Citrus Sinensis ID: 019548

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-------34

MALECVAVLGWGDSGSRASGLVFNGVRNSNRTPRKCVCRGGFSGLSGDSVIKSADNQNTGKSSNVNDVPGKLCKDLISLPKPLTVADFTVTPNDGTKVRISFKGLPGSFSEDAALKAYPKCETVPCDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYDLLLRHRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQLGVARENVDDTASAAQYVASNGLRDAGAVASARAAEIYGLNILADRIQDEPDNITRFLVLARDPIIPRTDKLFKTSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNNGTAK

cccccccccccccccccccccEEcccccccccccccccccccccccHHHHHHHHHHHccccccccHHHHHHHHHHHHcccccccccccccccccccccEEEEEcccccHHHHHHHHHcccccEEccccHHHHHHHHHcccccEEEEEccccccccHHHHHHHHcccccEEEEEEEEEEEEEEccccccccccccEEEccHHHHHHHHHHHHHcccEEEEcccHHHHHHHHHHcccccEEEEccHHHHHHHccHHHccccccccccccEEEEEEccccccccccccEEEEEEEEcccccHHHHHHHHHHHccccEEccccccccccccEEEEcccccccc

cccccccEEEccccccccccccccccccccccccccEEcHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHcccccccccccEEEEccccccHHHHHHHHHccccccccHHHHHHHHHHHHHccccEEEEEEEccccccHHHHHHHHHHcccEEEEEEEEEEEEEEEEcccccHHHHHEEEccHHHHHHHHHHHHccccEEEEcccHHHHHHHHHHccccccEEEccHHHHHHHcHHHHHHHccccccccEEEEEEEcccccccccccccEEEEEEcccccHHHHHHHHHHHHccccEEEEEEcccccccEEEEEEEcccccc

MALECVAVlgwgdsgsrasglvfngvrnsnrtprkcvcrggfsglsgdsviksadnqntgkssnvndvpgklckdlislpkpltvadftvtpndgtkvrisfkglpgsfsedaalkaypkcetvpcdefeDTFKAVELWLADkavlpiensssgsihrnYDLLLRHRLHIVGEVQLAANFCLlalpgikadqlkrvlshpqalassDIVLTQLGvarenvddTASAAQYVASNGLRDAGAVASARAAEIYGLNIladriqdepdNITRFLVlardpiiprtdklfKTSIVFtldegpgvLFKALAVFALREINLTkiesrpqrkrplrvvddsnngtak

malecvavlgwgdsgsrasglvfngvrnsnrtprkcVCRGGFSGLSGDSVIKSadnqntgkssnvndvpgkLCKDLislpkpltvadftvtpndgtkvrISFKGLPGSFSEDAALKAYPKCETVPCDEFEDTFKAVELWLADKAvlpiensssgsiHRNYDLLLRHRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQLGVARENVDDTASAAQYVASNGLRDAGAVASARAAEIYGLNiladriqdePDNITRFLVlardpiiprtdkLFKTSIVFTLDEGPGVLFKALAVFALREInltkiesrpqrkrplrvvddsnngtak

MALECVAVLGWGDSGSRASGLVFNGVRNSNRTPRKCVCRGGFSGLSGDSVIKSADNQNTGKSSNVNDVPGKLCKDLISLPKPLTVADFTVTPNDGTKVRISFKGLPGSFSEDAALKAYPKCETVPCDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYDLLLRHRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQLGVARENVDDTASAAQYVASNGLRDagavasaraaEIYGLNILADRIQDEPDNITRFLVLARDPIIPRTDKLFKTSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNNGTAK

***ECVAVLGWGDSGSRASGLVFNGVRNSNRTPRKCVCRGGFSG*************************GKLCKDLISLPKPLTVADFTVTPNDGTKVRISFKGLPGSFSEDAALKAYPKCETVPCDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYDLLLRHRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQLGVARENVDDTASAAQYVASNGLRDAGAVASARAAEIYGLNILADRIQDEPDNITRFLVLARDPIIPRTDKLFKTSIVFTLDEGPGVLFKALAVFALREINLTKI**********************

******AVLGWGDSGSRASGLVFNGVRNSNRT**********************************DVPGKLCKDLISLPK*************GTKVRISFKGLPGSFSEDAALKAYPKCETVPCDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYDLLLRHRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQLGVARENVDDTASAAQYVASNGLRDAGAVASARAAEIYGLNILADRIQDEPDNITRFLVLARDPIIPRTDKLFKTSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNNG***

*ALECVAVLGWGDSGSRASGLVFNGVRNSNRTPRKCVCRGGFSGLSGDSVIKSADNQNTGKSSNVNDVPGKLCKDLISLPKPLTVADFTVTPNDGTKVRISFKGLPGSFSEDAALKAYPKCETVPCDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYDLLLRHRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQLGVARENVDDTASAAQYVASNGLRDAGAVASARAAEIYGLNILADRIQDEPDNITRFLVLARDPIIPRTDKLFKTSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNN****

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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooo

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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		339	2.2.26 [Sep-21-2011]
Q9SA96		392	Arogenate dehydratase/pre	yes	no	0.784	0.678	0.676	1e-102
Q9SGD6		413	Arogenate dehydratase/pre	no	no	0.764	0.627	0.643	6e-94
Q9ZUY3		424	Arogenate dehydratase 3,	no	no	0.849	0.679	0.578	9e-92
Q9SSE7		381	Arogenate dehydratase/pre	no	no	0.882	0.784	0.578	9e-91
O22241		424	Arogenate dehydratase 4,	no	no	0.846	0.676	0.573	3e-88
Q9FNJ8		425	Arogenate dehydratase 5,	no	no	0.769	0.614	0.611	2e-82
O67085		362	P-protein OS=Aquifex aeol	yes	no	0.660	0.618	0.379	4e-30
P27603		365	P-protein OS=Pseudomonas	no	no	0.654	0.608	0.353	2e-28
P43900		385	P-protein OS=Haemophilus	yes	no	0.817	0.719	0.294	7e-28
Q58054		272	Prephenate dehydratase OS	yes	no	0.604	0.753	0.381	2e-27

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

 Score =  372 bits (954), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 180/266 (67%), Positives = 216/266 (81%)

Query: 74  KDLISLPKPLTVADFTVTPNDGTKVRISFKGLPGSFSEDAALKAYPKCETVPCDEFEDTF 133
           +DL  LPKPLT      +  D +KVRISF+G+PG++SE AALKA+P CETVPC++FE  F
Sbjct: 82  RDLSMLPKPLTANSLYSSDGDDSKVRISFQGIPGAYSETAALKAFPNCETVPCEQFEAAF 141

Query: 134 KAVELWLADKAVLPIENSSSGSIHRNYDLLLRHRLHIVGEVQLAANFCLLALPGIKADQL 193
           +AVELWL DKAVLPIENS  GSIHRNYDLLLRHRLHIV EV L  N CLL +PG+K + +
Sbjct: 142 QAVELWLVDKAVLPIENSVGGSIHRNYDLLLRHRLHIVQEVHLPVNHCLLGVPGVKKEDI 201

Query: 194 KRVLSHPQALASSDIVLTQLGVARENVDDTASAAQYVASNGLRDAGAVASARAAEIYGLN 253
           K VLSHPQAL      L  LG+ R +  DTA+AAQ V+S+G  D GA+AS RAA IYGL+
Sbjct: 202 KCVLSHPQALDQCVNSLNNLGIQRISAKDTATAAQTVSSSGKIDVGAIASVRAANIYGLD 261

Query: 254 ILADRIQDEPDNITRFLVLARDPIIPRTDKLFKTSIVFTLDEGPGVLFKALAVFALREIN 313
           ILA+ IQD+ +N+TRFL+LAR+P+IPRTD+ +KTSIVF+L+EGPGVLFKALAVFALR IN
Sbjct: 262 ILAENIQDDVNNVTRFLILAREPMIPRTDRPYKTSIVFSLEEGPGVLFKALAVFALRSIN 321

Query: 314 LTKIESRPQRKRPLRVVDDSNNGTAK 339
           L+KIESRPQR+RPLRVVD SNNG+AK
Sbjct: 322 LSKIESRPQRRRPLRVVDGSNNGSAK 347

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\|Q9SGD6\|AROD6_ARATH Arogenate dehydratase/prephenate dehydratase 6, chloroplastic OS=Arabidopsis thaliana GN=ADT6 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\|Q9SSE7\|AROD2_ARATH Arogenate dehydratase/prephenate dehydratase 2, chloroplastic OS=Arabidopsis thaliana GN=ADT2 PE=1 SV=1	Back alignment and function description

>sp\|O22241\|AROD4_ARATH Arogenate dehydratase 4, chloroplastic OS=Arabidopsis thaliana GN=ADT4 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\|O67085\|PHEA_AQUAE P-protein OS=Aquifex aeolicus (strain VF5) GN=pheA PE=4 SV=1	Back alignment and function description

>sp\|P27603\|PHEA_PSEST P-protein OS=Pseudomonas stutzeri GN=pheA PE=4 SV=2	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

>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

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		339
225447035		395	PREDICTED: arogenate dehydratase/prephen	0.973	0.835	0.718	1e-136
297739158		418	unnamed protein product [Vitis vinifera]	0.970	0.787	0.720	1e-136
255577573		373	prephenate dehydratase, putative [Ricinu	0.964	0.876	0.693	1e-124
449522402		388	PREDICTED: arogenate dehydratase/prephen	0.887	0.775	0.716	1e-120
449468368		388	PREDICTED: arogenate dehydratase/prephen	0.887	0.775	0.716	1e-120
148909434		402	unknown [Picea sitchensis]	0.837	0.706	0.704	1e-116
357453373		375	Arogenate dehydratase/prephenate dehydra	0.920	0.832	0.661	1e-116
356543698		384	PREDICTED: arogenate dehydratase/prephen	0.805	0.710	0.754	1e-111
449479475		396	PREDICTED: arogenate dehydratase/prephen	0.781	0.669	0.729	1e-110
224113661		400	arogenate/prephenate dehydratase [Populu	0.846	0.717	0.674	1e-110

>gi\|225447035\|ref\|XP_002269463.1\| PREDICTED: arogenate dehydratase/prephenate dehydratase 1, chloroplastic [Vitis vinifera]	Back alignment and taxonomy information

 Score =  491 bits (1263), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 247/344 (71%), Positives = 280/344 (81%), Gaps = 14/344 (4%)

Query: 5   CVAVLGWGDSGSRASGLVFNGVRNSNRTPRKCVCRGGFSGLSGDSVIKSADNQNTGKSSN 64
            V+ LGW D GS+ SG+V N  + +  TP        FSGLS    IKS D+ N      
Sbjct: 12  AVSQLGWEDLGSKPSGVVCNWGKGTAETPSVV-----FSGLSTHRGIKSLDDGNPSNPGT 66

Query: 65  V---------NDVPGKLCKDLISLPKPLTVADFTVTPNDGTKVRISFKGLPGSFSEDAAL 115
                     N+  G++ +DL S PKPL+V D +  P DGTKVRIS+KG+PG++SEDAAL
Sbjct: 67  ELQGIVDKVDNNDSGRIHRDLASFPKPLSVTDISAAPKDGTKVRISYKGVPGAYSEDAAL 126

Query: 116 KAYPKCETVPCDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYDLLLRHRLHIVGEVQ 175
           KAYP CETVPCDEFED FKAVELWLA+KAVLPIENS  GSIHRNYDLLLRHRLHIVGEVQ
Sbjct: 127 KAYPHCETVPCDEFEDAFKAVELWLAEKAVLPIENSLGGSIHRNYDLLLRHRLHIVGEVQ 186

Query: 176 LAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQLGVARENVDDTASAAQYVASNGL 235
           LA N CLLA+PG+  DQL+RVLSHPQALA SDI+L++LGV+RENVDD+A AAQYVAS+GL
Sbjct: 187 LAVNLCLLAIPGVGIDQLRRVLSHPQALAQSDIILSKLGVSRENVDDSAGAAQYVASHGL 246

Query: 236 RDAGAVASARAAEIYGLNILADRIQDEPDNITRFLVLARDPIIPRTDKLFKTSIVFTLDE 295
           RDAG VASARAAEIYGLNILA+RIQD+ DNITRFLVLARDPIIPRT+KLFKTSIVFTL+E
Sbjct: 247 RDAGVVASARAAEIYGLNILAERIQDDFDNITRFLVLARDPIIPRTNKLFKTSIVFTLEE 306

Query: 296 GPGVLFKALAVFALREINLTKIESRPQRKRPLRVVDDSNNGTAK 339
           GPGVLFKALAVFALR+INLTKIESRPQRK+PLRVVDDSN G+AK
Sbjct: 307 GPGVLFKALAVFALRDINLTKIESRPQRKKPLRVVDDSNTGSAK 350

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|297739158\|emb\|CBI28809.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|255577573\|ref\|XP_002529664.1\| prephenate dehydratase, putative [Ricinus communis] gi\|223530844\|gb\|EEF32706.1\| prephenate dehydratase, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|449522402\|ref\|XP_004168215.1\| PREDICTED: arogenate dehydratase/prephenate dehydratase 1, chloroplastic-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|449468368\|ref\|XP_004151893.1\| PREDICTED: arogenate dehydratase/prephenate dehydratase 1, chloroplastic-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|148909434\|gb\|ABR17815.1\| unknown [Picea sitchensis]	Back alignment and taxonomy information

>gi\|357453373\|ref\|XP_003596963.1\| Arogenate dehydratase/prephenate dehydratase [Medicago truncatula] gi\|124360522\|gb\|ABN08532.1\| Prephenate dehydratase with ACT region [Medicago truncatula] gi\|355486011\|gb\|AES67214.1\| Arogenate dehydratase/prephenate dehydratase [Medicago truncatula]	Back alignment and taxonomy information

>gi\|356543698\|ref\|XP_003540297.1\| PREDICTED: arogenate dehydratase/prephenate dehydratase 1, chloroplastic-like [Glycine max]	Back alignment and taxonomy information

>gi\|449479475\|ref\|XP_004155609.1\| PREDICTED: arogenate dehydratase/prephenate dehydratase 1, chloroplastic-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|224113661\|ref\|XP_002316535.1\| arogenate/prephenate dehydratase [Populus trichocarpa] gi\|222859600\|gb\|EEE97147.1\| arogenate/prephenate dehydratase [Populus trichocarpa]	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		339
TAIR\|locus:2027332		392	ADT1 "arogenate dehydratase 1"	0.784	0.678	0.650	1.2e-88
TAIR\|locus:2199963		413	ADT6 "arogenate dehydratase 6"	0.764	0.627	0.616	4.9e-85
TAIR\|locus:2091127		381	ADT2 "arogenate dehydratase 2"	0.908	0.808	0.552	5.6e-84
TAIR\|locus:2042021		424	PD1 "prephenate dehydratase 1"	0.849	0.679	0.554	9.1e-84
TAIR\|locus:2101630		424	ADT4 "arogenate dehydratase 4"	0.846	0.676	0.546	1.1e-80
TAIR\|locus:2162459		425	ADT5 "arogenate dehydratase 5"	0.837	0.668	0.550	5.4e-79
TIGR_CMR\|DET_0461		358	DET_0461 "chorismate mutase/pr	0.663	0.628	0.359	1.2e-33
TIGR_CMR\|SPO_3539		284	SPO_3539 "prephenate dehydrata	0.669	0.799	0.377	1.4e-32
UNIPROTKB\|Q0C4F5		278	HNE_0659 "Prephenate dehydrata	0.651	0.794	0.355	1.4e-30
TIGR_CMR\|DET_1547		276	DET_1547 "prephenate dehydrata	0.654	0.804	0.358	7.9e-30

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

 Score = 885 (316.6 bits), Expect = 1.2e-88, P = 1.2e-88
 Identities = 173/266 (65%), Positives = 208/266 (78%)

Query:    74 KDLISLPKPLTVADFTVTPNDGTKVRISFKGLPGSFSEDAALKAYPKCETVPCDEFEDTF 133
             +DL  LPKPLT      +  D +KVRISF+G+PG++SE AALKA+P CETVPC++FE  F
Sbjct:    82 RDLSMLPKPLTANSLYSSDGDDSKVRISFQGIPGAYSETAALKAFPNCETVPCEQFEAAF 141

Query:   134 KAVELWLADKAVLPIENSSSGSIHRNYDLLLRHRLHIVGEVQLAANFCLLALPGIKADQL 193
             +AVELWL DKAVLPIENS  GSIHRNYDLLLRHRLHIV EV L  N CLL +PG+K + +
Sbjct:   142 QAVELWLVDKAVLPIENSVGGSIHRNYDLLLRHRLHIVQEVHLPVNHCLLGVPGVKKEDI 201

Query:   194 KRVLSHPQALASSDIVLTQLGVARENVDDTASAAQYVASNGLRDXXXXXXXXXXEIYGLN 253
             K VLSHPQAL      L  LG+ R +  DTA+AAQ V+S+G  D           IYGL+
Sbjct:   202 KCVLSHPQALDQCVNSLNNLGIQRISAKDTATAAQTVSSSGKIDVGAIASVRAANIYGLD 261

Query:   254 ILADRIQDEPDNITRFLVLARDPIIPRTDKLFKTSIVFTLDEGPGVLFKALAVFALREIN 313
             ILA+ IQD+ +N+TRFL+LAR+P+IPRTD+ +KTSIVF+L+EGPGVLFKALAVFALR IN
Sbjct:   262 ILAENIQDDVNNVTRFLILAREPMIPRTDRPYKTSIVFSLEEGPGVLFKALAVFALRSIN 321

Query:   314 LTKIESRPQRKRPLRVVDDSNNGTAK 339
             L+KIESRPQR+RPLRVVD SNNG+AK
Sbjct:   322 LSKIESRPQRRRPLRVVDGSNNGSAK 347

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

GO:0008152 "metabolic process" evidence=IEA

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

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0016597 "amino acid binding" evidence=IEA

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:2199963 ADT6 "arogenate dehydratase 6" [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

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

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

TIGR_CMR\|SPO_3539 SPO_3539 "prephenate dehydratase" [Ruegeria pomeroyi DSS-3 (taxid:246200)]	Back alignment and assigned GO terms

UNIPROTKB\|Q0C4F5 HNE_0659 "Prephenate dehydratase" [Hyphomonas neptunium ATCC 15444 (taxid:228405)]	Back alignment and assigned GO terms

TIGR_CMR\|DET_1547 DET_1547 "prephenate dehydratase" [Dehalococcoides ethenogenes 195 (taxid:243164)]	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)
Q9SA96	AROD1_ARATH	4, ., 2, ., 1, ., 9, 1	0.6766	0.7846	0.6785	yes	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	0.914
3rd Layer	4.2.1	0.921
4th Layer	4.2.1.51	0.914

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00025888001	SubName- Full=Chromosome chr12 scaffold_36, whole genome shotgun sequence; (395 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00026409001	RecName- Full=3-phosphoshikimate 1-carboxyvinyltransferase; EC=2.5.1.19; (521 aa)	•		•	0.686
	GSVIVG00036740001	SubName- Full=Chromosome chr4 scaffold_83, whole genome shotgun sequence; (456 aa)	•		•	0.637
	GSVIVG00029073001	SubName- Full=Chromosome chr12 scaffold_47, whole genome shotgun sequence; (396 aa)	•		•	0.537
	GSVIVG00005682001	SubName- Full=Chromosome chr5 scaffold_156, whole genome shotgun sequence; (447 aa)	•		•	0.528
	GSVIVG00018199001	RecName- Full=Chorismate synthase; EC=4.2.3.5; (348 aa)	•	•	•	0.495
	GSVIVG00024523001	RecName- Full=Chorismate synthase; EC=4.2.3.5; (403 aa)	•	•	•	0.471
	GSVIVG00030599001	SubName- Full=Chromosome chr1 scaffold_5, whole genome shotgun sequence; (344 aa)	•		•	0.440
	GSVIVG00016051001	SubName- Full=Chromosome chr17 scaffold_12, whole genome shotgun sequence; (389 aa)	•		•	0.429
	GSVIVG00036526001	RecName- Full=N-acetyl-gamma-glutamyl-phosphate reductase; EC=1.2.1.38; (398 aa)			•	0.404

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		339
PLN02317		382	PLN02317, PLN02317, arogenate dehydratase	1e-179
COG0077		279	COG0077, PheA, Prephenate dehydratase [Amino acid	4e-85
pfam00800		181	pfam00800, PDT, Prephenate dehydratase	2e-73
PRK11899		279	PRK11899, PRK11899, prephenate dehydratase; Provis	1e-70
PRK11898		283	PRK11898, PRK11898, prephenate dehydratase; Provis	8e-69
PRK10622		386	PRK10622, pheA, bifunctional chorismate mutase/pre	9e-38
cd04905		80	cd04905, ACT_CM-PDT, C-terminal ACT domain of the	2e-17
cd04880		75	cd04880, ACT_AAAH-PDT-like, ACT domain of the nonh	1e-15
cd04904		74	cd04904, ACT_AAAH, ACT domain of the nonheme iron-	2e-09
cd04931		90	cd04931, ACT_PAH, ACT domain of the nonheme iron-d	3e-06
TIGR01268		436	TIGR01268, Phe4hydrox_tetr, phenylalanine-4-hydrox	2e-05
cd04930		115	cd04930, ACT_TH, ACT domain of the nonheme iron-de	1e-04
cd04929		74	cd04929, ACT_TPH, ACT domain of the nonheme iron-d	2e-04
cd02116		60	cd02116, ACT, ACT domains are commonly involved in	0.002

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

 Score =  501 bits (1292), Expect = e-179
 Identities = 202/333 (60%), Positives = 248/333 (74%), Gaps = 8/333 (2%)

Query: 13  DSGSRASGLVFNGVRNSNRTPRKCVCRGGFS------GLSGDSVIKSADNQNTGKSSNVN 66
               R+    F     S R   +  C    S      G +  S      +   G      
Sbjct: 6   PRTPRSGSSSFPARWASRRAAWQSSCAILSSKVRSPEGDAPPSRPAVESSGGAGLVVATQ 65

Query: 67  DVPGKLCKDLISLPKPLTVADFTVTPNDGTKVRISFKGLPGSFSEDAALKAYPKCETVPC 126
            V     +DL  LP+PL++ D + +P  G+K+R++++G+PG++SE AA KAYP CE VPC
Sbjct: 66  SVSFH--RDLSGLPRPLSITDLSPSPMHGSKLRVAYQGVPGAYSEAAARKAYPNCEAVPC 123

Query: 127 DEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYDLLLRHRLHIVGEVQLAANFCLLALP 186
           ++FE  F+AVELWLAD+AVLPIENS  GSIHRNYDLLLRHRLHIVGEVQL  + CLLALP
Sbjct: 124 EQFEAAFQAVELWLADRAVLPIENSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALP 183

Query: 187 GIKADQLKRVLSHPQALASSDIVLTQLGVARENVDDTASAAQYVASNGLRDAGAVASARA 246
           G++ ++LKRV+SHPQALA  +  LT+LGV RE VDDTA AA+ VA+NGLRD  A+ASARA
Sbjct: 184 GVRKEELKRVISHPQALAQCENTLTKLGVVREAVDDTAGAAKMVAANGLRDTAAIASARA 243

Query: 247 AEIYGLNILADRIQDEPDNITRFLVLARDPIIPRTDKLFKTSIVFTLDEGPGVLFKALAV 306
           AE+YGL+ILA+ IQD+ DN+TRFL+LAR+PIIPRTD+ FKTSIVF+L+EGPGVLFKALAV
Sbjct: 244 AELYGLDILAEGIQDDSDNVTRFLMLAREPIIPRTDRPFKTSIVFSLEEGPGVLFKALAV 303

Query: 307 FALREINLTKIESRPQRKRPLRVVDDSNNGTAK 339
           FALR+INLTKIESRPQRKRPLRVVDDSN+GTAK
Sbjct: 304 FALRDINLTKIESRPQRKRPLRVVDDSNSGTAK 336

Length = 382

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

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

>gnl\|CDD\|237014 PRK11899, PRK11899, prephenate dehydratase; Provisional	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

>gnl\|CDD\|153176 cd04904, ACT_AAAH, ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH)	Back alignment and domain information

>gnl\|CDD\|153203 cd04931, ACT_PAH, ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH)	Back alignment and domain information

>gnl\|CDD\|130335 TIGR01268, Phe4hydrox_tetr, phenylalanine-4-hydroxylase, tetrameric form	Back alignment and domain information

>gnl\|CDD\|153202 cd04930, ACT_TH, ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tyrosine hydroxylases (TH)	Back alignment and domain information

>gnl\|CDD\|153201 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

>gnl\|CDD\|153139 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		339
PRK10622		386	pheA bifunctional chorismate mutase/prephenate deh	100.0
COG0077		279	PheA Prephenate dehydratase [Amino acid transport	100.0
PRK11899		279	prephenate dehydratase; Provisional	100.0
PLN02317		382	arogenate dehydratase	100.0
PRK11898		283	prephenate dehydratase; Provisional	100.0
KOG2797		377	consensus Prephenate dehydratase [Amino acid trans	100.0
PF00800		181	PDT: Prephenate dehydratase Caution this is only a	100.0
PRK06034		279	hypothetical protein; Provisional	99.92
cd04904		74	ACT_AAAH ACT domain of the nonheme iron-dependent,	99.57
cd04931		90	ACT_PAH ACT domain of the nonheme iron-dependent a	99.57
cd04930		115	ACT_TH ACT domain of the nonheme iron-dependent ar	99.51
cd04929		74	ACT_TPH ACT domain of the nonheme iron-dependent a	99.5
cd04880		75	ACT_AAAH-PDT-like ACT domain of the nonheme iron-d	99.23
TIGR01268		436	Phe4hydrox_tetr phenylalanine-4-hydroxylase, tetra	99.14
TIGR01270		464	Trp_5_monoox tryptophan 5-monooxygenase, tetrameri	99.13
cd04905		80	ACT_CM-PDT C-terminal ACT domain of the bifunction	99.08
TIGR01807		76	CM_P2 chorismate mutase domain of proteobacterial	98.5
TIGR01801		102	CM_A chorismate mutase domain of gram positive Aro	98.44
TIGR01805		81	CM_mono_grmpos monofunctional chorismate mutase, g	98.43
TIGR01797		83	CM_P_1 chorismate mutase domain of proteobacterial	98.4
PRK07248		87	hypothetical protein; Provisional	98.36
TIGR01803		82	CM-like chorismate mutase related enzymes. This su	98.22
PRK08818		370	prephenate dehydrogenase; Provisional	98.19
PRK07857		106	hypothetical protein; Provisional	98.15
TIGR01799		83	CM_T chorismate mutase domain of T-protein. This m	98.14
PRK06443		177	chorismate mutase; Validated	98.12
TIGR01808		74	CM_M_hiGC-arch monofunctional chorismate mutase, h	98.11
TIGR01791		83	CM_archaeal chorismate mutase, archaeal type. This	98.09
PRK07075		101	isochorismate-pyruvate lyase; Reviewed	98.07
PRK06285		96	chorismate mutase; Provisional	98.06
PRK11199		374	tyrA bifunctional chorismate mutase/prephenate deh	98.06
COG1605		101	PheA Chorismate mutase [Amino acid transport and m	98.01
PF01817		81	CM_2: Chorismate mutase type II; InterPro: IPR0208	97.98
PRK12595		360	bifunctional 3-deoxy-7-phosphoheptulonate synthase	97.94
TIGR01269		457	Tyr_3_monoox tyrosine 3-monooxygenase, tetrameric.	97.91
PF01842		66	ACT: ACT domain; InterPro: IPR002912 The ACT domai	97.89
TIGR01795		94	CM_mono_cladeE monofunctional chorismate mutase, a	97.75
PRK09239		104	chorismate mutase; Provisional	97.73
smart00830		79	CM_2 Chorismate mutase type II. Chorismate mutase,	97.68
TIGR01806		114	CM_mono2 chorismate mutase, putative. This model r	97.68
cd04886		73	ACT_ThrD-II-like C-terminal ACT domain of biodegra	97.3
PRK09269		193	chorismate mutase; Provisional	97.22
PRK08055		181	chorismate mutase; Provisional	97.19
KOG3820		461	consensus Aromatic amino acid hydroxylase [Amino a	97.03
cd04882		65	ACT_Bt0572_2 C-terminal ACT domain of a novel prot	96.99
cd04908		66	ACT_Bt0572_1 N-terminal ACT domain of a novel prot	96.87
cd04884		72	ACT_CBS C-terminal ACT domain of the cystathionine	96.61
cd04874		72	ACT_Af1403 N-terminal ACT domain of the yet unchar	96.45
cd04878		72	ACT_AHAS N-terminal ACT domain of the Escherichia	96.15
cd04903		71	ACT_LSD C-terminal ACT domain of the L-serine dehy	96.03
cd04883		72	ACT_AcuB C-terminal ACT domain of the Bacillus sub	95.96
cd04909		69	ACT_PDH-BS C-terminal ACT domain of the monofuncti	95.86
cd02116		60	ACT ACT domains are commonly involved in specifica	95.76
cd04879		71	ACT_3PGDH-like ACT_3PGDH-like CD includes the C-te	95.75
cd04889		56	ACT_PDH-BS-like C-terminal ACT domain of the monof	95.71
cd04902		73	ACT_3PGDH-xct C-terminal ACT (regulatory) domain o	95.71
PRK11152		76	ilvM acetolactate synthase 2 regulatory subunit; P	95.64
PRK06737		76	acetolactate synthase 1 regulatory subunit; Valida	95.63
cd04885		68	ACT_ThrD-I Tandem C-terminal ACT domains of threon	95.47
PF13291		80	ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.	95.28
cd04887		74	ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-te	95.0
cd04881		79	ACT_HSDH-Hom ACT_HSDH_Hom CD includes the C-termin	94.97
cd04873		70	ACT_UUR-ACR-like ACT domains of the bacterial sign	94.77
PRK11895		161	ilvH acetolactate synthase 3 regulatory subunit; R	94.73
cd04888		76	ACT_PheB-BS C-terminal ACT domain of a small (~147	94.32
TIGR00119		157	acolac_sm acetolactate synthase, small subunit. ac	94.29
cd04901		69	ACT_3PGDH C-terminal ACT (regulatory) domain of D-	94.12
cd04926		72	ACT_ACR_4 C-terminal ACT domain, of a novel type o	94.01
cd04899		70	ACT_ACR-UUR-like_2 C-terminal ACT domains of the b	93.87
cd04876		71	ACT_RelA-SpoT ACT domain found C-terminal of the R	93.77
PRK08526		403	threonine dehydratase; Provisional	93.44
PRK08178		96	acetolactate synthase 1 regulatory subunit; Review	93.22
PRK13562		84	acetolactate synthase 1 regulatory subunit; Provis	93.17
COG4747		142	ACT domain-containing protein [General function pr	93.09
PF13710		63	ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.	93.05
PRK08198		404	threonine dehydratase; Provisional	92.67
PRK08639		420	threonine dehydratase; Validated	92.57
PRK06382		406	threonine dehydratase; Provisional	92.4
cd04895		72	ACT_ACR_1 ACT domain-containing protein which is c	92.39
PRK00194		90	hypothetical protein; Validated	92.1
TIGR01127		380	ilvA_1Cterm threonine dehydratase, medium form. A	91.72
cd04906		85	ACT_ThrD-I_1 First of two tandem C-terminal ACT do	91.48
cd04896		75	ACT_ACR-like_3 ACT domain-containing protein which	91.36
cd04900		73	ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1,	91.29
PRK04435		147	hypothetical protein; Provisional	91.17
cd04872		88	ACT_1ZPV ACT domain proteins similar to the yet un	91.13
cd04875		74	ACT_F4HF-DF N-terminal ACT domain of formyltetrahy	90.94
cd04877		74	ACT_TyrR N-terminal ACT domain of the TyrR protein	90.6
PRK08577		136	hypothetical protein; Provisional	90.55
cd08417		200	PBP2_Nitroaromatics_like The C-terminal substrate	89.3
COG2061		170	ACT-domain-containing protein, predicted allosteri	89.26
cd04870		75	ACT_PSP_1 CT domains found N-terminal of phosphose	88.33
PF12974		243	Phosphonate-bd: ABC transporter, phosphonate, peri	88.09
TIGR00363		258	lipoprotein, YaeC family. This family of putative	87.72
PRK06545		359	prephenate dehydrogenase; Validated	87.36
PF13740		76	ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.	87.17
cd04907		81	ACT_ThrD-I_2 Second of two tandem C-terminal ACT d	87.07
cd04869		81	ACT_GcvR_2 ACT domains that comprise the Glycine C	86.74
cd04897		75	ACT_ACR_3 ACT domain-containing protein which is c	86.52
PRK07334		403	threonine dehydratase; Provisional	86.35
PRK09224		504	threonine dehydratase; Reviewed	86.01
cd08445		203	PBP2_BenM_CatM_CatR The C-terminal substrate bindi	85.52
cd08411		200	PBP2_OxyR The C-terminal substrate-binding domain	85.43
cd04891		61	ACT_AK-LysC-DapG-like_1 ACT domains of the lysine-	85.1
PRK11151		305	DNA-binding transcriptional regulator OxyR; Provis	84.94
TIGR01728		288	SsuA_fam ABC transporter, substrate-binding protei	84.48
cd04927		76	ACT_ACR-like_2 Second ACT domain, of a novel type	82.41
PF00497		225	SBP_bac_3: Bacterial extracellular solute-binding	82.13
PLN02550		591	threonine dehydratase	81.99
cd08435		201	PBP2_GbpR The C-terminal substrate binding domain	81.74
PRK15007		243	putative ABC transporter arginine-biding protein;	81.42
PRK12483		521	threonine dehydratase; Reviewed	81.32
COG4492		150	PheB ACT domain-containing protein [General functi	80.75
cd08452		197	PBP2_AlsR The C-terminal substrate binding domain	80.51
PRK11589		190	gcvR glycine cleavage system transcriptional repre	80.34

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

Probab=100.00  E-value=4.7e-85  Score=647.31  Aligned_cols=299  Identities=29%  Similarity=0.376  Sum_probs=272.3

Q ss_pred             cchhhHHHHHHHHHHHHHHhhhcCCCCC--C--C-chhHHHHHhhhhCC-CCCCccc-------cc-cccCCCCc-----
Q 019548           37 VCRGGFSGLSGDSVIKSADNQNTGKSSN--V--N-DVPGKLCKDLISLP-KPLTVAD-------FT-VTPNDGTK-----   97 (339)
Q Consensus        37 ~~~~~Il~LlneRa~la~eIg~~K~~~~--~--~-RE~~il~~~~~~n~-GPL~~e~-------i~-~s~~l~~~-----   97 (339)
                      -+|.+|++||+||++++.+||++|++.|  +  | ||+++|+++...+. ++++.+.       || .|+..|..     
T Consensus        16 ~ID~~ii~Ll~~R~~~~~~I~~~K~~~~~pi~dp~RE~~vl~~~~~~a~~~~l~~~~i~~if~~ii~~S~~~Q~~~~~~~   95 (386)
T PRK10622         16 ALDEKLLALLAERRELAVEVAKAKLLSHRPVRDIDRERDLLERLITLGKAHHLDAHYITRLFQLIIEDSVLTQQALLQQH   95 (386)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCcChHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHhhhhhhcc
Confidence            7899999999999999999999999988  3  5 99999999998886 7787764       34 35544433     


Q ss_pred             --------eEEEEECCCCcHHHHHHHHhCCC----CccccCCCHHHHHHHHHhCCCCeEEEeeeccCccchhhhHHHhhc
Q 019548           98 --------VRISFKGLPGSFSEDAALKAYPK----CETVPCDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYDLLLR  165 (339)
Q Consensus        98 --------~~VayLGP~GTfS~~AA~~~fg~----~~~~~~~si~~Vf~aV~~g~ad~gVVPiENS~~G~V~~tlDlL~~  165 (339)
                              ++||||||+|||||+||+++|+.    ...+||+||++||++|++|++||||||||||++|.|.+|||+|.+
T Consensus        96 ~~~~~~~~~~va~lGp~GtfSh~Aa~~~~~~~~~~~~~~~~~s~~~v~~av~~g~~d~gVvPiENS~~G~V~~t~DlL~~  175 (386)
T PRK10622         96 LNKTNPHSARIAFLGPKGSYSHLAARQYAARHFEQFIESGCAKFADIFNQVETGQADYAVLPIENTSSGAINDVYDLLQH  175 (386)
T ss_pred             ccccccccceEEEECCCCcHHHHHHHHhhccccccccccCCCCHHHHHHHHHCCCCCEEEEEEecCCceehHHHHHHHhc
Confidence                    78999999999999999999863    234589999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEEEEeeeeeeccCCCCCcCCccEEEecHHHHHHHHHHHHhc-CCeeEecCCHHHHHHHHHhcCCCCeEEecCH
Q 019548          166 HRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQL-GVARENVDDTASAAQYVASNGLRDAGAVASA  244 (339)
Q Consensus       166 ~~l~I~gEi~l~I~h~Ll~~~g~~l~~I~~VySHpqal~QC~~~L~~~-~~~~i~~~STA~AA~~v~~~~~~~~AAIas~  244 (339)
                      ++++|+||+.+||+|||++.++.++++|++||||||||+||++||+++ +++.++++|||+||+++++.++++.|||||+
T Consensus       176 ~~l~I~~E~~l~I~h~Ll~~~~~~l~~I~~V~SHpqal~QC~~fL~~~p~~~~~~~~sTa~Aa~~v~~~~~~~~AAI~s~  255 (386)
T PRK10622        176 TSLSIVGEMTLPIDHCVLVSGTTDLSTIETVYSHPQPFQQCSQFLNRYPHWKIEYTESTAAAMEKVAQANSPHVAALGSE  255 (386)
T ss_pred             CCCEEEEEEEEEEEEEEecCCCCCHHHCeEEEEehHHHHHHHHHHHHCCCceEEEcCChHHHHHHHHhcCCCCEEEECCH
Confidence            999999999999999999999999999999999999999999999997 7899999999999999998777788999999


Q ss_pred             HHHHHcCCceeeccccCCCCCeeeEEEEeeCCCCCCCCCCceEEEEEEecCCcchHHHHHHHHHhCCceeeeeeeeeCCC
Q 019548          245 RAAEIYGLNILADRIQDEPDNITRFLVLARDPIIPRTDKLFKTSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRK  324 (339)
Q Consensus       245 ~AA~~ygL~il~~~IeD~~~N~TRF~vi~~~~~~p~~~~~~Ktsi~~~~~~~pGaL~~iL~~Fa~~gINLtkIeSRP~~~  324 (339)
                      .||++|||++|+++|||.++|+|||+||++.+..+.....+||||+|+++|+||+|+++|++|+.+|||||||||||+++
T Consensus       256 ~aa~~ygL~vl~~~I~D~~~N~TRF~vi~~~~~~~~~~~~~ktsl~~~~~~~pGaL~~~L~~Fa~~giNLtkIeSRP~~~  335 (386)
T PRK10622        256 AGGALYGLQVLERNLANQQQNITRFIVLARKAINVSDQVPAKTTLLMATGQQAGALVEALLVLRNHNLIMTKLESRPIHG  335 (386)
T ss_pred             HHHHHcCCcChhhcCcCCccccceEEEEecCCCCCCCCCCCcEEEEEEcCCCCcHHHHHHHHHHHcCCCeeEEEeeecCC
Confidence            99999999999999999999999999999987534333346999999999999999999999999999999999999999


Q ss_pred             CCceEE--EecCC
Q 019548          325 RPLRVV--DDSNN  335 (339)
Q Consensus       325 ~~w~~~--~~~~~  335 (339)
                      ++|+|+  +|...
T Consensus       336 ~~~~Y~Ffid~eg  348 (386)
T PRK10622        336 NPWEEMFYLDVQA  348 (386)
T ss_pred             CCceEEEEEEEeC
Confidence            999997  77654

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

>PRK11899 prephenate dehydratase; Provisional	Back alignment and domain information

>PLN02317 arogenate dehydratase	Back alignment and domain information

>PRK11898 prephenate dehydratase; Provisional	Back alignment and domain information

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

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

>PRK06034 hypothetical protein; Provisional	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

>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

>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

>TIGR01807 CM_P2 chorismate mutase domain of proteobacterial P-protein, clade 2	Back alignment and domain information

>TIGR01801 CM_A chorismate mutase domain of gram positive AroA protein	Back alignment and domain information

>TIGR01805 CM_mono_grmpos monofunctional chorismate mutase, gram positive-type, clade 2	Back alignment and domain information

>TIGR01797 CM_P_1 chorismate mutase domain of proteobacterial P-protein, clade 1	Back alignment and domain information

>PRK07248 hypothetical protein; Provisional	Back alignment and domain information

>TIGR01803 CM-like chorismate mutase related enzymes	Back alignment and domain information

>PRK08818 prephenate dehydrogenase; Provisional	Back alignment and domain information

>PRK07857 hypothetical protein; Provisional	Back alignment and domain information

>TIGR01799 CM_T chorismate mutase domain of T-protein	Back alignment and domain information

>PRK06443 chorismate mutase; Validated	Back alignment and domain information

>TIGR01808 CM_M_hiGC-arch monofunctional chorismate mutase, high GC gram positive type	Back alignment and domain information

>TIGR01791 CM_archaeal chorismate mutase, archaeal type	Back alignment and domain information

>PRK07075 isochorismate-pyruvate lyase; Reviewed	Back alignment and domain information

>PRK06285 chorismate mutase; Provisional	Back alignment and domain information

>PRK11199 tyrA bifunctional chorismate mutase/prephenate dehydrogenase; Provisional	Back alignment and domain information

>COG1605 PheA Chorismate mutase [Amino acid transport and metabolism]	Back alignment and domain information

>PF01817 CM_2: Chorismate mutase type II; InterPro: IPR020822 Chorismate mutase, 5	Back alignment and domain information

>PRK12595 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed	Back alignment and domain information

>TIGR01269 Tyr_3_monoox tyrosine 3-monooxygenase, tetrameric	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

>TIGR01795 CM_mono_cladeE monofunctional chorismate mutase, alpha proteobacterial type	Back alignment and domain information

>PRK09239 chorismate mutase; Provisional	Back alignment and domain information

>smart00830 CM_2 Chorismate mutase type II	Back alignment and domain information

>TIGR01806 CM_mono2 chorismate mutase, putative	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

>PRK09269 chorismate mutase; Provisional	Back alignment and domain information

>PRK08055 chorismate mutase; Provisional	Back alignment and domain information

>KOG3820 consensus Aromatic amino acid hydroxylase [Amino acid transport and metabolism]	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

>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

>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

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

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

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

>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

>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

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

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

>PRK06737 acetolactate synthase 1 regulatory subunit; Validated	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

>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A	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

>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

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

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

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

>TIGR00119 acolac_sm acetolactate synthase, small subunit	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

>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

>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

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

>PRK08526 threonine dehydratase; Provisional	Back alignment and domain information

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

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

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

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

>PRK08198 threonine dehydratase; Provisional	Back alignment and domain information

>PRK08639 threonine dehydratase; Validated	Back alignment and domain information

>PRK06382 threonine dehydratase; Provisional	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

>PRK00194 hypothetical protein; Validated	Back alignment and domain information

>TIGR01127 ilvA_1Cterm threonine dehydratase, medium 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

>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

>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

>PRK04435 hypothetical protein; Provisional	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

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

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

>PRK08577 hypothetical protein; Provisional	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

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

>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB)	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

>TIGR00363 lipoprotein, YaeC family	Back alignment and domain information

>PRK06545 prephenate dehydrogenase; Validated	Back alignment and domain information

>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A	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

>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

>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

>PRK07334 threonine dehydratase; Provisional	Back alignment and domain information

>PRK09224 threonine dehydratase; Reviewed	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

>cd08411 PBP2_OxyR The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily	Back alignment and domain information

>cd04891 ACT_AK-LysC-DapG-like_1 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins	Back alignment and domain information

>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional	Back alignment and domain information

>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family	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

>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

>PLN02550 threonine dehydratase	Back alignment and domain information

>cd08435 PBP2_GbpR The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold	Back alignment and domain information

>PRK15007 putative ABC transporter arginine-biding protein; Provisional	Back alignment and domain information

>PRK12483 threonine dehydratase; Reviewed	Back alignment and domain information

>COG4492 PheB ACT domain-containing protein [General function prediction only]	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

>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional	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		339
2qmx_B		283	The Crystal Structure Of L-Phe Inhibited Prephenate		2e-43
3mwb_A		313	The Crystal Structure Of Prephenate Dehydratase In		5e-22
2qmw_A		267	The Crystal Structure Of The Prephenate Dehydratase		1e-13

>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 = 173 bits (438), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 105/250 (42%), Positives = 138/250 (55%), Gaps = 19/250 (7%) Query: 93 NDGTKVRISFKGLPGSFSEDAALKAYPKCETVPCDEFEDTFKAVELWLADKAVLPIENSS 152 N T I+++G PG++SE AAL+ E +PC+ F+D F AV AD AV+PIENS Sbjct: 2 NAXTNWLIAYQGEPGAYSEIAALRF---GEPLPCESFDDVFSAVTEQKADYAVIPIENSL 58 Query: 153 SGSIHRNYDLLLRHRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALAS-SDIVLT 211 GSIH+NYDLLLR + I+ E + CLL LPG + + SHPQAL + T Sbjct: 59 GGSIHQNYDLLLRRPVVILAETFVKVEHCLLGLPGASVETATKAXSHPQALVQCHNFFAT 118 Query: 212 QLGVARENVDDTASAAQYVASNGLRDXXXXXXXXXXEIYGLNILADRIQDEPDNITRFLV 271 + E DTA +A+ VA + + E+YGL+IL + + DE NITRF Sbjct: 119 HPQIRAEAAYDTAGSAKXVAESRDKSALAIASKRAGELYGLDILKENLADEEWNITRFFC 178 Query: 272 LARD-----------PIIPRTDKLFKTSIVFTLDEGPGVLFKALAVFALREINLTKIESR 320 +A + P + R KTSIVF L G LF+ALA FALR I+LTKIESR Sbjct: 179 IAHENNPDISHLKVRPDVARQ----KTSIVFALPNEQGSLFRALATFALRGIDLTKIESR 234 Query: 321 PQRKRPLRVV 330 P RK+ + Sbjct: 235 PSRKKAFEYL 244

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

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		339
2qmx_A		283	Prephenate dehydratase; APC86053, L-Phe inhibition	1e-114
2qmw_A		267	PDT, prephenate dehydratase; APC85812, prephenate	1e-99
3mwb_A		313	Prephenate dehydratase; L-Phe, PSI, MCSG, structur	2e-98
3luy_A		329	Probable chorismate mutase; structural genomics, A	3e-92
1phz_A		429	Protein (phenylalanine hydroxylase); aromatic amin	3e-19
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-05
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-05
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-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} Length = 283	Back alignment and structure

 Score =  332 bits (853), Expect = e-114
 Identities = 109/242 (45%), Positives = 143/242 (59%), Gaps = 11/242 (4%)

Query: 93  NDGTKVRISFKGLPGSFSEDAALKAYPKCETVPCDEFEDTFKAVELWLADKAVLPIENSS 152
           N  T   I+++G PG++SE AAL+     E +PC+ F+D F AV    AD AV+PIENS 
Sbjct: 2   NAMTNWLIAYQGEPGAYSEIAALRF---GEPLPCESFDDVFSAVTEQKADYAVIPIENSL 58

Query: 153 SGSIHRNYDLLLRHRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALA-SSDIVLT 211
            GSIH+NYDLLLR  + I+ E  +    CLL LPG   +   + +SHPQAL    +   T
Sbjct: 59  GGSIHQNYDLLLRRPVVILAETFVKVEHCLLGLPGASVETATKAMSHPQALVQCHNFFAT 118

Query: 212 QLGVARENVDDTASAAQYVASNGLRDAGAVASARAAEIYGLNILADRIQDEPDNITRFLV 271
              +  E   DTA +A+ VA +  + A A+AS RA E+YGL+IL + + DE  NITRF  
Sbjct: 119 HPQIRAEAAYDTAGSAKMVAESRDKSALAIASKRAGELYGLDILKENLADEEWNITRFFC 178

Query: 272 LARDPIIPRTDKLF-------KTSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRK 324
           +A +     +           KTSIVF L    G LF+ALA FALR I+LTKIESRP RK
Sbjct: 179 IAHENNPDISHLKVRPDVARQKTSIVFALPNEQGSLFRALATFALRGIDLTKIESRPSRK 238

Query: 325 RP 326
           + 
Sbjct: 239 KA 240

PyMOL of 2qmx

>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

>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

>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

>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

>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

>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
Query		339
2qmx_A		283	Prephenate dehydratase; APC86053, L-Phe inhibition	100.0
2qmw_A		267	PDT, prephenate dehydratase; APC85812, prephenate	100.0
3mwb_A		313	Prephenate dehydratase; L-Phe, PSI, MCSG, structur	100.0
3luy_A		329	Probable chorismate mutase; structural genomics, A	100.0
1phz_A		429	Protein (phenylalanine hydroxylase); aromatic amin	99.35
2d8d_A		90	Aroag, phospho-2-dehydro-3-deoxyheptonate aldolase	98.59
3nvt_A		385	3-deoxy-D-arabino-heptulosonate 7-phosphate synth;	98.29
1ecm_A		109	Endo-oxabicyclic transition state analogue; P-prot	98.18
3ret_A		101	Salicylate biosynthesis protein PCHB; intertwined	98.15
3rmi_A		114	Chorismate mutase protein; emerald biostructures,	98.06
2vkl_A		90	RV0948C/MT0975; helical, intracellular, chorismate	98.05
1ybz_A		91	Chorismate mutase; conserved hypothetical protein,	97.97
2gtv_X		104	CM, chorismate mutase; four-helix bundle, isomeras	97.86
2gbb_A		156	Putative chorismate mutase; alpha helical bundle,	97.67
2fp1_A		166	Chorismate mutase; alpha-helical, isomerase; 1.55A	97.57
2ko1_A		88	CTR148A, GTP pyrophosphokinase; homodimer, alpha+b	96.15
1zpv_A		91	ACT domain protein; structural genomics, PSI, prot	94.98
1wdn_A		226	GLNBP, glutamine binding protein; closed form, com	94.51
2f1f_A		164	Acetolactate synthase isozyme III small subunit; f	94.4
2pc6_A		165	Probable acetolactate synthase isozyme III (small;	93.72
2fgc_A		193	Acetolactate synthase, small subunit; regulatory s	93.48
1xt8_A		292	Putative amino-acid transporter periplasmic solut	92.98
3h7m_A		234	Sensor protein; histidine kinase sensor domain, ki	92.98
3kzg_A		237	Arginine 3RD transport system periplasmic binding	92.87
2f06_A		144	Conserved hypothetical protein; structural genomic	92.67
3mpk_A		267	Virulence sensor protein BVGS; venus flytrap, sens	92.38
3k4u_A		245	Binding component of ABC transporter; structural g	92.37
2f06_A		144	Conserved hypothetical protein; structural genomic	92.27
4f3p_A		249	Glutamine-binding periplasmic protein; ssgcid, str	91.86
1u8s_A		192	Glycine cleavage system transcriptional repressor,	90.43
3del_B		242	Arginine binding protein; alpha and beta protein (	90.29
3qax_A		268	Probable ABC transporter arginine-binding protein;	88.54
3i6v_A		232	Periplasmic His/Glu/Gln/Arg/opine family-binding;	88.48
4i62_A		269	Amino acid ABC transporter, periplasmic amino ACI	88.31
4dz1_A		259	DALS D-alanine transporter; D-alanine binding, per	88.04
2y7i_A		229	STM4351; arginine-binding protein; HET: ARG; 1.90A	88.04
3tql_A		227	Arginine-binding protein; transport and binding pr	87.31
3kbr_A		239	Cyclohexadienyl dehydratase; pseudomonas aeruginos	87.08
4h5g_A		243	Amino acid ABC superfamily ATP binding cassette tr	86.91
2yjp_A		291	Putative ABC transporter, periplasmic binding Pro	86.43
2pfz_A		301	Putative exported protein; extracytoplasmic solute	86.24
2vha_A		287	Periplasmic binding transport protein; periplasmic	85.34
2f5x_A		312	BUGD; periplasmic binding protein, transport prote	84.26
1lst_A		239	Lysine, arginine, ornithine-binding protein; amino	83.89
2pfy_A		301	Putative exported protein; extracytoplasmic solute	83.86
2pyy_A		228	Ionotropic glutamate receptor bacterial homologue;	83.78
2nyi_A		195	Unknown protein; protein structure initiative, PSI	83.71
3ksx_A		324	Nitrate transport protein; SSUA, alkanesulfonate-b	82.27
2yln_A		283	Putative ABC transporter, periplasmic binding Pro	81.43
3hv1_A		268	Polar amino acid ABC uptake transporter substrate	81.09
2vpn_A		316	Periplasmic substrate binding protein; ectoine, hy	80.99
2pvu_A		272	ARTJ; basic amino acid binding protein, ABC transp	80.95
2q88_A		257	EHUB, putative ABC transporter amino acid-binding	80.64

>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=6.5e-81  Score=593.77  Aligned_cols=234  Identities=46%  Similarity=0.676  Sum_probs=222.8

Q ss_pred             ceEEEEECCCCcHHHHHHHHhCCCCccccCCCHHHHHHHHHhCCCCeEEEeeeccCccchhhhHHHhhcCCeEEEEEEEE
Q 019548           97 KVRISFKGLPGSFSEDAALKAYPKCETVPCDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYDLLLRHRLHIVGEVQL  176 (339)
Q Consensus        97 ~~~VayLGP~GTfS~~AA~~~fg~~~~~~~~si~~Vf~aV~~g~ad~gVVPiENS~~G~V~~tlDlL~~~~l~I~gEi~l  176 (339)
                      +++||||||+|||||+||+++|   +++||+||+|||++|++|++||||||||||++|+|.+|||+|.+++++|+||+.+
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            4689999999999999999999   8999999999999999999999999999999999999999999999999999999


Q ss_pred             eeeeeeccCCCCCcCCccEEEecHHHHHHHHHHHHhc-CCeeEecCCHHHHHHHHHhcCCCCeEEecCHHHHHHcCCcee
Q 019548          177 AANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQL-GVARENVDDTASAAQYVASNGLRDAGAVASARAAEIYGLNIL  255 (339)
Q Consensus       177 ~I~h~Ll~~~g~~l~~I~~VySHpqal~QC~~~L~~~-~~~~i~~~STA~AA~~v~~~~~~~~AAIas~~AA~~ygL~il  255 (339)
                      ||+|||++++|.++++|++||||||||+||++||+++ +++.++++|||+||++++++++++.|||||+.||++|||+||
T Consensus        83 ~I~h~Ll~~~g~~l~~I~~V~SHpqal~QC~~~L~~~p~~~~~~~~sTA~AA~~va~~~~~~~AAIas~~AA~~ygL~il  162 (283)
T 2qmx_A           83 KVEHCLLGLPGASVETATKAMSHPQALVQCHNFFATHPQIRAEAAYDTAGSAKMVAESRDKSALAIASKRAGELYGLDIL  162 (283)
T ss_dssp             ECCCEEEECSSCCTTTCCEEEECHHHHHHTHHHHHHCTTSEEEECSCHHHHHHHHHHTTCTTEEEEECHHHHHHTTCEEE
T ss_pred             eeeeeEecCCCCChhhCCEEEEeHHHHHHHHHHHHHCCCceEEEcCCHHHHHHHHHhCCCCCeEEeCCHHHHHHcCCcee
Confidence            9999999999999999999999999999999999997 899999999999999999987788999999999999999999


Q ss_pred             eccccCCCCCeeeEEEEeeCCCC--------CCCCCCceEEEEEEecCCcchHHHHHHHHHhCCceeeeeeeeeCCCCCc
Q 019548          256 ADRIQDEPDNITRFLVLARDPII--------PRTDKLFKTSIVFTLDEGPGVLFKALAVFALREINLTKIESRPQRKRPL  327 (339)
Q Consensus       256 ~~~IeD~~~N~TRF~vi~~~~~~--------p~~~~~~Ktsi~~~~~~~pGaL~~iL~~Fa~~gINLtkIeSRP~~~~~w  327 (339)
                      +++|||.++|+|||+||++++..        +. .+.+||||+|+++|+||+|+++|++|+++|||||||||||+++++|
T Consensus       163 ~~~I~D~~~N~TRF~vl~~~~~~~~~~~~~~~~-~~~~ktsl~f~~~~~pGaL~~~L~~Fa~~gINLtkIESRP~~~~~~  241 (283)
T 2qmx_A          163 KENLADEEWNITRFFCIAHENNPDISHLKVRPD-VARQKTSIVFALPNEQGSLFRALATFALRGIDLTKIESRPSRKKAF  241 (283)
T ss_dssp             ESSCSSCCCCEEEEEEEEETTCCCCTTSSSCCE-EEEEEEEEEEEEECCTTHHHHHHHHHHTTTCCEEEEEEEECSSSTT
T ss_pred             cccCcCCCCCeeeEEEEecCccccccccccCCC-CCCceEEEEEEcCCCCchHHHHHHHHHHcCCCeeEEEeeEcCCCCc
Confidence            99999999999999999998754        22 2257999999999999999999999999999999999999999999


Q ss_pred             eE--EEecC
Q 019548          328 RV--VDDSN  334 (339)
Q Consensus       328 ~~--~~~~~  334 (339)
                      +|  |||+.
T Consensus       242 ~Y~FfvD~e  250 (283)
T 2qmx_A          242 EYLFYADFI  250 (283)
T ss_dssp             EEEEEEEEE
T ss_pred             ceEEEEEEe
Confidence            88  67765

PyMOL of 2qmx

>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

>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

>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

>2d8d_A Aroag, phospho-2-dehydro-3-deoxyheptonate aldolase/chori mutase; chorismate, dimer, structural genomics, NPPSFA; 1.15A {Thermus thermophilus} SCOP: a.130.1.1 PDB: 2d8e_A	Back alignment and structure

>3nvt_A 3-deoxy-D-arabino-heptulosonate 7-phosphate synth; bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismat listeria monocytogenes EGD-E; 1.95A {Listeria monocytogenes} PDB: 3tfc_A*	Back alignment and structure

>1ecm_A Endo-oxabicyclic transition state analogue; P-protein, chorismate mutase domain, chorismate mutase; HET: TSA; 2.20A {Escherichia coli} SCOP: a.130.1.1	Back alignment and structure

>3ret_A Salicylate biosynthesis protein PCHB; intertwined dimer, lyase, mutase; HET: SAL; 1.79A {Pseudomonas aeruginosa} SCOP: a.130.1.1 PDB: 2h9d_A 3rem_A* 3hgx_A* 3hgw_C 2h9c_A	Back alignment and structure

>3rmi_A Chorismate mutase protein; emerald biostructures, structural genomics, seattle structur genomics center for infectious disease, ssgcid; 2.40A {Bartonella henselae}	Back alignment and structure

>2vkl_A RV0948C/MT0975; helical, intracellular, chorismate mutase, isomerase; 1.65A {Mycobacterium tuberculosis} PDB: 2qbv_A 2w19_C 2w1a_C*	Back alignment and structure

>1ybz_A Chorismate mutase; conserved hypothetical protein, hyperthermophIle, structural genomics, PSI, protein structu initiative; 1.82A {Pyrococcus furiosus} SCOP: a.130.1.1	Back alignment and structure

>2gtv_X CM, chorismate mutase; four-helix bundle, isomerase; HET: TSA; NMR {Methanocaldococcus jannaschii} SCOP: a.130.1.3	Back alignment and structure

>2gbb_A Putative chorismate mutase; alpha helical bundle, isomerase; HET: CIT; 2.10A {Yersinia pestis biovar microtus str}	Back alignment and structure

>2fp1_A Chorismate mutase; alpha-helical, isomerase; 1.55A {Mycobacterium tuberculosis} SCOP: a.130.1.4 PDB: 2f6l_A 2fp2_A* 2ao2_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

>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

>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

>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

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

>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

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

>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

>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

>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

>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

>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

>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

>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

>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

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

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

>2pfz_A Putative exported protein; extracytoplasmic solute receptor, tripartite ATP independent periplasmic transport, pyroglutamic acid; 1.80A {Bordetella pertussis tohama I}	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

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

>2pfy_A Putative exported protein; extracytoplasmic solute receptor, tripartite ATP independent periplasmic transport, pyroglutamic acid; 1.95A {Bordetella pertussis tohama I}	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

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

>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

>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

>2vpn_A Periplasmic substrate binding protein; ectoine, hydroxyectoine, trap-transporter, periplasmic binding protein, transport; HET: 4CS; 1.55A {Halomonas elongata} PDB: 2vpo_A* 3gyy_A	Back alignment and structure

>2pvu_A ARTJ; basic amino acid binding protein, ABC transport system, THER bacterium, transport protein; HET: LYS; 1.79A {Geobacillus stearothermophilus} PDB: 2q2a_A* 2q2c_A*	Back alignment and structure

>2q88_A EHUB, putative ABC transporter amino acid-binding prote; substrate-binding protein, compatible solues, ABC-transporte osmoprotection; HET: 4CS; 1.90A {Sinorhizobium meliloti} PDB: 2q89_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		339
d2qmwa1		184	c.94.1.1 (A:1-184) Prephenate dehydratase {Staphyl	2e-46
d1phza1		97	d.58.18.3 (A:19-115) Phenylalanine hydroxylase N-t	1e-13
d2qmwa2		80	d.58.18.3 (A:185-264) Prephenate dehydratase C-ter	3e-10

>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 =  154 bits (389), Expect = 2e-46
 Identities = 48/184 (26%), Positives = 79/184 (42%), Gaps = 6/184 (3%)

Query: 99  RISFKGLPGSFSEDAALKAYPKCET--VPCDEFEDTFKAVELWLADKAVLPIENSSSGSI 156
           ++ + G  G+FS  A  + + + E    P     +  KAV        V+PIENS  G+I
Sbjct: 2   QLYYLGPKGTFSYLACRQYFSENEATFQPKSNLFEVIKAVADDDTSIGVVPIENSIEGTI 61

Query: 157 HRNYDLLLRHRLHIVGEVQLAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQLGVA 216
           +   D L +  +   GE++L  NF L          +K+V S   A++ +   + Q    
Sbjct: 62  NIVADALAQQDVFAHGEIRLDINFALYGNGTDSISDIKKVYSIAPAISQTTNYIHQHQFD 121

Query: 217 RENVDDTASAAQYVASNGLRDAGAVASARAAEIYGLNILADRIQDEPDNITRFLVLARDP 276
            + VD T  +   +         A+A   + E YG   +   I+D P N+TRFLV+    
Sbjct: 122 YDYVDSTIQSLTKIE----NGVAAIAPLGSGEAYGFTPIDTHIEDYPHNVTRFLVIKNQQ 177

Query: 277 IIPR 280
              +
Sbjct: 178 QFDQ 181

PyMOL of d2qmwa1

>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

>d2qmwa2 d.58.18.3 (A:185-264) Prephenate dehydratase C-terminal domain {Staphylococcus aureus [TaxId: 1280]} Length = 80	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		339
d2qmwa1		184	Prephenate dehydratase {Staphylococcus aureus [Tax	100.0
d1phza1		97	Phenylalanine hydroxylase N-terminal domain {Rat (	99.65
d2qmwa2		80	Prephenate dehydratase C-terminal domain {Staphylo	99.51
d2d8da1		80	Chorismate mutase domain of P-protein {Thermus the	98.28
d1ybza1		74	mono-domain chorismate mutase {Pyrococcus furiosus	98.03
d1ecma_		91	Chorismate mutase domain of P-protein {Escherichia	97.97
d2h9da1		94	Salicylate biosynthesis protein PchB {Pseudomonas	97.77
d2gtvx1		93	Chorismate mutase-like protein MJ0246 {Methanococc	97.39
d2f06a1		71	Hypothetical protein BT0572 {Bacteroides thetaiota	96.58
d2fp1a1		165	Secreted chorismate mutase {Mycobacterium tubercul	96.57
d2f06a2		70	Hypothetical protein BT0572 {Bacteroides thetaiota	96.11
d2f1fa1		76	Acetolactate synthase small subunit, IlvH {Escheri	95.59
d1y7pa2		77	Hypothetical protein AF1403, N-terminal domain {Ar	95.47
d2fgca2		78	Acetolactate synthase small subunit, IlvH {Thermot	95.32
d1ygya3		78	Phosphoglycerate dehydrogenase, regulatory (C-term	95.01
d2pc6a2		77	Acetolactate synthase small subunit, IlvH {Nitroso	94.83
d1xt8a1		248	Putative amino-acid transporter CjaA {Campylobacte	92.75
d1sc6a3		84	Phosphoglycerate dehydrogenase, regulatory (C-term	92.41
d1zpva1		83	UPF0237 protein SP0238 {Streptococcus pneumoniae [	92.27
d1u8sa2		93	putative transcriptional repressor VC2159 {Vibrio	92.12
d1wdna_		223	Glutamine-binding protein {Escherichia coli [TaxId	91.33
d1u8sa1		86	putative transcriptional repressor VC2159 {Vibrio	89.6

>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=7.5e-62  Score=434.66  Aligned_cols=177  Identities=27%  Similarity=0.371  Sum_probs=168.7

Q ss_pred             eEEEEECCCCcHHHHHHHHhCCC--CccccCCCHHHHHHHHHhCCCCeEEEeeeccCccchhhhHHHhhcCCeEEEEEEE
Q 019548           98 VRISFKGLPGSFSEDAALKAYPK--CETVPCDEFEDTFKAVELWLADKAVLPIENSSSGSIHRNYDLLLRHRLHIVGEVQ  175 (339)
Q Consensus        98 ~~VayLGP~GTfS~~AA~~~fg~--~~~~~~~si~~Vf~aV~~g~ad~gVVPiENS~~G~V~~tlDlL~~~~l~I~gEi~  175 (339)
                      |||+||||+|||||+||+++|++  .+++||.||+|||++|++|++||||||||||++|+|.+|||+|.+++++|+||+.
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            79999999999999999999985  5789999999999999999999999999999999999999999999999999999


Q ss_pred             EeeeeeeccCCCCCcCCccEEEecHHHHHHHHHHHHhcCCeeEecCCHHHHHHHHHhcCCCCeEEecCHHHHHHcCCcee
Q 019548          176 LAANFCLLALPGIKADQLKRVLSHPQALASSDIVLTQLGVARENVDDTASAAQYVASNGLRDAGAVASARAAEIYGLNIL  255 (339)
Q Consensus       176 l~I~h~Ll~~~g~~l~~I~~VySHpqal~QC~~~L~~~~~~~i~~~STA~AA~~v~~~~~~~~AAIas~~AA~~ygL~il  255 (339)
                      +||+|||+++++.++++|++||||||||+||++||+++.++.+.++||++||+.+.    ++.|||||+.||++|||+||
T Consensus        81 l~I~h~Ll~~~~~~l~~I~~V~SHpqal~QC~~~l~~~~~~~~~~~sta~aa~~~~----~~~aAIas~~aa~~ygL~il  156 (184)
T d2qmwa1          81 LDINFALYGNGTDSISDIKKVYSIAPAISQTTNYIHQHQFDYDYVDSTIQSLTKIE----NGVAAIAPLGSGEAYGFTPI  156 (184)
T ss_dssp             EECCEEEECCSSCCSTTCCEEEECHHHHHHSHHHHHHTTCEEEECSSHHHHHHTCB----TTEEEEEETTTSGGGTCCEE
T ss_pred             ccchhhhcccccccccccceEEEecchHHHHHHHHHhhccchhhhhhHHHHHhhhh----hhhhccccHhHHHHcCChhh
Confidence            99999999999889999999999999999999999999888899999999997653    46899999999999999999


Q ss_pred             eccccCCCCCeeeEEEEeeCCCC
Q 019548          256 ADRIQDEPDNITRFLVLARDPII  278 (339)
Q Consensus       256 ~~~IeD~~~N~TRF~vi~~~~~~  278 (339)
                      +++|||.++|+|||+||++++..
T Consensus       157 ~~~I~D~~~N~TRF~vi~~~~~~  179 (184)
T d2qmwa1         157 DTHIEDYPHNVTRFLVIKNQQQF  179 (184)
T ss_dssp             EECCCSCSCCEEEEEEEESCCCC
T ss_pred             hhCCCCCCCCeEeEEEEecCCcC
Confidence            99999999999999999998654

PyMOL of d2qmwa1

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

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

>d2d8da1 a.130.1.1 (A:3-82) Chorismate mutase domain of P-protein {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d1ybza1 a.130.1.1 (A:2-75) mono-domain chorismate mutase {Pyrococcus furiosus [TaxId: 2261]}	Back information, alignment and structure

>d1ecma_ a.130.1.1 (A:) Chorismate mutase domain of P-protein {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d2h9da1 a.130.1.1 (A:1-94) Salicylate biosynthesis protein PchB {Pseudomonas aeruginosa [TaxId: 287]}	Back information, alignment and structure

>d2gtvx1 a.130.1.3 (X:1-93) Chorismate mutase-like protein MJ0246 {Methanococcus jannaschii [TaxId: 2190]}	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

>d2fp1a1 a.130.1.4 (A:35-199) Secreted chorismate mutase {Mycobacterium tuberculosis [TaxId: 1773]}	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

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

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

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

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

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

>d1wdna_ c.94.1.1 (A:) Glutamine-binding protein {Escherichia coli [TaxId: 562]}	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