1, ., 70.62670.75820.9892yesno
B0JJ58DAPF_MICAN5, ., 1, ., 1, ., 70.6250.74720.9679yesno
Q8DGM2DAPF_THEEB5, ., 1, ., 1, ., 70.55510.75820.9650yesno
A2ZLS4DAPF_ORYSI5, ., 1, ., 1, ., 70.73370.87910.8963N/Ano
B7K1E7DAPF_CYAP85, ., 1, ., 1, ., 70.59920.75270.9750yesno
Q2JUV6DAPF_SYNJA5, ., 1, ., 1, ., 70.57800.76370.9754yesno
B2J3A7DAPF_NOSP75, ., 1, ., 1, ., 70.61610.75820.9892yesno
Q116P1DAPF_TRIEI5, ., 1, ., 1, ., 70.67610.750.9820yesno
A3DK16DAPF_CLOTH5, ., 1, ., 1, ., 70.52230.750.975yesno
B7KH06DAPF_CYAP75, ., 1, ., 1, ., 70.60070.750.9715yesno
B8FSD4DAPF_DESHD5, ., 1, ., 1, ., 70.51030.74720.9611yesno
Q5N013DAPF_SYNP65, ., 1, ., 1, ., 70.63980.75540.9821yesno
Q2QNF7DAPF_ORYSJ5, ., 1, ., 1, ., 70.73680.87910.9039yesno
Q31LW2DAPF_SYNE75, ., 1, ., 1, ., 70.63980.75540.9821yesno
B1XP39DAPF_SYNP25, ., 1, ., 1, ., 70.62230.76370.9893yesno
Q9LFG2DAPF_ARATH5, ., 1, ., 1, ., 70.74520.98900.9944yesno
Q2JLR0DAPF_SYNJB5, ., 1, ., 1, ., 70.57800.76370.9754yesno
B0C312DAPF_ACAM15, ., 1, ., 1, ., 70.58300.75270.9681yesno
B8HU20DAPF_CYAP45, ., 1, ., 1, ., 70.59710.75270.9785yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer5.1.10.983
4th Layer5.1.1.70.979

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00023128001
SubName- Full=Chromosome chr8 scaffold_29, whole genome shotgun sequence; (370 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00036342001
SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence; (485 aa)
•    •• 0.996
GSVIVG00033799001
SubName- Full=Chromosome undetermined scaffold_69, whole genome shotgun sequence; (485 aa)
•    •• 0.996
GSVIVG00015287001
SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (397 aa)
•    •• 0.982
GSVIVG00031581001
SubName- Full=Chromosome chr12 scaffold_57, whole genome shotgun sequence; (419 aa)
•    •• 0.977
GSVIVG00038553001
SubName- Full=Chromosome chr3 scaffold_95, whole genome shotgun sequence; (459 aa)
•    •• 0.971
GSVIVG00026365001
SubName- Full=Chromosome chr15 scaffold_37, whole genome shotgun sequence; (363 aa)
•     • 0.952
GSVIVG00030599001
SubName- Full=Chromosome chr1 scaffold_5, whole genome shotgun sequence; (344 aa)
•  •  • 0.939
GSVIVG00006883001
SubName- Full=Chromosome chr10 scaffold_179, whole genome shotgun sequence; (927 aa)
•     • 0.836
GSVIVG00015101001
SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (525 aa)
•     • 0.827
GSVIVG00007398001
SubName- Full=Putative uncharacterized protein (Chromosome chr16 scaffold_189, whole genome sho [...] (302 aa)
•     • 0.814

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query364
PLN02536267 PLN02536, PLN02536, diaminopimelate epimerase 0.0
PRK00450274 PRK00450, dapF, diaminopimelate epimerase; Provisi 1e-143
COG0253272 COG0253, DapF, Diaminopimelate epimerase [Amino ac 1e-119
TIGR00652268 TIGR00652, DapF, diaminopimelate epimerase 1e-118
PRK13577281 PRK13577, PRK13577, diaminopimelate epimerase; Pro 3e-76
pfam01678119 pfam01678, DAP_epimerase, Diaminopimelate epimeras 2e-41
pfam01678119 pfam01678, DAP_epimerase, Diaminopimelate epimeras 3e-37
>gnl|CDD|178151 PLN02536, PLN02536, diaminopimelate epimerase Back     alignment and domain information 
 Score =  533 bits (1376), Expect = 0.0
 Identities = 215/270 (79%), Positives = 242/270 (89%), Gaps = 3/270 (1%)

Query: 94  VDNRNSTEPRITPEQAAKLCDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGN 153
           VDNR+S+EP++TPEQA KLCDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGN
Sbjct: 1   VDNRDSSEPKLTPEQAVKLCDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGN 60

Query: 154 GVRCFARFIAELENLNGKQSFTVHTGAGLIVPEIQDDGKVKVDMGEPILKASDVPTSLSA 213
           G+RCFARFIAELENL GK S+ +HTGAGLI+PE+Q DG+VKVDMGEPILK  +VPT L+A
Sbjct: 61  GIRCFARFIAELENLQGKNSYKIHTGAGLIIPEMQADGQVKVDMGEPILKGPEVPTKLAA 120

Query: 214 NKDQSVVKSELDVDGVKWNVTCVSMGNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSV 273
            KD +VV++ELDVDG  W VTCVSMGNPHCVTFG KE   LKVD L L +IGPKFEHH +
Sbjct: 121 TKDGAVVQAELDVDGKTWLVTCVSMGNPHCVTFGEKE---LKVDDLPLEKIGPKFEHHEM 177

Query: 274 FPARTNTEFVEIISPSQLKMRVWERGAGATLACGTGACAVVVAAVLEGHAERRCTVDLPG 333
           FPARTNTEFV+++S S LKMRVWERGAGATLACGTGACA+VVAAVLEG A+R CTVDLPG
Sbjct: 178 FPARTNTEFVQVVSRSHLKMRVWERGAGATLACGTGACALVVAAVLEGRADRNCTVDLPG 237

Query: 334 GPLDIEWKEEDNHVYMTGPAEVVFYGSVLL 363
           GPL+IEW+E DNH+YMTGPAE+VFYG + L
Sbjct: 238 GPLEIEWRESDNHIYMTGPAELVFYGEIRL 267

Length = 267
>gnl|CDD|234768 PRK00450, dapF, diaminopimelate epimerase; Provisional Back     alignment and domain information
>gnl|CDD|223331 COG0253, DapF, Diaminopimelate epimerase [Amino acid transport and metabolism] Back     alignment and domain information
>gnl|CDD|213546 TIGR00652, DapF, diaminopimelate epimerase Back     alignment and domain information
>gnl|CDD|184158 PRK13577, PRK13577, diaminopimelate epimerase; Provisional Back     alignment and domain information
>gnl|CDD|216645 pfam01678, DAP_epimerase, Diaminopimelate epimerase Back     alignment and domain information
>gnl|CDD|216645 pfam01678, DAP_epimerase, Diaminopimelate epimerase Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 364
COG0253272 DapF Diaminopimelate epimerase [Amino acid transpo 100.0
PRK13577281 diaminopimelate epimerase; Provisional 100.0
PLN02536267 diaminopimelate epimerase 100.0
TIGR00652268 DapF diaminopimelate epimerase. 100.0
PRK00450274 dapF diaminopimelate epimerase; Provisional 100.0
TIGR00654297 PhzF_family phenazine biosynthesis protein PhzF fa 100.0
COG0384291 Predicted epimerase, PhzC/PhzF homolog [General fu 100.0
PRK10281299 hypothetical protein; Provisional 100.0
PF02567281 PhzC-PhzF: Phenazine biosynthesis-like protein; In 100.0
KOG3033286 consensus Predicted PhzC/PhzF-type epimerase [Gene 99.96
PF01678121 DAP_epimerase: Diaminopimelate epimerase; InterPro 99.93
PRK13969334 proline racemase; Provisional 99.91
PF01678121 DAP_epimerase: Diaminopimelate epimerase; InterPro 99.85
PRK13971333 hydroxyproline-2-epimerase; Provisional 99.79
PRK13970311 hydroxyproline-2-epimerase; Provisional 99.75
PF05544325 Pro_racemase: Proline racemase; InterPro: IPR00879 99.54
COG3938341 Proline racemase [Amino acid transport and metabol 99.37
PF04303371 PrpF: PrpF protein; InterPro: IPR007400 PrpF is a 96.78
TIGR00654 297 PhzF_family phenazine biosynthesis protein PhzF fa 96.62
PF02567 281 PhzC-PhzF: Phenazine biosynthesis-like protein; In 96.59
TIGR02334390 prpF probable AcnD-accessory protein PrpF. The 2-m 96.25
TIGR00652268 DapF diaminopimelate epimerase. 96.16
PRK13577281 diaminopimelate epimerase; Provisional 96.03
PRK10281 299 hypothetical protein; Provisional 95.99
PRK00450274 dapF diaminopimelate epimerase; Provisional 94.72
COG0384 291 Predicted epimerase, PhzC/PhzF homolog [General fu 93.91
COG0253272 DapF Diaminopimelate epimerase [Amino acid transpo 92.25
PRK13969 334 proline racemase; Provisional 91.42
KOG3033286 consensus Predicted PhzC/PhzF-type epimerase [Gene 89.62
PRK13971 333 hydroxyproline-2-epimerase; Provisional 89.51
COG2828378 Uncharacterized protein conserved in bacteria [Fun 85.63
PRK13970 311 hydroxyproline-2-epimerase; Provisional 83.29
PLN02536 267 diaminopimelate epimerase 80.55
>COG0253 DapF Diaminopimelate epimerase [Amino acid transport and metabolism] Back     alignment and domain information 
Probab=100.00  E-value=4.1e-75  Score=547.49  Aligned_cols=271  Identities=50%  Similarity=0.890  Sum_probs=243.1

Q ss_pred             eEEEeeeCCCCcEEEEeCCCCCCCCCCHHHHHHhhhccCCcccceEEEEecC-CCCCcEEEEEEeCCCCcCCCcchhHHH
Q 017920           79 LHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKLCDRNFGIGADGVIFAMPG-VNGTDYTMRIFNSDGSEPEMCGNGVRC  157 (364)
Q Consensus        79 i~F~K~~g~GNdfvvid~~~~~~~~~~~~~~~~lcdR~~GIGaDgvlfV~p~-~~~ad~~mRiFnpDGsE~emCGNgtrc  157 (364)
                      |+|+||||+||||||||.++... ..+++++++||||++||||||++||+++ ++++||+|||||+||||++|||||+||
T Consensus         1 ~~F~KmhG~GNdfivvd~~~~~~-~~~~~~a~~l~~r~~giGaDgvl~i~~p~s~~~d~~~rifN~DGS~ae~CGNG~Rc   79 (272)
T COG0253           1 MEFSKMHGLGNDFIVVDEFDKKD-EETPELARALCDRHFGIGADGVLFVEPPRSPGADFHLRIFNSDGSEAEMCGNGARC   79 (272)
T ss_pred             CeeEEEcCCCCcEEEEecccccc-ccCHHHHHHHHhcccCcCCceEEEEecCCCCCCCEEEEEEeCCCCHHhhcccHHHH
Confidence            68999999999999999998753 5789999999999999999999999865 468899999999999999999999999


Q ss_pred             HHHHHHHHccCCCCcEEEEEeCCeeEEEEEeeCceEEEEcCCCccCCCCCCCccccCccccccccceeeCCeeEEEEEEE
Q 017920          158 FARFIAELENLNGKQSFTVHTGAGLIVPEIQDDGKVKVDMGEPILKASDVPTSLSANKDQSVVKSELDVDGVKWNVTCVS  237 (364)
Q Consensus       158 ~a~~L~~~~g~~~~~~i~ieT~aG~l~v~v~~~g~v~V~mg~p~~~~~~ip~~~~~~~~~~~l~~~l~i~~~~~~~~~Vs  237 (364)
                      +|+||++ +++..++++.++|.+|++.+++..++.++|+|+.|.|.+..+|..      .+.+...+.+......+.+|+
T Consensus        80 ~a~~l~~-~~~~~~~~~~v~T~~G~~~~~~~~~~~v~VdMg~p~~~~~~ip~~------~~~~~~~~~~~~~~~~~~~vs  152 (272)
T COG0253          80 FARFLAE-RGLVKKKEISVETLAGILKVKVHDDNTVSVDMGLPSFKPAEIPLL------EEKVEEQYGLGEETVTFYAVS  152 (272)
T ss_pred             HHHHHHH-hcCCcCccEEEEeccceEEEEEecCCEEEEEcCCCccccccCCch------hhhccccccccccceeEEEEe
Confidence            9999999 888877789999999999999998889999999999999988853      111122222222334567899


Q ss_pred             cCCCeEEEEeccCCcccccchhhHhhhCcccccCCCCCCceeEEEEEEeCCCeEEEEEeeCCCCCCCCchhhHHHHHHHH
Q 017920          238 MGNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQLKMRVWERGAGATLACGTGACAVVVAA  317 (364)
Q Consensus       238 ~GnpH~Vv~v~~~~~~~~l~~~~l~~lg~~le~~~~fp~~~Nv~fv~v~~~~~i~~R~fErGvgEt~ACGTGa~A~a~aa  317 (364)
                      |||||+|++++      +++..+++.+||.++.|+.||+++||.|+++.++++|++||||||+|||+|||||+||+++++
T Consensus       153 ~GnPH~V~~Vd------dv~~~~~~~~g~~l~~h~~Fp~~vNV~F~~v~~~~~i~vrv~ERG~G~T~ACGTGa~Aa~~~a  226 (272)
T COG0253         153 MGNPHLVIFVD------DVETANLEELGPLLESHELFPEGVNVGFVQVLSRDAIRLRVYERGAGETLACGTGACAAAVVA  226 (272)
T ss_pred             cCCCeEEEEeC------CcccchhhhhhhhhhcCccCCCceEEEEEEeCCCCcEEEEEeecCCcccccchhHHHHHHHHH
Confidence            99999999999      788899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhCCCCCceEEEccCccEEEEEeecCCeEEEEeceEEEEEEEEEe
Q 017920          318 VLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTGPAEVVFYGSVLL  363 (364)
Q Consensus       318 ~~~g~~~~~~~V~~~GG~L~V~~~~~~~~V~i~G~A~~V~~G~i~i  363 (364)
                      ++.|+.+..++|.+|||.|.|+|++++.+++|+|||++||+|++++
T Consensus       227 ~~~~~~~~~v~V~~pGG~L~i~~~~~g~~v~m~G~a~~v~~G~~~~  272 (272)
T COG0253         227 ARLGLLDRKVTVHLPGGTLEIEWKDDGKPVYMTGPATRVAEGKLYI  272 (272)
T ss_pred             HHhccCCCcEEEEcCCCeEEEEEEcCCceEEEEecEEEEEeeEEcC
Confidence            9999999999999999999999987544799999999999999864

>PRK13577 diaminopimelate epimerase; Provisional Back     alignment and domain information
>PLN02536 diaminopimelate epimerase Back     alignment and domain information
>TIGR00652 DapF diaminopimelate epimerase Back     alignment and domain information
>PRK00450 dapF diaminopimelate epimerase; Provisional Back     alignment and domain information
>TIGR00654 PhzF_family phenazine biosynthesis protein PhzF family Back     alignment and domain information
>COG0384 Predicted epimerase, PhzC/PhzF homolog [General function prediction only] Back     alignment and domain information
>PRK10281 hypothetical protein; Provisional Back     alignment and domain information
>PF02567 PhzC-PhzF: Phenazine biosynthesis-like protein; InterPro: IPR003719 Five genes, phzF, phzA, phzB, phzC and phzD, encode enzymes for phenazine biosynthesis in the biological control bacterium Pseudomonas chlororaphis (also known as Pseudomonas aureofaciens) Back     alignment and domain information
>KOG3033 consensus Predicted PhzC/PhzF-type epimerase [General function prediction only] Back     alignment and domain information
>PF01678 DAP_epimerase: Diaminopimelate epimerase; InterPro: IPR001653 Bacteria, plants and fungi metabolise aspartic acid to produce four amino acids - lysine, threonine, methionine and isoleucine - in a series of reactions known as the aspartate pathway Back     alignment and domain information
>PRK13969 proline racemase; Provisional Back     alignment and domain information
>PF01678 DAP_epimerase: Diaminopimelate epimerase; InterPro: IPR001653 Bacteria, plants and fungi metabolise aspartic acid to produce four amino acids - lysine, threonine, methionine and isoleucine - in a series of reactions known as the aspartate pathway Back     alignment and domain information
>PRK13971 hydroxyproline-2-epimerase; Provisional Back     alignment and domain information
>PRK13970 hydroxyproline-2-epimerase; Provisional Back     alignment and domain information
>PF05544 Pro_racemase: Proline racemase; InterPro: IPR008794 This family consists of proline racemase (5 Back     alignment and domain information
>COG3938 Proline racemase [Amino acid transport and metabolism] Back     alignment and domain information
>PF04303 PrpF: PrpF protein; InterPro: IPR007400 PrpF is a protein found in the 2-methylcitrate pathway Back     alignment and domain information
>TIGR00654 PhzF_family phenazine biosynthesis protein PhzF family Back     alignment and domain information
>PF02567 PhzC-PhzF: Phenazine biosynthesis-like protein; InterPro: IPR003719 Five genes, phzF, phzA, phzB, phzC and phzD, encode enzymes for phenazine biosynthesis in the biological control bacterium Pseudomonas chlororaphis (also known as Pseudomonas aureofaciens) Back     alignment and domain information
>TIGR02334 prpF probable AcnD-accessory protein PrpF Back     alignment and domain information
>TIGR00652 DapF diaminopimelate epimerase Back     alignment and domain information
>PRK13577 diaminopimelate epimerase; Provisional Back     alignment and domain information
>PRK10281 hypothetical protein; Provisional Back     alignment and domain information
>PRK00450 dapF diaminopimelate epimerase; Provisional Back     alignment and domain information
>COG0384 Predicted epimerase, PhzC/PhzF homolog [General function prediction only] Back     alignment and domain information
>COG0253 DapF Diaminopimelate epimerase [Amino acid transport and metabolism] Back     alignment and domain information
>PRK13969 proline racemase; Provisional Back     alignment and domain information
>KOG3033 consensus Predicted PhzC/PhzF-type epimerase [General function prediction only] Back     alignment and domain information
>PRK13971 hydroxyproline-2-epimerase; Provisional Back     alignment and domain information
>COG2828 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>PRK13970 hydroxyproline-2-epimerase; Provisional Back     alignment and domain information
>PLN02536 diaminopimelate epimerase Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query364
3ejx_A317 Crystal Structure Of Diaminopimelate Epimerase From 1e-142
1gqz_A274 Refinement Of Haemophilus Influenzae Diaminopimelat 6e-46
1bwz_A274 Diaminopimelate Epimerase From Hemophilus Influenza 6e-45
2q9j_A274 Crystal Structure Of The C217s Mutant Of Diaminopim 7e-45
2q9h_A274 Crystal Structure Of The C73s Mutant Of Diaminopime 9e-45
4ijz_A280 Crystal Structure Of Diaminopimelate Epimerase From 1e-43
4ik0_A280 Crystal Structure Of Diaminopimelate Epimerase Y268 3e-43
2otn_A308 Crystal Structure Of The Catalytically Active Form 2e-41
3fve_A290 Crystal Structure Of Diaminopimelate Epimerase Myco 5e-17
>pdb|3EJX|A Chain A, Crystal Structure Of Diaminopimelate Epimerase From Arabidopsis Thaliana In Complex With Ll-Azidap Length = 317 Back     alignment and structure 
Iteration: 1

 Score =  502 bits (1293), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 236/312 (75%), Positives = 262/312 (83%), Gaps = 1/312 (0%)
Query: 52  SASSMSSIHAPESASRTSFLDRRESGFLHFVKYHGLGNDFILVDNRNSTEPRITPEQAAK 111
           +A+SM ++ A E  S  SFLD++E+G LHFVKYHGLGNDFILVDNR+S+EP+IT EQAAK
Sbjct: 1   AAASMDAVTA-EKFSPASFLDKKETGVLHFVKYHGLGNDFILVDNRDSSEPKITQEQAAK 59
Query: 112 LCDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGK 171
           LCDRNFG+GADGVIFAMPGVNGTDY MRIFNSDGSEPEMCGNGVRCFARFIAELENL GK
Sbjct: 60  LCDRNFGVGADGVIFAMPGVNGTDYAMRIFNSDGSEPEMCGNGVRCFARFIAELENLQGK 119
Query: 172 QSFTVHTGAGLIVPEIQDDGKVKVDMGEPILKASDVPTSLSANKDQSVVKSELDVDGVKW 231
            SFT+HTGAGLIVPEIQDDG+VKVDMG PILKA DVPT LS NK ++VV++EL VDGV W
Sbjct: 120 HSFTIHTGAGLIVPEIQDDGQVKVDMGTPILKAQDVPTKLSGNKGEAVVEAELVVDGVSW 179
Query: 232 NVTCVSMGNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQL 291
           NVTCVSMGNPHC+TFG K G NLKVD LNL EIGPKFEHH +FPARTNTEFVE++S S L
Sbjct: 180 NVTCVSMGNPHCITFGKKGGPNLKVDDLNLPEIGPKFEHHEMFPARTNTEFVEVLSRSHL 239
Query: 292 KMRVWERXXXXXXXXXXXXXXXXXXXXLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTG 351
           KMRVWER                    LEG A+R+CTVDLPGGPL+IEWK+EDNH+YMTG
Sbjct: 240 KMRVWERGAGATLACGTGACALVVAAVLEGRADRKCTVDLPGGPLEIEWKQEDNHIYMTG 299
Query: 352 PAEVVFYGSVLL 363
           PAE VFYGS LL
Sbjct: 300 PAEAVFYGSALL 311
>pdb|1GQZ|A Chain A, Refinement Of Haemophilus Influenzae Diaminopimelate Epimerase At 1.7a Length = 274 Back     alignment and structure
>pdb|1BWZ|A Chain A, Diaminopimelate Epimerase From Hemophilus Influenzae Length = 274 Back     alignment and structure
>pdb|2Q9J|A Chain A, Crystal Structure Of The C217s Mutant Of Diaminopimelate Epimerase Length = 274 Back     alignment and structure
>pdb|2Q9H|A Chain A, Crystal Structure Of The C73s Mutant Of Diaminopimelate Epimerase Length = 274 Back     alignment and structure
>pdb|4IJZ|A Chain A, Crystal Structure Of Diaminopimelate Epimerase From Escherichia Coli Length = 280 Back     alignment and structure
>pdb|4IK0|A Chain A, Crystal Structure Of Diaminopimelate Epimerase Y268a Mutant From Escherichia Coli Length = 280 Back     alignment and structure
>pdb|2OTN|A Chain A, Crystal Structure Of The Catalytically Active Form Of Diaminopimelate Epimerase From Bacillus Anthracis Length = 308 Back     alignment and structure
>pdb|3FVE|A Chain A, Crystal Structure Of Diaminopimelate Epimerase Mycobacterium Tuberculosis Dapf Length = 290 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query364
3ejx_A317 DAP epimerase, diaminopimelate epimerase, chloropl 1e-178
2gke_A274 DAP epimerase, diaminopimelate epimerase; enzyme-i 1e-158
2otn_A308 Diaminopimelate epimerase; DAP, lysine ME lanthion 1e-151
3fve_A290 DAP epimerase, diaminopimelate epimerase; alpha/be 1e-137
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-06
>3ejx_A DAP epimerase, diaminopimelate epimerase, chloroplastic; PLP-independenet amino acid racemase, aziridino-diaminopimelate, isomerase; HET: ZDP; 1.95A {Arabidopsis thaliana} PDB: 3ekm_A* Length = 317 Back     alignment and structure
 Score =  496 bits (1279), Expect = e-178
 Identities = 254/313 (81%), Positives = 282/313 (90%), Gaps = 1/313 (0%)

Query: 52  SASSMSSIHAPESASRTSFLDRRESGFLHFVKYHGLGNDFILVDNRNSTEPRITPEQAAK 111
           +A+SM ++   E  S  SFLD++E+G LHFVKYHGLGNDFILVDNR+S+EP+IT EQAAK
Sbjct: 1   AAASMDAVT-AEKFSPASFLDKKETGVLHFVKYHGLGNDFILVDNRDSSEPKITQEQAAK 59

Query: 112 LCDRNFGIGADGVIFAMPGVNGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGK 171
           LCDRNFG+GADGVIFAMPGVNGTDY MRIFNSDGSEPEMCGNGVRCFARFIAELENL GK
Sbjct: 60  LCDRNFGVGADGVIFAMPGVNGTDYAMRIFNSDGSEPEMCGNGVRCFARFIAELENLQGK 119

Query: 172 QSFTVHTGAGLIVPEIQDDGKVKVDMGEPILKASDVPTSLSANKDQSVVKSELDVDGVKW 231
            SFT+HTGAGLIVPEIQDDG+VKVDMG PILKA DVPT LS NK ++VV++EL VDGV W
Sbjct: 120 HSFTIHTGAGLIVPEIQDDGQVKVDMGTPILKAQDVPTKLSGNKGEAVVEAELVVDGVSW 179

Query: 232 NVTCVSMGNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQL 291
           NVTCVSMGNPHC+TFG K G NLKVD LNL EIGPKFEHH +FPARTNTEFVE++S S L
Sbjct: 180 NVTCVSMGNPHCITFGKKGGPNLKVDDLNLPEIGPKFEHHEMFPARTNTEFVEVLSRSHL 239

Query: 292 KMRVWERGAGATLACGTGACAVVVAAVLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTG 351
           KMRVWERGAGATLACGTGACA+VVAAVLEG A+R+CTVDLPGGPL+IEWK+EDNH+YMTG
Sbjct: 240 KMRVWERGAGATLACGTGACALVVAAVLEGRADRKCTVDLPGGPLEIEWKQEDNHIYMTG 299

Query: 352 PAEVVFYGSVLLN 364
           PAE VFYGS LL+
Sbjct: 300 PAEAVFYGSALLH 312
>2gke_A DAP epimerase, diaminopimelate epimerase; enzyme-inhibitor complex, covalently bound inhibitor, isomer; HET: ZDP; 1.35A {Haemophilus influenzae} SCOP: d.21.1.1 d.21.1.1 PDB: 1gqz_A* 2gkj_A* 2q9h_A* 2q9j_A 1bwz_A Length = 274 Back     alignment and structure
>2otn_A Diaminopimelate epimerase; DAP, lysine ME lanthionine, isomerase; 2.40A {Bacillus anthracis str} Length = 308 Back     alignment and structure
>3fve_A DAP epimerase, diaminopimelate epimerase; alpha/beta, amino-acid biosynthesis, isomerase, lysine biosy; 2.60A {Mycobacterium tuberculosis} Length = 290 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query364
3ejx_A317 DAP epimerase, diaminopimelate epimerase, chloropl 100.0
3fve_A290 DAP epimerase, diaminopimelate epimerase; alpha/be 100.0
2gke_A274 DAP epimerase, diaminopimelate epimerase; enzyme-i 100.0
2otn_A308 Diaminopimelate epimerase; DAP, lysine ME lanthion 100.0
3edn_A299 Phenazine biosynthesis protein, PHZF family; diami 100.0
1qya_A307 ORFB, hypothetical protein YDDE; putative phenazin 100.0
1xub_A298 Phenazine biosynthesis protein PHZF; biosynthetic 100.0
1ym5_A300 YHI9, hypothetical 32.6 kDa protein in DAP2-SLT2 i 100.0
1u0k_A288 Gene product PA4716; sctructural genomics, MCSG, p 100.0
1s7j_A262 Phenazine biosynthesis protein PHZF family; bacter 100.0
2azp_A318 Hypothetical protein PA1268; PA1268,APC5861,sulfur 100.0
1w61_A414 B-cell mitogen; racemase, racemase pyridoxal phosp 100.0
4dun_A263 Putative phenazine biosynthesis PHZC/PHZF protein; 100.0
1tm0_A350 Proline racemase; structural genomics, alpha-beta 100.0
2pw0_A397 PRPF methylaconitate isomerase; propionate catabol 98.84
3g7k_A391 3-methylitaconate isomerase; DAPF family fold, clo 98.44
4dun_A 263 Putative phenazine biosynthesis PHZC/PHZF protein; 96.65
1ym5_A300 YHI9, hypothetical 32.6 kDa protein in DAP2-SLT2 i 96.6
3edn_A 299 Phenazine biosynthesis protein, PHZF family; diami 96.54
1u0k_A 288 Gene product PA4716; sctructural genomics, MCSG, p 96.53
1qya_A 307 ORFB, hypothetical protein YDDE; putative phenazin 96.52
2gke_A274 DAP epimerase, diaminopimelate epimerase; enzyme-i 96.43
1s7j_A 262 Phenazine biosynthesis protein PHZF family; bacter 96.38
1xub_A 298 Phenazine biosynthesis protein PHZF; biosynthetic 96.11
2otn_A308 Diaminopimelate epimerase; DAP, lysine ME lanthion 95.74
2azp_A318 Hypothetical protein PA1268; PA1268,APC5861,sulfur 95.53
1tm0_A 350 Proline racemase; structural genomics, alpha-beta 92.97
1w61_A 414 B-cell mitogen; racemase, racemase pyridoxal phosp 91.05
3ejx_A 317 DAP epimerase, diaminopimelate epimerase, chloropl 89.35
2pw0_A397 PRPF methylaconitate isomerase; propionate catabol 88.99
3fve_A 290 DAP epimerase, diaminopimelate epimerase; alpha/be 88.51
>3ejx_A DAP epimerase, diaminopimelate epimerase, chloroplastic; PLP-independenet amino acid racemase, aziridino-diaminopimelate, isomerase; HET: ZDP; 1.95A {Arabidopsis thaliana} PDB: 3ekm_A* Back     alignment and structure
Probab=100.00  E-value=1.4e-84  Score=625.79  Aligned_cols=312  Identities=81%  Similarity=1.348  Sum_probs=254.2

Q ss_pred             ccccccccccCccccccccccccCCcceEEEeeeCCCCcEEEEeCCCCCCCCCCHHHHHHhhhccCCcccceEEEEecCC
Q 017920           52 SASSMSSIHAPESASRTSFLDRRESGFLHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKLCDRNFGIGADGVIFAMPGV  131 (364)
Q Consensus        52 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~F~K~~g~GNdfvvid~~~~~~~~~~~~~~~~lcdR~~GIGaDgvlfV~p~~  131 (364)
                      +++||. +..+++.+++|++++++++.|+|+||||+||||||||+++.....++++++++||||++||||||++||.|+.
T Consensus         1 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~F~KmhG~GNDFvviD~~~~~~~~~~~~~~~~lcdR~~GIGaDGll~v~~~~   79 (317)
T 3ejx_A            1 AAASMD-AVTAEKFSPASFLDKKETGVLHFVKYHGLGNDFILVDNRDSSEPKITQEQAAKLCDRNFGVGADGVIFAMPGV   79 (317)
T ss_dssp             -------------------------CEEEEEEEEETTEEEEEEECTTCSSCSSCHHHHHHHTCTTTSSCCSEEEEEEECS
T ss_pred             Cccccc-ccccccCCchhhhhhccCCceeEEEEcCCCCcEEEEeCCCccccCCCHHHHHHhhccCCCCCCCeEEEEcCCC
Confidence            368899 8899999999999998888999999999999999999987643457899999999999999999999998875


Q ss_pred             CCCcEEEEEEeCCCCcCCCcchhHHHHHHHHHHHccCCCCcEEEEEeCCeeEEEEEeeCceEEEEcCCCccCCCCCCCcc
Q 017920          132 NGTDYTMRIFNSDGSEPEMCGNGVRCFARFIAELENLNGKQSFTVHTGAGLIVPEIQDDGKVKVDMGEPILKASDVPTSL  211 (364)
Q Consensus       132 ~~ad~~mRiFnpDGsE~emCGNgtrc~a~~L~~~~g~~~~~~i~ieT~aG~l~v~v~~~g~v~V~mg~p~~~~~~ip~~~  211 (364)
                      +.+||+||||||||||++|||||+||+|+||++.+|+.++++++|||.+|++++++..++.++|+|+.|.|.+.+||...
T Consensus        80 ~~aD~~mr~FN~DGSEaemCGNGtRc~A~~l~~~~g~~~~~~~~ieT~aG~l~v~~~~dg~V~VdMg~P~f~~~~iP~~~  159 (317)
T 3ejx_A           80 NGTDYAMRIFNSDGSEPEMCGNGVRCFARFIAELENLQGKHSFTIHTGAGLIVPEIQDDGQVKVDMGTPILKAQDVPTKL  159 (317)
T ss_dssp             TTCSEEEEEEETTSCCCSCCHHHHHHHHHHHHHHTTCCSCCBCCEEETTEEEEEEECTTSCEEEECCCCBCCGGGTTCCS
T ss_pred             CCCCEEEEEEcCCCCeeccCccHHHHHHHHHHHhcCCCCCceEEEEeCCeEEEEEEcCCCEEEEECCCCccCcccccccc
Confidence            57999999999999999999999999999999833666667899999999999999877789999999999999998754


Q ss_pred             ccCccccccccceeeCCeeEEEEEEEcCCCeEEEEeccCCcccccchhhHhhhCcccccCCCCCCceeEEEEEEeCCCeE
Q 017920          212 SANKDQSVVKSELDVDGVKWNVTCVSMGNPHCVTFGTKEGQNLKVDKLNLAEIGPKFEHHSVFPARTNTEFVEIISPSQL  291 (364)
Q Consensus       212 ~~~~~~~~l~~~l~i~~~~~~~~~Vs~GnpH~Vv~v~~~~~~~~l~~~~l~~lg~~le~~~~fp~~~Nv~fv~v~~~~~i  291 (364)
                      ....+.+.+...+.+.+..+.+.+|+|||||+|+++++++..++++.+|+.++||.+|+|+.||+++||+|+++.++++|
T Consensus       160 ~~~~~~~~~~~~i~~~~~~~~~~~VsmGNPH~V~fvd~~~~~~dv~~~~l~~~Gp~ie~h~~FP~g~NV~Fv~v~~~~~i  239 (317)
T 3ejx_A          160 SGNKGEAVVEAELVVDGVSWNVTCVSMGNPHCITFGKKGGPNLKVDDLNLPEIGPKFEHHEMFPARTNTEFVEVLSRSHL  239 (317)
T ss_dssp             CCSBTTBCCSEEEEETTEEEEEEEEESSSEEEEESSBTTCCCCCGGGSCHHHHHHHHHTCTTCTTCCEEEEEEEEETTEE
T ss_pred             ccccccceeeEEEEeCCeEEEEEEEccCCCeEEEEEcCcccccCccccchhhhhhhhccCCcCCCCcEEEEEEEccCCEE
Confidence            32223344455667777778889999999999999983222225788899999999999999999999999999999999


Q ss_pred             EEEEeeCCCCCCCCchhhHHHHHHHHHHhCCCCCceEEEccCccEEEEEeecCCeEEEEeceEEEEEEEEEeC
Q 017920          292 KMRVWERGAGATLACGTGACAVVVAAVLEGHAERRCTVDLPGGPLDIEWKEEDNHVYMTGPAEVVFYGSVLLN  364 (364)
Q Consensus       292 ~~R~fErGvgEt~ACGTGa~A~a~aa~~~g~~~~~~~V~~~GG~L~V~~~~~~~~V~i~G~A~~V~~G~i~i~  364 (364)
                      ++||||||+|||+|||||+||+|++++++|+.+.+++|.+|||.|.|+|.+++++|+|+|||++||+|+..+|
T Consensus       240 ~~Rv~ERGvGeTlACGTGacAaavaa~~~g~~~~~v~V~~pGG~L~I~~~~~~~~v~mtGpA~~Vf~G~~~~~  312 (317)
T 3ejx_A          240 KMRVWERGAGATLACGTGACALVVAAVLEGRADRKCTVDLPGGPLEIEWKQEDNHIYMTGPAEAVFYGSALLH  312 (317)
T ss_dssp             EEEEEBTTTBSCSCCHHHHHHHHHHHHHTTSSCSEEEEEETTEEEEEEECTTTSCEEEEECCEEEEEEEEEC-
T ss_pred             EEEEEECCCCcccCchHHHHHHHHHHHHhCCCCCeEEEECCCCEEEEEEECCCCeEEEEeCCEEEEEEEEehh
Confidence            9999999999999999999999999999999988999999999999999765568999999999999998765
>3fve_A DAP epimerase, diaminopimelate epimerase; alpha/beta, amino-acid biosynthesis, isomerase, lysine biosy; 2.60A {Mycobacterium tuberculosis} Back     alignment and structure
>2gke_A DAP epimerase, diaminopimelate epimerase; enzyme-inhibitor complex, covalently bound inhibitor, isomer; HET: ZDP; 1.35A {Haemophilus influenzae} SCOP: d.21.1.1 d.21.1.1 PDB: 1gqz_A* 2gkj_A* 2q9h_A* 2q9j_A 1bwz_A Back     alignment and structure
>2otn_A Diaminopimelate epimerase; DAP, lysine ME lanthionine, isomerase; 2.40A {Bacillus anthracis str} Back     alignment and structure
>3edn_A Phenazine biosynthesis protein, PHZF family; diaminopimelate epimerase-like fold, alpha and beta protein class, structural genomics; HET: MSE; 1.50A {Bacillus anthracis} Back     alignment and structure
>1qya_A ORFB, hypothetical protein YDDE; putative phenazine biosynthesis protein, epimerase, antibiot biosynthesis protein, structural genomics; 2.00A {Escherichia coli} SCOP: d.21.1.2 d.21.1.2 PDB: 1sdj_A 1qy9_A Back     alignment and structure
>1xub_A Phenazine biosynthesis protein PHZF; biosynthetic protein; 1.30A {Pseudomonas fluorescens} SCOP: d.21.1.2 d.21.1.2 PDB: 1u1w_A* 1u1v_A* 1u1x_A* 1xua_A* 1t6k_A Back     alignment and structure
>1ym5_A YHI9, hypothetical 32.6 kDa protein in DAP2-SLT2 intergenic region; PHZF enzyme superfamily, double hot-DOG, structural genomics; 2.05A {Saccharomyces cerevisiae} Back     alignment and structure
>1u0k_A Gene product PA4716; sctructural genomics, MCSG, protein initiative, structural genomics, PSI, midwest center for ST genomics; 1.50A {Pseudomonas aeruginosa} SCOP: d.21.1.2 d.21.1.2 Back     alignment and structure
>1s7j_A Phenazine biosynthesis protein PHZF family; bacteria, structural PSI, protein structure initiative; 2.30A {Enterococcus faecalis} SCOP: d.21.1.2 Back     alignment and structure
>2azp_A Hypothetical protein PA1268; PA1268,APC5861,sulfur SAD, structural genomics, PSI, protein structure initiative; 2.13A {Pseudomonas aeruginosa} Back     alignment and structure
>1w61_A B-cell mitogen; racemase, racemase pyridoxal phosphate-independent, stereo inversion, acid/base catalysis, homodimer, alpha/beta domains; 2.1A {Trypanosoma cruzi} PDB: 1w62_A Back     alignment and structure
>4dun_A Putative phenazine biosynthesis PHZC/PHZF protein; structural genomics, center for structural genomics of infec diseases, csgid; HET: BTB; 1.76A {Clostridium difficile} Back     alignment and structure
>1tm0_A Proline racemase; structural genomics, alpha-beta protein THAT resembles doubl barrel, in EACH of which AN alpha helix is sandwiched, PSI; 2.80A {Brucella melitensis} SCOP: d.21.1.3 Back     alignment and structure
>2pw0_A PRPF methylaconitate isomerase; propionate catabolism, diaminopimelate epimerase like, aconi binding, unknown function; HET: TRC; 1.57A {Shewanella oneidensis} PDB: 2pvz_A 2h9f_A Back     alignment and structure
>3g7k_A 3-methylitaconate isomerase; DAPF family fold, closed conformation, open conformation; 2.70A {Eubacterium barkeri} Back     alignment and structure
>4dun_A Putative phenazine biosynthesis PHZC/PHZF protein; structural genomics, center for structural genomics of infec diseases, csgid; HET: BTB; 1.76A {Clostridium difficile} Back     alignment and structure
>1ym5_A YHI9, hypothetical 32.6 kDa protein in DAP2-SLT2 intergenic region; PHZF enzyme superfamily, double hot-DOG, structural genomics; 2.05A {Saccharomyces cerevisiae} Back     alignment and structure
>3edn_A Phenazine biosynthesis protein, PHZF family; diaminopimelate epimerase-like fold, alpha and beta protein class, structural genomics; HET: MSE; 1.50A {Bacillus anthracis} Back     alignment and structure
>1u0k_A Gene product PA4716; sctructural genomics, MCSG, protein initiative, structural genomics, PSI, midwest center for ST genomics; 1.50A {Pseudomonas aeruginosa} SCOP: d.21.1.2 d.21.1.2 Back     alignment and structure
>1qya_A ORFB, hypothetical protein YDDE; putative phenazine biosynthesis protein, epimerase, antibiot biosynthesis protein, structural genomics; 2.00A {Escherichia coli} SCOP: d.21.1.2 d.21.1.2 PDB: 1sdj_A 1qy9_A Back     alignment and structure
>2gke_A DAP epimerase, diaminopimelate epimerase; enzyme-inhibitor complex, covalently bound inhibitor, isomer; HET: ZDP; 1.35A {Haemophilus influenzae} SCOP: d.21.1.1 d.21.1.1 PDB: 1gqz_A* 2gkj_A* 2q9h_A* 2q9j_A 1bwz_A Back     alignment and structure
>1s7j_A Phenazine biosynthesis protein PHZF family; bacteria, structural PSI, protein structure initiative; 2.30A {Enterococcus faecalis} SCOP: d.21.1.2 Back     alignment and structure
>1xub_A Phenazine biosynthesis protein PHZF; biosynthetic protein; 1.30A {Pseudomonas fluorescens} SCOP: d.21.1.2 d.21.1.2 PDB: 1u1w_A* 1u1v_A* 1u1x_A* 1xua_A* 1t6k_A Back     alignment and structure
>2otn_A Diaminopimelate epimerase; DAP, lysine ME lanthionine, isomerase; 2.40A {Bacillus anthracis str} Back     alignment and structure
>2azp_A Hypothetical protein PA1268; PA1268,APC5861,sulfur SAD, structural genomics, PSI, protein structure initiative; 2.13A {Pseudomonas aeruginosa} Back     alignment and structure
>1tm0_A Proline racemase; structural genomics, alpha-beta protein THAT resembles doubl barrel, in EACH of which AN alpha helix is sandwiched, PSI; 2.80A {Brucella melitensis} SCOP: d.21.1.3 Back     alignment and structure
>1w61_A B-cell mitogen; racemase, racemase pyridoxal phosphate-independent, stereo inversion, acid/base catalysis, homodimer, alpha/beta domains; 2.1A {Trypanosoma cruzi} PDB: 1w62_A Back     alignment and structure
>3ejx_A DAP epimerase, diaminopimelate epimerase, chloroplastic; PLP-independenet amino acid racemase, aziridino-diaminopimelate, isomerase; HET: ZDP; 1.95A {Arabidopsis thaliana} PDB: 3ekm_A* Back     alignment and structure
>2pw0_A PRPF methylaconitate isomerase; propionate catabolism, diaminopimelate epimerase like, aconi binding, unknown function; HET: TRC; 1.57A {Shewanella oneidensis} PDB: 2pvz_A 2h9f_A Back     alignment and structure
>3fve_A DAP epimerase, diaminopimelate epimerase; alpha/beta, amino-acid biosynthesis, isomerase, lysine biosy; 2.60A {Mycobacterium tuberculosis} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 364
d2gkea1130 d.21.1.1 (A:1-130) Diaminopimelate epimerase {Haem 3e-43
d2gkea2144 d.21.1.1 (A:131-274) Diaminopimelate epimerase {Ha 2e-38
d1xuba2150 d.21.1.2 (A:129-278) Phenazine biosynthesis protei 7e-18
d1u0ka2153 d.21.1.2 (A:131-283) Hypothetical protein PA4716 { 2e-15
d1qy9a2168 d.21.1.2 (A:130-297) Hypothetical protein YddE {Es 1e-12
>d2gkea1 d.21.1.1 (A:1-130) Diaminopimelate epimerase {Haemophilus influenzae [TaxId: 727]} Length = 130 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Diaminopimelate epimerase-like
superfamily: Diaminopimelate epimerase-like
family: Diaminopimelate epimerase
domain: Diaminopimelate epimerase
species: Haemophilus influenzae [TaxId: 727]

 Score =  144 bits (364), Expect = 3e-43
 Identities = 54/131 (41%), Positives = 79/131 (60%), Gaps = 3/131 (2%)

Query: 79  LHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKLCDRNFGIGADGVIFAMPGVN-GTDYT 137
           + F K HGLGNDF++VD         TPE   +L +R+ GIG D ++      +   D+ 
Sbjct: 1   MQFSKMHGLGNDFVVVDGVTQ-NVFFTPETIRRLANRHCGIGFDQLLIVEAPYDPELDFH 59

Query: 138 MRIFNSDGSEPEMCGNGVRCFARFIAELENLNGKQSFTVHTGAGLIVPEIQDDGKVKVDM 197
            RIFN+DGSE   CGNG RCFARF+   + L  K+  +V T  G +V  ++DD +++V+M
Sbjct: 60  YRIFNADGSEVSQCGNGARCFARFVTL-KGLTNKKDISVSTQKGNMVLTVKDDNQIRVNM 118

Query: 198 GEPILKASDVP 208
           GEPI + + +P
Sbjct: 119 GEPIWEPAKIP 129
>d2gkea2 d.21.1.1 (A:131-274) Diaminopimelate epimerase {Haemophilus influenzae [TaxId: 727]} Length = 144 Back     information, alignment and structure
>d1xuba2 d.21.1.2 (A:129-278) Phenazine biosynthesis protein PhzF {Pseudomonas fluorescens [TaxId: 294]} Length = 150 Back     information, alignment and structure
>d1u0ka2 d.21.1.2 (A:131-283) Hypothetical protein PA4716 {Pseudomonas aeruginosa [TaxId: 287]} Length = 153 Back     information, alignment and structure
>d1qy9a2 d.21.1.2 (A:130-297) Hypothetical protein YddE {Escherichia coli [TaxId: 562]} Length = 168 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query364
d2gkea1130 Diaminopimelate epimerase {Haemophilus influenzae 100.0
d2gkea2144 Diaminopimelate epimerase {Haemophilus influenzae 100.0
d1s7ja_260 Hypothetical protein EF0119 {Enterococcus faecalis 99.97
d1qy9a1127 Hypothetical protein YddE {Escherichia coli [TaxId 99.81
d1xuba1128 Phenazine biosynthesis protein PhzF {Pseudomonas f 99.81
d1u0ka1129 Hypothetical protein PA4716 {Pseudomonas aeruginos 99.79
d1xuba2150 Phenazine biosynthesis protein PhzF {Pseudomonas f 99.79
d1qy9a2168 Hypothetical protein YddE {Escherichia coli [TaxId 99.76
d1u0ka2153 Hypothetical protein PA4716 {Pseudomonas aeruginos 99.73
d1tm0a_332 Proline racemase {Brucella melitensis [TaxId: 2945 99.57
d1qy9a1127 Hypothetical protein YddE {Escherichia coli [TaxId 97.63
d1qy9a2168 Hypothetical protein YddE {Escherichia coli [TaxId 97.59
d1u0ka1129 Hypothetical protein PA4716 {Pseudomonas aeruginos 97.41
d1xuba1128 Phenazine biosynthesis protein PhzF {Pseudomonas f 97.16
d1xuba2150 Phenazine biosynthesis protein PhzF {Pseudomonas f 95.57
d1u0ka2153 Hypothetical protein PA4716 {Pseudomonas aeruginos 95.1
d1s7ja_ 260 Hypothetical protein EF0119 {Enterococcus faecalis 94.89
d2gkea2144 Diaminopimelate epimerase {Haemophilus influenzae 94.84
d2h9fa2209 Hypothetical protein PA0793 {Pseudomonas aeruginos 94.78
d2gkea1130 Diaminopimelate epimerase {Haemophilus influenzae 90.08
d2h9fa2209 Hypothetical protein PA0793 {Pseudomonas aeruginos 89.08
>d2gkea1 d.21.1.1 (A:1-130) Diaminopimelate epimerase {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Diaminopimelate epimerase-like
superfamily: Diaminopimelate epimerase-like
family: Diaminopimelate epimerase
domain: Diaminopimelate epimerase
species: Haemophilus influenzae [TaxId: 727]

Probab=100.00  E-value=1.7e-41  Score=286.06  Aligned_cols=128  Identities=42%  Similarity=0.800  Sum_probs=118.0

Q ss_pred             eEEEeeeCCCCcEEEEeCCCCCCCCCCHHHHHHhhhccCCcccceEEEEecCC-CCCcEEEEEEeCCCCcCCCcchhHHH
Q 017920           79 LHFVKYHGLGNDFILVDNRNSTEPRITPEQAAKLCDRNFGIGADGVIFAMPGV-NGTDYTMRIFNSDGSEPEMCGNGVRC  157 (364)
Q Consensus        79 i~F~K~~g~GNdfvvid~~~~~~~~~~~~~~~~lcdR~~GIGaDgvlfV~p~~-~~ad~~mRiFnpDGsE~emCGNgtrc  157 (364)
                      |+|+||||+||||||||.+... ..++++++++||||++|||+||+++|.++. ..+||+|+||||||||++|||||+||
T Consensus         1 m~F~Km~g~GNDFviiD~~~~~-~~~~~~~i~~i~~r~~giG~Dgli~i~~~~~~~~d~~~~ifN~DGS~Ae~CGNG~RC   79 (130)
T d2gkea1           1 MQFSKMHGLGNDFVVVDGVTQN-VFFTPETIRRLANRHCGIGFDQLLIVEAPYDPELDFHYRIFNADGSEVSQCGNGARC   79 (130)
T ss_dssp             CEEEEEEETTEEEEEEECSSSC-CCCCHHHHHHHHCTTTSCCCSEEEEEECCSSTTSSEEEEEEETTSCEESCCHHHHHH
T ss_pred             CEEEEEEcCCCeEEEEECCCCc-CCCCHHHHHHHhhcccCCCCceEEEEecccccCcceEEEEEecCCcHhhhcccHHHH
Confidence            7899999999999999998764 357789999999999999999999998763 57899999999999999999999999


Q ss_pred             HHHHHHHHccCCCCcEEEEEeCCeeEEEEEeeCceEEEEcCCCccCCCCCC
Q 017920          158 FARFIAELENLNGKQSFTVHTGAGLIVPEIQDDGKVKVDMGEPILKASDVP  208 (364)
Q Consensus       158 ~a~~L~~~~g~~~~~~i~ieT~aG~l~v~v~~~g~v~V~mg~p~~~~~~ip  208 (364)
                      +|+||++ +++.+++++.++|.+|.+.+++..++.++|+||.|.|.|.+||
T Consensus        80 va~~l~~-~~~~~~~~~~i~T~~g~~~~~~~~~~~i~V~Mg~p~f~~~~IP  129 (130)
T d2gkea1          80 FARFVTL-KGLTNKKDISVSTQKGNMVLTVKDDNQIRVNMGEPIWEPAKIP  129 (130)
T ss_dssp             HHHHHHH-TTSCCCSEEEEECSSCEEEEEECTTSCEEEECCCCBCCGGGTT
T ss_pred             HHHHHHH-cCCccCccEEEEECCCcEEEEEeCCCEEEEECCccccCcccCC
Confidence            9999999 8887778999999999999999887789999999999998887
>d2gkea2 d.21.1.1 (A:131-274) Diaminopimelate epimerase {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d1s7ja_ d.21.1.2 (A:) Hypothetical protein EF0119 {Enterococcus faecalis [TaxId: 1351]} Back     information, alignment and structure
>d1qy9a1 d.21.1.2 (A:3-129) Hypothetical protein YddE {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1xuba1 d.21.1.2 (A:1-128) Phenazine biosynthesis protein PhzF {Pseudomonas fluorescens [TaxId: 294]} Back     information, alignment and structure
>d1u0ka1 d.21.1.2 (A:2-130) Hypothetical protein PA4716 {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1xuba2 d.21.1.2 (A:129-278) Phenazine biosynthesis protein PhzF {Pseudomonas fluorescens [TaxId: 294]} Back     information, alignment and structure
>d1qy9a2 d.21.1.2 (A:130-297) Hypothetical protein YddE {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1u0ka2 d.21.1.2 (A:131-283) Hypothetical protein PA4716 {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1tm0a_ d.21.1.3 (A:) Proline racemase {Brucella melitensis [TaxId: 29459]} Back     information, alignment and structure
>d1qy9a1 d.21.1.2 (A:3-129) Hypothetical protein YddE {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1qy9a2 d.21.1.2 (A:130-297) Hypothetical protein YddE {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1u0ka1 d.21.1.2 (A:2-130) Hypothetical protein PA4716 {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1xuba1 d.21.1.2 (A:1-128) Phenazine biosynthesis protein PhzF {Pseudomonas fluorescens [TaxId: 294]} Back     information, alignment and structure
>d1xuba2 d.21.1.2 (A:129-278) Phenazine biosynthesis protein PhzF {Pseudomonas fluorescens [TaxId: 294]} Back     information, alignment and structure
>d1u0ka2 d.21.1.2 (A:131-283) Hypothetical protein PA4716 {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1s7ja_ d.21.1.2 (A:) Hypothetical protein EF0119 {Enterococcus faecalis [TaxId: 1351]} Back     information, alignment and structure
>d2gkea2 d.21.1.1 (A:131-274) Diaminopimelate epimerase {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d2h9fa2 d.21.1.4 (A:187-395) Hypothetical protein PA0793 {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d2gkea1 d.21.1.1 (A:1-130) Diaminopimelate epimerase {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d2h9fa2 d.21.1.4 (A:187-395) Hypothetical protein PA0793 {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure