Citrus Sinensis ID: 014547

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-------370-------380-------390-------400-------410-------420---

MNTLSSPSPLIRPRGSRSRCRQFNRVQCVYRSDSVHFPNGIGCSRTDWQSSCAILSSNVVSQQQSGDKPAEHIAAVNGHKTSIDLNLVPIEHANSAAATASNNKPQLPPQKPLTITDLSPAPMHGSQLRVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVLGSYPMDMTPWSPSRGE

ccccccccccccccccccccccccccEEEEccccccccccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHcccccccccccHHHHHHHHHHHHHccccccccccccHHHccccccccccccEEEEccccccHHHHHHHHHcccccEEccccHHHHHHHHHcccccEEEEEccccccccHHHHHHHHcccccEEEEEEEEEEEEEEccccccccccccEEEccHHHHHHHHHHHHHcccccEEEEcccHHHHHHHHHHccccccEEEccHHHHHHHccHHHHcccccccccEEEEEEEEccccccccccccEEEEEEEEcccHHHHHHHHHHHHHccccEEEcccccccccccccccccccccccccEEEEEEEEEcccccHHHHHHHHHHHHccccEEEEEEcccccccccccccc

cccccccccccccccccccccccccEEEEEEccccccccccccccHcHHHHHHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccHHHHHHHccccccccccEEEEEccccccHHHHHHHHHcccccEccHHHHHHHHHHHHHccccEEEEEEEccccccHHHHHHHHHHcccEEEEEEEEEEEEEEEccccccHHHHHEEEccHHHHHHHHHHHHHHccccEEEEcccHHHHHHHHHHccccccEEEEcHHHHHHHcHHHHHHHccccccccEEEEEEEcccccccccccccEEEEEEcccccHHHHHHHHHHHHccccEEEEEEcccccccEEEEEccccccccccEEEEEEEEEcccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccc

mntlsspsplirprgsrsrcrqfnrvqcvyrsdsvhfpngigcsrtdwqsscAILSSNVvsqqqsgdkpaehiaavnghktsidlnlvpiehansaaatasnnkpqlppqkpltitdlspapmhgsQLRVAyqgvpgayseaaagkaypnceaipcdqFEVAFQAVELWIAdravlpvenslggsihrnYDLLLRHRLHivgevqlpvhhcllalpgvrkEYLTRVishpqalsQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQVledgiqddssNVTRFVMLarepiiprtdrpfktsivfAHDKGTSVLFKVLSAFAFrnisltkiesrphrnrpirlvddanvgtakhFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVlgsypmdmtpwspsrge

mntlsspsplirprgsrsrcrqfNRVQcvyrsdsvhfpnGIGCSRTDWQSSCAILSSNVVSQQQSGDKPAEHIAAVNGHKTSIDLNLVPIEHANSAAAtasnnkpqlppqKPLTITDLSPAPMHGSQLRVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVMLArepiiprtdrpfKTSIVFAHDKGTSVLFKVLSAFAFRNisltkiesrphrnrpirlvddanvgtAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRvlgsypmdmtpwspsrge

MNTLSSPSPLIRPRGSRSRCRQFNRVQCVYRSDSVHFPNGIGCSRTDWQSSCAILSSNVVSQQQSGDKPAEHIAAVNGHKTSIDLNLVPIEHansaaatasnnKPQLPPQKPLTITDLSPAPMHGSQLRVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTaaiasaraaELYGMQVLEDGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVLGSYPMDMTPWSPSRGE

*******************CRQFNRVQCVYRSDSVHFPNGIGCSRTDWQSSCAILSS************************SIDLNLVP**************************************LRVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVLGSYP************

*********************************************TDWQSSCAILS*****************************NLVPIE*************************************RVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVLGSYPMDM*********

*******************CRQFNRVQCVYRSDSVHFPNGIGCSRTDWQSSCAILSS*************EHIAAVNGHKTSIDLNLVPIEHANS***********LPPQKPLTITDLSPAPMHGSQLRVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVLGSYPMDMTPWSPSRGE

***************SRSRCRQFNRVQCVYRSDSVHFPNGIGCSRTDWQSSCAILSSNVV************************LNLVPIEHANSAAATASNNKPQLPPQKPLTITDLSPAPMHGSQLRVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVLGSYPMDMT********

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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
Query		423	2.2.26 [Sep-21-2011]
Q9SGD6		413	Arogenate dehydratase/pre	yes	no	0.855	0.876	0.809	1e-176
O22241		424	Arogenate dehydratase 4,	no	no	0.914	0.912	0.755	1e-170
Q9ZUY3		424	Arogenate dehydratase 3,	no	no	0.834	0.832	0.810	1e-169
Q9FNJ8		425	Arogenate dehydratase 5,	no	no	0.895	0.891	0.767	1e-164
Q9SA96		392	Arogenate dehydratase/pre	no	no	0.716	0.772	0.619	1e-114
Q9SSE7		381	Arogenate dehydratase/pre	no	no	0.718	0.797	0.645	1e-109
Q02286		387	P-protein OS=Enterobacter	N/A	no	0.669	0.731	0.343	7e-40
Q8K9F8		385	P-protein OS=Buchnera aph	yes	no	0.647	0.711	0.299	2e-38
Q58054		272	Prephenate dehydratase OS	yes	no	0.614	0.955	0.342	3e-36
P43900		385	P-protein OS=Haemophilus	yes	no	0.645	0.709	0.301	3e-36

>sp\|Q9SGD6\|AROD6_ARATH Arogenate dehydratase/prephenate dehydratase 6, chloroplastic OS=Arabidopsis thaliana GN=ADT6 PE=1 SV=1	Back alignment and function desciption

 Score =  619 bits (1595), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 310/383 (80%), Positives = 342/383 (89%), Gaps = 21/383 (5%)

Query: 45  RTDWQSSCAILSSNVVSQQQSGDKPAEHIAA----VNGHKTSI----DLNLVPIEHANSA 96
           R++WQSSCAIL+S V+SQ++S   P   ++     +NGH ++      +NLVPIE ++S 
Sbjct: 28  RSEWQSSCAILTSKVISQEESESLPVPPVSGGVDHLNGHNSAAARVPGMNLVPIEKSDS- 86

Query: 97  AATASNNKPQLP-----PQKPLTITDLSPAPMHGSQLRVAYQGVPGAYSEAAAGKAYPNC 151
                   P +P     P KPL++TDLSPAPMHGS LRVAYQGVPGAYSEAAAGKAYPNC
Sbjct: 87  -------NPLVPQHRHNPLKPLSMTDLSPAPMHGSNLRVAYQGVPGAYSEAAAGKAYPNC 139

Query: 152 EAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHC 211
           +AIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHC
Sbjct: 140 QAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHC 199

Query: 212 LLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTA 271
           LLALPGVRKE+LTRVISHPQ L+QCEHTLTKLGLNVAREAVDDTAGAAE+IA+N+LRDTA
Sbjct: 200 LLALPGVRKEFLTRVISHPQGLAQCEHTLTKLGLNVAREAVDDTAGAAEFIASNNLRDTA 259

Query: 272 AIASARAAELYGMQVLEDGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFAHDKGTSV 331
           AIASARAAE+YG+++LEDGIQDD SNVTRFVMLAREPIIPRTDRPFKTSIVFAH+KGTSV
Sbjct: 260 AIASARAAEIYGLEILEDGIQDDVSNVTRFVMLAREPIIPRTDRPFKTSIVFAHEKGTSV 319

Query: 332 LFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEASMAEVRAQ 391
           LFKVLSAFAFR+ISLTKIESRP+ NRPIR+VDDANVGTAKHFEYMFY+DFEASMAE RAQ
Sbjct: 320 LFKVLSAFAFRDISLTKIESRPNHNRPIRVVDDANVGTAKHFEYMFYVDFEASMAEARAQ 379

Query: 392 NALAEVQEFTSFLRVLGSYPMDM 414
           NALAEVQEFTSFLRVLGSYPMDM
Sbjct: 380 NALAEVQEFTSFLRVLGSYPMDM 402

Converts the prephenate produced from the shikimate-chorismate pathway into phenylalanine.
Arabidopsis thaliana (taxid: 3702)
EC: 4EC: .EC: 2EC: .EC: 1EC: .EC: 9EC: 1

>sp\|O22241\|AROD4_ARATH Arogenate dehydratase 4, chloroplastic OS=Arabidopsis thaliana GN=ADT4 PE=1 SV=1	Back alignment and function description

>sp\|Q9ZUY3\|AROD3_ARATH Arogenate dehydratase 3, chloroplastic OS=Arabidopsis thaliana GN=ADT3 PE=1 SV=1	Back alignment and function description

>sp\|Q9FNJ8\|AROD5_ARATH Arogenate dehydratase 5, chloroplastic OS=Arabidopsis thaliana GN=ADT5 PE=1 SV=1	Back alignment and function description

>sp\|Q9SA96\|AROD1_ARATH Arogenate dehydratase/prephenate dehydratase 1, chloroplastic OS=Arabidopsis thaliana GN=ADT1 PE=1 SV=1	Back alignment and function description

>sp\|Q9SSE7\|AROD2_ARATH Arogenate dehydratase/prephenate dehydratase 2, chloroplastic OS=Arabidopsis thaliana GN=ADT2 PE=1 SV=1	Back alignment and function description

>sp\|Q02286\|PHEA_ENTAG P-protein OS=Enterobacter agglomerans GN=pheA PE=4 SV=1	Back alignment and function description

>sp\|Q8K9F8\|PHEA_BUCAP P-protein OS=Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) GN=pheA PE=4 SV=1	Back alignment and function description

>sp\|Q58054\|PHEA_METJA Prephenate dehydratase OS=Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) GN=pheA PE=1 SV=1	Back alignment and function description

>sp\|P43900\|PHEA_HAEIN P-protein OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=pheA PE=4 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
Query		423
224131644		444	arogenate/prephenate dehydratase [Populu	0.985	0.939	0.836	0.0
224105005		446	arogenate/prephenate dehydratase [Populu	0.990	0.939	0.838	0.0
255573068		394	prephenate dehydratase, putative [Ricinu	0.905	0.972	0.876	0.0
267821869		434	arogenate dehydratase 3 [Petunia x hybri	0.898	0.875	0.814	0.0
225436339		411	PREDICTED: arogenate dehydratase/prephen	0.895	0.922	0.862	0.0
356543548		425	PREDICTED: arogenate dehydratase/prephen	0.971	0.967	0.812	0.0
219842180		429	Prephenate dehydratase [Hevea brasiliens	0.985	0.972	0.790	0.0
356565693		424	PREDICTED: arogenate dehydratase/prephen	0.969	0.966	0.810	0.0
45935145		443	prephenate dehydratase [Ipomoea trifida]	0.881	0.841	0.862	0.0
193290658		427	putative arogenate dehydratase [Capsicum	0.874	0.866	0.861	0.0

>gi\|224131644\|ref\|XP_002328073.1\| arogenate/prephenate dehydratase [Populus trichocarpa] gi\|118487988\|gb\|ABK95815.1\| unknown [Populus trichocarpa] gi\|222837588\|gb\|EEE75953.1\| arogenate/prephenate dehydratase [Populus trichocarpa]	Back alignment and taxonomy information

 Score =  719 bits (1856), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 368/440 (83%), Positives = 387/440 (87%), Gaps = 23/440 (5%)

Query: 1   MNTLSSPSP---LIRPR-----GSRSRCRQFNRVQCVYRSDSVHFPNGIGCSRTDWQSSC 52
           M +LS PSP   LIRPR     GS ++      +QC+YRSDSV FPNG+G +R DWQSSC
Sbjct: 1   MQSLSPPSPIKSLIRPRPRVIRGSPNKLA----LQCIYRSDSVSFPNGVGSNRADWQSSC 56

Query: 53  AILSSNVVSQQQSGDKP---------AEHIAAVNGHKTSIDLNLVPIEHANSAAATASNN 103
           +IL+S VV+QQQ  DK          A+H+AAVNGHKTS+DLNLVPIE   S+ + +S  
Sbjct: 57  SILASKVVAQQQPTDKSSRSGDVDGGADHVAAVNGHKTSMDLNLVPIEKTASSNSNSSIK 116

Query: 104 KPQLPPQKPLTITDLSPAPMHGSQLRVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAF 163
             Q  PQKPLTITDL PAPMHGS LRVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAF
Sbjct: 117 PHQ--PQKPLTITDLCPAPMHGSHLRVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAF 174

Query: 164 QAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYL 223
           QAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEY+
Sbjct: 175 QAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYI 234

Query: 224 TRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYG 283
            RVISHPQAL+QCE TLTKLGL  AREAVDDTAGAAEYIAAN+LRDTAAIASARAAELYG
Sbjct: 235 NRVISHPQALAQCELTLTKLGLQAAREAVDDTAGAAEYIAANNLRDTAAIASARAAELYG 294

Query: 284 MQVLEDGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRN 343
           MQVL DGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRN
Sbjct: 295 MQVLADGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRN 354

Query: 344 ISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSF 403
           ISLTKIESRPHRNRPIRLVDD NVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSF
Sbjct: 355 ISLTKIESRPHRNRPIRLVDDGNVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSF 414

Query: 404 LRVLGSYPMDMTPWSPSRGE 423
           LRVLGSYPMDMTPW PSRGE
Sbjct: 415 LRVLGSYPMDMTPWCPSRGE 434

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|224105005\|ref\|XP_002313651.1\| arogenate/prephenate dehydratase [Populus trichocarpa] gi\|222850059\|gb\|EEE87606.1\| arogenate/prephenate dehydratase [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|255573068\|ref\|XP_002527464.1\| prephenate dehydratase, putative [Ricinus communis] gi\|223533199\|gb\|EEF34956.1\| prephenate dehydratase, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|267821869\|gb\|ACY79504.1\| arogenate dehydratase 3 [Petunia x hybrida]	Back alignment and taxonomy information

>gi\|225436339\|ref\|XP_002268701.1\| PREDICTED: arogenate dehydratase/prephenate dehydratase 6, chloroplastic [Vitis vinifera] gi\|147815482\|emb\|CAN68383.1\| hypothetical protein VITISV_041082 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|356543548\|ref\|XP_003540222.1\| PREDICTED: arogenate dehydratase/prephenate dehydratase 6, chloroplastic-like [Glycine max]	Back alignment and taxonomy information

>gi\|219842180\|dbj\|BAH10647.1\| Prephenate dehydratase [Hevea brasiliensis]	Back alignment and taxonomy information

>gi\|356565693\|ref\|XP_003551072.1\| PREDICTED: arogenate dehydratase/prephenate dehydratase 6, chloroplastic-like [Glycine max]	Back alignment and taxonomy information

>gi\|45935145\|gb\|AAS79603.1\| prephenate dehydratase [Ipomoea trifida] gi\|118562900\|dbj\|BAF37790.1\| hypothetical protein [Ipomoea trifida]	Back alignment and taxonomy information

>gi\|193290658\|gb\|ACF17637.1\| putative arogenate dehydratase [Capsicum annuum]	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
Query		423
TAIR\|locus:2199963		413	ADT6 "arogenate dehydratase 6"	0.881	0.903	0.789	7.5e-160
TAIR\|locus:2042021		424	PD1 "prephenate dehydratase 1"	0.938	0.936	0.742	2.5e-159
TAIR\|locus:2101630		424	ADT4 "arogenate dehydratase 4"	0.914	0.912	0.733	2.3e-151
TAIR\|locus:2162459		425	ADT5 "arogenate dehydratase 5"	0.895	0.891	0.744	4.2e-150
TAIR\|locus:2027332		392	ADT1 "arogenate dehydratase 1"	0.713	0.770	0.598	2.4e-99
TAIR\|locus:2091127		381	ADT2 "arogenate dehydratase 2"	0.713	0.792	0.633	6.4e-99
TIGR_CMR\|DET_0461		358	DET_0461 "chorismate mutase/pr	0.531	0.628	0.421	5.5e-38
UNIPROTKB\|Q9KU24		391	VC_0705 "Chorismate mutase/pre	0.638	0.690	0.349	8.9e-38
TIGR_CMR\|VC_0705		391	VC_0705 "chorismate mutase/pre	0.638	0.690	0.349	8.9e-38
UNIPROTKB\|Q0C4F5		278	HNE_0659 "Prephenate dehydrata	0.631	0.960	0.359	2.4e-37

TAIR\|locus:2199963 ADT6 "arogenate dehydratase 6" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1557 (553.2 bits), Expect = 7.5e-160, P = 7.5e-160
 Identities = 303/384 (78%), Positives = 335/384 (87%)

Query:    45 RTDWQSSCAILSSNVVSQQQSGDKPAEHIAA----VNGHKTSI----DLNLVPIEHXXXX 96
             R++WQSSCAIL+S V+SQ++S   P   ++     +NGH ++      +NLVPIE     
Sbjct:    28 RSEWQSSCAILTSKVISQEESESLPVPPVSGGVDHLNGHNSAAARVPGMNLVPIEKSDSN 87

Query:    97 XXXXXXXKPQLPPQKPLTITDLSPAPMHGSQLRVAYQGVPGAYSEAAAGKAYPNCEAIPC 156
                    + +  P KPL++TDLSPAPMHGS LRVAYQGVPGAYSEAAAGKAYPNC+AIPC
Sbjct:    88 PLVP---QHRHNPLKPLSMTDLSPAPMHGSNLRVAYQGVPGAYSEAAAGKAYPNCQAIPC 144

Query:   157 DQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALP 216
             DQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALP
Sbjct:   145 DQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALP 204

Query:   217 GVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTXXXXXX 276
             GVRKE+LTRVISHPQ L+QCEHTLTKLGLNVAREAVDDTAGAAE+IA+N+LRDT      
Sbjct:   205 GVRKEFLTRVISHPQGLAQCEHTLTKLGLNVAREAVDDTAGAAEFIASNNLRDTAAIASA 264

Query:   277 XXXELYGMQVLEDGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFAHDKGTSVLFKVL 336
                E+YG+++LEDGIQDD SNVTRFVMLAREPIIPRTDRPFKTSIVFAH+KGTSVLFKVL
Sbjct:   265 RAAEIYGLEILEDGIQDDVSNVTRFVMLAREPIIPRTDRPFKTSIVFAHEKGTSVLFKVL 324

Query:   337 SAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAE 396
             SAFAFR+ISLTKIESRP+ NRPIR+VDDANVGTAKHFEYMFY+DFEASMAE RAQNALAE
Sbjct:   325 SAFAFRDISLTKIESRPNHNRPIRVVDDANVGTAKHFEYMFYVDFEASMAEARAQNALAE 384

Query:   397 VQEFTSFLRVLGSYPMDMTPWSPS 420
             VQEFTSFLRVLGSYPMDMTPWSP+
Sbjct:   385 VQEFTSFLRVLGSYPMDMTPWSPT 408

GO:0004664 "prephenate dehydratase activity" evidence=IEA;ISS

GO:0009094 "L-phenylalanine biosynthetic process" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0047769 "arogenate dehydratase activity" evidence=IDA

GO:0010048 "vernalization response" evidence=RCA

GO:0043481 "anthocyanin accumulation in tissues in response to UV light" evidence=RCA

GO:0048440 "carpel development" evidence=RCA

TAIR\|locus:2042021 PD1 "prephenate dehydratase 1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2101630 ADT4 "arogenate dehydratase 4" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2162459 ADT5 "arogenate dehydratase 5" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2027332 ADT1 "arogenate dehydratase 1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2091127 ADT2 "arogenate dehydratase 2" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TIGR_CMR\|DET_0461 DET_0461 "chorismate mutase/prephenate dehydratase" [Dehalococcoides ethenogenes 195 (taxid:243164)]	Back alignment and assigned GO terms

UNIPROTKB\|Q9KU24 VC_0705 "Chorismate mutase/prephenate dehydratase" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]	Back alignment and assigned GO terms

TIGR_CMR\|VC_0705 VC_0705 "chorismate mutase/prephenate dehydratase" [Vibrio cholerae O1 biovar El Tor (taxid:686)]	Back alignment and assigned GO terms

UNIPROTKB\|Q0C4F5 HNE_0659 "Prephenate dehydratase" [Hyphomonas neptunium ATCC 15444 (taxid:228405)]	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)
Q9SGD6	AROD6_ARATH	4, ., 2, ., 1, ., 9, 1	0.8093	0.8557	0.8765	yes	no
Q9ZUY3	AROD3_ARATH	4, ., 2, ., 1, ., 9, 1	0.8101	0.8345	0.8325	no	no
O22241	AROD4_ARATH	4, ., 2, ., 1, ., 9, 1	0.7556	0.9148	0.9127	no	no
Q9FNJ8	AROD5_ARATH	4, ., 2, ., 1, ., 9, 1	0.7676	0.8959	0.8917	no	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
4th Layer	4.2.1.91	0.979
3rd Layer	4.2.1	0.983
4th Layer	4.2.1.51	0.979

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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
Query		423
PLN02317		382	PLN02317, PLN02317, arogenate dehydratase	0.0
COG0077		279	COG0077, PheA, Prephenate dehydratase [Amino acid	1e-99
PRK11899		279	PRK11899, PRK11899, prephenate dehydratase; Provis	1e-80
pfam00800		181	pfam00800, PDT, Prephenate dehydratase	4e-80
PRK11898		283	PRK11898, PRK11898, prephenate dehydratase; Provis	3e-76
PRK10622		386	PRK10622, pheA, bifunctional chorismate mutase/pre	9e-52
cd04905		80	cd04905, ACT_CM-PDT, C-terminal ACT domain of the	5e-30
cd04880		75	cd04880, ACT_AAAH-PDT-like, ACT domain of the nonh	4e-22

>gnl\|CDD\|215181 PLN02317, PLN02317, arogenate dehydratase	Back alignment and domain information

 Score =  669 bits (1729), Expect = 0.0
 Identities = 272/393 (69%), Positives = 309/393 (78%), Gaps = 14/393 (3%)

Query: 25  RVQCVYRSDSVHFPNGIGCSRTDWQSSCAILSSNVVSQQQSGDKPAEHIAAVNGHKTSID 84
                 RS S  FP      R  WQSSCAILSS V S +         + +  G    + 
Sbjct: 4   LPPRTPRSGSSSFPARWASRRAAWQSSCAILSSKVRSPEGDAPPSRPAVESSGGAGLVVA 63

Query: 85  LNLVPIEHANSAAATASNNKPQLPPQKPLTITDLSPAPMHGSQLRVAYQGVPGAYSEAAA 144
              V              +   LP  +PL+ITDLSP+PMHGS+LRVAYQGVPGAYSEAAA
Sbjct: 64  TQSVSFH----------RDLSGLP--RPLSITDLSPSPMHGSKLRVAYQGVPGAYSEAAA 111

Query: 145 GKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEV 204
            KAYPNCEA+PC+QFE AFQAVELW+ADRAVLP+ENSLGGSIHRNYDLLLRHRLHIVGEV
Sbjct: 112 RKAYPNCEAVPCEQFEAAFQAVELWLADRAVLPIENSLGGSIHRNYDLLLRHRLHIVGEV 171

Query: 205 QLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAA 264
           QLPVHHCLLALPGVRKE L RVISHPQAL+QCE+TLTKLG  V REAVDDTAGAA+ +AA
Sbjct: 172 QLPVHHCLLALPGVRKEELKRVISHPQALAQCENTLTKLG--VVREAVDDTAGAAKMVAA 229

Query: 265 NDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFA 324
           N LRDTAAIASARAAELYG+ +L +GIQDDS NVTRF+MLAREPIIPRTDRPFKTSIVF+
Sbjct: 230 NGLRDTAAIASARAAELYGLDILAEGIQDDSDNVTRFLMLAREPIIPRTDRPFKTSIVFS 289

Query: 325 HDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEAS 384
            ++G  VLFK L+ FA R+I+LTKIESRP R RP+R+VDD+N GTAK+F+Y+FY+DFEAS
Sbjct: 290 LEEGPGVLFKALAVFALRDINLTKIESRPQRKRPLRVVDDSNSGTAKYFDYLFYVDFEAS 349

Query: 385 MAEVRAQNALAEVQEFTSFLRVLGSYPMDMTPW 417
           MA+ RAQNALA +QEF +FLRVLGSYPMDMTP 
Sbjct: 350 MADPRAQNALAHLQEFATFLRVLGSYPMDMTPL 382

Length = 382

>gnl\|CDD\|223155 COG0077, PheA, Prephenate dehydratase [Amino acid transport and metabolism]	Back alignment and domain information

>gnl\|CDD\|237014 PRK11899, PRK11899, prephenate dehydratase; Provisional	Back alignment and domain information

>gnl\|CDD\|216127 pfam00800, PDT, Prephenate dehydratase	Back alignment and domain information

>gnl\|CDD\|237013 PRK11898, PRK11898, prephenate dehydratase; Provisional	Back alignment and domain information

>gnl\|CDD\|182594 PRK10622, pheA, bifunctional chorismate mutase/prephenate dehydratase; Provisional	Back alignment and domain information

>gnl\|CDD\|153177 cd04905, ACT_CM-PDT, C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme	Back alignment and domain information

>gnl\|CDD\|153152 cd04880, ACT_AAAH-PDT-like, ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH)	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		423
PLN02317		382	arogenate dehydratase	100.0
KOG2797		377	consensus Prephenate dehydratase [Amino acid trans	100.0
COG0077		279	PheA Prephenate dehydratase [Amino acid transport	100.0
PRK11899		279	prephenate dehydratase; Provisional	100.0
PRK11898		283	prephenate dehydratase; Provisional	100.0
PRK10622		386	pheA bifunctional chorismate mutase/prephenate deh	100.0
PF00800		181	PDT: Prephenate dehydratase Caution this is only a	100.0
cd04904		74	ACT_AAAH ACT domain of the nonheme iron-dependent,	99.84
cd04931		90	ACT_PAH ACT domain of the nonheme iron-dependent a	99.8
cd04930		115	ACT_TH ACT domain of the nonheme iron-dependent ar	99.79
cd04905		80	ACT_CM-PDT C-terminal ACT domain of the bifunction	99.78
cd04929		74	ACT_TPH ACT domain of the nonheme iron-dependent a	99.78
cd04880		75	ACT_AAAH-PDT-like ACT domain of the nonheme iron-d	99.76
TIGR01268		436	Phe4hydrox_tetr phenylalanine-4-hydroxylase, tetra	99.76
TIGR01270		464	Trp_5_monoox tryptophan 5-monooxygenase, tetrameri	99.66
PRK06034		279	hypothetical protein; Provisional	99.13
TIGR01269		457	Tyr_3_monoox tyrosine 3-monooxygenase, tetrameric.	99.02
KOG3820		461	consensus Aromatic amino acid hydroxylase [Amino a	98.78
PRK08818		370	prephenate dehydrogenase; Provisional	98.63
cd04886		73	ACT_ThrD-II-like C-terminal ACT domain of biodegra	97.98
PF01842		66	ACT: ACT domain; InterPro: IPR002912 The ACT domai	97.94
cd04882		65	ACT_Bt0572_2 C-terminal ACT domain of a novel prot	97.21
PRK06737		76	acetolactate synthase 1 regulatory subunit; Valida	97.15
cd04878		72	ACT_AHAS N-terminal ACT domain of the Escherichia	97.13
cd04874		72	ACT_Af1403 N-terminal ACT domain of the yet unchar	97.07
cd04884		72	ACT_CBS C-terminal ACT domain of the cystathionine	97.04
cd04883		72	ACT_AcuB C-terminal ACT domain of the Bacillus sub	96.91
PF13710		63	ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.	96.76
cd04888		76	ACT_PheB-BS C-terminal ACT domain of a small (~147	96.68
PF13291		80	ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.	96.63
cd02116		60	ACT ACT domains are commonly involved in specifica	96.62
cd04902		73	ACT_3PGDH-xct C-terminal ACT (regulatory) domain o	96.59
TIGR01127		380	ilvA_1Cterm threonine dehydratase, medium form. A	96.5
cd04903		71	ACT_LSD C-terminal ACT domain of the L-serine dehy	96.46
PRK11895		161	ilvH acetolactate synthase 3 regulatory subunit; R	96.39
TIGR00119		157	acolac_sm acetolactate synthase, small subunit. ac	96.36
cd04908		66	ACT_Bt0572_1 N-terminal ACT domain of a novel prot	96.23
CHL00100		174	ilvH acetohydroxyacid synthase small subunit	96.17
cd04909		69	ACT_PDH-BS C-terminal ACT domain of the monofuncti	96.15
PRK11152		76	ilvM acetolactate synthase 2 regulatory subunit; P	96.12
cd04879		71	ACT_3PGDH-like ACT_3PGDH-like CD includes the C-te	96.11
PRK08198		404	threonine dehydratase; Provisional	96.01
cd04901		69	ACT_3PGDH C-terminal ACT (regulatory) domain of D-	95.94
PRK13562		84	acetolactate synthase 1 regulatory subunit; Provis	95.86
PRK08526		403	threonine dehydratase; Provisional	95.8
PRK04435		147	hypothetical protein; Provisional	95.79
cd04896		75	ACT_ACR-like_3 ACT domain-containing protein which	95.77
cd04887		74	ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-te	95.71
cd04885		68	ACT_ThrD-I Tandem C-terminal ACT domains of threon	95.63
PRK08178		96	acetolactate synthase 1 regulatory subunit; Review	95.43
cd04881		79	ACT_HSDH-Hom ACT_HSDH_Hom CD includes the C-termin	95.43
PRK00194		90	hypothetical protein; Validated	95.26
cd04870		75	ACT_PSP_1 CT domains found N-terminal of phosphose	95.24
cd04872		88	ACT_1ZPV ACT domain proteins similar to the yet un	95.08
PRK08639		420	threonine dehydratase; Validated	94.92
cd04876		71	ACT_RelA-SpoT ACT domain found C-terminal of the R	94.91
cd04877		74	ACT_TyrR N-terminal ACT domain of the TyrR protein	94.82
TIGR01124		499	ilvA_2Cterm threonine ammonia-lyase, biosynthetic,	94.77
cd04906		85	ACT_ThrD-I_1 First of two tandem C-terminal ACT do	94.72
PF13740		76	ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.	94.63
cd04899		70	ACT_ACR-UUR-like_2 C-terminal ACT domains of the b	94.62
cd04926		72	ACT_ACR_4 C-terminal ACT domain, of a novel type o	94.56
PRK08577		136	hypothetical protein; Provisional	94.55
PRK07334		403	threonine dehydratase; Provisional	94.47
cd04873		70	ACT_UUR-ACR-like ACT domains of the bacterial sign	94.43
TIGR02079		409	THD1 threonine dehydratase. This model represents	94.16
PRK09224		504	threonine dehydratase; Reviewed	94.06
cd04895		72	ACT_ACR_1 ACT domain-containing protein which is c	94.03
COG4492		150	PheB ACT domain-containing protein [General functi	94.03
cd04889		56	ACT_PDH-BS-like C-terminal ACT domain of the monof	93.94
cd04875		74	ACT_F4HF-DF N-terminal ACT domain of formyltetrahy	93.91
PRK12483		521	threonine dehydratase; Reviewed	93.89
PRK06382		406	threonine dehydratase; Provisional	93.72
cd04869		81	ACT_GcvR_2 ACT domains that comprise the Glycine C	93.19
PLN02550		591	threonine dehydratase	92.96
COG2061		170	ACT-domain-containing protein, predicted allosteri	91.66
cd04900		73	ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1,	91.62
COG4747		142	ACT domain-containing protein [General function pr	91.06
cd04935		75	ACT_AKiii-DAPDC_1 ACT domains of a bifunctional AK	90.91
PRK11589		190	gcvR glycine cleavage system transcriptional repre	90.13
cd04893		77	ACT_GcvR_1 ACT domains that comprise the Glycine C	89.78
cd04932		75	ACT_AKiii-LysC-EC_1 ACT domains located C-terminal	88.37
cd04897		75	ACT_ACR_3 ACT domain-containing protein which is c	88.37
cd04912		75	ACT_AKiii-LysC-EC-like_1 ACT domains located C-ter	88.15
COG2716		176	GcvR Glycine cleavage system regulatory protein [A	87.41
COG0440		163	IlvH Acetolactate synthase, small (regulatory) sub	87.21
cd04927		76	ACT_ACR-like_2 Second ACT domain, of a novel type	87.01
PF12974		243	Phosphonate-bd: ABC transporter, phosphonate, peri	86.98
TIGR01728		288	SsuA_fam ABC transporter, substrate-binding protei	86.88
cd04934		73	ACT_AK-Hom3_1 CT domains located C-terminal to the	84.78
TIGR00363		258	lipoprotein, YaeC family. This family of putative	84.45
PF00497		225	SBP_bac_3: Bacterial extracellular solute-binding	84.41
PRK13011		286	formyltetrahydrofolate deformylase; Reviewed	84.38
smart00062		219	PBPb Bacterial periplasmic substrate-binding prote	83.55
PRK11790		409	D-3-phosphoglycerate dehydrogenase; Provisional	83.14
PRK06349		426	homoserine dehydrogenase; Provisional	82.62
smart00079		134	PBPe Eukaryotic homologues of bacterial periplasmi	82.3
cd08452		197	PBP2_AlsR The C-terminal substrate binding domain	82.19
PF13379		252	NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_	81.76
COG1707		218	ACT domain-containing protein [General function pr	81.47
cd08445		203	PBP2_BenM_CatM_CatR The C-terminal substrate bindi	81.35
cd08417		200	PBP2_Nitroaromatics_like The C-terminal substrate	80.23
cd04907		81	ACT_ThrD-I_2 Second of two tandem C-terminal ACT d	80.17

>PLN02317 arogenate dehydratase	Back alignment and domain information

Probab=100.00  E-value=7.1e-99  Score=764.52  Aligned_cols=378  Identities=71%  Similarity=1.097  Sum_probs=346.0

Q ss_pred             eeeeecCcccccCCCcccCccchhchhhhhhcccccccCCCCCCcccccccCCCCcccccCccccccccchhhhccCCCC
Q 014547           26 VQCVYRSDSVHFPNGIGCSRTDWQSSCAILSSNVVSQQQSGDKPAEHIAAVNGHKTSIDLNLVPIEHANSAAATASNNKP  105 (423)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (423)
                      ..|+++..+.+++......|+.||++|+++.+++.++..............+++....+....+...            +
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~   72 (382)
T PLN02317          5 PPRTPRSGSSSFPARWASRRAAWQSSCAILSSKVRSPEGDAPPSRPAVESSGGAGLVVATQSVSFHR------------D   72 (382)
T ss_pred             CCCCCCCCCcccCCCccccchhhhhhcchhhcccccccccccccccccccccccccccccccccccc------------c
Confidence            4567777788889999999999999999999999999988766655555555554333332222221            1


Q ss_pred             CCCCCCccccccCCCCCCCCCccEEEEeCCCccHHHHHHhhhCCCCceeecCCHHHHHHHHHcCCcCeEEEeeccCCCCc
Q 014547          106 QLPPQKPLTITDLSPAPMHGSQLRVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGS  185 (423)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~VayLGP~GTfSh~AA~~~f~~~e~vp~~Sf~~Vf~aV~~g~~d~gVVPIENS~~G~  185 (423)
                      ...+|+||+++++.+.+++++.++||||||+|||||+||.++|++.+++||+||++||++|++|++||||||||||++|+
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~rVaylGp~GtfSe~AA~~~f~~~e~vp~~sf~~vf~AVe~g~ad~gVvPIENS~~Gs  152 (382)
T PLN02317         73 LSGLPRPLSITDLSPSPMHGSKLRVAYQGVPGAYSEAAARKAYPNCEAVPCEQFEAAFQAVELWLADRAVLPIENSLGGS  152 (382)
T ss_pred             cccccccccHhhhcccccCCCCcEEEEECCCcCHHHHHHHHhhCcCceeecCCHHHHHHHHHCCCCCEEEEEEeccCccc
Confidence            12679999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHhhcCCcEEEEEEEEeeeeeeeecCCCCcCcccEEEechhHHHHHHHHHHHcCCceeEEeccCHHHHHHHHHhc
Q 014547          186 IHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAAN  265 (423)
Q Consensus       186 V~~tlDlL~~~~L~IvgEi~lpI~h~Lla~~g~~l~dIk~VySHPqAL~QC~~fL~~~~p~~~~v~~~STA~AA~~va~~  265 (423)
                      |.+|||+|.+++++|+||+++||+|||++++|.++++|++||||||||+||++||+++  +++++++.|||+||++|++.
T Consensus       153 V~~t~DlL~~~~l~IvgEv~l~I~h~Ll~~~g~~l~~Ik~VySHPQALaQC~~~L~~~--~~~~~~~~sTA~AA~~Va~~  230 (382)
T PLN02317        153 IHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEELKRVISHPQALAQCENTLTKL--GVVREAVDDTAGAAKMVAAN  230 (382)
T ss_pred             hHHHHHHHhcCCCEEEEEEEEEeeeEEecCCCCCHHHCeEEEEehHHHHHHHHHHHHc--CCeEEEcCCHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999999999999999998  57899999999999999988


Q ss_pred             CCCCeeEEccHHHHHHcCCceeecCccCCCCCeeEEEEEeeCCCCCCCCCCCeEEEEEEeCCCccHHHHHHHHHHhCCce
Q 014547          266 DLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVMLAREPIIPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRNIS  345 (423)
Q Consensus       266 ~~~~~AAIaS~~AAelYgL~ILa~nIqD~~~N~TRFlVLsr~~~~~~~~~~~KTSivf~l~~~pGaL~~vL~~Fa~~~IN  345 (423)
                      +.++.|||||+.||++|||+||+++|||.++|+|||+||+|++..+..++.+||||+|+++++||+|+++|++|+.+|||
T Consensus       231 ~~~~~AAIaS~~aA~~YgL~iLa~~IqD~~~N~TRFlvl~r~~~~~~~~~~~KTSivfsl~~~pG~L~k~L~~Fa~~~IN  310 (382)
T PLN02317        231 GLRDTAAIASARAAELYGLDILAEGIQDDSDNVTRFLMLAREPIIPRTDRPFKTSIVFSLEEGPGVLFKALAVFALRDIN  310 (382)
T ss_pred             CCCCceeecCHHHHHHcCCcchhhhhcCCCCCeeeEEEEecCCcCCCCCCCccEEEEEEcCCCCchHHHHHHHHHHCCCC
Confidence            77889999999999999999999999999999999999999876555556679999999999999999999999999999


Q ss_pred             eeeeeeeeCCCCCcccccccCCCCCCcceEEEEEEEecCcChHHHHHHHHHHHhhcCceEEEccccCCCCCC
Q 014547          346 LTKIESRPHRNRPIRLVDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVLGSYPMDMTPW  417 (423)
Q Consensus       346 LtkIESRP~~~~p~~~~~~~~~G~~~~~eY~FfID~eg~~~d~~v~~aL~eL~~~~~~vrvLGsYp~~~~pw  417 (423)
                      ||||||||.+++|.|++||++.|+++.|+|+|||||+|++.|++++++|++|++++.++|+|||||+++++|
T Consensus       311 LtkIESRP~~~~~~~~~~~~~~~~~~~~eY~FyVD~eg~~~d~~~~~aL~~L~~~~~~lrvLGsYp~~~~~~  382 (382)
T PLN02317        311 LTKIESRPQRKRPLRVVDDSNSGTAKYFDYLFYVDFEASMADPRAQNALAHLQEFATFLRVLGSYPMDMTPL  382 (382)
T ss_pred             EEEEEeeecCCCCccccccccccccccccEEEEEEEEcCcCCHHHHHHHHHHHHhcCeEEEEeeeecCCCCC
Confidence            999999999999999999999999999999999999999999999999999999999999999999999998

>KOG2797 consensus Prephenate dehydratase [Amino acid transport and metabolism]	Back alignment and domain information

>COG0077 PheA Prephenate dehydratase [Amino acid transport and metabolism]	Back alignment and domain information

>PRK11899 prephenate dehydratase; Provisional	Back alignment and domain information

>PRK11898 prephenate dehydratase; Provisional	Back alignment and domain information

>PRK10622 pheA bifunctional chorismate mutase/prephenate dehydratase; Provisional	Back alignment and domain information

>PF00800 PDT: Prephenate dehydratase Caution this is only a partial structure	Back alignment and domain information

>cd04904 ACT_AAAH ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH)	Back alignment and domain information

>cd04931 ACT_PAH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH)	Back alignment and domain information

>cd04930 ACT_TH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tyrosine hydroxylases (TH)	Back alignment and domain information

>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme	Back alignment and domain information

>cd04929 ACT_TPH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes	Back alignment and domain information

>cd04880 ACT_AAAH-PDT-like ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH)	Back alignment and domain information

>TIGR01268 Phe4hydrox_tetr phenylalanine-4-hydroxylase, tetrameric form	Back alignment and domain information

>TIGR01270 Trp_5_monoox tryptophan 5-monooxygenase, tetrameric	Back alignment and domain information

>PRK06034 hypothetical protein; Provisional	Back alignment and domain information

>TIGR01269 Tyr_3_monoox tyrosine 3-monooxygenase, tetrameric	Back alignment and domain information

>KOG3820 consensus Aromatic amino acid hydroxylase [Amino acid transport and metabolism]	Back alignment and domain information

>PRK08818 prephenate dehydrogenase; Provisional	Back alignment and domain information

>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains	Back alignment and domain information

>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold	Back alignment and domain information

>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains	Back alignment and domain information

>PRK06737 acetolactate synthase 1 regulatory subunit; Validated	Back alignment and domain information

>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS)	Back alignment and domain information

>cd04874 ACT_Af1403 N-terminal ACT domain of the yet uncharacterized, small (~133 a	Back alignment and domain information

>cd04884 ACT_CBS C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria	Back alignment and domain information

>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB	Back alignment and domain information

>PF13710 ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B	Back alignment and domain information

>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a	Back alignment and domain information

>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A	Back alignment and domain information

>cd02116 ACT ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme	Back alignment and domain information

>cd04902 ACT_3PGDH-xct C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH)	Back alignment and domain information

>TIGR01127 ilvA_1Cterm threonine dehydratase, medium form	Back alignment and domain information

>cd04903 ACT_LSD C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit	Back alignment and domain information

>PRK11895 ilvH acetolactate synthase 3 regulatory subunit; Reviewed	Back alignment and domain information

>TIGR00119 acolac_sm acetolactate synthase, small subunit	Back alignment and domain information

>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains	Back alignment and domain information

>CHL00100 ilvH acetohydroxyacid synthase small subunit	Back alignment and domain information

>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH)	Back alignment and domain information

>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional	Back alignment and domain information

>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH)	Back alignment and domain information

>PRK08198 threonine dehydratase; Provisional	Back alignment and domain information

>cd04901 ACT_3PGDH C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria	Back alignment and domain information

>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional	Back alignment and domain information

>PRK08526 threonine dehydratase; Provisional	Back alignment and domain information

>PRK04435 hypothetical protein; Provisional	Back alignment and domain information

>cd04896 ACT_ACR-like_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein)	Back alignment and domain information

>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains	Back alignment and domain information

>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase)	Back alignment and domain information

>PRK08178 acetolactate synthase 1 regulatory subunit; Reviewed	Back alignment and domain information

>cd04881 ACT_HSDH-Hom ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains	Back alignment and domain information

>PRK00194 hypothetical protein; Validated	Back alignment and domain information

>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB)	Back alignment and domain information

>cd04872 ACT_1ZPV ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein	Back alignment and domain information

>PRK08639 threonine dehydratase; Validated	Back alignment and domain information

>cd04876 ACT_RelA-SpoT ACT domain found C-terminal of the RelA/SpoT domains	Back alignment and domain information

>cd04877 ACT_TyrR N-terminal ACT domain of the TyrR protein	Back alignment and domain information

>TIGR01124 ilvA_2Cterm threonine ammonia-lyase, biosynthetic, long form	Back alignment and domain information

>cd04906 ACT_ThrD-I_1 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase)	Back alignment and domain information

>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A	Back alignment and domain information

>cd04899 ACT_ACR-UUR-like_2 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains	Back alignment and domain information

>cd04926 ACT_ACR_4 C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein)	Back alignment and domain information

>PRK08577 hypothetical protein; Provisional	Back alignment and domain information

>PRK07334 threonine dehydratase; Provisional	Back alignment and domain information

>cd04873 ACT_UUR-ACR-like ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD	Back alignment and domain information

>TIGR02079 THD1 threonine dehydratase	Back alignment and domain information

>PRK09224 threonine dehydratase; Reviewed	Back alignment and domain information

>cd04895 ACT_ACR_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein)	Back alignment and domain information

>COG4492 PheB ACT domain-containing protein [General function prediction only]	Back alignment and domain information

>cd04889 ACT_PDH-BS-like C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate	Back alignment and domain information

>cd04875 ACT_F4HF-DF N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase)	Back alignment and domain information

>PRK12483 threonine dehydratase; Reviewed	Back alignment and domain information

>PRK06382 threonine dehydratase; Provisional	Back alignment and domain information

>cd04869 ACT_GcvR_2 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains	Back alignment and domain information

>PLN02550 threonine dehydratase	Back alignment and domain information

>COG2061 ACT-domain-containing protein, predicted allosteric regulator of homoserine dehydrogenase [Amino acid transport and metabolism]	Back alignment and domain information

>cd04900 ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains	Back alignment and domain information

>COG4747 ACT domain-containing protein [General function prediction only]	Back alignment and domain information

>cd04935 ACT_AKiii-DAPDC_1 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein	Back alignment and domain information

>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional	Back alignment and domain information

>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains	Back alignment and domain information

>cd04932 ACT_AKiii-LysC-EC_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII	Back alignment and domain information

>cd04897 ACT_ACR_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein)	Back alignment and domain information

>cd04912 ACT_AKiii-LysC-EC-like_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII	Back alignment and domain information

>COG2716 GcvR Glycine cleavage system regulatory protein [Amino acid transport and metabolism]	Back alignment and domain information

>COG0440 IlvH Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]	Back alignment and domain information

>cd04927 ACT_ACR-like_2 Second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein)	Back alignment and domain information

>PF12974 Phosphonate-bd: ABC transporter, phosphonate, periplasmic substrate-binding protein ; PDB: 3N5L_B 3QUJ_C 3P7I_A 3QK6_A 3S4U_A	Back alignment and domain information

>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family	Back alignment and domain information

>cd04934 ACT_AK-Hom3_1 CT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains	Back alignment and domain information

>TIGR00363 lipoprotein, YaeC family	Back alignment and domain information

>PF00497 SBP_bac_3: Bacterial extracellular solute-binding proteins, family 3; InterPro: IPR001638 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane	Back alignment and domain information

>PRK13011 formyltetrahydrofolate deformylase; Reviewed	Back alignment and domain information

>smart00062 PBPb Bacterial periplasmic substrate-binding proteins	Back alignment and domain information

>PRK11790 D-3-phosphoglycerate dehydrogenase; Provisional	Back alignment and domain information

>PRK06349 homoserine dehydrogenase; Provisional	Back alignment and domain information

>smart00079 PBPe Eukaryotic homologues of bacterial periplasmic substrate binding proteins	Back alignment and domain information

>cd08452 PBP2_AlsR The C-terminal substrate binding domain of LysR-type trnascriptional regulator AlsR, which regulates acetoin formation under stationary phase growth conditions; contains the type 2 periplasmic binding fold	Back alignment and domain information

>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A	Back alignment and domain information

>COG1707 ACT domain-containing protein [General function prediction only]	Back alignment and domain information

>cd08445 PBP2_BenM_CatM_CatR The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd08417 PBP2_Nitroaromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold	Back alignment and domain information

>cd04907 ACT_ThrD-I_2 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase)	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
Query		423
2qmx_B		283	The Crystal Structure Of L-Phe Inhibited Prephenate		3e-54
3mwb_A		313	The Crystal Structure Of Prephenate Dehydratase In		8e-22
2qmw_A		267	The Crystal Structure Of The Prephenate Dehydratase		6e-09
3luy_A		329	Putative Chorismate Mutase From Bifidobacterium Ado		4e-04

>pdb|2QMX|B Chain B, The Crystal Structure Of L-Phe Inhibited Prephenate Dehydratase From Chlorobium Tepidum Tls Length = 283

Back alignment and structure

Iteration: 1

Score = 209 bits (531), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 124/289 (42%), Positives = 160/289 (55%), Gaps = 27/289 (9%) Query: 130 VAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRN 189 +AYQG PGAYSE AA + E +PC+ F+ F AV AD AV+P+ENSLGGSIH+N Sbjct: 9 IAYQGEPGAYSEIAALRF---GEPLPCESFDDVFSAVTEQKADYAVIPIENSLGGSIHQN 65 Query: 190 YDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAR 249 YDLLLR + I+ E + V HCLL LPG E T+ SHPQAL QC H + Sbjct: 66 YDLLLRRPVVILAETFVKVEHCLLGLPGASVETATKAXSHPQALVQC-HNFFATHPQIRA 124 Query: 250 EAVDDTAGAAEYIAANDLRDTXXXXXXXXXELYGMQVLEDGIQDDSSNVTRFVMLARE-- 307 EA DTAG+A+ +A + + ELYG+ +L++ + D+ N+TRF +A E Sbjct: 125 EAAYDTAGSAKXVAESRDKSALAIASKRAGELYGLDILKENLADEEWNITRFFCIAHENN 184 Query: 308 ------PIIPRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRL 361 + P R KTSIVFA LF+ L+ FA R I LTKIESRP R Sbjct: 185 PDISHLKVRPDVARQ-KTSIVFALPNEQGSLFRALATFALRGIDLTKIESRPSRK----- 238 Query: 362 VDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVLGSY 410 K FEY+FY DF + NAL ++EF + ++VLGSY Sbjct: 239 ---------KAFEYLFYADFIGHREDQNVHNALENLREFATXVKVLGSY 278

PyMOL of 2qmx

>pdb|3MWB|A Chain A, The Crystal Structure Of Prephenate Dehydratase In Complex With L-Phe From Arthrobacter Aurescens To 2.0a Length = 313

Back alignment and structure

>pdb|2QMW|A Chain A, The Crystal Structure Of The Prephenate Dehydratase (Pdt) From Staphylococcus Aureus Subsp. Aureus Mu50 Length = 267

Back alignment and structure

>pdb|3LUY|A Chain A, Putative Chorismate Mutase From Bifidobacterium Adolescentis Length = 329

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
Query		423
2qmx_A		283	Prephenate dehydratase; APC86053, L-Phe inhibition	1e-142
3mwb_A		313	Prephenate dehydratase; L-Phe, PSI, MCSG, structur	1e-129
2qmw_A		267	PDT, prephenate dehydratase; APC85812, prephenate	1e-124
3luy_A		329	Probable chorismate mutase; structural genomics, A	1e-121
1phz_A		429	Protein (phenylalanine hydroxylase); aromatic amin	2e-14

>2qmx_A Prephenate dehydratase; APC86053, L-Phe inhibition, PDT, CHL tepidum TLS, structural genomics, PSI-2, protein structure initiative; HET: PHE; 2.30A {Chlorobium tepidum tls} Length = 283	Back alignment and structure

 Score =  405 bits (1042), Expect = e-142
 Identities = 126/294 (42%), Positives = 167/294 (56%), Gaps = 25/294 (8%)

Query: 126 SQLRVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGS 185
           +   +AYQG PGAYSE AA +     E +PC+ F+  F AV    AD AV+P+ENSLGGS
Sbjct: 5   TNWLIAYQGEPGAYSEIAALRF---GEPLPCESFDDVFSAVTEQKADYAVIPIENSLGGS 61

Query: 186 IHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGL 245
           IH+NYDLLLR  + I+ E  + V HCLL LPG   E  T+ +SHPQAL QC +       
Sbjct: 62  IHQNYDLLLRRPVVILAETFVKVEHCLLGLPGASVETATKAMSHPQALVQCHNFFATH-P 120

Query: 246 NVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVMLA 305
            +  EA  DTAG+A+ +A +  +   AIAS RA ELYG+ +L++ + D+  N+TRF  +A
Sbjct: 121 QIRAEAAYDTAGSAKMVAESRDKSALAIASKRAGELYGLDILKENLADEEWNITRFFCIA 180

Query: 306 REPIIPRTDRPF-------KTSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRP 358
            E     +           KTSIVFA       LF+ L+ FA R I LTKIESRP R + 
Sbjct: 181 HENNPDISHLKVRPDVARQKTSIVFALPNEQGSLFRALATFALRGIDLTKIESRPSRKKA 240

Query: 359 IRLVDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVLGSYPM 412
                         FEY+FY DF     +    NAL  ++EF + ++VLGSY +
Sbjct: 241 --------------FEYLFYADFIGHREDQNVHNALENLREFATMVKVLGSYGV 280

PyMOL of 2qmx

>3mwb_A Prephenate dehydratase; L-Phe, PSI, MCSG, structural genomics, midwest center for ST genomics, protein structure initiative, lyase; HET: MSE PHE; 2.00A {Arthrobacter aurescens} Length = 313	Back alignment and structure

>2qmw_A PDT, prephenate dehydratase; APC85812, prephenate dehydratase (PDT), staphylococcus aureu aureus MU50, structural genomics, PSI-2; 2.30A {Staphylococcus aureus subsp} SCOP: c.94.1.1 d.58.18.3 Length = 267	Back alignment and structure

>3luy_A Probable chorismate mutase; structural genomics, APC38059, 3-phenylp PSI-2, protein structure initiative; HET: PPY; 2.00A {Bifidobacterium adolescentis} Length = 329	Back alignment and structure

>1phz_A Protein (phenylalanine hydroxylase); aromatic amino acid hydroxylase, phosphorylation, intrasteric regulation, allosteric regulation; 2.20A {Rattus norvegicus} SCOP: d.58.18.3 d.178.1.1 PDB: 2phm_A Length = 429	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		423
2qmx_A		283	Prephenate dehydratase; APC86053, L-Phe inhibition	100.0
3mwb_A		313	Prephenate dehydratase; L-Phe, PSI, MCSG, structur	100.0
2qmw_A		267	PDT, prephenate dehydratase; APC85812, prephenate	100.0
3luy_A		329	Probable chorismate mutase; structural genomics, A	100.0
1phz_A		429	Protein (phenylalanine hydroxylase); aromatic amin	99.85
2ko1_A		88	CTR148A, GTP pyrophosphokinase; homodimer, alpha+b	96.78
1zpv_A		91	ACT domain protein; structural genomics, PSI, prot	96.31
2f1f_A		164	Acetolactate synthase isozyme III small subunit; f	96.09
2pc6_A		165	Probable acetolactate synthase isozyme III (small;	95.73
2fgc_A		193	Acetolactate synthase, small subunit; regulatory s	95.45
1wdn_A		226	GLNBP, glutamine binding protein; closed form, com	95.02
3h7m_A		234	Sensor protein; histidine kinase sensor domain, ki	93.18
3mpk_A		267	Virulence sensor protein BVGS; venus flytrap, sens	93.13
2jhe_A		190	Transcription regulator TYRR; aromatic hydrocarbon	92.77
3kzg_A		237	Arginine 3RD transport system periplasmic binding	92.75
3k4u_A		245	Binding component of ABC transporter; structural g	92.73
1y7p_A		223	Hypothetical protein AF1403; structural genomics,	92.29
4f3p_A		249	Glutamine-binding periplasmic protein; ssgcid, str	92.28
1xt8_A		292	Putative amino-acid transporter periplasmic solut	92.03
2f06_A		144	Conserved hypothetical protein; structural genomic	91.36
3del_B		242	Arginine binding protein; alpha and beta protein (	91.3
4dz1_A		259	DALS D-alanine transporter; D-alanine binding, per	89.98
1u8s_A		192	Glycine cleavage system transcriptional repressor,	89.55
2f06_A		144	Conserved hypothetical protein; structural genomic	89.35
3qax_A		268	Probable ABC transporter arginine-binding protein;	88.36
3i6v_A		232	Periplasmic His/Glu/Gln/Arg/opine family-binding;	88.3
2yjp_A		291	Putative ABC transporter, periplasmic binding Pro	88.06
2qpq_A		301	Protein BUG27; alpha/beta domain, venus flytrap, t	87.09
3mpk_A		267	Virulence sensor protein BVGS; venus flytrap, sens	86.72
3ksx_A		324	Nitrate transport protein; SSUA, alkanesulfonate-b	86.53
3un6_A		341	Hypothetical protein saouhsc_00137; structural gen	86.04
4i62_A		269	Amino acid ABC transporter, periplasmic amino ACI	85.94
2y7i_A		229	STM4351; arginine-binding protein; HET: ARG; 1.90A	85.82
3tql_A		227	Arginine-binding protein; transport and binding pr	85.68
2vha_A		287	Periplasmic binding transport protein; periplasmic	85.53
2dvz_A		314	BUGE, putative exported protein; periplamsic bindi	85.27
3kbr_A		239	Cyclohexadienyl dehydratase; pseudomonas aeruginos	85.26
2nyi_A		195	Unknown protein; protein structure initiative, PSI	85.15
2pyy_A		228	Ionotropic glutamate receptor bacterial homologue;	84.57
2f5x_A		312	BUGD; periplasmic binding protein, transport prote	83.56
3hv1_A		268	Polar amino acid ABC uptake transporter substrate	83.36
3h7m_A		234	Sensor protein; histidine kinase sensor domain, ki	82.38
2yln_A		283	Putative ABC transporter, periplasmic binding Pro	82.11
3k5p_A		416	D-3-phosphoglycerate dehydrogenase; niaid, ssgcid,	81.93
3tql_A		227	Arginine-binding protein; transport and binding pr	81.31
3lou_A		292	Formyltetrahydrofolate deformylase; structural gen	81.25
4h5g_A		243	Amino acid ABC superfamily ATP binding cassette tr	81.25
1ii5_A		233	SLR1257 protein; membrane protein; HET: GLU; 1.60A	80.76
4i62_A		269	Amino acid ABC transporter, periplasmic amino ACI	80.42
1sc6_A		404	PGDH, D-3-phosphoglycerate dehydrogenase; alloster	80.3
1lst_A		239	Lysine, arginine, ornithine-binding protein; amino	80.15
1wdn_A		226	GLNBP, glutamine binding protein; closed form, com	80.04

>2qmx_A Prephenate dehydratase; APC86053, L-Phe inhibition, PDT, CHL tepidum TLS, structural genomics, PSI-2, protein structure initiative; HET: PHE; 2.30A {Chlorobium tepidum tls}	Back alignment and structure

Probab=100.00  E-value=2.2e-88  Score=665.91  Aligned_cols=268  Identities=47%  Similarity=0.752  Sum_probs=256.3

Q ss_pred             ccEEEEeCCCccHHHHHHhhhCCCCceeecCCHHHHHHHHHcCCcCeEEEeeccCCCCchHHHHHHhhcCCcEEEEEEEE
Q 014547          127 QLRVAYQGVPGAYSEAAAGKAYPNCEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQL  206 (423)
Q Consensus       127 ~~~VayLGP~GTfSh~AA~~~f~~~e~vp~~Sf~~Vf~aV~~g~~d~gVVPIENS~~G~V~~tlDlL~~~~L~IvgEi~l  206 (423)
                      .++||||||+|||||+||.++|   +++||.||++||++|++|++||||||||||++|+|.+|||+|.+++|+|+||+.+
T Consensus         6 ~~~iaylGp~Gtfs~~Aa~~~f---~~~p~~s~~~vf~aV~~g~~d~gVvPiENS~~G~V~~t~DlL~~~~l~I~gE~~l   82 (283)
T 2qmx_A            6 NWLIAYQGEPGAYSEIAALRFG---EPLPCESFDDVFSAVTEQKADYAVIPIENSLGGSIHQNYDLLLRRPVVILAETFV   82 (283)
T ss_dssp             CCEEEEESCTTSHHHHHHHHHS---EEEEESCHHHHHHHHHTTSCSEEEEEEEESSSCBCHHHHHHHHHSSEEEEEEEEE
T ss_pred             CcEEEEECCCCCHHHHHHHHHh---HhCcCCCHHHHHHHHHCCCCCEEEEeehhcCCCccHHHHHHhhcCCcEEEEEEEE
Confidence            5699999999999999999999   8999999999999999999999999999999999999999999999999999999


Q ss_pred             eeeeeeeecCCCCcCcccEEEechhHHHHHHHHHHHcCCceeEEeccCHHHHHHHHHhcCCCCeeEEccHHHHHHcCCce
Q 014547          207 PVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQV  286 (423)
Q Consensus       207 pI~h~Lla~~g~~l~dIk~VySHPqAL~QC~~fL~~~~p~~~~v~~~STA~AA~~va~~~~~~~AAIaS~~AAelYgL~I  286 (423)
                      ||+|||++++|+++++|++||||||||+||++||+++ |+++++++.|||+||+++++++.+..|||||+.||++|||+|
T Consensus        83 ~I~h~Ll~~~g~~l~~I~~V~SHpqal~QC~~~L~~~-p~~~~~~~~sTA~AA~~va~~~~~~~AAIas~~AA~~ygL~i  161 (283)
T 2qmx_A           83 KVEHCLLGLPGASVETATKAMSHPQALVQCHNFFATH-PQIRAEAAYDTAGSAKMVAESRDKSALAIASKRAGELYGLDI  161 (283)
T ss_dssp             ECCCEEEECSSCCTTTCCEEEECHHHHHHTHHHHHHC-TTSEEEECSCHHHHHHHHHHTTCTTEEEEECHHHHHHTTCEE
T ss_pred             eeeeeEecCCCCChhhCCEEEEeHHHHHHHHHHHHHC-CCceEEEcCCHHHHHHHHHhCCCCCeEEeCCHHHHHHcCCce
Confidence            9999999999999999999999999999999999999 999999999999999999998778999999999999999999


Q ss_pred             eecCccCCCCCeeEEEEEeeCCCC--------CCCCCCCeEEEEEEeCCCccHHHHHHHHHHhCCceeeeeeeeeCCCCC
Q 014547          287 LEDGIQDDSSNVTRFVMLAREPII--------PRTDRPFKTSIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRP  358 (423)
Q Consensus       287 La~nIqD~~~N~TRFlVLsr~~~~--------~~~~~~~KTSivf~l~~~pGaL~~vL~~Fa~~~INLtkIESRP~~~~p  358 (423)
                      |++||||.++|+|||+||++++..        +.. +.+||||+|+++|+||+|+++|+.|+.+|||||||||||.++++
T Consensus       162 l~~~I~D~~~N~TRF~vl~~~~~~~~~~~~~~~~~-~~~ktsl~f~~~~~pGaL~~~L~~Fa~~gINLtkIESRP~~~~~  240 (283)
T 2qmx_A          162 LKENLADEEWNITRFFCIAHENNPDISHLKVRPDV-ARQKTSIVFALPNEQGSLFRALATFALRGIDLTKIESRPSRKKA  240 (283)
T ss_dssp             EESSCSSCCCCEEEEEEEEETTCCCCTTSSSCCEE-EEEEEEEEEEEECCTTHHHHHHHHHHTTTCCEEEEEEEECSSST
T ss_pred             ecccCcCCCCCeeeEEEEecCccccccccccCCCC-CCceEEEEEEcCCCCchHHHHHHHHHHcCCCeeEEEeeEcCCCC
Confidence            999999999999999999998643        221 24799999999999999999999999999999999999999865


Q ss_pred             cccccccCCCCCCcceEEEEEEEecCcChHHHHHHHHHHHhhcCceEEEccccCC
Q 014547          359 IRLVDDANVGTAKHFEYMFYIDFEASMAEVRAQNALAEVQEFTSFLRVLGSYPMD  413 (423)
Q Consensus       359 ~~~~~~~~~G~~~~~eY~FfID~eg~~~d~~v~~aL~eL~~~~~~vrvLGsYp~~  413 (423)
                                    |+|+|||||+||.+|++++++|++|++.+.++|+|||||..
T Consensus       241 --------------~~Y~FfvD~eg~~~d~~v~~aL~~L~~~~~~~kiLGsYp~~  281 (283)
T 2qmx_A          241 --------------FEYLFYADFIGHREDQNVHNALENLREFATMVKVLGSYGVV  281 (283)
T ss_dssp             --------------TEEEEEEEEESCTTSHHHHHHHHHHHTTCSEEEEEEEEEEE
T ss_pred             --------------cceEEEEEEecCCCcHHHHHHHHHHHHhcCeEEEeeeeeCC
Confidence                          99999999999999999999999999999999999999963

PyMOL of 2qmx

>3mwb_A Prephenate dehydratase; L-Phe, PSI, MCSG, structural genomics, midwest center for ST genomics, protein structure initiative, lyase; HET: MSE PHE; 2.00A {Arthrobacter aurescens}	Back alignment and structure

>2qmw_A PDT, prephenate dehydratase; APC85812, prephenate dehydratase (PDT), staphylococcus aureu aureus MU50, structural genomics, PSI-2; 2.30A {Staphylococcus aureus subsp} SCOP: c.94.1.1 d.58.18.3	Back alignment and structure

>3luy_A Probable chorismate mutase; structural genomics, APC38059, 3-phenylp PSI-2, protein structure initiative; HET: PPY; 2.00A {Bifidobacterium adolescentis}	Back alignment and structure

>1phz_A Protein (phenylalanine hydroxylase); aromatic amino acid hydroxylase, phosphorylation, intrasteric regulation, allosteric regulation; 2.20A {Rattus norvegicus} SCOP: d.58.18.3 d.178.1.1 PDB: 2phm_A	Back alignment and structure

>2ko1_A CTR148A, GTP pyrophosphokinase; homodimer, alpha+beta, transferase, structural genomics, PSI-2, protein structure initiative; NMR {Chlorobaculum tepidum} PDB: 3ibw_A	Back alignment and structure

>1zpv_A ACT domain protein; structural genomics, PSI, protein structure INIT midwest center for structural genomics, MCSG, unknown funct; 1.90A {Streptococcus pneumoniae} SCOP: d.58.18.7	Back alignment and structure

>2f1f_A Acetolactate synthase isozyme III small subunit; ferredoxin fold, ACT domain, transferase; HET: P33 1PE; 1.75A {Escherichia coli} SCOP: d.58.18.6 d.58.18.6	Back alignment and structure

>2pc6_A Probable acetolactate synthase isozyme III (small; regulatory subunit, structural genomi protein structure initiative; HET: MSE; 2.50A {Nitrosomonas europaea atcc 19718} SCOP: d.58.18.6 d.58.18.6	Back alignment and structure

>2fgc_A Acetolactate synthase, small subunit; regulatory subunit, structural genomi protein structure initiative; 2.30A {Thermotoga maritima} SCOP: d.58.18.6 d.58.18.6	Back alignment and structure

>1wdn_A GLNBP, glutamine binding protein; closed form, complex, peptide, complex (binding protein/peptide); 1.94A {Escherichia coli} SCOP: c.94.1.1 PDB: 1ggg_A	Back alignment and structure

>3h7m_A Sensor protein; histidine kinase sensor domain, kinase, phosphoprotein, transferase; 2.40A {Geobacter sulfurreducens} SCOP: c.94.1.0	Back alignment and structure

>3mpk_A Virulence sensor protein BVGS; venus flytrap, sensor domain, signaling protein; 2.04A {Bordetella pertussis} PDB: 3mpl_A	Back alignment and structure

>2jhe_A Transcription regulator TYRR; aromatic hydrocarbons catabolism, TYRR protei nucleotide-binding, transcription regulation, activator; HET: PG4; 2.30A {Escherichia coli}	Back alignment and structure

>3kzg_A Arginine 3RD transport system periplasmic binding protein; arginine transport system, protein structure initiative II(PSI II); 2.06A {Legionella pneumophila subsp} SCOP: c.94.1.0	Back alignment and structure

>3k4u_A Binding component of ABC transporter; structural genomics, protein structure INI NEW YORK structural genomix research consortium, nysgxrc; HET: LYS; 2.62A {Wolinella succinogenes} SCOP: c.94.1.0	Back alignment and structure

>1y7p_A Hypothetical protein AF1403; structural genomics, protein structure initiative, PSI, alpha-beta-alpha sandwich; HET: RIP; 1.90A {Archaeoglobus fulgidus} SCOP: c.23.1.7 d.58.18.12	Back alignment and structure

>4f3p_A Glutamine-binding periplasmic protein; ssgcid, structural genomics, GLUT seattle structural genomics center for infectious disease; 2.40A {Burkholderia pseudomallei}	Back alignment and structure

>1xt8_A Putative amino-acid transporter periplasmic solut protein; ABC transport, cysteine uptake; 2.00A {Campylobacter jejuni} SCOP: c.94.1.1	Back alignment and structure

>2f06_A Conserved hypothetical protein; structural genomics hypothetical protein, PSI, protein struc initiative; HET: MSE HIS; 2.10A {Bacteroides thetaiotaomicron} SCOP: d.58.18.11 d.58.18.11	Back alignment and structure

>3del_B Arginine binding protein; alpha and beta protein (A/B), periplasmic protein, arginine protein binding, transport protein; 1.92A {Chlamydia trachomatis} SCOP: c.94.1.0	Back alignment and structure

>4dz1_A DALS D-alanine transporter; D-alanine binding, periplasmic, transport protein; 1.90A {Salmonella enterica} PDB: 3r39_A 4f3s_A	Back alignment and structure

>1u8s_A Glycine cleavage system transcriptional repressor, putative; structural genomics, protein structure initiative (PSI), domain swapping; 2.45A {Vibrio cholerae} SCOP: d.58.18.5 d.58.18.5	Back alignment and structure

>2f06_A Conserved hypothetical protein; structural genomics hypothetical protein, PSI, protein struc initiative; HET: MSE HIS; 2.10A {Bacteroides thetaiotaomicron} SCOP: d.58.18.11 d.58.18.11	Back alignment and structure

>3qax_A Probable ABC transporter arginine-binding protein; periplasmic, transport PR; HET: ARG; 2.00A {Chlamydophila pneumoniae} PDB: 3g41_A* 3n26_A*	Back alignment and structure

>3i6v_A Periplasmic His/Glu/Gln/Arg/opine family-binding; structural genomics, transporter, PSI-2, protein structure initiative; HET: LYS; 2.00A {Silicibacter pomeroyi} SCOP: c.94.1.0	Back alignment and structure

>2yjp_A Putative ABC transporter, periplasmic binding Pro amino acid; transport protein, solute-binding protein; 2.26A {Neisseria gonorrhoeae}	Back alignment and structure

>2qpq_A Protein BUG27; alpha/beta domain, venus flytrap, transport protein; HET: CIT; 1.92A {Bordetella pertussis}	Back alignment and structure

>3mpk_A Virulence sensor protein BVGS; venus flytrap, sensor domain, signaling protein; 2.04A {Bordetella pertussis} PDB: 3mpl_A	Back alignment and structure

>3ksx_A Nitrate transport protein; SSUA, alkanesulfonate-binding protein, periplasmic-binding P transport protein; HET: MPO; 1.70A {Xanthomonas axonopodis PV} PDB: 3e4r_A* 3ksj_A*	Back alignment and structure

>3un6_A Hypothetical protein saouhsc_00137; structural genomics, center for structural genomics of infec diseases, csgid; 2.01A {Staphylococcus aureus subsp}	Back alignment and structure

>4i62_A Amino acid ABC transporter, periplasmic amino ACI protein, putative; center for structural genomics of infectious diseases (csgid national institute of allergy and infectious diseases (NIAI niaid; HET: ARG; 1.05A {Streptococcus pneumoniae}	Back alignment and structure

>2y7i_A STM4351; arginine-binding protein; HET: ARG; 1.90A {Salmonella enterica subsp}	Back alignment and structure

>3tql_A Arginine-binding protein; transport and binding proteins, transport protein; HET: MSE ARG; 1.59A {Coxiella burnetii} SCOP: c.94.1.0	Back alignment and structure

>2vha_A Periplasmic binding transport protein; periplasmic binding protein, ligand binding, ultrahigh resolution; HET: GLU; 1.00A {Shigella flexneri} PDB: 2ia4_A*	Back alignment and structure

>2dvz_A BUGE, putative exported protein; periplamsic binding proteins, carboxylate binding, glutamate, transport protein; HET: GLU; 2.30A {Bordetella pertussis}	Back alignment and structure

>3kbr_A Cyclohexadienyl dehydratase; pseudomonas aeruginos structural genomics, PSI-2, protein structure initiative; HET: EPE; 1.66A {Pseudomonas aeruginosa}	Back alignment and structure

>2nyi_A Unknown protein; protein structure initiative, PSI, center for eukaryotic structural genomics, CESG, structural genomics; 1.80A {Galdieria sulphuraria}	Back alignment and structure

>2pyy_A Ionotropic glutamate receptor bacterial homologue; GLUR0 ligand binding domain, transport protein; HET: GLU; 2.10A {Nostoc punctiforme}	Back alignment and structure

>2f5x_A BUGD; periplasmic binding protein, transport protein; 1.72A {Bordetella pertussis tohama I}	Back alignment and structure

>3hv1_A Polar amino acid ABC uptake transporter substrate binding protein; protein structure initiative II(PSI II), nysgxrc; 1.90A {Streptococcus thermophilus lmg 18311}	Back alignment and structure

>3h7m_A Sensor protein; histidine kinase sensor domain, kinase, phosphoprotein, transferase; 2.40A {Geobacter sulfurreducens} SCOP: c.94.1.0	Back alignment and structure

>2yln_A Putative ABC transporter, periplasmic binding Pro amino acid; transport protein, solute-BIND protein; HET: CYS GOL; 1.12A {Neisseria gonorrhoeae} PDB: 3zsf_A	Back alignment and structure

>3k5p_A D-3-phosphoglycerate dehydrogenase; niaid, ssgcid, seattle structural genomics center for infect disease, brucellosis; 2.15A {Brucella melitensis biovar abortus}	Back alignment and structure

>3tql_A Arginine-binding protein; transport and binding proteins, transport protein; HET: MSE ARG; 1.59A {Coxiella burnetii} SCOP: c.94.1.0	Back alignment and structure

>3lou_A Formyltetrahydrofolate deformylase; structural genomics, JOI for structural genomics, JCSG, protein structure initiative hydrolase; HET: MSE; 1.90A {Burkholderia mallei}	Back alignment and structure

>4h5g_A Amino acid ABC superfamily ATP binding cassette transporter, binding protein; center for structural genomics of infectious diseases (csgid national institute of allergy and infectious diseases; HET: ARG; 1.78A {Streptococcus pneumoniae} PDB: 4h5f_A*	Back alignment and structure

>1ii5_A SLR1257 protein; membrane protein; HET: GLU; 1.60A {Synechocystis SP} SCOP: c.94.1.1 PDB: 1iit_A 1iiw_A	Back alignment and structure

>4i62_A Amino acid ABC transporter, periplasmic amino ACI protein, putative; center for structural genomics of infectious diseases (csgid national institute of allergy and infectious diseases (NIAI niaid; HET: ARG; 1.05A {Streptococcus pneumoniae}	Back alignment and structure

>1sc6_A PGDH, D-3-phosphoglycerate dehydrogenase; allosteric regulation phosphoglycerate dehydrogenase PGDH, oxidoreductase; HET: NAD; 2.09A {Escherichia coli} SCOP: c.2.1.4 c.23.12.1 d.58.18.1 PDB: 1psd_A* 1yba_A* 2p9c_A* 2p9e_A* 2pa3_A* 2p9g_A*	Back alignment and structure

>1lst_A Lysine, arginine, ornithine-binding protein; amino-acid binding protein; HET: LYS; 1.80A {Salmonella typhimurium} SCOP: c.94.1.1 PDB: 2lao_A 1lag_E* 1lah_E 1laf_E 1hsl_A* 1hpb_P*	Back alignment and structure

>1wdn_A GLNBP, glutamine binding protein; closed form, complex, peptide, complex (binding protein/peptide); 1.94A {Escherichia coli} SCOP: c.94.1.1 PDB: 1ggg_A	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		423
d2qmwa1		184	c.94.1.1 (A:1-184) Prephenate dehydratase {Staphyl	3e-45
d2qmwa2		80	d.58.18.3 (A:185-264) Prephenate dehydratase C-ter	9e-21
d1phza1		97	d.58.18.3 (A:19-115) Phenylalanine hydroxylase N-t	2e-15

>d2qmwa1 c.94.1.1 (A:1-184) Prephenate dehydratase {Staphylococcus aureus [TaxId: 1280]} Length = 184	Back information, alignment and structure


class: Alpha and beta proteins (a/b)
fold: Periplasmic binding protein-like II
superfamily: Periplasmic binding protein-like II
family: Phosphate binding protein-like
domain: Prephenate dehydratase
species: Staphylococcus aureus [TaxId: 1280]

 Score =  153 bits (386), Expect = 3e-45
 Identities = 42/187 (22%), Positives = 77/187 (41%), Gaps = 8/187 (4%)

Query: 128 LRVAYQGVPGAYSEAAAGKAYPNCEA--IPCDQFEVAFQAVELWIADRAVLPVENSLGGS 185
           +++ Y G  G +S  A  + +   EA   P        +AV        V+P+ENS+ G+
Sbjct: 1   MQLYYLGPKGTFSYLACRQYFSENEATFQPKSNLFEVIKAVADDDTSIGVVPIENSIEGT 60

Query: 186 IHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGL 245
           I+   D L +  +   GE++L ++  L          + +V S   A+SQ  + + +   
Sbjct: 61  INIVADALAQQDVFAHGEIRLDINFALYGNGTDSISDIKKVYSIAPAISQTTNYIHQHQF 120

Query: 246 NVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQVLEDGIQDDSSNVTRFVMLA 305
           +         +              AAIA   + E YG   ++  I+D   NVTRF+++ 
Sbjct: 121 DYDYVDSTIQSLTKIENGV------AAIAPLGSGEAYGFTPIDTHIEDYPHNVTRFLVIK 174

Query: 306 REPIIPR 312
            +    +
Sbjct: 175 NQQQFDQ 181

PyMOL of d2qmwa1

>d2qmwa2 d.58.18.3 (A:185-264) Prephenate dehydratase C-terminal domain {Staphylococcus aureus [TaxId: 1280]} Length = 80	Back information, alignment and structure

>d1phza1 d.58.18.3 (A:19-115) Phenylalanine hydroxylase N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 97	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
Query		423
d2qmwa1		184	Prephenate dehydratase {Staphylococcus aureus [Tax	100.0
d2qmwa2		80	Prephenate dehydratase C-terminal domain {Staphylo	99.9
d1phza1		97	Phenylalanine hydroxylase N-terminal domain {Rat (	99.86
d2f1fa1		76	Acetolactate synthase small subunit, IlvH {Escheri	97.17
d2pc6a2		77	Acetolactate synthase small subunit, IlvH {Nitroso	96.96
d2fgca2		78	Acetolactate synthase small subunit, IlvH {Thermot	96.91
d1y7pa2		77	Hypothetical protein AF1403, N-terminal domain {Ar	96.78
d1sc6a3		84	Phosphoglycerate dehydrogenase, regulatory (C-term	96.74
d1ygya3		78	Phosphoglycerate dehydrogenase, regulatory (C-term	96.58
d1zpva1		83	UPF0237 protein SP0238 {Streptococcus pneumoniae [	96.49
d2f06a2		70	Hypothetical protein BT0572 {Bacteroides thetaiota	95.8
d2f06a1		71	Hypothetical protein BT0572 {Bacteroides thetaiota	95.44
d1u8sa1		86	putative transcriptional repressor VC2159 {Vibrio	94.9
d1u8sa2		93	putative transcriptional repressor VC2159 {Vibrio	93.56
d1xt8a1		248	Putative amino-acid transporter CjaA {Campylobacte	92.79
d1wdna_		223	Glutamine-binding protein {Escherichia coli [TaxId	91.59
d2cdqa2		91	Aspartokinase {Thale cress (Arabidopsis thaliana)	80.18

>d2qmwa1 c.94.1.1 (A:1-184) Prephenate dehydratase {Staphylococcus aureus [TaxId: 1280]}	Back information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Periplasmic binding protein-like II
superfamily: Periplasmic binding protein-like II
family: Phosphate binding protein-like
domain: Prephenate dehydratase
species: Staphylococcus aureus [TaxId: 1280]

Probab=100.00  E-value=2.1e-58  Score=425.80  Aligned_cols=177  Identities=25%  Similarity=0.342  Sum_probs=166.9

Q ss_pred             cEEEEeCCCccHHHHHHhhhCCC--CceeecCCHHHHHHHHHcCCcCeEEEeeccCCCCchHHHHHHhhcCCcEEEEEEE
Q 014547          128 LRVAYQGVPGAYSEAAAGKAYPN--CEAIPCDQFEVAFQAVELWIADRAVLPVENSLGGSIHRNYDLLLRHRLHIVGEVQ  205 (423)
Q Consensus       128 ~~VayLGP~GTfSh~AA~~~f~~--~e~vp~~Sf~~Vf~aV~~g~~d~gVVPIENS~~G~V~~tlDlL~~~~L~IvgEi~  205 (423)
                      |||+||||+|||||+||+++|++  .+++||.||++||++|++|++||||||||||++|+|.+|||+|.+++++|+||+.
T Consensus         1 mki~yLGp~GtfS~~Aa~~~f~~~~~~~~~~~s~~~v~~av~~~~~d~gvvPiENS~~G~V~~t~D~L~~~~~~I~~E~~   80 (184)
T d2qmwa1           1 MQLYYLGPKGTFSYLACRQYFSENEATFQPKSNLFEVIKAVADDDTSIGVVPIENSIEGTINIVADALAQQDVFAHGEIR   80 (184)
T ss_dssp             CEEEEECSTTSHHHHHHHHHCCTTSSEEEEESSHHHHHHHHHHCSSEEEEEEEESCSSSCSHHHHHHHHTTSSEEEEEEE
T ss_pred             CEEEEeCCCChHHHHHHHHhcccCCceeeecCCHHHHHHHHHcCCCceeEEEeecccccchHHHHHhhhccCceeEeeec
Confidence            79999999999999999999984  5789999999999999999999999999999999999999999999999999999


Q ss_pred             EeeeeeeeecCCCCcCcccEEEechhHHHHHHHHHHHcCCceeEEeccCHHHHHHHHHhcCCCCeeEEccHHHHHHcCCc
Q 014547          206 LPVHHCLLALPGVRKEYLTRVISHPQALSQCEHTLTKLGLNVAREAVDDTAGAAEYIAANDLRDTAAIASARAAELYGMQ  285 (423)
Q Consensus       206 lpI~h~Lla~~g~~l~dIk~VySHPqAL~QC~~fL~~~~p~~~~v~~~STA~AA~~va~~~~~~~AAIaS~~AAelYgL~  285 (423)
                      +||+|||+++++.++++|++||||||||+||++||++++|+  .+.++||++||+.+.    ++.|||+|+.||++|||+
T Consensus        81 l~I~h~Ll~~~~~~l~~I~~V~SHpqal~QC~~~l~~~~~~--~~~~~sta~aa~~~~----~~~aAIas~~aa~~ygL~  154 (184)
T d2qmwa1          81 LDINFALYGNGTDSISDIKKVYSIAPAISQTTNYIHQHQFD--YDYVDSTIQSLTKIE----NGVAAIAPLGSGEAYGFT  154 (184)
T ss_dssp             EECCEEEECCSSCCSTTCCEEEECHHHHHHSHHHHHHTTCE--EEECSSHHHHHHTCB----TTEEEEEETTTSGGGTCC
T ss_pred             ccchhhhcccccccccccceEEEecchHHHHHHHHHhhccc--hhhhhhHHHHHhhhh----hhhhccccHhHHHHcCCh
Confidence            99999999999999999999999999999999999999765  456899999987652    478999999999999999


Q ss_pred             eeecCccCCCCCeeEEEEEeeCCCC
Q 014547          286 VLEDGIQDDSSNVTRFVMLAREPII  310 (423)
Q Consensus       286 ILa~nIqD~~~N~TRFlVLsr~~~~  310 (423)
                      ||+++|||.++|+|||+||+|++..
T Consensus       155 il~~~I~D~~~N~TRF~vi~~~~~~  179 (184)
T d2qmwa1         155 PIDTHIEDYPHNVTRFLVIKNQQQF  179 (184)
T ss_dssp             EEEECCCSCSCCEEEEEEEESCCCC
T ss_pred             hhhhCCCCCCCCeEeEEEEecCCcC
Confidence            9999999999999999999998643

PyMOL of d2qmwa1

>d2qmwa2 d.58.18.3 (A:185-264) Prephenate dehydratase C-terminal domain {Staphylococcus aureus [TaxId: 1280]}	Back information, alignment and structure

>d1phza1 d.58.18.3 (A:19-115) Phenylalanine hydroxylase N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d2f1fa1 d.58.18.6 (A:2-77) Acetolactate synthase small subunit, IlvH {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d2pc6a2 d.58.18.6 (A:1-77) Acetolactate synthase small subunit, IlvH {Nitrosomonas europaea [TaxId: 915]}	Back information, alignment and structure

>d2fgca2 d.58.18.6 (A:27-104) Acetolactate synthase small subunit, IlvH {Thermotoga maritima [TaxId: 2336]}	Back information, alignment and structure

>d1y7pa2 d.58.18.12 (A:2-78) Hypothetical protein AF1403, N-terminal domain {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}	Back information, alignment and structure

>d1sc6a3 d.58.18.1 (A:327-410) Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1ygya3 d.58.18.1 (A:452-529) Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain {Mycobacterium tuberculosis [TaxId: 1773]}	Back information, alignment and structure

>d1zpva1 d.58.18.7 (A:1-83) UPF0237 protein SP0238 {Streptococcus pneumoniae [TaxId: 1313]}	Back information, alignment and structure

>d2f06a2 d.58.18.11 (A:1-70) Hypothetical protein BT0572 {Bacteroides thetaiotaomicron [TaxId: 818]}	Back information, alignment and structure

>d2f06a1 d.58.18.11 (A:71-141) Hypothetical protein BT0572 {Bacteroides thetaiotaomicron [TaxId: 818]}	Back information, alignment and structure

>d1u8sa1 d.58.18.5 (A:2-87) putative transcriptional repressor VC2159 {Vibrio cholerae [TaxId: 666]}	Back information, alignment and structure

>d1u8sa2 d.58.18.5 (A:88-180) putative transcriptional repressor VC2159 {Vibrio cholerae [TaxId: 666]}	Back information, alignment and structure

>d1xt8a1 c.94.1.1 (A:10-257) Putative amino-acid transporter CjaA {Campylobacter jejuni [TaxId: 197]}	Back information, alignment and structure

>d1wdna_ c.94.1.1 (A:) Glutamine-binding protein {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d2cdqa2 d.58.18.10 (A:329-419) Aspartokinase {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure