Citrus Sinensis ID: 020912

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

MSGIPEAIETARRFGMKIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSKYEELENFLANIRDGRFLRAKDMILKLNKLKLPLKWEHVAKIAGKGVAPGRLHVARAMVEAGHVENLKQAFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNPAAIIRKLKDVGLHGLEVYRSDGKLVAYTDLADTYGLLKLGGSDYHGRGGHGESELGSVKLPVLVLNDFLKVARPIWCGAIKEILESYADEPSDSNLSHITRYGRGKMLKRNYPLNCGKGLVDECLSLWLTNEERQSAEFEAIKLKLSHVSINQG

cccHHHHHHHHHHcccEEEEEEEEEEEEccccccccccEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHcccccccHHHHHHHHHHccccccHHHHHHHHHccccccEEccccccHHHHHHHHHHcccEEEEEccccccccHHHHHHHHHccccEEEEEcccccHHHHHHHHHHcccEEcccccccccccccccccccccccHHHHHHHHHcccccccccHHHHHHHHcccccccccHHHHHccccccccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHHHHcccccccc

cccHHHHHHHHHHcccEEEccEEEEEEEEccccccccEEEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHcccccccHHHHHHHHHHccccccHHHHHHHHHHcccccccccccccHHHHHHHHHHcccEEEEEccccccccHHHHHHHHHccccEEEEEccHHHHHHHHHHHHHccccccccccccccccccccEccccccccccccccHHcccccHHHHHHHHHHHHHcccccccHHHEEEcccccHccccccccccccHHHHHHHHHccccccccccHHEEEEEHHccEcccc

MSGIPEAIETARRFGmkiipgveISTIFCqrgseseepvHILAYysscgpskyEELENFLANIRDGRFLRAKDMILKLNKLKLPLKWEHVAKIagkgvapgRLHVARAMVEAGHVENLKQAFARYLydggpaystgsepLAEVAVQLIHRTGglavlahpwalknpAAIIRKLKDVGlhglevyrsdgklvaytDLADTYgllklggsdyhgrgghgeselgsvklpvlvLNDFLKVARPIWCGAIKEILEsyadepsdsnlshitrygrgkmlkrnyplncgkglVDECLSLWLTNEERQSAEFEAIKLKLSHVSINQG

MSGIPEAIETARRFGMKIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSKYEELENFLANIRDGRFLRAKDMILKLNKLKLPLKWEHVAKIAGKGVAPGRLHVARAMVEAGHVENLKQAFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNPAAIIRKLKDVGLHGLEVYRSDGKLVAYTDLADTYGLLKLGGSDYHGRGGHGESELGSVKLPVLVLNDFLKVARPIWCGAIKEILesyadepsdsnlSHITRYGRGKMLKRNYPLNCGKGLVDECLSLWLTNEERQSAEFEAIKLKLSHVSINQG

MSGIPEAIETARRFGMKIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSKYEELENFLANIRDGRFLRAKDMIlklnklklplkWEHVAKIAGKGVAPGRLHVARAMVEAGHVENLKQAFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNPAAIIRKLKDVGLHGLEVYRSDGKLVAYTDLADTYGLLKLggsdyhgrgghgESELGSVKLPVLVLNDFLKVARPIWCGAIKEILESYADEPSDSNLSHITRYGRGKMLKRNYPLNCGKGLVDECLSLWLTNEERQSAEFEAIKLKLSHVSINQG

*********TARRFGMKIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSKYEELENFLANIRDGRFLRAKDMILKLNKLKLPLKWEHVAKIAGKGVAPGRLHVARAMVEAGHVENLKQAFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNPAAIIRKLKDVGLHGLEVYRSDGKLVAYTDLADTYGLLKLGGSDYHGRGGHGESELGSVKLPVLVLNDFLKVARPIWCGAIKEILESYA*******LSHITRYGRGKMLKRNYPLNCGKGLVDECLSLWLTNE******FEAIK***********

MSGIPEAIETARRFGMKIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSKYEELENFLANIRDGRFLRAKDMILKLNKLKLPLKWEHVAKIAGKGVAPGRLHVARAMVEAGHVENLKQAFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNPAAIIRKLKDVGLHGLEVYRSDGKLVAYTDLADTYGLLKLGGSDYHGRGGHGESELGSVKLPVLVLNDFLKVARPIWCGAIKEILESYADEPS**NLSHITRYGRGKMLKRNYPLNCGKGLVDECLSLWLTNEER*SAEFEAIKLKLSHVSIN**

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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		320	2.2.26 [Sep-21-2011]
O54453		293	Protein TrpH OS=Salmonell	yes	no	0.625	0.682	0.310	2e-13
P44176		274	Protein TrpH OS=Haemophil	yes	no	0.625	0.729	0.302	1e-12
P77766		293	Protein TrpH OS=Escherich	N/A	no	0.621	0.679	0.3	3e-11

>sp\|O54453\|TRPH_SALTY Protein TrpH OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=trpH PE=3 SV=3	Back alignment and function desciption

 Score = 77.0 bits (188), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 68/219 (31%), Positives = 100/219 (45%), Gaps = 19/219 (8%)

Query: 2   SGIPEAIETARRFGM--KIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSKYEELENF 59
           + IP A E   R G+   +IPGVEIST++     E+ E +HI+          +  + +F
Sbjct: 53  AAIPAAREEISRSGLALNLIPGVEISTVW-----ENHE-IHIVGLNIDIA---HPAMRDF 103

Query: 60  LANIRDGRFLRAKDMILKLNKLKLPLKWEHVAKIAGKGVAPGRLHVARAMVEAGHVENLK 119
           LA   + R  R + +  +L K  +P  WE   ++A  G A  R H AR +VE G    + 
Sbjct: 104 LAQQTERRQARGRLIAERLEKAHIPGAWEGALRLANGG-AVTRGHFARFLVECGKAATMA 162

Query: 120 QAFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNPAAIIRKL----KD 175
             F +YL  G   Y        E A+ +IH +GG AVLAHP      A  +++L     D
Sbjct: 163 DVFKKYLARGKTGYVPPQWCTIEQAIDVIHHSGGKAVLAHPGRYDLSAKWLKRLVAHFAD 222

Query: 176 VGLHGLEV---YRSDGKLVAYTDLADTYGLLKLGGSDYH 211
                +EV    +S  +      LA  + L    GSD+H
Sbjct: 223 HHGDAMEVAQCQQSPNERTQLATLARQHHLWASLGSDFH 261

Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (taxid: 99287)

>sp\|P44176\|TRPH_HAEIN Protein TrpH OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=trpH PE=3 SV=1	Back alignment and function description

>sp\|P77766\|TRPH_ECOLI Protein TrpH OS=Escherichia coli (strain K12) GN=trpH PE=3 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		320
449438183		443	PREDICTED: protein TrpH-like [Cucumis sa	0.996	0.720	0.762	1e-144
224059026		408	predicted protein [Populus trichocarpa]	1.0	0.784	0.784	1e-139
359485749		341	PREDICTED: protein trpH-like [Vitis vini	0.993	0.932	0.783	1e-138
296085663		325	unnamed protein product [Vitis vinifera]	0.993	0.978	0.783	1e-138
356524846		458	PREDICTED: protein trpH-like [Glycine ma	1.0	0.698	0.753	1e-136
356512073		455	PREDICTED: protein trpH-like [Glycine ma	0.987	0.694	0.750	1e-132
297836026		434	PHP domain-containing protein [Arabidops	0.996	0.735	0.677	1e-129
18397349		434	Polymerase/histidinol phosphatase-like p	0.990	0.730	0.675	1e-129
15450377		433	At2g13860/F13J11.19 [Arabidopsis thalian	0.990	0.732	0.675	1e-129
226498434		416	protein trpH [Zea mays] gi\|195620186\|gb\|	0.981	0.754	0.590	1e-105

>gi\|449438183\|ref\|XP_004136869.1\| PREDICTED: protein TrpH-like [Cucumis sativus] gi\|449478899\|ref\|XP_004155448.1\| PREDICTED: protein TrpH-like [Cucumis sativus]	Back alignment and taxonomy information

 Score =  516 bits (1330), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 244/320 (76%), Positives = 283/320 (88%), Gaps = 1/320 (0%)

Query: 1   MSGIPEAIETARRFGMKIIPGVEISTIFCQRG-SESEEPVHILAYYSSCGPSKYEELENF 59
           MSGIPEA+E ARRFG+KIIPGVEISTIF   G SESEEPVHILAYYSSCGP+K E+LE F
Sbjct: 119 MSGIPEAVEAARRFGIKIIPGVEISTIFSNGGDSESEEPVHILAYYSSCGPAKIEKLEKF 178

Query: 60  LANIRDGRFLRAKDMILKLNKLKLPLKWEHVAKIAGKGVAPGRLHVARAMVEAGHVENLK 119
           L NIR+GRFLRAK+M+ KLN+LKLPLKW+HVAKI GKGVAPGRLHVARA+VEAG+VENLK
Sbjct: 179 LENIREGRFLRAKNMVSKLNELKLPLKWDHVAKITGKGVAPGRLHVARALVEAGYVENLK 238

Query: 120 QAFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNPAAIIRKLKDVGLH 179
           QAF+RYL+DGGPAYSTGSEP A  A+QLIH TGG+AVLAHPWALKNP A+IR+LKD GLH
Sbjct: 239 QAFSRYLFDGGPAYSTGSEPCAAEAIQLIHDTGGMAVLAHPWALKNPVAVIRRLKDAGLH 298

Query: 180 GLEVYRSDGKLVAYTDLADTYGLLKLGGSDYHGRGGHGESELGSVKLPVLVLNDFLKVAR 239
           GLEVYRSDG+L AY+DLAD YGLLKLGGSD+HGRGGH ESE+GSV LPVL ++DFLK AR
Sbjct: 299 GLEVYRSDGRLAAYSDLADNYGLLKLGGSDFHGRGGHSESEVGSVNLPVLAMHDFLKAAR 358

Query: 240 PIWCGAIKEILESYADEPSDSNLSHITRYGRGKMLKRNYPLNCGKGLVDECLSLWLTNEE 299
           P+WC AI++ILESY +EPS+SNL+ ITR+GR ++LK       G  L++ CL+LWLTNEE
Sbjct: 359 PVWCSAIRDILESYVEEPSESNLAKITRFGRTRVLKGGSSPGSGNDLIERCLTLWLTNEE 418

Query: 300 RQSAEFEAIKLKLSHVSINQ 319
           +Q+ EFEAI+LKLSH+SINQ
Sbjct: 419 KQNDEFEAIRLKLSHISINQ 438

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|224059026\|ref\|XP_002299681.1\| predicted protein [Populus trichocarpa] gi\|222846939\|gb\|EEE84486.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|359485749\|ref\|XP_002264419.2\| PREDICTED: protein trpH-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|296085663\|emb\|CBI29462.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|356524846\|ref\|XP_003531039.1\| PREDICTED: protein trpH-like [Glycine max]	Back alignment and taxonomy information

>gi\|356512073\|ref\|XP_003524745.1\| PREDICTED: protein trpH-like [Glycine max]	Back alignment and taxonomy information

>gi\|297836026\|ref\|XP_002885895.1\| PHP domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi\|297331735\|gb\|EFH62154.1\| PHP domain-containing protein [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|18397349\|ref\|NP_565360.1\| Polymerase/histidinol phosphatase-like protein [Arabidopsis thaliana] gi\|20197611\|gb\|AAD15431.2\| expressed protein [Arabidopsis thaliana] gi\|20197796\|gb\|AAM15252.1\| expressed protein [Arabidopsis thaliana] gi\|330251170\|gb\|AEC06264.1\| Polymerase/histidinol phosphatase-like protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|15450377\|gb\|AAK96482.1\| At2g13860/F13J11.19 [Arabidopsis thaliana] gi\|20466107\|gb\|AAM19975.1\| At2g13860/F13J11.19 [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|226498434\|ref\|NP_001148541.1\| protein trpH [Zea mays] gi\|195620186\|gb\|ACG31923.1\| protein trpH [Zea mays]	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		320
TAIR\|locus:2043738		434	AT2G13840 [Arabidopsis thalian	0.990	0.730	0.615	1.4e-105
UNIPROTKB\|Q3Z644		287	DET1610 "PHP domain N-terminal	0.746	0.832	0.311	9.4e-27
TIGR_CMR\|DET_1610		287	DET_1610 "PHP domain N-termina	0.746	0.832	0.311	9.4e-27
UNIPROTKB\|Q3A9Z4		278	CHY_2227 "PHP domain protein"	0.6	0.690	0.320	2.4e-21
TIGR_CMR\|CHY_2227		278	CHY_2227 "PHP domain protein"	0.6	0.690	0.320	2.4e-21
UNIPROTKB\|Q74D71		288	GSU1448 "Metal-dependent phosp	0.587	0.652	0.313	2.6e-13
TIGR_CMR\|GSU_1448		288	GSU_1448 "PHP domain protein"	0.587	0.652	0.313	2.6e-13
UNIPROTKB\|Q8ECV6		286	trpH "PHP family metal-depende	0.540	0.604	0.322	8.9e-13
TIGR_CMR\|SO_3017		286	SO_3017 "TrpH family protein"	0.540	0.604	0.322	8.9e-13
UNIPROTKB\|Q60BV5		277	MCA0359 "PHP domain protein" [	0.603	0.696	0.280	4.7e-09

TAIR\|locus:2043738 AT2G13840 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1045 (372.9 bits), Expect = 1.4e-105, P = 1.4e-105
 Identities = 195/317 (61%), Positives = 246/317 (77%)

Query:     1 MSGIPEAIETARRFGMKIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSKYEELENFL 60
             M+G+PEA+E  RRFG+KIIPG+EIST+F  R S SEEPVHILAYY + GP+ Y+ELE+FL
Sbjct:   107 MAGVPEAVEAGRRFGIKIIPGIEISTLFGLRDSGSEEPVHILAYYGTSGPALYDELEDFL 166

Query:    61 ANIRDGRFLRAKDMIXXXXXXXXXXXWEHVAKIAGKGVAPGRLHVARAMVEAGHVENLKQ 120
               IRDGRF+R ++M+           WEHV +IAGK VAPGR+HVARA++EAG+VENL+Q
Sbjct:   167 VKIRDGRFVRGREMVLKLNKLKIPLKWEHVTRIAGKDVAPGRMHVARALLEAGYVENLRQ 226

Query:   121 AFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNPAAIIRKLKDVGLHG 180
             AF +YL+DGGPAY+TG+EP+AE AV+LI +TGG+AVLAHPWALKN   IIR+LKD GLHG
Sbjct:   227 AFTKYLHDGGPAYATGTEPMAEEAVKLICKTGGVAVLAHPWALKNHVGIIRRLKDAGLHG 286

Query:   181 LEVYRSDGKLVAYTDLADTYGLLKLXXXXXXXXXXXXESELGSVKLPVLVLNDFLKVARP 240
             +EVYRSDGKL  +++LADTY LLKL            ESELGSV LPV  L DFL V RP
Sbjct:   287 VEVYRSDGKLEVFSELADTYNLLKLGGSDYHGKGGRNESELGSVNLPVTALQDFLNVGRP 346

Query:   241 IWCGAIKEILESYADEPSDSNLSHITRYGRGKMLKRNYPLNCGKGLVDECLSLWLTNEER 300
             IWC AIK  + ++ D+PSDSNLS+I R+ + ++LK N   +CGK L+D CL++WLT++ER
Sbjct:   347 IWCEAIKATMRAFLDQPSDSNLSNILRFDKARILKGNSAWSCGKELMDRCLAIWLTSDER 406

Query:   301 QSAEFEAIKLKLSHVSI 317
              S +FEA++LKLS V I
Sbjct:   407 NSNDFEALRLKLSFVPI 423

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0003824 "catalytic activity" evidence=IEA

GO:0003887 "DNA-directed DNA polymerase activity" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0006260 "DNA replication" evidence=IEA;ISS

UNIPROTKB\|Q3Z644 DET1610 "PHP domain N-terminal region family protein" [Dehalococcoides ethenogenes 195 (taxid:243164)]	Back alignment and assigned GO terms

TIGR_CMR\|DET_1610 DET_1610 "PHP domain N-terminal region family protein" [Dehalococcoides ethenogenes 195 (taxid:243164)]	Back alignment and assigned GO terms

UNIPROTKB\|Q3A9Z4 CHY_2227 "PHP domain protein" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]	Back alignment and assigned GO terms

TIGR_CMR\|CHY_2227 CHY_2227 "PHP domain protein" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]	Back alignment and assigned GO terms

UNIPROTKB\|Q74D71 GSU1448 "Metal-dependent phosphoesterase, PHP family" [Geobacter sulfurreducens PCA (taxid:243231)]	Back alignment and assigned GO terms

TIGR_CMR\|GSU_1448 GSU_1448 "PHP domain protein" [Geobacter sulfurreducens PCA (taxid:243231)]	Back alignment and assigned GO terms

UNIPROTKB\|Q8ECV6 trpH "PHP family metal-dependent phosphoesterases TrpH" [Shewanella oneidensis MR-1 (taxid:211586)]	Back alignment and assigned GO terms

TIGR_CMR\|SO_3017 SO_3017 "TrpH family protein" [Shewanella oneidensis MR-1 (taxid:211586)]	Back alignment and assigned GO terms

UNIPROTKB\|Q60BV5 MCA0359 "PHP domain protein" [Methylococcus capsulatus str. Bath (taxid:243233)]	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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	fgenesh4_pm.C_LG_I000518	hypothetical protein (408 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	CMS	SubName- Full=Putative chloroplast 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase; EC [...] (230 aa)	•	0.531
	fgenesh4_pg.C_scaffold_18770000001	Predicted protein (302 aa)	•	0.487
	eugene3.139720002	Predicted protein (128 aa)	•	0.455
	eugene3.00031274	aminoacyl-tRNA ligase (EC-6.1.1.2) (404 aa)	•	0.426

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		320
COG0613		258	COG0613, COG0613, Predicted metal-dependent phosph	9e-22
cd07438		155	cd07438, PHP_HisPPase_AMP, Polymerase and Histidin	4e-19
cd07438		155	cd07438, PHP_HisPPase_AMP, Polymerase and Histidin	2e-07

>gnl\|CDD\|223686 COG0613, COG0613, Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]	Back alignment and domain information

 Score = 92.2 bits (229), Expect = 9e-22
 Identities = 72/226 (31%), Positives = 97/226 (42%), Gaps = 17/226 (7%)

Query: 1   MSGIPEAIE-TARRFGMKIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSKYEELENF 59
           + G+ EA      R G+ +IPG+EIST      +     +HIL           E L   
Sbjct: 42  VRGLLEARRAAGLRLGITVIPGIEIST------TWGGHIIHILGLGI---DITDEPLVEG 92

Query: 60  LANIRDGRFLRAKDMILKLNKLKLPLKWEHVAKIAGKGVAPGRLHVARAMVEAGHVENLK 119
           LA  +  R  R +++  +L K  +P  +E   K+AG G    R H+AR  VE G+    +
Sbjct: 93  LARQQLYREERLEEIKERLGKAIIPHPFEGARKLAGLGAIT-RAHIARDAVEVGNASTRQ 151

Query: 120 QAFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNPA-AIIRKLKDVGL 178
             F +YL  G P Y       +E  V  IH  GG AVLAHP         ++    D G 
Sbjct: 152 GVFNKYLKRGAPKYVPPEWADSEAHVGAIHGAGGTAVLAHPGRYDLSLKRLVEAFADHGG 211

Query: 179 HGLEVYRSDGK---LVAYTDLADTYGLLKLGGSDYHGRGG--HGES 219
            G+EV               LA  +GLL   GSD+H  G    GES
Sbjct: 212 DGIEVIYGAISPNPREVLALLAKEFGLLASVGSDFHTPGDWIEGES 257

Length = 258

>gnl\|CDD\|213993 cd07438, PHP_HisPPase_AMP, Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound	Back alignment and domain information

>gnl\|CDD\|213993 cd07438, PHP_HisPPase_AMP, Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		320
COG0613		258	Predicted metal-dependent phosphoesterases (PHP fa	99.95
TIGR00375		374	conserved hypothetical protein TIGR00375. The memb	98.81
PRK09248		246	putative hydrolase; Validated	98.59
PRK00448		1437	polC DNA polymerase III PolC; Validated	98.46
PF13263		56	PHP_C: PHP-associated; PDB: 2Z4G_B 2YXO_B 2YZ5_A 3	97.43
PRK07328		269	histidinol-phosphatase; Provisional	96.94
PRK08392		215	hypothetical protein; Provisional	96.86
PRK07945		335	hypothetical protein; Provisional	96.8
TIGR01856		253	hisJ_fam histidinol phosphate phosphatase HisJ fam	96.69
PRK06361		212	hypothetical protein; Provisional	96.42
PRK05672		1046	dnaE2 error-prone DNA polymerase; Validated	96.32
COG1379		403	PHP family phosphoesterase with a Zn ribbon [Gener	96.28
PRK08123		270	histidinol-phosphatase; Reviewed	96.27
PRK00912		237	ribonuclease P protein component 3; Provisional	96.21
PRK06740		331	histidinol-phosphatase; Validated	96.17
PRK08609		570	hypothetical protein; Provisional	95.82
PRK05588		255	histidinol-phosphatase; Provisional	95.54
PRK07329		246	hypothetical protein; Provisional	95.37
smart00481		67	POLIIIAc DNA polymerase alpha chain like domain. D	94.84
COG1387		237	HIS2 Histidinol phosphatase and related hydrolases	94.68
PF02811		175	PHP: PHP domain; InterPro: IPR004013 The PHP (Poly	94.0
COG4464		254	CapC Capsular polysaccharide biosynthesis protein	92.72
PRK07135		973	dnaE DNA polymerase III DnaE; Validated	89.51
PF10566		273	Glyco_hydro_97: Glycoside hydrolase 97 ; InterPro:	85.12

>COG0613 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]	Back alignment and domain information

Probab=99.95  E-value=1.1e-26  Score=217.24  Aligned_cols=205  Identities=34%  Similarity=0.457  Sum_probs=184.8

Q ss_pred             CCCHHHHH-HHHhhcCCeEeeeeEEEeEeccCCCCCCccEEEEEeccCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 020912            1 MSGIPEAI-ETARRFGMKIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSKYEELENFLANIRDGRFLRAKDMILKLN   79 (320)
Q Consensus         1 ~~Gv~ea~-~~a~~~GI~vIpGVEIS~~~~~~~~~~g~~vHILGY~~d~~~~~~~~L~~~l~~~~~~R~~r~~~ii~~L~   79 (320)
                      +.|+.+|. ..+..+|+.+|||+|+||.|.      +..+|+++|++|.   ....+.+.+.+.+..|.+|++++.+++.
T Consensus        42 ~~g~~~a~~~~~~~l~i~vipG~Ei~t~~~------~~~ih~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~i~~~~~  112 (258)
T COG0613          42 VRGLLEARRAAGLRLGITVIPGIEISTTWG------GHIIHILGLGIDI---TDEPLVEGLARQQLYREERLEEIKERLG  112 (258)
T ss_pred             ccccHHHHHHhhcCCCceeeccEEeecccC------CeEEEEEeecccc---cchhhhhhhhhccccHHHHHHHHHHhCC
Confidence            36788886 777889999999999999996      7899999999975   3456889999999999999999999999


Q ss_pred             hCCCCCCHHHHHHHhCCCCCCCHHHHHHHHHHcCCCCCHHHHHHHhhcCCCCccccCCCCCHHHHHHHHHHcCCEEEecC
Q 020912           80 KLKLPLKWEHVAKIAGKGVAPGRLHVARAMVEAGHVENLKQAFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAH  159 (320)
Q Consensus        80 ~~G~~i~~eev~~~a~~~~~~gR~hiA~~Lv~~G~~~~~~~af~~~L~~g~p~yv~~~~~~~~e~I~~I~~aGGiaVlAH  159 (320)
                      ..+++-.++.+...++.+ .+.|.|+++.+|+.+++.+....|++|+..++++|++..+.+.++.|..++.+||++|+||
T Consensus       113 ~~~~~h~~~~~~~~~~~~-~~~~~h~~~~~ve~~~~~~~~~~fn~~~~~~~~~~~~~~~~~~~~~i~~~~ga~g~~v~ah  191 (258)
T COG0613         113 KAIIPHPFEGARKLAGLG-AITRAHIARDAVEVGNASTRQGVFNKYLKRGAPKYVPPEWADSEAHVGAIHGAGGTAVLAH  191 (258)
T ss_pred             ccccCcchHHHHhcCCcc-cchhhhhhhhhhccccccchHHHHHHHHhccCcccCcccccCHHHHHHHHhhceeEEEecc
Confidence            999999999998877644 4679999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCC-hHHHHHHHHHcCccEEEEecCcC---cHHHHHHHHHHcCCceeecCCCCCCCC
Q 020912          160 PWALKN-PAAIIRKLKDVGLHGLEVYRSDG---KLVAYTDLADTYGLLKLGGSDYHGRGG  215 (320)
Q Consensus       160 P~~~~~-~~~~i~~l~~~GldGIEv~~~~~---~~~~~~~lA~~~~L~~tgGSD~Hg~~~  215 (320)
                      |.++.. ...++..+.+.|.||||+++...   +...+..++++++++.|+|||||.++.
T Consensus       192 p~r~~~~~~~lv~~~~~~~~~~ie~~~~~~~~~~~~~~~~~~k~~~~l~s~gs~fh~~~~  251 (258)
T COG0613         192 PGRYDLSLKRLVEAFADHGGDGIEVIYGAISPNPREVLALLAKEFGLLASVGSDFHTPGD  251 (258)
T ss_pred             ccccccchhHHHHHHHhcCCCceEEecccCCcchHHHHHHHHHHhhhhhcccccccCCCc
Confidence            998764 25788899999999999998763   567888999999999999999999753

>TIGR00375 conserved hypothetical protein TIGR00375	Back alignment and domain information

>PRK09248 putative hydrolase; Validated	Back alignment and domain information

>PRK00448 polC DNA polymerase III PolC; Validated	Back alignment and domain information

>PF13263 PHP_C: PHP-associated; PDB: 2Z4G_B 2YXO_B 2YZ5_A 3DCP_B	Back alignment and domain information

>PRK07328 histidinol-phosphatase; Provisional	Back alignment and domain information

>PRK08392 hypothetical protein; Provisional	Back alignment and domain information

>PRK07945 hypothetical protein; Provisional	Back alignment and domain information

>TIGR01856 hisJ_fam histidinol phosphate phosphatase HisJ family	Back alignment and domain information

>PRK06361 hypothetical protein; Provisional	Back alignment and domain information

>PRK05672 dnaE2 error-prone DNA polymerase; Validated	Back alignment and domain information

>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]	Back alignment and domain information

>PRK08123 histidinol-phosphatase; Reviewed	Back alignment and domain information

>PRK00912 ribonuclease P protein component 3; Provisional	Back alignment and domain information

>PRK06740 histidinol-phosphatase; Validated	Back alignment and domain information

>PRK08609 hypothetical protein; Provisional	Back alignment and domain information

>PRK05588 histidinol-phosphatase; Provisional	Back alignment and domain information

>PRK07329 hypothetical protein; Provisional	Back alignment and domain information

>smart00481 POLIIIAc DNA polymerase alpha chain like domain	Back alignment and domain information

>COG1387 HIS2 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]	Back alignment and domain information

>PF02811 PHP: PHP domain; InterPro: IPR004013 The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain	Back alignment and domain information

>COG4464 CapC Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]	Back alignment and domain information

>PRK07135 dnaE DNA polymerase III DnaE; Validated	Back alignment and domain information

>PF10566 Glyco_hydro_97: Glycoside hydrolase 97 ; InterPro: IPR019563 O-Glycosyl hydrolases 3	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		320
2yb1_A		292	Structure Of An Amidohydrolase From Chromobacterium		1e-08
3e0f_A		301	Crystal Structure Of A Putative Metal-Dependent Pho		1e-06

>pdb|2YB1|A Chain A, Structure Of An Amidohydrolase From Chromobacterium Violaceum (Efi Target Efi-500202) With Bound Mn, Amp And Phosphate. Length = 292

Back alignment and structure

Iteration: 1

Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 50/175 (28%), Positives = 77/175 (44%), Gaps = 13/175 (7%) Query: 13 RFGMKIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSKYEELENFLANIRDGRFLRAK 72 R G+ + GVE+S S VHI+ P++ L L +IR+GR RA+ Sbjct: 54 RRGIPFLNGVEVSV------SWGRHTVHIVGL--GIDPAE-PALAAGLKSIREGRLERAR 104 Query: 73 DMIXXXXXXXXXXXWEHVAKIAGKGVAPGRLHVARAMVEAGHVENLKQAFARYLYDGGPA 132 M ++ + R H AR +V++G V++++ F +YL G P Sbjct: 105 QMGASLEAAGIAGCFDGAMRWCDNPEMISRTHFARHLVDSGAVKDMRTVFRKYLTPGKPG 164 Query: 133 YSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNPAAIIRKL----KDVGLHGLEV 183 Y + E AV I GG+AV+AHP +I +L + G G+EV Sbjct: 165 YVSHQWASLEDAVGWIVGAGGMAVIAHPGRYDMGRTLIERLILDFQAAGGQGIEV 219

PyMOL of 2yb1

>pdb|3E0F|A Chain A, Crystal Structure Of A Putative Metal-Dependent Phosphoesterase (Bad_1165) From Bifidobacterium Adolescentis Atcc 15703 At 2.40 A Resolution Length = 301

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		320
2yb1_A		292	Amidohydrolase; HET: AMP; 1.90A {Chromobacterium v	1e-72
3o0f_A		301	Putative metal-dependent phosphoesterase; structur	4e-68
2anu_A		255	Hypothetical protein TM0559; predicted metal-depen	2e-08

>2yb1_A Amidohydrolase; HET: AMP; 1.90A {Chromobacterium violaceum} PDB: 2yb4_A Length = 292	Back alignment and structure

 Score =  225 bits (575), Expect = 1e-72
 Identities = 72/267 (26%), Positives = 111/267 (41%), Gaps = 29/267 (10%)

Query: 1   MSGIPEAIETARRFGMKIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSKYEELENFL 60
             G+ EA   A R G+  + GVE+S  + +        VHI+             L   L
Sbjct: 42  TGGLAEAAAAAARRGIPFLNGVEVSVSWGRHT------VHIVGLGIDP---AEPALAAGL 92

Query: 61  ANIRDGRFLRAKDMILKLNKLKLPLKWEHVAKIAGKGVAPGRLHVARAMVEAGHVENLKQ 120
            +IR+GR  RA+ M   L    +   ++   +         R H AR +V++G V++++ 
Sbjct: 93  KSIREGRLERARQMGASLEAAGIAGCFDGAMRWCDNPEMISRTHFARHLVDSGAVKDMRT 152

Query: 121 AFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNPA----AIIRKLKDV 176
            F +YL  G P Y +      E AV  I   GG+AV+AHP            +I   +  
Sbjct: 153 VFRKYLTPGKPGYVSHQWASLEDAVGWIVGAGGMAVIAHPGRYDMGRTLIERLILDFQAA 212

Query: 177 GLHGLEVYRSD---GKLVAYTDLADTYGLLKLGGSDYHGRGGHGESELGSVKLPVLVLND 233
           G  G+EV         +  +   AD +GL    GSD+H   G G  ++G  +       D
Sbjct: 213 GGQGIEVASGSHSLDDMHKFALHADRHGLYASSGSDFHAP-GEGGRDVGHTE-------D 264

Query: 234 FLKVARPIWCGAIKEILESYADEPSDS 260
              + RPIW       LE+    P+D+
Sbjct: 265 LPPICRPIW-----RELEARILRPADA 286

PyMOL of 2yb1

>3o0f_A Putative metal-dependent phosphoesterase; structural genomics, joint center for structural genomics, J protein structure initiative; HET: AMP; 1.94A {Bifidobacterium adolescentis} PDB: 3e0f_A* Length = 301	Back alignment and structure

>2anu_A Hypothetical protein TM0559; predicted metal-dependent phosphoesterase (PHP famil structural genomics, joint center for structural genomics; 2.40A {Thermotoga maritima} SCOP: c.6.3.1 Length = 255	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		320
3o0f_A		301	Putative metal-dependent phosphoesterase; structur	100.0
2yb1_A		292	Amidohydrolase; HET: AMP; 1.90A {Chromobacterium v	100.0
3e38_A		343	Two-domain protein containing predicted PHP-like d	99.61
2yxo_A		267	Histidinol phosphatase; metal-dependent, hydrolase	99.22
2anu_A		255	Hypothetical protein TM0559; predicted metal-depen	99.16
1m65_A		245	Hypothetical protein YCDX; structural genomics, be	98.92
2wje_A		247	CPS4B, tyrosine-protein phosphatase CPSB; capsule	98.85
3qy7_A		262	Tyrosine-protein phosphatase YWQE; TIM barrel, pol	98.69
2w9m_A		578	Polymerase X; SAXS, DNA repair, DNA polymerase, DN	97.58
2hnh_A		910	DNA polymerase III alpha subunit; DNA replication,	97.34
3b0x_A		575	DNA polymerase beta family (X family); structural	96.78
2hpi_A		1220	DNA polymerase III alpha subunit; POL-beta-like nu	95.43
3dcp_A		283	Histidinol-phosphatase; HISK, histidine biosynthes	94.99
1v77_A		212	PH1877P, hypothetical protein PH1877; RNAse P prot	93.43
3f2b_A		1041	DNA-directed DNA polymerase III alpha chain; DNA p	81.38

>3o0f_A Putative metal-dependent phosphoesterase; structural genomics, joint center for structural genomics, J protein structure initiative; HET: AMP; 1.94A {Bifidobacterium adolescentis} PDB: 3e0f_A*	Back alignment and structure

Probab=100.00  E-value=2.2e-51  Score=389.88  Aligned_cols=225  Identities=28%  Similarity=0.438  Sum_probs=203.9

Q ss_pred             CCCHHHHHHHHhhcCCeEeeeeEEEeEeccCCCCCCccEEEEEeccCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 020912            1 MSGIPEAIETARRFGMKIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSKYEELENFLANIRDGRFLRAKDMILKLNK   80 (320)
Q Consensus         1 ~~Gv~ea~~~a~~~GI~vIpGVEIS~~~~~~~~~~g~~vHILGY~~d~~~~~~~~L~~~l~~~~~~R~~r~~~ii~~L~~   80 (320)
                      +.|+.++.+++++.||.+||||||||.|.      +.++|||||++|+   .++.|+++|+.+|+.|.+|+++|+++|++
T Consensus        53 ~~g~~~~~~~~~~~gi~~i~GvEis~~~~------~~~vHiL~~~~d~---~~~~l~~~l~~~~~~R~~R~~~i~~~L~~  123 (301)
T 3o0f_A           53 TAGWDEATEASEEIGLPLLLGTEITAVDE------DVSVHMLAFQYDP---SNEHISSMFANTRAARLRRTKRMVERLSQ  123 (301)
T ss_dssp             CTTHHHHHHHHHHHTCCEEEEEEEEEEET------TEEEEEEEESCCT---TCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHhcCCEEEEEEEEEEEeC------CceEEEEEEcCCC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            57899999999999999999999999996      6899999999985   57899999999999999999999999999


Q ss_pred             CCCCCCHHHHHHHhCCC--CCCCHHHHHHHHHHcCCCCCHHHHHHHhhcCCCCccccCCCCCHHHHHHHHHHcCCEEEec
Q 020912           81 LKLPLKWEHVAKIAGKG--VAPGRLHVARAMVEAGHVENLKQAFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLA  158 (320)
Q Consensus        81 ~G~~i~~eev~~~a~~~--~~~gR~hiA~~Lv~~G~~~~~~~af~~~L~~g~p~yv~~~~~~~~e~I~~I~~aGGiaVlA  158 (320)
                      . ++++||+|.+.++.+  ..+||||||++|+++||+++++++|++||++|+|+|||..+++++|+|++|+++||++|+|
T Consensus       124 ~-~~i~~e~v~~~a~~~~~~~igR~HiA~~Lv~~G~~~~~~~aF~~~l~~g~~~yV~~~~~~~~eaI~~I~~aGGvaVLA  202 (301)
T 3o0f_A          124 D-FPITWDDVLAQVKEGERTTIGRPHIADALVAAGVYETRSDAFADAVSAKSKYYIPTPSPSTHEVIAAVKGAGGVVVAA  202 (301)
T ss_dssp             H-SSCCHHHHHTTCTTGGGSCCCHHHHHHHHHHTTSCSSHHHHHTTTTSTTSTTCCCCCCCBHHHHHHHHHHTTCEEEEC
T ss_pred             H-CCCCHHHHHHHhcCCCCCCcCHHHHHHHHHHcCCCCCHHHHHHHHHcCCCccccCccCCCHHHHHHHHHHCCCEEEec
Confidence            9 999999998876532  3689999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCC-----ChHHHHHHHHHcCccEEEEecCcC---cHHHHHHHHHHcCCceeecCCCCCCCCCCCccccCccCCHHH
Q 020912          159 HPWALK-----NPAAIIRKLKDVGLHGLEVYRSDG---KLVAYTDLADTYGLLKLGGSDYHGRGGHGESELGSVKLPVLV  230 (320)
Q Consensus       159 HP~~~~-----~~~~~i~~l~~~GldGIEv~~~~~---~~~~~~~lA~~~~L~~tgGSD~Hg~~~~~~~~lG~~~~p~~~  230 (320)
                      ||+++.     ....++.+|++.|+|||||+|+.+   +.+.+.++|+++||++|||||||++++  +..+|.+.+|.+.
T Consensus       203 HP~r~~~~r~~~~~~~l~~l~~~GldgIEv~~~~~~~~~~~~~~~lA~~~gL~~tgGSD~Hg~~~--~~~lG~~~~~~~~  280 (301)
T 3o0f_A          203 HAGDPQRNRRLLSDEQLDAMIADGLDGLEVWHRGNPPEQRERLLTIAARHDLLVTGGSDWHGKGK--PNGLGENLTDDDT  280 (301)
T ss_dssp             STTCTTTCSSCCCHHHHHHHHHHTCCEEEEESTTSCHHHHHHHHHHHHHHTCEEEECCCBCGGGS--SCCTTSSCBCHHH
T ss_pred             ChhhhccccccCcHHHHHHHHHCCCCEEEEeCCCCCHHHHHHHHHHHHHcCCceEEEcCCCCCCC--CCcCCCcCCCHHH
Confidence            997652     246789999999999999999875   467889999999999999999999753  3689999999887


Q ss_pred             HHHHhcc
Q 020912          231 LNDFLKV  237 (320)
Q Consensus       231 ~~~~~~~  237 (320)
                      ++.|.+.
T Consensus       281 ~~~l~~~  287 (301)
T 3o0f_A          281 VREILCR  287 (301)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            7776653

PyMOL of 3o0f

>2yb1_A Amidohydrolase; HET: AMP; 1.90A {Chromobacterium violaceum} PDB: 2yb4_A	Back alignment and structure

>3e38_A Two-domain protein containing predicted PHP-like dependent phosphoesterase; structural genomics; 2.20A {Bacteroides vulgatus atcc 8482}	Back alignment and structure

>2yxo_A Histidinol phosphatase; metal-dependent, hydrolase; 1.60A {Thermus thermophilus} PDB: 2yz5_A 2z4g_A	Back alignment and structure

>2anu_A Hypothetical protein TM0559; predicted metal-dependent phosphoesterase (PHP famil structural genomics, joint center for structural genomics; 2.40A {Thermotoga maritima} SCOP: c.6.3.1	Back alignment and structure

>1m65_A Hypothetical protein YCDX; structural genomics, beta-alpha-barrel, metallo-enzyme, STRU function project, S2F, unknown function; 1.57A {Escherichia coli} SCOP: c.6.3.1 PDB: 1m68_A 1pb0_A	Back alignment and structure

>2wje_A CPS4B, tyrosine-protein phosphatase CPSB; capsule biogenesis/degradation, manganese, hydrolase, exopolysaccharide synthesis; 1.90A {Streptococcus pneumoniae} PDB: 2wjd_A 2wjf_A 3qy8_A	Back alignment and structure

>3qy7_A Tyrosine-protein phosphatase YWQE; TIM barrel, polymerase and histindinol phosphatase(PHP)-like phosphatase, hydrolase; 1.62A {Bacillus subtilis} PDB: 3qy6_A	Back alignment and structure

>2w9m_A Polymerase X; SAXS, DNA repair, DNA polymerase, DNA replication; 2.46A {Deinococcus radiodurans}	Back alignment and structure

>2hnh_A DNA polymerase III alpha subunit; DNA replication, nucleotidyltransferase, beta, PHP, transferase; HET: DNA; 2.30A {Escherichia coli} PDB: 2hqa_A*	Back alignment and structure

>3b0x_A DNA polymerase beta family (X family); structural genomics, riken structural genomics/proteomics in RSGI, polxc, PHP, DRP lyase; HET: DNA DGT; 1.36A {Thermus thermophilus} PDB: 3au2_A* 3au6_A* 3auo_A* 3b0y_A*	Back alignment and structure

>2hpi_A DNA polymerase III alpha subunit; POL-beta-like nucleotidyltransferase fold, transferase; HET: DNA; 3.00A {Thermus aquaticus} PDB: 2hpm_A* 3e0d_A*	Back alignment and structure

>3dcp_A Histidinol-phosphatase; HISK, histidine biosynthesis, NESG, LMR141, structural genomics, PSI-2, protein structure initiative; 2.10A {Listeria monocytogenes str}	Back alignment and structure

>1v77_A PH1877P, hypothetical protein PH1877; RNAse P protein, TIM-barrel, RNA binding protein; 1.80A {Pyrococcus horikoshii} SCOP: c.6.3.2 PDB: 2czv_A*	Back alignment and structure

>3f2b_A DNA-directed DNA polymerase III alpha chain; DNA polymerase C, DNA polymerase III; HET: DGT; 2.39A {Geobacillus kaustophilus} PDB: 3f2c_A* 3f2d_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		320
d2anua1		229	c.6.3.1 (A:5-233) Hypothetical protein TM0559 {The	2e-04

>d2anua1 c.6.3.1 (A:5-233) Hypothetical protein TM0559 {Thermotoga maritima [TaxId: 2336]} Length = 229	Back information, alignment and structure


class: Alpha and beta proteins (a/b)
fold: 7-stranded beta/alpha barrel
superfamily: PHP domain-like
family: PHP domain
domain: Hypothetical protein TM0559
species: Thermotoga maritima [TaxId: 2336]

 Score = 39.7 bits (91), Expect = 2e-04
 Identities = 16/123 (13%), Positives = 29/123 (23%), Gaps = 12/123 (9%)

Query: 102 RLHVARAMVEAGHVENLKQAFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPW 161
                  ++  G            +      Y   S P+ E+ V+ +     L + AHP 
Sbjct: 80  AWEEYGMILIPGVEITNNTDLYHIVAVDVKEYVDPSLPVEEI-VEKLKEQNALVIAAHPD 138

Query: 162 ALKNPAAIIRKLK-------DVGLHGLEVYRSDGKLVAYTDLADTYGLLKLGGSDYHGRG 214
             K     +                  E+   D       +         +  SD+H   
Sbjct: 139 RKKQDEEHLSWYLWANMERFKDTFDAWEIANRD----DLFNSVGVKKYRYVANSDFHELW 194

Query: 215 GHG 217
              
Sbjct: 195 HVY 197

PyMOL of d2anua1

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		320
d2anua1		229	Hypothetical protein TM0559 {Thermotoga maritima [	98.71
d1m65a_		244	Hypothetical protein YcdX {Escherichia coli [TaxId	96.83
d1v77a_		202	Ribonuclease P protein component 3, Rnp3 {Pyrococc	89.62
d1m65a_		244	Hypothetical protein YcdX {Escherichia coli [TaxId	80.33

>d2anua1 c.6.3.1 (A:5-233) Hypothetical protein TM0559 {Thermotoga maritima [TaxId: 2336]}	Back information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: 7-stranded beta/alpha barrel
superfamily: PHP domain-like
family: PHP domain
domain: Hypothetical protein TM0559
species: Thermotoga maritima [TaxId: 2336]

Probab=98.71  E-value=5.8e-09  Score=89.63  Aligned_cols=87  Identities=17%  Similarity=0.094  Sum_probs=61.7

Q ss_pred             CCCccccCCCCCHHHHHHHHHHcCCEEEecCCCCCCCh-------HHHHHHHHHcCccEEEEecCcCcHHHHHHHHHHcC
Q 020912          129 GGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNP-------AAIIRKLKDVGLHGLEVYRSDGKLVAYTDLADTYG  201 (320)
Q Consensus       129 g~p~yv~~~~~~~~e~I~~I~~aGGiaVlAHP~~~~~~-------~~~i~~l~~~GldGIEv~~~~~~~~~~~~lA~~~~  201 (320)
                      +.+.|++ ...+..++++.+++.||++|+|||++....       .....+.....++|+|++++..    +.++|++++
T Consensus       107 ~~~~~~~-~~~~~~~~~~~~~~~g~~~i~aHp~~~~~~~~~~~~~~~~~~~~~~~~~~~iE~~~~~~----~~~~~~~~~  181 (229)
T d2anua1         107 DVKEYVD-PSLPVEEIVEKLKEQNALVIAAHPDRKKQDEEHLSWYLWANMERFKDTFDAWEIANRDD----LFNSVGVKK  181 (229)
T ss_dssp             SCCSCCC-TTSCHHHHHHHHHHTTCEEEECCCCTTC-----CCCHHHHSTTTTTTTCSEEEEEETTE----ECHHHHHTT
T ss_pred             CCccccC-cccchHHHHHHHHhCCCeEEcccccccccchhhhhhhhHhHHHHHhccCcEEEeccHHH----HHHHHHHcC
Confidence            3344443 456789999999999999999999864321       0111112234699999998753    347788999


Q ss_pred             CceeecCCCCCCCCCCCccccCcc
Q 020912          202 LLKLGGSDYHGRGGHGESELGSVK  225 (320)
Q Consensus       202 L~~tgGSD~Hg~~~~~~~~lG~~~  225 (320)
                      +.+++|||+|.+.     .+|...
T Consensus       182 l~~v~~SDaH~~~-----~~G~~~  200 (229)
T d2anua1         182 YRYVANSDFHELW-----HVYSWK  200 (229)
T ss_dssp             CCEEEECCBCSGG-----GGSSEE
T ss_pred             CCEEeeCCCCCcc-----ccCCeE
Confidence            9999999999863     577653

PyMOL of d2anua1

>d1m65a_ c.6.3.1 (A:) Hypothetical protein YcdX {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1v77a_ c.6.3.2 (A:) Ribonuclease P protein component 3, Rnp3 {Pyrococcus horikoshii [TaxId: 53953]}	Back information, alignment and structure

>d1m65a_ c.6.3.1 (A:) Hypothetical protein YcdX {Escherichia coli [TaxId: 562]}	Back information, alignment and structure