Citrus Sinensis ID: 020472

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------
MESLSLAASSLCTSRGGPMERHCYPGSVSLVGFSSPRLKTPSFPKSLKKRSFGLVRASAAVETKVAIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIGIACRSNDEKMVPFTTHSQASILNTFNCSGKLCYKLHFGFLNLVELRRIIAACLMAGH
ccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccEEEEEEcccHHHHHHHHHHHHHHHHHcccccccccEEEEEEEEcccccccccccccccccccHHHHHHHHHcccccEEEEccccccccccccccccccccccccccEEEEcccccccccccccEEEccHHHHHHHHHHHcccccccccccccHHHHHHHHcccccHHHHHHHHHHHccccccccccccccccccccccccEEEEEEEcccHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHccccccccEEccc
ccHHHHHHHHHHccccccccEEcccccEEccccccccccccHHHHHHcccEEEEEEccccEcccccEEEEEccccHHHHHHHHHHHHHHHHHcccccccEEEEEEEEEEcccEEEcccHHHcccccHHHHHHHHHHHcccccEEEEcccccccccccccEEEEEcccccccHEEEccccccHHHcccccEEccHHHHHHHHHHHHcccHHHHHHHcccccHHHHHHccccccHHHHHHHHHHHcccHHHHHHcccHHHccccccccEEEEEEcccHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccEEHEEEEHcccEccc
MESLSLAASSlctsrggpmerhcypgsvslvgfssprlktpsfpkslkkrsFGLVRASAAVETKVAIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTgdkilsqpladiggkglfTKEIDEALINSQIDIAVHsmkdvptylpektilpcnlqreDVRDAFISLSAASlaelpagsivgtaSLRRKSqilhrypslkvMENFRGNVQTRLRKLNERVVQATLLALAGlkrlsmtenvtnilsvddmlpaVAQGAIGiacrsndekmvpfttHSQASILNTfncsgklcyklhFGFLNLVELRRIIAACLMAGH
MESLSLAASSLCTSRGGPMERHCYPGSVSLVGFSSPRLKTpsfpkslkkrsfGLVRASAAVETKVAIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAAslaelpagsivgtaslrrKSQILhrypslkvmeNFRGNVQTRLRKLNERVVQATLLAlaglkrlsmtENVTNILSVDDMLPAVAQGAIGIACRSNDEKMVPFTTHSQASILNTFNCSGKLCYKLHFGFLNLVELRRIIAACLMAGH
MEslslaasslCTSRGGPMERHCYPGSVSLVGFSSPRLKTPSFPKSLKKRSFGLVRASAAVETKVAIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFIslsaaslaelPAGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIGIACRSNDEKMVPFTTHSQASILNTFNCSGKLCYKLHFGFLNLVELRRIIAACLMAGH
***********************Y***V*LV*******************SFGLVRASAAVETKVAIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIGIACRSNDEKMVPFTTHSQASILNTFNCSGKLCYKLHFGFLNLVELRRIIAACLM***
********************************************************************RIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIGIACRSNDEKMVPFTTHSQASILNTFNCSGKLCYKLHFGFLNLVELRRIIAACLMA**
****************GPMERHCYPGSVSLVGFSSPRLKTPSFPKSLKKRSFGLVRASAAVETKVAIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIGIACRSNDEKMVPFTTHSQASILNTFNCSGKLCYKLHFGFLNLVELRRIIAACLMAGH
******************MERHCYPGSVSLVGFSSPRLKTPSFPKSLKKRSFGLVRASAAVETKVAIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIGIACRSNDEKMVPFTTHSQASILNTFNCSGKLCYKLHFGFLNLVELRRIIAAC*****
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MESLSLAASSLCTSRGGPMERHCYPGSVSLVGFSSPRLKTPSFPKSLKKRSFGLVRASAAVETKVAIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIGIACRSNDEKMVPFTTHSQASILNTFNCSGKLCYKLHFGFLNLVELRRIIAACLMAGH
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 ?
Query326 2.2.26 [Sep-21-2011]
Q43082369 Porphobilinogen deaminase N/A no 0.699 0.617 0.849 1e-110
Q43316382 Porphobilinogen deaminase yes no 0.858 0.732 0.727 1e-110
Q6H6D2358 Porphobilinogen deaminase yes no 0.668 0.608 0.789 2e-96
Q3SVF3316 Porphobilinogen deaminase yes no 0.644 0.664 0.586 3e-61
Q1QQP5316 Porphobilinogen deaminase yes no 0.644 0.664 0.600 7e-61
A1B853313 Porphobilinogen deaminase yes no 0.638 0.664 0.587 2e-60
Q3A009315 Porphobilinogen deaminase yes no 0.631 0.653 0.526 8e-57
Q98EI7308 Porphobilinogen deaminase yes no 0.644 0.681 0.541 4e-55
Q747I1318 Porphobilinogen deaminase yes no 0.650 0.666 0.511 1e-53
B5ERN6306 Porphobilinogen deaminase yes no 0.631 0.673 0.507 1e-53
>sp|Q43082|HEM3_PEA Porphobilinogen deaminase, chloroplastic OS=Pisum sativum GN=HEMC PE=1 SV=1 Back     alignment and function desciption
 Score =  399 bits (1024), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 198/233 (84%), Positives = 214/233 (91%), Gaps = 5/233 (2%)

Query: 55  VRASAAVE-----TKVAIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKT 109
           +RAS AVE      K A+IRIGTRGSPLALAQAHETR+KLMA H ELA+EGAIQIVIIKT
Sbjct: 44  IRASLAVEQQTQQNKTALIRIGTRGSPLALAQAHETRDKLMASHTELAEEGAIQIVIIKT 103

Query: 110 TGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQRED 169
           TGDKILSQPLADIGGKGLFTKEIDEALIN  IDIAVHSMKDVPTYLPE+TILPCNL RED
Sbjct: 104 TGDKILSQPLADIGGKGLFTKEIDEALINGDIDIAVHSMKDVPTYLPEETILPCNLPRED 163

Query: 170 VRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNER 229
           VRDAFISLSAASLA+LPAGS++GTASLRRKSQILHRYPSL V +NFRGNVQTRLRKL+E 
Sbjct: 164 VRDAFISLSAASLADLPAGSVIGTASLRRKSQILHRYPSLTVQDNFRGNVQTRLRKLSEG 223

Query: 230 VVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIGIACRSNDEKMVPF 282
           VV+ATLLALAGLKRL+MTENVT+ LS+DDMLPAVAQGAIGIACRSND+KM  +
Sbjct: 224 VVKATLLALAGLKRLNMTENVTSTLSIDDMLPAVAQGAIGIACRSNDDKMAEY 276
Tetrapolymerization of the monopyrrole PBG into the hydroxymethylbilane pre-uroporphyrinogen in several discrete steps.
Pisum sativum (taxid: 3888)
EC: 2EC: .EC: 5EC: .EC: 1EC: .EC: 6EC: 1
>sp|Q43316|HEM3_ARATH Porphobilinogen deaminase, chloroplastic OS=Arabidopsis thaliana GN=HEMC PE=1 SV=1 Back     alignment and function description
>sp|Q6H6D2|HEM3_ORYSJ Porphobilinogen deaminase, chloroplastic OS=Oryza sativa subsp. japonica GN=HEMC PE=2 SV=1 Back     alignment and function description
>sp|Q3SVF3|HEM3_NITWN Porphobilinogen deaminase OS=Nitrobacter winogradskyi (strain Nb-255 / ATCC 25391) GN=hemC PE=3 SV=1 Back     alignment and function description
>sp|Q1QQP5|HEM3_NITHX Porphobilinogen deaminase OS=Nitrobacter hamburgensis (strain X14 / DSM 10229) GN=hemC PE=3 SV=1 Back     alignment and function description
>sp|A1B853|HEM3_PARDP Porphobilinogen deaminase OS=Paracoccus denitrificans (strain Pd 1222) GN=hemC PE=3 SV=1 Back     alignment and function description
>sp|Q3A009|HEM3_PELCD Porphobilinogen deaminase OS=Pelobacter carbinolicus (strain DSM 2380 / Gra Bd 1) GN=hemC PE=3 SV=1 Back     alignment and function description
>sp|Q98EI7|HEM3_RHILO Porphobilinogen deaminase OS=Rhizobium loti (strain MAFF303099) GN=hemC PE=3 SV=1 Back     alignment and function description
>sp|Q747I1|HEM3_GEOSL Porphobilinogen deaminase OS=Geobacter sulfurreducens (strain ATCC 51573 / DSM 12127 / PCA) GN=hemC PE=3 SV=1 Back     alignment and function description
>sp|B5ERN6|HEM3_ACIF5 Porphobilinogen deaminase OS=Acidithiobacillus ferrooxidans (strain ATCC 53993) GN=hemC 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 ?
Query326
255558669372 porphobilinogen deaminase, putative [Ric 0.776 0.680 0.812 1e-116
224094087363 predicted protein [Populus trichocarpa] 0.782 0.702 0.818 1e-116
224081346363 predicted protein [Populus trichocarpa] 0.782 0.702 0.788 1e-111
363807442350 uncharacterized protein LOC100812733 [Gl 0.745 0.694 0.811 1e-111
356538495350 PREDICTED: porphobilinogen deaminase, ch 0.745 0.694 0.803 1e-110
449464030375 PREDICTED: porphobilinogen deaminase, ch 0.812 0.706 0.792 1e-110
359807499356 uncharacterized protein LOC100779132 [Gl 0.785 0.719 0.791 1e-110
255634492350 unknown [Glycine max] 0.745 0.694 0.8 1e-110
357474093369 Porphobilinogen deaminase [Medicago trun 0.699 0.617 0.858 1e-109
297810933382 hypothetical protein ARALYDRAFT_908776 [ 0.858 0.732 0.731 1e-109
>gi|255558669|ref|XP_002520359.1| porphobilinogen deaminase, putative [Ricinus communis] gi|223540457|gb|EEF42025.1| porphobilinogen deaminase, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  423 bits (1088), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 212/261 (81%), Positives = 236/261 (90%), Gaps = 8/261 (3%)

Query: 27  SVSLVGFSSPRLKTPSFPKSLKKRSFGLVRASAAVET-----KVAIIRIGTRGSPLALAQ 81
           SVS++G S P+ K+P+    +KK+S  + RAS AVE      KVA+IRIGTRGSPLALAQ
Sbjct: 22  SVSVLGSSLPQFKSPN---CIKKQSLRITRASVAVEQQTQDPKVALIRIGTRGSPLALAQ 78

Query: 82  AHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQI 141
           AHETR+KLMA H ELA+EGAIQIVIIKTTGDKIL+QPLADIGGKGLFTKEIDEALIN +I
Sbjct: 79  AHETRDKLMAKHSELAEEGAIQIVIIKTTGDKILTQPLADIGGKGLFTKEIDEALINGEI 138

Query: 142 DIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQ 201
           DIAVHSMKDVPTYLPEKTILPCNL REDVRDAFISLSA+SLAELP+GS++GTASLRRKSQ
Sbjct: 139 DIAVHSMKDVPTYLPEKTILPCNLPREDVRDAFISLSASSLAELPSGSVIGTASLRRKSQ 198

Query: 202 ILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLP 261
           ILHRYPSL V+ENFRGNVQTRLRKLNE VVQATLLALAGLKRL+MTENVT++LS+DDMLP
Sbjct: 199 ILHRYPSLSVLENFRGNVQTRLRKLNEGVVQATLLALAGLKRLNMTENVTSVLSIDDMLP 258

Query: 262 AVAQGAIGIACRSNDEKMVPF 282
           AVAQGAIGIACRSND+KM  +
Sbjct: 259 AVAQGAIGIACRSNDDKMANY 279

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224094087|ref|XP_002310073.1| predicted protein [Populus trichocarpa] gi|222852976|gb|EEE90523.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224081346|ref|XP_002306378.1| predicted protein [Populus trichocarpa] gi|222855827|gb|EEE93374.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|363807442|ref|NP_001242644.1| uncharacterized protein LOC100812733 [Glycine max] gi|255635113|gb|ACU17914.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|356538495|ref|XP_003537739.1| PREDICTED: porphobilinogen deaminase, chloroplastic-like [Glycine max] Back     alignment and taxonomy information
>gi|449464030|ref|XP_004149732.1| PREDICTED: porphobilinogen deaminase, chloroplastic-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|359807499|ref|NP_001240888.1| uncharacterized protein LOC100779132 [Glycine max] gi|255640018|gb|ACU20300.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|255634492|gb|ACU17610.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|357474093|ref|XP_003607331.1| Porphobilinogen deaminase [Medicago truncatula] gi|355508386|gb|AES89528.1| Porphobilinogen deaminase [Medicago truncatula] Back     alignment and taxonomy information
>gi|297810933|ref|XP_002873350.1| hypothetical protein ARALYDRAFT_908776 [Arabidopsis lyrata subsp. lyrata] gi|297319187|gb|EFH49609.1| hypothetical protein ARALYDRAFT_908776 [Arabidopsis lyrata subsp. lyrata] 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 ?
Query326
TAIR|locus:2150758382 HEMC "hydroxymethylbilane synt 0.797 0.680 0.737 8.7e-95
TIGR_CMR|SPO_3649319 SPO_3649 "porphobilinogen deam 0.680 0.695 0.532 3.4e-54
UNIPROTKB|P06983313 hemC [Escherichia coli K-12 (t 0.634 0.661 0.495 2.3e-46
TIGR_CMR|ECH_0701298 ECH_0701 "porphobilinogen deam 0.711 0.778 0.418 6.8e-40
TIGR_CMR|CHY_1208311 CHY_1208 "porphobilinogen deam 0.619 0.649 0.458 2.3e-39
TIGR_CMR|BA_4696309 BA_4696 "porphobilinogen deami 0.720 0.760 0.409 4.3e-38
TIGR_CMR|APH_0746304 APH_0746 "porphobilinogen deam 0.647 0.694 0.425 7e-38
ZFIN|ZDB-GENE-040426-1375358 hmbsa "hydroxymethylbilane syn 0.674 0.614 0.385 1.7e-36
CGD|CAL0000854340 HEM3 [Candida albicans (taxid: 0.628 0.602 0.414 1.2e-35
UNIPROTKB|O94048340 HEM3 "Porphobilinogen deaminas 0.628 0.602 0.414 1.2e-35
TAIR|locus:2150758 HEMC "hydroxymethylbilane synthase" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 943 (337.0 bits), Expect = 8.7e-95, P = 8.7e-95
 Identities = 194/263 (73%), Positives = 216/263 (82%)

Query:    23 CYPGSVSLVGFSSPRLKTPSFPKSLKKRSF-GLVRASAAVE--TKVAIIRIGTRGSPLAL 79
             C  GSVS +GFS P++ +P+  K  +K+S  G V+A  AVE  T+ AIIRIGTRGSPLAL
Sbjct:    27 CSLGSVSAIGFSLPQISSPALGKCRRKQSSSGFVKACVAVEQKTRTAIIRIGTRGSPLAL 86

Query:    80 AQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINS 139
             AQA+ETR KL   HPEL ++GAI I IIKTTGDKILSQPLADIGGKGLFTKEIDEALIN 
Sbjct:    87 AQAYETREKLKKKHPELVEDGAIHIEIIKTTGDKILSQPLADIGGKGLFTKEIDEALING 146

Query:   140 QIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFIXXXXXXXXXXPAGSIVGTASLRRK 199
              IDIAVHSMKDVPTYLPEKTILPCNL REDVRDAFI          PAGS+VGTASLRRK
Sbjct:   147 HIDIAVHSMKDVPTYLPEKTILPCNLPREDVRDAFICLTAATLAELPAGSVVGTASLRRK 206

Query:   200 SQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDM 259
             SQILH+YP+L V ENFRGNVQTRL KL    VQATLLALAGLKRLSMTENV +ILS+D+M
Sbjct:   207 SQILHKYPALHVEENFRGNVQTRLSKLQGGKVQATLLALAGLKRLSMTENVASILSLDEM 266

Query:   260 LPAVAQGAIGIACRSNDEKMVPF 282
             LPAVAQGAIGIACR++D+KM  +
Sbjct:   267 LPAVAQGAIGIACRTDDDKMATY 289
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0018160 "peptidyl-pyrromethane cofactor linkage" evidence=IEA
GO:0033014 "tetrapyrrole biosynthetic process" evidence=IEA
GO:0009941 "chloroplast envelope" evidence=IDA
GO:0009570 "chloroplast stroma" evidence=IDA
GO:0042742 "defense response to bacterium" evidence=IEP;RCA
GO:0048046 "apoplast" evidence=IDA
GO:0006098 "pentose-phosphate shunt" evidence=RCA
GO:0006364 "rRNA processing" evidence=RCA
GO:0006744 "ubiquinone biosynthetic process" evidence=RCA
GO:0009073 "aromatic amino acid family biosynthetic process" evidence=RCA
GO:0009409 "response to cold" evidence=RCA
GO:0009697 "salicylic acid biosynthetic process" evidence=RCA
GO:0009814 "defense response, incompatible interaction" evidence=RCA
GO:0009965 "leaf morphogenesis" evidence=RCA
GO:0015995 "chlorophyll biosynthetic process" evidence=RCA;TAS
GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA
GO:0019344 "cysteine biosynthetic process" evidence=RCA
GO:0019684 "photosynthesis, light reaction" evidence=RCA
GO:0030154 "cell differentiation" evidence=RCA
GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA
GO:0004418 "hydroxymethylbilane synthase activity" evidence=IDA;IMP
GO:0006779 "porphyrin-containing compound biosynthetic process" evidence=TAS
TIGR_CMR|SPO_3649 SPO_3649 "porphobilinogen deaminase" [Ruegeria pomeroyi DSS-3 (taxid:246200)] Back     alignment and assigned GO terms
UNIPROTKB|P06983 hemC [Escherichia coli K-12 (taxid:83333)] Back     alignment and assigned GO terms
TIGR_CMR|ECH_0701 ECH_0701 "porphobilinogen deaminase" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)] Back     alignment and assigned GO terms
TIGR_CMR|CHY_1208 CHY_1208 "porphobilinogen deaminase" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
TIGR_CMR|BA_4696 BA_4696 "porphobilinogen deaminase" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms
TIGR_CMR|APH_0746 APH_0746 "porphobilinogen deaminase" [Anaplasma phagocytophilum HZ (taxid:212042)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-1375 hmbsa "hydroxymethylbilane synthase a" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
CGD|CAL0000854 HEM3 [Candida albicans (taxid:5476)] Back     alignment and assigned GO terms
UNIPROTKB|O94048 HEM3 "Porphobilinogen deaminase" [Candida albicans SC5314 (taxid:237561)] 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) ?
Q92LH7HEM3_RHIME2, ., 5, ., 1, ., 6, 10.50230.63190.6666yesno
B1JPE6HEM3_YERPY2, ., 5, ., 1, ., 6, 10.52380.62880.6549yesno
B0KH05HEM3_PSEPG2, ., 5, ., 1, ., 6, 10.53110.62570.6517yesno
A7FD67HEM3_YERP32, ., 5, ., 1, ., 6, 10.52600.63190.6581yesno
Q43082HEM3_PEA2, ., 5, ., 1, ., 6, 10.84970.69930.6178N/Ano
B1J1V2HEM3_PSEPW2, ., 5, ., 1, ., 6, 10.52830.63490.6613yesno
Q3SVF3HEM3_NITWN2, ., 5, ., 1, ., 6, 10.58680.64410.6645yesno
P46355HEM3_YERPE2, ., 5, ., 1, ., 6, 10.52600.63190.6581yesno
Q83PH4HEM3_SHIFL2, ., 5, ., 1, ., 6, 10.51410.63490.6613yesno
A1B853HEM3_PARDP2, ., 5, ., 1, ., 6, 10.58760.63800.6645yesno
Q8FBP1HEM3_ECOL62, ., 5, ., 1, ., 6, 10.51410.63490.6613yesno
Q1I316HEM3_PSEE42, ., 5, ., 1, ., 6, 10.51880.63490.6613yesno
Q98EI7HEM3_RHILO2, ., 5, ., 1, ., 6, 10.54160.64410.6818yesno
A4TRA8HEM3_YERPP2, ., 5, ., 1, ., 6, 10.52600.63190.6581yesno
Q747I1HEM3_GEOSL2, ., 5, ., 1, ., 6, 10.51130.65030.6666yesno
Q3A009HEM3_PELCD2, ., 5, ., 1, ., 6, 10.52600.63190.6539yesno
B7JBH8HEM3_ACIF22, ., 5, ., 1, ., 6, 10.50710.63190.6732yesno
B2K065HEM3_YERPB2, ., 5, ., 1, ., 6, 10.52600.63190.6581yesno
B1XAH2HEM3_ECODH2, ., 5, ., 1, ., 6, 10.51410.63490.6613yesno
Q8UC46HEM3_AGRT52, ., 5, ., 1, ., 6, 10.54710.64110.6763yesno
Q1CBN1HEM3_YERPA2, ., 5, ., 1, ., 6, 10.52600.63190.6581yesno
Q3K4T0HEM3_PSEPF2, ., 5, ., 1, ., 6, 10.52350.63490.6613yesno
A8G848HEM3_SERP52, ., 5, ., 1, ., 6, 10.51650.63190.6581yesno
Q500N6HEM3_PSEU22, ., 5, ., 1, ., 6, 10.51880.63490.6613yesno
Q39QM7HEM3_GEOMG2, ., 5, ., 1, ., 6, 10.50220.65030.6666yesno
B5ERN6HEM3_ACIF52, ., 5, ., 1, ., 6, 10.50710.63190.6732yesno
Q43316HEM3_ARATH2, ., 5, ., 1, ., 6, 10.72790.85880.7329yesno
Q66G00HEM3_YERPS2, ., 5, ., 1, ., 6, 10.52600.63190.6581yesno
Q1CNI3HEM3_YERPN2, ., 5, ., 1, ., 6, 10.52600.63190.6581yesno
A1JI86HEM3_YERE82, ., 5, ., 1, ., 6, 10.51900.62880.6549yesno
B7LU53HEM3_ESCF32, ., 5, ., 1, ., 6, 10.51880.63490.6613yesno
Q6H6D2HEM3_ORYSJ2, ., 5, ., 1, ., 6, 10.78990.66870.6089yesno
Q1QQP5HEM3_NITHX2, ., 5, ., 1, ., 6, 10.60090.64410.6645yesno
A9R8K0HEM3_YERPG2, ., 5, ., 1, ., 6, 10.52600.63190.6581yesno
C4ZZ69HEM3_ECOBW2, ., 5, ., 1, ., 6, 10.51410.63490.6613yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
4th Layer2.5.1.610.946
3rd Layer2.5.10.963

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
fgenesh4_pm.C_LG_VII000271
hydroxymethylbilane synthase (EC-2.5.1.61) (363 aa)
(Populus trichocarpa)
Predicted Functional Partners:
eugene3.00020758
hypothetical protein (430 aa)
• •• •• 0.990
eugene3.00150799
glutamate-1-semialdehyde 2,1-aminomutase (EC-5.4.3.8) (479 aa)
• ••  • 0.970
gw1.40.619.1
hypothetical protein (272 aa)
•  • •• 0.959
gw1.148.3.1
uroporphyrin-III C-methyltransferase (EC-2.1.1.107) (328 aa)
•••  •• 0.959
gw1.13426.3.1
Delta-aminolevulinic acid dehydratase (293 aa)
• • ••• 0.949
gw1.16698.2.1
Delta-aminolevulinic acid dehydratase (254 aa)
• • ••• 0.929
gw1.I.4290.1
glutamyl-tRNA reductase (EC-1.2.1.70) (471 aa)
• •   • 0.926
estExt_Genewise1_v1.C_LG_II0707
glutamyl-tRNA reductase (EC-1.2.1.70) (469 aa)
• •   • 0.923
gw1.IX.2784.1
glutamyl-tRNA reductase (EC-1.2.1.70) (503 aa)
• •   • 0.899
gw1.182.88.1
uroporphyrinogen decarboxylase (EC-4.1.1.37) (357 aa)
• ••• • 0.848

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 ?
Query326
PLN02691351 PLN02691, PLN02691, porphobilinogen deaminase 1e-151
PRK00072295 PRK00072, hemC, porphobilinogen deaminase; Reviewe 1e-116
cd00494292 cd00494, HMBS, Hydroxymethylbilane synthase (HMBS) 1e-111
pfam01379213 pfam01379, Porphobil_deam, Porphobilinogen deamina 1e-110
COG0181307 COG0181, HemC, Porphobilinogen deaminase [Coenzyme 1e-101
TIGR00212292 TIGR00212, hemC, porphobilinogen deaminase 6e-96
PRK01066231 PRK01066, PRK01066, porphobilinogen deaminase; Pro 4e-29
>gnl|CDD|215373 PLN02691, PLN02691, porphobilinogen deaminase Back     alignment and domain information 
 Score =  427 bits (1100), Expect = e-151
 Identities = 188/254 (74%), Positives = 213/254 (83%), Gaps = 6/254 (2%)

Query: 34  SSPRLKTPSFPKSLKKRSFGLVRASAAVE-----TKVAIIRIGTRGSPLALAQAHETRNK 88
            +P L         ++R   +VRA+ AVE     T VA IRIGTRGSPLALAQA+ETR+ 
Sbjct: 5   LAPGLSRRRCRGRTRRRHCAVVRAAVAVEASSGKTDVAPIRIGTRGSPLALAQAYETRDL 64

Query: 89  LMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAVHSM 148
           L A HPELA+EGA++IVIIKTTGDKIL QPLADIGGKGLFTKEID+AL++ +IDIAVHSM
Sbjct: 65  LKAAHPELAEEGALEIVIIKTTGDKILDQPLADIGGKGLFTKEIDDALLSGRIDIAVHSM 124

Query: 149 KDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPS 208
           KDVPTYLPE TILPCNL REDVRDAFISL A SLAELPAGS+VGTASLRR+SQILH+YP 
Sbjct: 125 KDVPTYLPEGTILPCNLPREDVRDAFISLKAKSLAELPAGSVVGTASLRRQSQILHKYPH 184

Query: 209 LKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAI 268
           LKV  NFRGNVQTRLRKL E VV ATLLALAGLKRL MTE+ T+ILS D+MLPAVAQGAI
Sbjct: 185 LKV-VNFRGNVQTRLRKLQEGVVDATLLALAGLKRLDMTEHATSILSTDEMLPAVAQGAI 243

Query: 269 GIACRSNDEKMVPF 282
           GIACR++D+KM+ +
Sbjct: 244 GIACRTDDDKMLEY 257

Length = 351
>gnl|CDD|234612 PRK00072, hemC, porphobilinogen deaminase; Reviewed Back     alignment and domain information
>gnl|CDD|238276 cd00494, HMBS, Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12 Back     alignment and domain information
>gnl|CDD|216465 pfam01379, Porphobil_deam, Porphobilinogen deaminase, dipyromethane cofactor binding domain Back     alignment and domain information
>gnl|CDD|223259 COG0181, HemC, Porphobilinogen deaminase [Coenzyme metabolism] Back     alignment and domain information
>gnl|CDD|232876 TIGR00212, hemC, porphobilinogen deaminase Back     alignment and domain information
>gnl|CDD|167150 PRK01066, PRK01066, porphobilinogen deaminase; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 326
COG0181307 HemC Porphobilinogen deaminase [Coenzyme metabolis 100.0
PLN02691351 porphobilinogen deaminase 100.0
TIGR00212292 hemC porphobilinogen deaminase. Biosynthesis of co 100.0
PRK00072295 hemC porphobilinogen deaminase; Reviewed 100.0
cd00494292 HMBS Hydroxymethylbilane synthase (HMBS), also kno 100.0
PF01379215 Porphobil_deam: Porphobilinogen deaminase, dipyrom 100.0
PRK01066231 porphobilinogen deaminase; Provisional 100.0
KOG2892320 consensus Porphobilinogen deaminase [Coenzyme tran 100.0
PRK11063271 metQ DL-methionine transporter substrate-binding s 97.67
TIGR00363258 lipoprotein, YaeC family. This family of putative 97.31
PRK11553314 alkanesulfonate transporter substrate-binding subu 96.21
PRK09861272 cytoplasmic membrane lipoprotein-28; Provisional 95.84
smart00062219 PBPb Bacterial periplasmic substrate-binding prote 95.45
PRK10859 482 membrane-bound lytic transglycosylase F; Provision 95.43
PRK11260266 cystine transporter subunit; Provisional 95.41
PF00497225 SBP_bac_3: Bacterial extracellular solute-binding 95.02
cd00134218 PBPb Bacterial periplasmic transport systems use m 94.75
TIGR03427328 ABC_peri_uca ABC transporter periplasmic binding p 94.7
PRK15007243 putative ABC transporter arginine-biding protein; 94.51
TIGR01728288 SsuA_fam ABC transporter, substrate-binding protei 94.5
TIGR01098254 3A0109s03R phosphate/phosphite/phosphonate ABC tra 94.49
TIGR01096250 3A0103s03R lysine-arginine-ornithine-binding perip 94.33
PF14503232 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B. 94.1
PRK15010260 ABC transporter lysine/arginine/ornithine binding 94.09
PF13379252 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_ 93.37
TIGR01729300 taurine_ABC_bnd taurine ABC transporter, periplasm 92.97
cd08437198 PBP2_MleR The substrate binding domain of LysR-typ 92.79
TIGR02122320 TRAP_TAXI TRAP transporter solute receptor, TAXI f 92.77
PRK09959 1197 hybrid sensory histidine kinase in two-component r 92.43
PRK09959 1197 hybrid sensory histidine kinase in two-component r 92.34
COG0834275 HisJ ABC-type amino acid transport/signal transduc 92.09
PF03466209 LysR_substrate: LysR substrate binding domain; Int 91.78
cd08467200 PBP2_SyrM The C-terminal substrate binding of LysR 90.69
cd08466200 PBP2_LeuO The C-terminal substrate binding domain 90.57
cd08440197 PBP2_LTTR_like_4 TThe C-terminal substrate binding 90.35
cd05466197 PBP2_LTTR_substrate The substrate binding domain o 89.55
cd08418201 PBP2_TdcA The C-terminal substrate binding domain 89.48
cd08438197 PBP2_CidR The C-terminal substrate binding domain 89.2
PRK11480320 tauA taurine transporter substrate binding subunit 88.74
PRK00489287 hisG ATP phosphoribosyltransferase; Reviewed 88.74
TIGR02995275 ectoine_ehuB ectoine/hydroxyectoine ABC transporte 88.72
cd08414197 PBP2_LTTR_aromatics_like The C-terminal substrate 88.54
cd08456196 PBP2_LysR The C-terminal substrate binding domain 88.02
cd08453200 PBP2_IlvR The C-terminal substrate binding domain 87.87
TIGR03431288 PhnD phosphonate ABC transporter, periplasmic phos 87.6
PF03180237 Lipoprotein_9: NLPA lipoprotein; InterPro: IPR0048 87.51
cd08419197 PBP2_CbbR_RubisCO_like The C-terminal substrate bi 87.24
cd08439185 PBP2_LrhA_like The C-terminal substrate domain of 87.13
cd08420201 PBP2_CysL_like C-terminal substrate binding domain 87.06
COG0715335 TauA ABC-type nitrate/sulfonate/bicarbonate transp 86.93
cd08446198 PBP2_Chlorocatechol The C-terminal substrate bindi 86.84
cd08447198 PBP2_LTTR_aromatics_like_1 The C-terminal substrat 86.63
cd08448197 PBP2_LTTR_aromatics_like_2 The C-terminal substrat 86.43
cd08425197 PBP2_CynR The C-terminal substrate-binding domain 86.4
cd08433198 PBP2_Nac The C-teminal substrate binding domain of 86.2
cd08417200 PBP2_Nitroaromatics_like The C-terminal substrate 86.16
cd08469221 PBP2_PnbR The C-terminal substrate binding domain 86.12
PRK11917259 bifunctional adhesin/ABC transporter aspartate/glu 86.0
cd08459201 PBP2_DntR_NahR_LinR_like The C-terminal substrate 85.96
cd08465200 PBP2_ToxR The C-terminal substrate binding domain 85.96
cd08436194 PBP2_LTTR_like_3 The C-terminal substrate binding 85.95
cd08464200 PBP2_DntR_like_2 The C-terminal substrate binding 85.88
cd08441198 PBP2_MetR The C-terminal substrate binding domain 85.61
cd08435201 PBP2_GbpR The C-terminal substrate binding domain 84.49
cd08449197 PBP2_XapR The C-terminal substrate binding domain 84.37
PRK11151305 DNA-binding transcriptional regulator OxyR; Provis 84.36
PF09084216 NMT1: NMT1/THI5 like; InterPro: IPR015168 This ent 84.33
cd08486198 PBP2_CbnR The C-terminal substrate binding domain 84.26
cd08411200 PBP2_OxyR The C-terminal substrate-binding domain 83.27
cd08461198 PBP2_DntR_like_3 The C-terminal substrate binding 83.22
cd08421198 PBP2_LTTR_like_1 The C-terminal substrate binding 82.65
cd08445203 PBP2_BenM_CatM_CatR The C-terminal substrate bindi 82.19
cd08427195 PBP2_LTTR_like_2 The C-terminal substrate binding 81.87
cd08442193 PBP2_YofA_SoxR_like The C-terminal substrate bindi 81.76
cd08452197 PBP2_AlsR The C-terminal substrate binding domain 81.65
PRK11013309 DNA-binding transcriptional regulator LysR; Provis 81.56
PRK09986294 DNA-binding transcriptional activator XapR; Provis 81.54
PRK11074300 putative DNA-binding transcriptional regulator; Pr 81.45
PRK15437259 histidine ABC transporter substrate-binding protei 81.28
CHL00180305 rbcR LysR transcriptional regulator; Provisional 81.19
cd08431195 PBP2_HupR The C-terminal substrate binding domain 81.19
cd08450196 PBP2_HcaR The C-terminal substrate binding domain 81.07
PRK09508314 leuO leucine transcriptional activator; Reviewed 80.99
PRK10341312 DNA-binding transcriptional activator TdcA; Provis 80.71
cd08485198 PBP2_ClcR The C-terminal substrate binding domain 80.27
>COG0181 HemC Porphobilinogen deaminase [Coenzyme metabolism] Back     alignment and domain information 
Probab=100.00  E-value=1.4e-90  Score=660.56  Aligned_cols=239  Identities=50%  Similarity=0.774  Sum_probs=231.2

Q ss_pred             CceEEEEeCCCHHHHHHHHHHHHHHHhhCCCcccCccEEEEEeeccCccccCccccccCCccccHHHHHHHHHcCCCcEE
Q 020472           65 VAIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIA  144 (326)
Q Consensus        65 ~~~IrIGTR~S~LAlaQa~~V~~~L~~~~p~l~~~~~~eiv~i~T~GD~~~~~pL~~iGgkGlFtkELe~ALl~g~iDiA  144 (326)
                      +++||||||+|+||+|||++|+++|++.||++    +|||++|+|+||+++|+||+++||||+||||||+||++|+||+|
T Consensus         1 ~~~irIgTR~S~LAl~Qa~~V~~~L~~~~p~~----~~ei~~i~T~GD~i~d~pL~~iGgkGlFtkEle~all~g~~DiA   76 (307)
T COG0181           1 MMKLRIGTRGSKLALAQANEVIERLKAAYPDL----EVEIVTIKTKGDRILDKPLSKIGGKGLFTKELEQALLEGEIDIA   76 (307)
T ss_pred             CCceEEecCCCHHHHHHHHHHHHHHHHhCCCc----eEEEEEEecccchhccchHHHcCCcEEEHHHHHHHHHcCCCCEE
Confidence            46899999999999999999999999999987    59999999999999999999999999999999999999999999


Q ss_pred             EeeCCCCCCCCCCCceeeeecCCCCCcceeeccCccCcccCCCCCEEecCChHHHHHHHhhCCCCEEEeccCCCHHHHHh
Q 020472          145 VHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLR  224 (326)
Q Consensus       145 VHSlKDlPt~lp~gL~iaAv~kReDprD~LV~~~~~~l~dLp~ga~IGTSS~RR~aQL~~~~Pdl~v~~~iRGNV~TRL~  224 (326)
                      ||||||||+++|+||.|+||++|+||||+||++++.+|.+||+|++|||||+||++||+++|||++|+ ++||||+|||+
T Consensus        77 VHSlKDvP~~~p~gL~laai~~R~dprDalVs~~~~~l~~LP~Ga~VGTSSlRR~aql~~~rPdl~i~-~lRGNVdTRL~  155 (307)
T COG0181          77 VHSLKDVPTELPEGLVLAAIPEREDPRDALVSRDGYDLEELPEGAVVGTSSLRRQAQLKALRPDLKIE-PLRGNVDTRLR  155 (307)
T ss_pred             EeecccCCccCCCCceEEEecCCCChhheEEECCCCchhhCCCCCccccchHHHHHHHHHhCCCCeEE-eccCcHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999998 99999999999


Q ss_pred             hhccCCccEEeeehhhhcccCCCccceeeecCCCCCCCcccceeeeEeecCchhHHhhhhccccccccccccccchhHHH
Q 020472          225 KLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIGIACRSNDEKMVPFTTHSQASILNTFNCSGKLCYKL  304 (326)
Q Consensus       225 KL~~ge~DAIILA~AGL~RLgl~~~i~~~L~~~~~lPA~GQGaLAVe~R~dD~~~~~lL~~~~~~~~n~~~~~~~~c~~~  304 (326)
                      ||++|+|||||||+|||+|||+.++++++|+|++|+|||||||||||||++|+++.++|+.++     +.+  +..|+..
T Consensus       156 KL~~g~yDAIILA~AGL~RLgl~~~~~~~l~p~~~~PA~gQGal~ie~R~~d~~~~~ll~~i~-----~~~--t~~~v~a  228 (307)
T COG0181         156 KLDEGEYDAIILAAAGLKRLGLENRITEILDPEEFLPAPGQGALAIECRAGDEKVLELLAELN-----DED--TRICVTA  228 (307)
T ss_pred             HhhcCCccHHHHHHHHHHhcCCcccceeecChhhcCCCCCCceEEEEEecCcHHHHHHHHhcc-----Cch--HHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999995     222  3789999


Q ss_pred             HHHHHhhhchh
Q 020472          305 HFGFLNLVELR  315 (326)
Q Consensus       305 er~~l~~l~~~  315 (326)
                      ||.|++.|++|
T Consensus       229 ERa~l~~L~gg  239 (307)
T COG0181         229 ERAFLRELEGG  239 (307)
T ss_pred             HHHHHHhhCCC
Confidence            99999999987

>PLN02691 porphobilinogen deaminase Back     alignment and domain information
>TIGR00212 hemC porphobilinogen deaminase Back     alignment and domain information
>PRK00072 hemC porphobilinogen deaminase; Reviewed Back     alignment and domain information
>cd00494 HMBS Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12 Back     alignment and domain information
>PF01379 Porphobil_deam: Porphobilinogen deaminase, dipyromethane cofactor binding domain; InterPro: IPR022417 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway [] Back     alignment and domain information
>PRK01066 porphobilinogen deaminase; Provisional Back     alignment and domain information
>KOG2892 consensus Porphobilinogen deaminase [Coenzyme transport and metabolism] Back     alignment and domain information
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional Back     alignment and domain information
>TIGR00363 lipoprotein, YaeC family Back     alignment and domain information
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional Back     alignment and domain information
>PRK09861 cytoplasmic membrane lipoprotein-28; Provisional Back     alignment and domain information
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins Back     alignment and domain information
>PRK10859 membrane-bound lytic transglycosylase F; Provisional Back     alignment and domain information
>PRK11260 cystine transporter subunit; Provisional 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
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions Back     alignment and domain information
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region Back     alignment and domain information
>PRK15007 putative ABC transporter arginine-biding protein; Provisional Back     alignment and domain information
>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family Back     alignment and domain information
>TIGR01098 3A0109s03R phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein Back     alignment and domain information
>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein Back     alignment and domain information
>PF14503 YhfZ_C: YhfZ C-terminal domain; PDB: 2OZZ_B Back     alignment and domain information
>PRK15010 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional Back     alignment and domain information
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A Back     alignment and domain information
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein Back     alignment and domain information
>cd08437 PBP2_MleR The substrate binding domain of LysR-type transcriptional regulator MleR which required for malolactic fermentation, contains type 2 periplasmic binidning fold Back     alignment and domain information
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family Back     alignment and domain information
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional Back     alignment and domain information
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional Back     alignment and domain information
>COG0834 HisJ ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms] Back     alignment and domain information
>PF03466 LysR_substrate: LysR substrate binding domain; InterPro: IPR005119 The structure of this domain is known and is similar to the periplasmic binding proteins [] Back     alignment and domain information
>cd08467 PBP2_SyrM The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08466 PBP2_LeuO The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08440 PBP2_LTTR_like_4 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd05466 PBP2_LTTR_substrate The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily Back     alignment and domain information
>cd08418 PBP2_TdcA The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08438 PBP2_CidR The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold Back     alignment and domain information
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional Back     alignment and domain information
>PRK00489 hisG ATP phosphoribosyltransferase; Reviewed Back     alignment and domain information
>TIGR02995 ectoine_ehuB ectoine/hydroxyectoine ABC transporter solute-binding protein Back     alignment and domain information
>cd08414 PBP2_LTTR_aromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold Back     alignment and domain information
>cd08456 PBP2_LysR The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08453 PBP2_IlvR The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold Back     alignment and domain information
>TIGR03431 PhnD phosphonate ABC transporter, periplasmic phosphonate binding protein Back     alignment and domain information
>PF03180 Lipoprotein_9: NLPA lipoprotein; InterPro: IPR004872 This family of bacterial lipoproteins contains several antigenic members, that may be involved in bacterial virulence Back     alignment and domain information
>cd08419 PBP2_CbbR_RubisCO_like The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08439 PBP2_LrhA_like The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08420 PBP2_CysL_like C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold Back     alignment and domain information
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism] Back     alignment and domain information
>cd08446 PBP2_Chlorocatechol The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08447 PBP2_LTTR_aromatics_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold Back     alignment and domain information
>cd08448 PBP2_LTTR_aromatics_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold Back     alignment and domain information
>cd08425 PBP2_CynR The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08433 PBP2_Nac The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08417 PBP2_Nitroaromatics_like The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08469 PBP2_PnbR The C-terminal substrate binding domain of LysR-type transcriptional regulator PnbR, which is involved in regulating the pnb genes encoding enzymes for 4-nitrobenzoate catabolism, contains the type 2 periplasmic binding fold Back     alignment and domain information
>PRK11917 bifunctional adhesin/ABC transporter aspartate/glutamate-binding protein; Reviewed Back     alignment and domain information
>cd08459 PBP2_DntR_NahR_LinR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08465 PBP2_ToxR The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold Back     alignment and domain information
>cd08436 PBP2_LTTR_like_3 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08464 PBP2_DntR_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08441 PBP2_MetR The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold 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
>cd08449 PBP2_XapR The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold Back     alignment and domain information
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional Back     alignment and domain information
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins Back     alignment and domain information
>cd08486 PBP2_CbnR The C-terminal substrate binding domain of LysR-type transcriptional regulator, CbnR, involved in the chlorocatechol 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
>cd08461 PBP2_DntR_like_3 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08421 PBP2_LTTR_like_1 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold 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
>cd08427 PBP2_LTTR_like_2 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08442 PBP2_YofA_SoxR_like The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold 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
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional Back     alignment and domain information
>PRK09986 DNA-binding transcriptional activator XapR; Provisional Back     alignment and domain information
>PRK11074 putative DNA-binding transcriptional regulator; Provisional Back     alignment and domain information
>PRK15437 histidine ABC transporter substrate-binding protein HisJ; Provisional Back     alignment and domain information
>CHL00180 rbcR LysR transcriptional regulator; Provisional Back     alignment and domain information
>cd08431 PBP2_HupR The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold Back     alignment and domain information
>cd08450 PBP2_HcaR The C-terminal substrate binding domain of LysR-type transcriptional regulator HcaR in involved in 3-phenylpropionic acid catabolism, contains the type2 periplasmic binding fold Back     alignment and domain information
>PRK09508 leuO leucine transcriptional activator; Reviewed Back     alignment and domain information
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional Back     alignment and domain information
>cd08485 PBP2_ClcR The C-terminal substrate binding domain of LysR-type transcriptional regulator ClcR involved in the chlorocatechol catabolism, contains type 2 periplasmic binding fold 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 ?
Query326
4htg_A320 Porphobilinogen Deaminase From Arabidopsis Thaliana 1e-97
1pda_A313 Structure Of Porphobilinogen Deaminase Reveals A Fl 9e-50
2ypn_A313 Hydroxymethylbilane Synthase Length = 313 9e-50
1ypn_A313 Reduced Form Hydroxymethylbilane Synthase (K59q Mut 2e-49
1ah5_A313 Reduced Form Selenomethionine-Labelled Hydroxymethy 6e-48
3ecr_A364 Structure Of Human Porphobilinogen Deaminase Length 1e-35
3eq1_A361 The Crystal Structure Of Human Porphobilinogen Deam 4e-35
>pdb|4HTG|A Chain A, Porphobilinogen Deaminase From Arabidopsis Thaliana Length = 320 Back     alignment and structure 
Iteration: 1

 Score =  352 bits (904), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 175/221 (79%), Positives = 190/221 (85%)
Query: 62  ETKVAIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLAD 121
           +T+ AIIRIGTRGSPLALAQA+ETR KL   HPEL ++GAI I IIKTTGDKILSQPLAD
Sbjct: 7   KTRTAIIRIGTRGSPLALAQAYETREKLKKKHPELVEDGAIHIEIIKTTGDKILSQPLAD 66
Query: 122 IGGKGLFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFIXXXXXX 181
           IGGKGLFTKEIDEALIN  IDIAVHSMKDVPTYLPEKTILPCNL REDVRDAFI      
Sbjct: 67  IGGKGLFTKEIDEALINGHIDIAVHSMKDVPTYLPEKTILPCNLPREDVRDAFICLTAAT 126
Query: 182 XXXXPAGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGL 241
               PAGS+VGTASLRRKSQILH+YP+L V ENFRGNVQTRL KL    VQATLLALAGL
Sbjct: 127 LAELPAGSVVGTASLRRKSQILHKYPALHVEENFRGNVQTRLSKLQGGKVQATLLALAGL 186
Query: 242 KRLSMTENVTNILSVDDMLPAVAQGAIGIACRSNDEKMVPF 282
           KRLSMTENV +ILS+D+MLPAVAQGAIGIACR++D+KM  +
Sbjct: 187 KRLSMTENVASILSLDEMLPAVAQGAIGIACRTDDDKMATY 227
>pdb|1PDA|A Chain A, Structure Of Porphobilinogen Deaminase Reveals A Flexible Multidomain Polymerase With A Single Catalytic Site Length = 313 Back     alignment and structure
>pdb|2YPN|A Chain A, Hydroxymethylbilane Synthase Length = 313 Back     alignment and structure
>pdb|1YPN|A Chain A, Reduced Form Hydroxymethylbilane Synthase (K59q Mutant) Crystal Structure After 2 Hours In A Flow Cell Determined By Time-Resolved Laue Diffraction Length = 313 Back     alignment and structure
>pdb|1AH5|A Chain A, Reduced Form Selenomethionine-Labelled Hydroxymethylbilane Synthase Determined By Mad Length = 313 Back     alignment and structure
>pdb|3ECR|A Chain A, Structure Of Human Porphobilinogen Deaminase Length = 364 Back     alignment and structure
>pdb|3EQ1|A Chain A, The Crystal Structure Of Human Porphobilinogen Deaminase At 2.8a Resolution Length = 361 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 ?
Query326
1gtk_A313 Porphobilinogen deaminase; lyase, biosynthesis of 1e-120
3ecr_A364 Porphobilinogen deaminase; heme biosynthesis, porp 1e-116
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-04
>1gtk_A Porphobilinogen deaminase; lyase, biosynthesis of linear tetrapyrrole, all alpha/beta; HET: DPM; 1.66A {Escherichia coli} SCOP: c.94.1.1 d.50.2.1 PDB: 1ah5_A* 2ypn_A* 1ypn_A* 1pda_A* Length = 313 Back     alignment and structure
 Score =  347 bits (893), Expect = e-120
 Identities = 109/213 (51%), Positives = 141/213 (66%), Gaps = 5/213 (2%)

Query: 67  IIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKG 126
           ++RI TR SPLAL QAH  ++KLMA HP L     +++V + T GD IL  PLA +GGKG
Sbjct: 5   VLRIATRQSPLALWQAHYVKDKLMASHPGLV----VELVPMVTRGDVILDTPLAKVGGKG 60

Query: 127 LFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELP 186
           LF KE++ AL+ ++ DIAVHSMKDVP   P+   L    +RED RDAF+S +  SL  LP
Sbjct: 61  LFVKELEVALLENRADIAVHSMKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDALP 120

Query: 187 AGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSM 246
           AGSIVGT+SLRR+ Q+  R P L +  + RGNV TRL KL+     A +LA+AGLKRL +
Sbjct: 121 AGSIVGTSSLRRQCQLAERRPDLII-RSLRGNVGTRLSKLDNGEYDAIILAVAGLKRLGL 179

Query: 247 TENVTNILSVDDMLPAVAQGAIGIACRSNDEKM 279
              +   L  +  LPAV QGA+GI CR +D + 
Sbjct: 180 ESRIRAALPPEISLPAVGQGAVGIECRLDDSRT 212
>3ecr_A Porphobilinogen deaminase; heme biosynthesis, porphobilinogen hinge, alternative splicing, cytoplasm, disease mutation, porphyrin biosynthesis; HET: DPM; 2.18A {Homo sapiens} PDB: 3eq1_A* Length = 364 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 ?
Query326
1gtk_A313 Porphobilinogen deaminase; lyase, biosynthesis of 100.0
3ecr_A364 Porphobilinogen deaminase; heme biosynthesis, porp 100.0
3ksx_A324 Nitrate transport protein; SSUA, alkanesulfonate-b 97.34
3kzg_A237 Arginine 3RD transport system periplasmic binding 96.86
3un6_A341 Hypothetical protein saouhsc_00137; structural gen 96.63
3qax_A268 Probable ABC transporter arginine-binding protein; 96.39
3uif_A348 Sulfonate ABC transporter, periplasmic sulfonate- 96.33
3tql_A227 Arginine-binding protein; transport and binding pr 96.33
1xs5_A241 29 kDa protein, membrane lipoprotein TPN32; peripl 96.15
3del_B242 Arginine binding protein; alpha and beta protein ( 96.14
2y7i_A229 STM4351; arginine-binding protein; HET: ARG; 1.90A 95.62
3k4u_A245 Binding component of ABC transporter; structural g 95.54
2yln_A283 Putative ABC transporter, periplasmic binding Pro 95.35
1wdn_A226 GLNBP, glutamine binding protein; closed form, com 95.24
3kbr_A239 Cyclohexadienyl dehydratase; pseudomonas aeruginos 95.08
1sw5_A275 Osmoprotection protein (PROX); binding-protein, co 95.03
2x26_A308 Periplasmic aliphatic sulphonates-binding protein; 94.99
2yjp_A291 Putative ABC transporter, periplasmic binding Pro 94.94
3mpk_A267 Virulence sensor protein BVGS; venus flytrap, sens 94.85
1p99_A295 Hypothetical protein PG110; structural genomics, P 94.24
4h5g_A243 Amino acid ABC superfamily ATP binding cassette tr 94.18
4i62_A269 Amino acid ABC transporter, periplasmic amino ACI 94.16
4eq9_A246 ABC transporter substrate-binding protein-amino A 94.15
3i6v_A232 Periplasmic His/Glu/Gln/Arg/opine family-binding; 94.0
1ii5_A233 SLR1257 protein; membrane protein; HET: GLU; 1.60A 93.78
1zbm_A280 Hypothetical protein AF1704; alpha-beta protein, s 93.78
2v25_A259 Major cell-binding factor; antigen, adhesin, aspar 93.61
3gxa_A275 Outer membrane lipoprotein GNA1946; periplasmic, L 93.31
2czl_A272 Hypothetical protein TTHA1568; conserved hypotheti 93.06
4gvo_A243 LMO2349 protein; structural genomics, IDP05245, L- 92.89
2q88_A257 EHUB, putative ABC transporter amino acid-binding 92.76
4f3p_A249 Glutamine-binding periplasmic protein; ssgcid, str 92.42
3k2d_A237 ABC-type metal ION transport system, periplasmic; 92.27
3hv1_A268 Polar amino acid ABC uptake transporter substrate 92.26
1xt8_A292 Putative amino-acid transporter periplasmic solut 92.21
3qsl_A346 Putative exported protein; unknown, structural gen 92.12
3h7m_A234 Sensor protein; histidine kinase sensor domain, ki 92.02
1lst_A239 Lysine, arginine, ornithine-binding protein; amino 92.01
2y7p_A218 LYSR-type regulatory protein; transcription regula 92.01
2vha_A287 Periplasmic binding transport protein; periplasmic 91.73
4ef1_A246 Pheromone COB1/lipoprotein, YAEC family; periplasm 91.62
2pyy_A228 Ionotropic glutamate receptor bacterial homologue; 90.94
3hn0_A283 Nitrate transport protein; ABC transporter, struct 90.46
3ir1_A245 Outer membrane lipoprotein GNA1946; D-methionine c 90.26
4ib2_A252 Putative lipoprotein; putative methionine-bindning 90.0
3jv9_A219 OXYR, transcriptional regulator, LYSR family; LYSR 89.94
3up9_A245 Putative uncharacterized protein; membrane lipopro 89.84
3tqw_A240 Methionine-binding protein; transport and binding 89.79
3oxn_A241 Putative transcriptional regulator, LYSR family; s 89.56
2pvu_A272 ARTJ; basic amino acid binding protein, ABC transp 89.29
1i6a_A219 OXYR, hydrogen peroxide-inducible genes activator; 89.21
2pfz_A301 Putative exported protein; extracytoplasmic solute 89.19
2iee_A271 ORF2, probable ABC transporter extracellular-bindi 89.18
4got_A249 Methionine-binding lipoprotein METQ; NLPA lipoprot 89.1
2pfy_A301 Putative exported protein; extracytoplasmic solute 88.76
2fyi_A228 HTH-type transcriptional regulator CBL; Lys-R fami 88.0
2ql3_A209 Probable transcriptional regulator, LYSR family P; 87.89
3p7i_A321 PHND, subunit of alkylphosphonate ABC transporter; 86.96
3onm_A238 Transcriptional regulator LRHA; LYSR, ROVM, transc 86.7
3ho7_A232 OXYR; beta-alpha-barrels, DNA-binding, transcripti 86.26
4dz1_A259 DALS D-alanine transporter; D-alanine binding, per 85.76
1uth_A315 LYSR-type regulatory protein; transcription regula 85.59
3ix1_A302 N-formyl-4-amino-5-aminomethyl-2-methylpyrimidine 85.43
2ozz_A231 Hypothetical protein YHFZ; alpha-beta structure, s 85.07
4ab5_A222 Transcriptional regulator, LYSR family; transcript 84.96
1twy_A290 ABC transporter, periplasmic substrate-binding PR; 84.49
2a5s_A284 N-methyl-D-aspartate receptor nmdar2A subunit, NMD 82.16
1us5_A314 Putative GLUR0 ligand binding core; receptor, memb 82.13
3hhf_B213 Transcriptional regulator, LYSR family; transcript 80.92
2esn_A310 Probable transcriptional regulator; PA0477, APC582 80.53
2x7q_A321 Ca3427, possible thiamine biosynthesis enzyme; unk 80.14
>1gtk_A Porphobilinogen deaminase; lyase, biosynthesis of linear tetrapyrrole, all alpha/beta; HET: DPM; 1.66A {Escherichia coli} SCOP: c.94.1.1 d.50.2.1 PDB: 1ah5_A* 2ypn_A* 1ypn_A* 1pda_A* Back     alignment and structure
Probab=100.00  E-value=1.4e-91  Score=670.22  Aligned_cols=238  Identities=47%  Similarity=0.672  Sum_probs=213.6

Q ss_pred             ceEEEEeCCCHHHHHHHHHHHHHHHhhCCCcccCccEEEEEeeccCccccCccccccCCccccHHHHHHHHHcCCCcEEE
Q 020472           66 AIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIAV  145 (326)
Q Consensus        66 ~~IrIGTR~S~LAlaQa~~V~~~L~~~~p~l~~~~~~eiv~i~T~GD~~~~~pL~~iGgkGlFtkELe~ALl~g~iDiAV  145 (326)
                      ++||||||+|+||+|||++|+++|++.||++    +||+++|+|+||+++++||++|||||+||||||+||++|+|||||
T Consensus         4 ~~irIgTR~S~LAl~Qa~~V~~~L~~~~p~~----~~ei~~i~T~GD~i~d~pL~~iGgkGlFtkELe~aLl~g~iDiAV   79 (313)
T 1gtk_A            4 NVLRIATRQSPLALWQAHYVKDKLMASHPGL----VVELVPMVTRGDVILDTPLAKVGGKGLFVKELEVALLENRADIAV   79 (313)
T ss_dssp             CEEEEEECCSHHHHHHHHHHHHHHHHHCTTC----EEEEEECC-----------------CTTHHHHHHHHHTTSCSEEE
T ss_pred             ceEEEEeCCCHHHHHHHHHHHHHHHHhCCCC----cEEEEeeecCCcccccccHHHcCCccchHHHHHHHHHcCCCcEEE
Confidence            5699999999999999999999999999987    599999999999999999999999999999999999999999999


Q ss_pred             eeCCCCCCCCCCCceeeeecCCCCCcceeeccCccCcccCCCCCEEecCChHHHHHHHhhCCCCEEEeccCCCHHHHHhh
Q 020472          146 HSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRK  225 (326)
Q Consensus       146 HSlKDlPt~lp~gL~iaAv~kReDprD~LV~~~~~~l~dLp~ga~IGTSS~RR~aQL~~~~Pdl~v~~~iRGNV~TRL~K  225 (326)
                      |||||||+++|+||.|+||++|+||||+||++++.++.+||+|++|||||+||++||+++|||++|+ ++||||+|||+|
T Consensus        80 HSlKDvPt~lp~gl~l~av~~RedprDalV~~~~~~l~~LP~Ga~VGTSSlRR~aQL~~~rPdl~i~-~lRGNV~TRL~K  158 (313)
T 1gtk_A           80 HSMKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDALPAGSIVGTSSLRRQCQLAERRPDLIIR-SLRGNVGTRLSK  158 (313)
T ss_dssp             EEGGGSCSCCCTTEEEEEECCCCCCCEEEECSSCSSGGGCCTTCEEECCCHHHHHHHHHHCTTSEEE-CCCSCHHHHHHH
T ss_pred             ecCCCCCCCCCCCcEEEEEecCCCcceEEEECCCCChhhCCCCCEEecCCHHHHHHHHHHCCCCEEE-eCCCCHHHHHHH
Confidence            9999999999999999999999999999999998899999999999999999999999999999999 999999999999


Q ss_pred             hccCCccEEeeehhhhcccCCCccceeeecCCCCCCCcccceeeeEeecCchhHHhhhhccccccccccccccchhHHHH
Q 020472          226 LNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIGIACRSNDEKMVPFTTHSQASILNTFNCSGKLCYKLH  305 (326)
Q Consensus       226 L~~ge~DAIILA~AGL~RLgl~~~i~~~L~~~~~lPA~GQGaLAVe~R~dD~~~~~lL~~~~~~~~n~~~~~~~~c~~~e  305 (326)
                      |++|+|||||||+|||+|||+.++++++|++++|+|||||||||||||++|+++.++|+.++.     .  .+..|+..|
T Consensus       159 L~~g~~DaiiLA~AGL~RLgl~~~i~~~l~~~~~lPA~gQGalaIe~r~~d~~~~~ll~~l~d-----~--~t~~~~~aE  231 (313)
T 1gtk_A          159 LDNGEYDAIILAVAGLKRLGLESRIRAALPPEISLPAVGQGAVGIECRLDDSRTRELLAALNH-----H--ETALRVTAE  231 (313)
T ss_dssp             HHTTSCSEEEEEHHHHHHTTCGGGCSEECCTTTSCCCTTTTCEEEEEETTCHHHHHHHGGGCC-----H--HHHHHHHHH
T ss_pred             hhCCCCCEEEHhhhHHHHcCCccccceeeChhhcCCCcCCceEEEEEccCcHHHHHHHHHCCC-----H--HHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999962     2  238899999


Q ss_pred             HHHHhhhchh
Q 020472          306 FGFLNLVELR  315 (326)
Q Consensus       306 r~~l~~l~~~  315 (326)
                      |.||+.|++|
T Consensus       232 Ra~l~~L~Gg  241 (313)
T 1gtk_A          232 RAMNTRLEGG  241 (313)
T ss_dssp             HHHHHHHTCC
T ss_pred             HHHHHHhCCC
Confidence            9999999987
>3ecr_A Porphobilinogen deaminase; heme biosynthesis, porphobilinogen hinge, alternative splicing, cytoplasm, disease mutation, porphyrin biosynthesis; HET: DPM; 2.18A {Homo sapiens} PDB: 3eq1_A* Back     alignment and structure
>3ksx_A Nitrate transport protein; SSUA, alkanesulfonate-binding protein, periplasmic-binding P transport protein; HET: MPO; 1.70A {Xanthomonas axonopodis PV} PDB: 3e4r_A* 3ksj_A* Back     alignment and structure
>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
>3un6_A Hypothetical protein saouhsc_00137; structural genomics, center for structural genomics of infec diseases, csgid; 2.01A {Staphylococcus aureus subsp} Back     alignment and structure
>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
>3uif_A Sulfonate ABC transporter, periplasmic sulfonate- protein SSUA; structural genomics; 2.60A {Methylobacillus flagellatus} 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
>1xs5_A 29 kDa protein, membrane lipoprotein TPN32; periplasmic binding protein, methionine, membrane protein; 1.85A {Treponema pallidum} SCOP: c.94.1.1 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
>2y7i_A STM4351; arginine-binding protein; HET: ARG; 1.90A {Salmonella enterica subsp} 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
>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
>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
>3kbr_A Cyclohexadienyl dehydratase; pseudomonas aeruginos structural genomics, PSI-2, protein structure initiative; HET: EPE; 1.66A {Pseudomonas aeruginosa} Back     alignment and structure
>1sw5_A Osmoprotection protein (PROX); binding-protein, compatible solutes, cation-PI interactions, classical hydrogen bonds, protein binding; 1.80A {Archaeoglobus fulgidus} SCOP: c.94.1.1 PDB: 1sw4_A 1sw1_A 1sw2_A 3mam_A* Back     alignment and structure
>2x26_A Periplasmic aliphatic sulphonates-binding protein; transport protein; 1.75A {Escherichia coli} 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
>3mpk_A Virulence sensor protein BVGS; venus flytrap, sensor domain, signaling protein; 2.04A {Bordetella pertussis} PDB: 3mpl_A Back     alignment and structure
>1p99_A Hypothetical protein PG110; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; 1.70A {Staphylococcus aureus subsp} SCOP: c.94.1.1 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
>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
>4eq9_A ABC transporter substrate-binding protein-amino A transport; structural genomics, niaid; HET: GSH; 1.40A {Streptococcus pneumoniae} 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
>1ii5_A SLR1257 protein; membrane protein; HET: GLU; 1.60A {Synechocystis SP} SCOP: c.94.1.1 PDB: 1iit_A 1iiw_A Back     alignment and structure
>1zbm_A Hypothetical protein AF1704; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.30A {Archaeoglobus fulgidus} SCOP: c.94.1.1 Back     alignment and structure
>2v25_A Major cell-binding factor; antigen, adhesin, aspartate, glutamate, transport, ABC transport, virulence factor, receptor; 1.49A {Campylobacter jejuni} Back     alignment and structure
>3gxa_A Outer membrane lipoprotein GNA1946; periplasmic, L-methionine bingding, protein binding; 2.25A {Neisseria meningitidis} Back     alignment and structure
>2czl_A Hypothetical protein TTHA1568; conserved hypothetical protein, extremely thermoph bacteria, structural genomics, NPPSFA; HET: CME TLA XPE; 1.55A {Thermus thermophilus} SCOP: c.94.1.1 PDB: 2dbp_A* 3a3u_A* Back     alignment and structure
>4gvo_A LMO2349 protein; structural genomics, IDP05245, L-cystine, ABC transporter, periplasmic binding protein, niaid; HET: HIS; 1.45A {Listeria monocytogenes} PDB: 2o1m_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
>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
>3k2d_A ABC-type metal ION transport system, periplasmic; alpha/beta domain, immune system; 2.60A {Vibrio vulnificus} 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
>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
>3qsl_A Putative exported protein; unknown, structural genomics, PSI-biology, midwest center FO structural genomics, MCSG, unknown function; HET: MSE CIT; 2.00A {Bordetella bronchiseptica} 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
>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
>2y7p_A LYSR-type regulatory protein; transcription regulator, DNA-binding, transcription, transcr factor, transcription regulation; HET: SAL PEU; 1.85A {Burkholderia SP} PDB: 2y7k_A* 2y84_A 2y7w_A 2y7r_A 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
>4ef1_A Pheromone COB1/lipoprotein, YAEC family; periplasmic methionine binding protein, NLPA lipoprotein, ST genomics; 1.90A {Enterococcus faecalis} PDB: 4ef2_A* 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
>3hn0_A Nitrate transport protein; ABC transporter, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; 1.75A {Parabacteroides distasonis} Back     alignment and structure
>3ir1_A Outer membrane lipoprotein GNA1946; D-methionine cultured, protein binding; 2.15A {Neisseria meningitidis} Back     alignment and structure
>4ib2_A Putative lipoprotein; putative methionine-bindning, NLPA lipoprotein, PF03180 FAMI structural genomics, joint center for structural genomics; 1.76A {Ruminococcus gnavus} Back     alignment and structure
>3jv9_A OXYR, transcriptional regulator, LYSR family; LYSR-type transcriptional regulator, LTTR, redox, structural genomics, OPPF; 2.39A {Neisseria meningitidis} Back     alignment and structure
>3up9_A Putative uncharacterized protein; membrane lipoprotein, L-methionine binding protein, NLPA LIP structural genomics; HET: PG4 PE4; 2.35A {Actinomyces odontolyticus} SCOP: c.94.1.0 Back     alignment and structure
>3tqw_A Methionine-binding protein; transport and binding proteins, transport protein; HET: MSE; 2.00A {Coxiella burnetii} Back     alignment and structure
>3oxn_A Putative transcriptional regulator, LYSR family; structural genomics, PSI-2, protein structure initiative; 2.70A {Vibrio parahaemolyticus} 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
>1i6a_A OXYR, hydrogen peroxide-inducible genes activator; OXYR regulatory domain, oxidized form, transcription; 2.30A {Escherichia coli} SCOP: c.94.1.1 PDB: 1i69_A 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
>2iee_A ORF2, probable ABC transporter extracellular-binding protein YCKB; SR574, NESG, X-RAY, structural genomics, PSI-2; 2.20A {Bacillus subtilis} Back     alignment and structure
>4got_A Methionine-binding lipoprotein METQ; NLPA lipoprotein, PF03180 family, structural genomics, joint for structural genomics, JCSG; HET: MSE; 1.95A {Bacillus subtilis subsp} 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
>2fyi_A HTH-type transcriptional regulator CBL; Lys-R family, cofactor-binding DO cysteine biosynthesis; 2.80A {Escherichia coli K12} SCOP: c.94.1.1 Back     alignment and structure
>2ql3_A Probable transcriptional regulator, LYSR family P; APC7314, rhodococcus RHA1, structural genomics, PSI-2; HET: MSE; 2.05A {Rhodococcus SP} Back     alignment and structure
>3p7i_A PHND, subunit of alkylphosphonate ABC transporter; phosphonate binding protein, transport protein; 1.71A {Escherichia coli UTI89} PDB: 3qk6_A 3quj_A* 3s4u_A Back     alignment and structure
>3onm_A Transcriptional regulator LRHA; LYSR, ROVM, transcription factor, virulence factor; 2.40A {Yersinia pseudotuberculosis} Back     alignment and structure
>3ho7_A OXYR; beta-alpha-barrels, DNA-binding, transcription, transcriptio regulation; 1.58A {Porphyromonas gingivalis} 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
>1uth_A LYSR-type regulatory protein; transcription regulation, transcriptional regulator; 2.2A {Burkholderia SP} SCOP: c.94.1.1 PDB: 1utb_A 1utb_B 1uth_B 2uyf_A 2uye_A Back     alignment and structure
>3ix1_A N-formyl-4-amino-5-aminomethyl-2-methylpyrimidine protein; periplasmic N-formyl-4-amino-5-aminomethyl-2-methylpyrimidin protein; HET: NFM; 2.40A {Bacillus halodurans c-125} Back     alignment and structure
>2ozz_A Hypothetical protein YHFZ; alpha-beta structure, structural genomics, PSI-2, protein structure initiative; 2.30A {Shigella flexneri 2A} SCOP: c.94.1.1 Back     alignment and structure
>4ab5_A Transcriptional regulator, LYSR family; transcription factors; 2.51A {Neisseria meningitidis serogroup B} PDB: 4ab6_A Back     alignment and structure
>1twy_A ABC transporter, periplasmic substrate-binding PR; nysgxrc target, structural genomics, protei structure initiative, PSI; 1.65A {Vibrio cholerae o1 biovar eltor} SCOP: c.94.1.1 Back     alignment and structure
>2a5s_A N-methyl-D-aspartate receptor nmdar2A subunit, NMDA receptor nmdar2A; protein-ligand complex, metal transport,membrane protein; HET: GLU; 1.70A {Rattus norvegicus} SCOP: c.94.1.1 PDB: 2a5t_B* 3oen_A* 3oel_A* 3oem_A* 3oek_A* Back     alignment and structure
>1us5_A Putative GLUR0 ligand binding core; receptor, membrane protein, glutamate receptor, L-glutamate; HET: GLU; 1.5A {Thermus thermophilus} SCOP: c.94.1.1 PDB: 1us4_A* Back     alignment and structure
>3hhf_B Transcriptional regulator, LYSR family; transcription factor, structur genomics, oxford protein production facility, OPPF; 2.30A {Neisseria meningitidis serogroup B} Back     alignment and structure
>2esn_A Probable transcriptional regulator; PA0477, APC5828,transcription, PSI, protein struc initiative, MCSG; 2.10A {Pseudomonas aeruginosa} SCOP: a.4.5.37 c.94.1.1 Back     alignment and structure
>2x7q_A Ca3427, possible thiamine biosynthesis enzyme; unknown function; 2.00A {Candida albicans} PDB: 2x7p_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 326
d1pdaa1217 c.94.1.1 (A:3-219) Porphobilinogen deaminase (hydr 3e-61
>d1pdaa1 c.94.1.1 (A:3-219) Porphobilinogen deaminase (hydroxymethylbilane synthase), N-terminal domain {Escherichia coli [TaxId: 562]} Length = 217 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: Porphobilinogen deaminase (hydroxymethylbilane synthase), N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score =  192 bits (489), Expect = 3e-61
 Identities = 108/213 (50%), Positives = 141/213 (66%), Gaps = 5/213 (2%)

Query: 67  IIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKG 126
           ++RI TR SPLAL QAH  ++KLMA HP L     +++V + T GD IL  PLA +GGKG
Sbjct: 3   VLRIATRQSPLALWQAHYVKDKLMASHPGLV----VELVPMVTRGDVILDTPLAKVGGKG 58

Query: 127 LFTKEIDEALINSQIDIAVHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELP 186
           LF KE++ AL+ ++ DIAVHSMKDVP   P+   L    +RED RDAF+S +  SL  LP
Sbjct: 59  LFVKELEVALLENRADIAVHSMKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDALP 118

Query: 187 AGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLRKLNERVVQATLLALAGLKRLSM 246
           AGSIVGT+SLRR+ Q+  R P   ++ + RGNV TRL KL+     A +LA+AGLKRL +
Sbjct: 119 AGSIVGTSSLRRQCQLAERRPD-LIIRSLRGNVGTRLSKLDNGEYDAIILAVAGLKRLGL 177

Query: 247 TENVTNILSVDDMLPAVAQGAIGIACRSNDEKM 279
              +   L  +  LPAV QGA+GI CR +D + 
Sbjct: 178 ESRIRAALPPEISLPAVGQGAVGIECRLDDSRT 210

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query326
d1pdaa1217 Porphobilinogen deaminase (hydroxymethylbilane syn 100.0
d1xs5a_240 Putative lipoprotein (NlpA family) {Treponema pall 97.18
d2ozza1228 Hypothetical protein YhfZ {Shigella flexneri [TaxI 96.54
d1p99a_255 Putative lipoprotein (NlpA family) {Staphylococcus 96.16
d1xt8a1248 Putative amino-acid transporter CjaA {Campylobacte 94.18
d2fyia1220 LysR-type regulatory protein Cbl {Escherichia coli 92.77
d1ixca2205 LysR-type regulatory protein CbnR {Ralstonia eutro 91.73
d1wdna_223 Glutamine-binding protein {Escherichia coli [TaxId 91.31
d2czla1270 Hypothetical protein TTHA1568 {Thermus thermophilu 91.27
d1i6aa_212 Hydrogen peroxide-inducible genes LysR-type activa 89.29
d1al3a_237 Cofactor-binding fragment of LysR-type protein Cys 89.14
d2esna2212 Probable LysR-type transcriptional regulator PA047 88.53
d1utha_219 LysR-type regulatory protein DntR {Burkholderia sp 87.75
>d1pdaa1 c.94.1.1 (A:3-219) Porphobilinogen deaminase (hydroxymethylbilane synthase), N-terminal domain {Escherichia coli [TaxId: 562]} 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: Porphobilinogen deaminase (hydroxymethylbilane synthase), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.5e-84  Score=592.91  Aligned_cols=217  Identities=50%  Similarity=0.744  Sum_probs=203.0

Q ss_pred             CceEEEEeCCCHHHHHHHHHHHHHHHhhCCCcccCccEEEEEeeccCccccCccccccCCccccHHHHHHHHHcCCCcEE
Q 020472           65 VAIIRIGTRGSPLALAQAHETRNKLMALHPELAQEGAIQIVIIKTTGDKILSQPLADIGGKGLFTKEIDEALINSQIDIA  144 (326)
Q Consensus        65 ~~~IrIGTR~S~LAlaQa~~V~~~L~~~~p~l~~~~~~eiv~i~T~GD~~~~~pL~~iGgkGlFtkELe~ALl~g~iDiA  144 (326)
                      .+.||||||+|+||+|||++|.+.|++.||++    ++|+++|+|+||++++.||+++||||+||+|||++|++|+||||
T Consensus         1 ~~~IrIgtR~S~LAl~Qa~~v~~~L~~~~p~~----~~ei~~i~T~GD~~~~~~l~~~ggkg~Ftkele~~Ll~~~iDiA   76 (217)
T d1pdaa1           1 DNVLRIATRQSPLALWQAHYVKDKLMASHPGL----VVELVPMVTRGDVILDTPLAKVGGKGLFVKELEVALLENRADIA   76 (217)
T ss_dssp             CCEEEEEECCSHHHHHHHHHHHHHHHHHCTTC----EEEEEECCCHHHHC---------CCCTTTHHHHHHHHTTSCSEE
T ss_pred             CCcEEEEeCCcHHHHHHHHHHHHHHHHhCCCC----cEEEEEEeccCCccccccccccchhHHHHHHHHHHHHcCcccee
Confidence            36799999999999999999999999999987    59999999999999999999999999999999999999999999


Q ss_pred             EeeCCCCCCCCCCCceeeeecCCCCCcceeeccCccCcccCCCCCEEecCChHHHHHHHhhCCCCEEEeccCCCHHHHHh
Q 020472          145 VHSMKDVPTYLPEKTILPCNLQREDVRDAFISLSAASLAELPAGSIVGTASLRRKSQILHRYPSLKVMENFRGNVQTRLR  224 (326)
Q Consensus       145 VHSlKDlPt~lp~gL~iaAv~kReDprD~LV~~~~~~l~dLp~ga~IGTSS~RR~aQL~~~~Pdl~v~~~iRGNV~TRL~  224 (326)
                      |||+||||+++|+||.|+|+++|+||||+||++++.++++||+|++|||||+||++||+++|||++|+ ++||||+|||+
T Consensus        77 VHS~KDlP~~~~~~l~i~a~~~R~d~rD~li~~~~~~l~~l~~~~~IGTsS~RR~aql~~~~p~l~~~-~iRGNv~TRl~  155 (217)
T d1pdaa1          77 VHSMKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDALPAGSIVGTSSLRRQCQLAERRPDLIIR-SLRGNVGTRLS  155 (217)
T ss_dssp             EEEGGGSCSCCCTTEEEEEECCCCCCCEEEECSSCSSTTTSCTTCEEECCCHHHHHHHHHHCTTSEEE-CCCSCHHHHHH
T ss_pred             hhhhcccccccCCccccccccccCCcchhccccCcCCHhhCCCCCEecccchhHHHHHHHhCCCCcee-ecccchhhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999 99999999999


Q ss_pred             hhccCCccEEeeehhhhcccCCCccceeeecCCCCCCCcccceeeeEeecCchhHHhhhhcc
Q 020472          225 KLNERVVQATLLALAGLKRLSMTENVTNILSVDDMLPAVAQGAIGIACRSNDEKMVPFTTHS  286 (326)
Q Consensus       225 KL~~ge~DAIILA~AGL~RLgl~~~i~~~L~~~~~lPA~GQGaLAVe~R~dD~~~~~lL~~~  286 (326)
                      ||++|+|||||||+|||+|||+.++++++|++++|+||||||+||||||++|+++.++|+.+
T Consensus       156 Kl~~g~~DaiILA~AGL~RL~l~~~i~~~l~~~~~~PA~gQGaiaIe~r~~d~~~~~il~~i  217 (217)
T d1pdaa1         156 KLDNGEYDAIILAVAGLKRLGLESRIRAALPPEISLPAVGQGAVGIECRLDDSRTRELLAAL  217 (217)
T ss_dssp             HHHTTSCSEEEEEHHHHHHTTCGGGCSEECCTTTSCCCTTTTCEEEEEETTCHHHHHHHGGG
T ss_pred             HhhccCcCEEEeehhHHhhcCcchheeEEcChhhcCChHhhhheEEEEcCCCHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999999999998764
>d1xs5a_ c.94.1.1 (A:) Putative lipoprotein (NlpA family) {Treponema pallidum [TaxId: 160]} Back     information, alignment and structure
>d2ozza1 c.94.1.1 (A:1-228) Hypothetical protein YhfZ {Shigella flexneri [TaxId: 623]} Back     information, alignment and structure
>d1p99a_ c.94.1.1 (A:) Putative lipoprotein (NlpA family) {Staphylococcus aureus [TaxId: 1280]} 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
>d2fyia1 c.94.1.1 (A:88-307) LysR-type regulatory protein Cbl {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1ixca2 c.94.1.1 (A:90-294) LysR-type regulatory protein CbnR {Ralstonia eutropha [TaxId: 106590]} Back     information, alignment and structure
>d1wdna_ c.94.1.1 (A:) Glutamine-binding protein {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2czla1 c.94.1.1 (A:3-272) Hypothetical protein TTHA1568 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1i6aa_ c.94.1.1 (A:) Hydrogen peroxide-inducible genes LysR-type activator OxyR, regulatory domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1al3a_ c.94.1.1 (A:) Cofactor-binding fragment of LysR-type protein CysB {Klebsiella aerogenes [TaxId: 28451]} Back     information, alignment and structure
>d2esna2 c.94.1.1 (A:92-303) Probable LysR-type transcriptional regulator PA0477 {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1utha_ c.94.1.1 (A:) LysR-type regulatory protein DntR {Burkholderia sp. [TaxId: 36773]} Back     information, alignment and structure