Citrus Sinensis ID: 029477

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---
MAAIANPASFTPLNFSSHLKELPLVNFGSVRPSLRISRLSRLKCTRNVSNLHVIRAQSSPDYIPDSKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGSEFSEDKFVAKVKMEIVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTGERGEKAERMAGGWSDISSAV
cccccccccccccccccccccccccccccccccccccHHHHccccccccccHHHHccccccccccccEEEEEEEEccccHHHHHHHHHHccccEEEEccEEcccccccEEEEEcccEEEEcccccccEEEEEEccccHHHHHHHHHHHHccccccccEEEEEEcccEEEEccccccHHHHHHccccccccccc
ccccccccEEcccccccccccccccccEEEcccccccccHHHHcccccccccEEEcccccccccHHHHHEEEEEEcHHHHHHHHHHHHHHcccccEEEEEEEcccccccccccccccccccEEEEEEEEEEEEcHHHHHHHHHHHHHHHccccccccEEEEEEccEEEEcccccEEEccHHHHccccccHccc
maaianpasftplnfsshlkelplvnfgsvrpslrisrlsrlkctrnvsnlhviraqsspdyipdskfykveaiLRPWRVQQVSSALLNMgirgvtvsdvrgfgaqggsterhggsefsedkFVAKVKMEIVVSKDQVEGVIDKIMEEArtgeigdgkiflvpvsdvirvrtgergekaermaggwsdissav
maaianpasftplnfsSHLKELPLvnfgsvrpslrisrlsrlkctrnvsnlhviraqsspdyipdSKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAqggsterhggsefsedkfVAKVKMEIvvskdqvegVIDKIMEeartgeigdgkiflvpvsdvirvrtgergekaermaggwsdissav
MAAIANPASFTPLNFSSHLKELPLVNFGSVRPslrisrlsrlKCTRNVSNLHVIRAQSSPDYIPDSKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGSEFSEDKFVAKVKMEIVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTGERGEKAERMAGGWSDISSAV
*************NFSSHLKELPLVNFGSVRPSLRISRLSRLKCTRNVSNLHVIRAQSSPDYIPDSKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFG*****************KFVAKVKMEIVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVR**********************
***********PLNFSSHLKELPLVNFGSVRP*********************************SKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGSEFSEDKFVAKVKMEIVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTGERGEKAERMAGGW*******
********SFTPLNFSSHLKELPLVNFGSVRPSLRISRLSRLKCTRNVSNLHVIRAQSSPDYIPDSKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFG************EFSEDKFVAKVKMEIVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTGERGEKAERMAGGWSDISSAV
***IANPASFTPLNFSSHLKELPLVNFGSVRPSLRISRLSRLKCTRNVSNLHVIRAQSSPDYIPDSKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGSEFSEDKFVAKVKMEIVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTGERGEKAER************
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MAAIANPASFTPLNFSSHLKELPLVNFGSVRPSLRISRLSRLKCTRNVSNLHVIRAQSSPDYIPDSKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGSEFSEDKFVAKVKMEIVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTGERGEKAERMAGGWSDISSAV
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 ?
Query193 2.2.26 [Sep-21-2011]
Q9ZST4196 Nitrogen regulatory prote yes no 0.948 0.933 0.702 1e-65
Q6AUR2212 Nitrogen regulatory prote yes no 0.683 0.622 0.819 5e-57
O30794112 Nitrogen regulatory prote yes no 0.564 0.973 0.590 1e-29
Q47894112 Nitrogen regulatory prote N/A no 0.564 0.973 0.581 2e-29
P0A3F5112 Nitrogen regulatory prote yes no 0.564 0.973 0.581 7e-29
P0A3F4112 Nitrogen regulatory prote yes no 0.564 0.973 0.581 7e-29
Q55247112 Nitrogen regulatory prote N/A no 0.564 0.973 0.572 1e-28
O66513112 Nitrogen regulatory prote yes no 0.564 0.973 0.527 2e-27
Q9CJK1112 Nitrogen regulatory prote yes no 0.564 0.973 0.536 1e-25
P21193112 Nitrogen regulatory prote yes no 0.549 0.946 0.485 1e-23
>sp|Q9ZST4|GLNB_ARATH Nitrogen regulatory protein P-II homolog OS=Arabidopsis thaliana GN=GLB1 PE=1 SV=1 Back     alignment and function desciption
 Score =  248 bits (634), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 132/188 (70%), Positives = 148/188 (78%), Gaps = 5/188 (2%)

Query: 2   AAIANPASFTPLNFSSHLKELPLVNFGSVRPSLRISRLSRLK-CTRNVSN----LHVIRA 56
           A++  P S T L F S  K +   +  S+    R SR S L   T++ SN    L V+ A
Sbjct: 3   ASMTKPISITSLGFYSDRKNIAFSDCISICSGFRHSRPSCLDLVTKSPSNNSRVLPVVSA 62

Query: 57  QSSPDYIPDSKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGS 116
           Q S DYIPDSKFYKVEAI+RPWR+QQVSSALL +GIRGVTVSDVRGFGAQGGSTERHGGS
Sbjct: 63  QISSDYIPDSKFYKVEAIVRPWRIQQVSSALLKIGIRGVTVSDVRGFGAQGGSTERHGGS 122

Query: 117 EFSEDKFVAKVKMEIVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTGERG 176
           EFSEDKFVAKVKMEIVV KDQVE VI+ I+E ARTGEIGDGKIF++PVSDVIRVRTGERG
Sbjct: 123 EFSEDKFVAKVKMEIVVKKDQVESVINTIIEGARTGEIGDGKIFVLPVSDVIRVRTGERG 182

Query: 177 EKAERMAG 184
           EKAE+M G
Sbjct: 183 EKAEKMTG 190
Participates in sensing carbon and organic nitrogen status and regulates some steps of primary carbon and nitrogen metabolism. Required for nitrite uptake in chloroplasts and regulates arginine biosynthesis through interaction with acetylglutamate kinase (NAGK) in chloroplasts. Regulates fatty acids synthesis in chloroplasts by interacting with the acetyl-coA carboxylase complex and inhibiting acetyl-CoA carboxylase (ACCase) activity.
Arabidopsis thaliana (taxid: 3702)
>sp|Q6AUR2|GLNB_ORYSJ Nitrogen regulatory protein P-II homolog OS=Oryza sativa subsp. japonica GN=GLB PE=2 SV=1 Back     alignment and function description
>sp|O30794|GLNB_NOSP7 Nitrogen regulatory protein P-II OS=Nostoc punctiforme (strain ATCC 29133 / PCC 73102) GN=glnB PE=3 SV=1 Back     alignment and function description
>sp|Q47894|GLNB_FREDI Nitrogen regulatory protein P-II OS=Fremyella diplosiphon GN=glnB PE=3 SV=1 Back     alignment and function description
>sp|P0A3F5|GLNB_SYNP6 Nitrogen regulatory protein P-II OS=Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) GN=glnB PE=1 SV=1 Back     alignment and function description
>sp|P0A3F4|GLNB_SYNE7 Nitrogen regulatory protein P-II OS=Synechococcus elongatus (strain PCC 7942) GN=glnB PE=1 SV=1 Back     alignment and function description
>sp|Q55247|GLNB_SYNY3 Nitrogen regulatory protein P-II OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=glnB PE=1 SV=1 Back     alignment and function description
>sp|O66513|GLNB_AQUAE Nitrogen regulatory protein P-II OS=Aquifex aeolicus (strain VF5) GN=glnB PE=1 SV=1 Back     alignment and function description
>sp|Q9CJK1|GLNB_PASMU Nitrogen regulatory protein P-II OS=Pasteurella multocida (strain Pm70) GN=glnB PE=3 SV=1 Back     alignment and function description
>sp|P21193|GLNB_AZOBR Nitrogen regulatory protein P-II OS=Azospirillum brasilense GN=glnB 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 ?
Query193
225437667198 PREDICTED: nitrogen regulatory protein P 0.989 0.964 0.715 1e-72
3885941197 PII protein [Ricinus communis] 0.984 0.964 0.726 3e-70
158564568200 PII protein [Paeonia suffruticosa] gi|32 0.984 0.95 0.698 5e-68
224068642201 predicted protein [Populus trichocarpa] 0.968 0.930 0.702 1e-67
350539707199 PII-like protein [Solanum lycopersicum] 0.844 0.819 0.774 5e-67
357511443194 Nitrogen regulatory protein P-II [Medica 0.974 0.969 0.7 9e-67
13277515194 PII protein [Medicago sativa] 0.974 0.969 0.689 3e-66
15234360196 GLNB1-like protein [Arabidopsis thaliana 0.948 0.933 0.702 7e-64
359807045195 uncharacterized protein LOC100775624 [Gl 1.0 0.989 0.661 3e-63
297814135196 hypothetical protein ARALYDRAFT_490384 [ 0.948 0.933 0.675 5e-63
>gi|225437667|ref|XP_002279289.1| PREDICTED: nitrogen regulatory protein P-II homolog [Vitis vinifera] gi|297744028|emb|CBI36998.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  278 bits (710), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 141/197 (71%), Positives = 160/197 (81%), Gaps = 6/197 (3%)

Query: 1   MAAIANPASFTPLNFSSHLKELPLVNFGSVRPSLRISRLSR----LKCTRNVSNLHVIRA 56
           MAA+  PAS  P  F  H +ELPL++   +RP+L+ SR  +    L  ++N S L ++RA
Sbjct: 1   MAAMPKPASLNPFRF--HFQELPLIDCTLIRPNLKDSRNFQFNLCLNRSKNGSVLPIVRA 58

Query: 57  QSSPDYIPDSKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGS 116
           QSSPDY PD++FYKVEAILRPWR+QQVSSALL MGIRGVTVSDVRGFGAQGGS ER  GS
Sbjct: 59  QSSPDYTPDAQFYKVEAILRPWRIQQVSSALLKMGIRGVTVSDVRGFGAQGGSPERQAGS 118

Query: 117 EFSEDKFVAKVKMEIVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTGERG 176
           EFSEDKFVAKVKMEIVVSKDQVE VIDKI E ARTGEIGDGKIFLVP+SDVIRVRTGERG
Sbjct: 119 EFSEDKFVAKVKMEIVVSKDQVEAVIDKISEVARTGEIGDGKIFLVPISDVIRVRTGERG 178

Query: 177 EKAERMAGGWSDISSAV 193
           E AERM GG +D+S+  
Sbjct: 179 ELAERMTGGRTDMSTTT 195

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|3885941|gb|AAC78332.1| PII protein [Ricinus communis] Back     alignment and taxonomy information
>gi|158564568|gb|ABW74472.1| PII protein [Paeonia suffruticosa] gi|324959711|gb|ADY49968.1| PII protein [Paeonia suffruticosa] Back     alignment and taxonomy information
>gi|224068642|ref|XP_002302789.1| predicted protein [Populus trichocarpa] gi|222844515|gb|EEE82062.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|350539707|ref|NP_001234506.1| PII-like protein [Solanum lycopersicum] gi|38231570|gb|AAR14689.1| PII-like protein [Solanum lycopersicum] Back     alignment and taxonomy information
>gi|357511443|ref|XP_003626010.1| Nitrogen regulatory protein P-II [Medicago truncatula] gi|355501025|gb|AES82228.1| Nitrogen regulatory protein P-II [Medicago truncatula] Back     alignment and taxonomy information
>gi|13277515|gb|AAK16221.1| PII protein [Medicago sativa] Back     alignment and taxonomy information
>gi|15234360|ref|NP_192099.1| GLNB1-like protein [Arabidopsis thaliana] gi|75338976|sp|Q9ZST4.1|GLNB_ARATH RecName: Full=Nitrogen regulatory protein P-II homolog; AltName: Full=Protein PII-like; Flags: Precursor gi|4558559|gb|AAD22652.1|AC007138_16 P II nitrogen sensing protein GLB I [Arabidopsis thaliana] gi|3885943|gb|AAC78333.1| PII protein [Arabidopsis thaliana] gi|7268574|emb|CAB80683.1| P II nitrogen sensing protein GLB I [Arabidopsis thaliana] gi|28950699|gb|AAO63273.1| At4g01900 [Arabidopsis thaliana] gi|110736348|dbj|BAF00143.1| P II nitrogen sensing protein GLB I [Arabidopsis thaliana] gi|332656694|gb|AEE82094.1| GLNB1-like protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|359807045|ref|NP_001241339.1| uncharacterized protein LOC100775624 [Glycine max] gi|255638358|gb|ACU19491.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|297814135|ref|XP_002874951.1| hypothetical protein ARALYDRAFT_490384 [Arabidopsis lyrata subsp. lyrata] gi|297320788|gb|EFH51210.1| hypothetical protein ARALYDRAFT_490384 [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 ?
Query193
TAIR|locus:2141355196 GLB1 "GLNB1 homolog" [Arabidop 0.948 0.933 0.680 5.1e-58
UNIPROTKB|Q55247112 glnB "Nitrogen regulatory prot 0.564 0.973 0.572 3.4e-29
UNIPROTKB|P0A3F4112 glnB "Nitrogen regulatory prot 0.564 0.973 0.581 1.2e-28
TIGR_CMR|GSU_1836112 GSU_1836 "nitrogen regulatory 0.564 0.973 0.545 5e-28
TIGR_CMR|CPS_3917112 CPS_3917 "Nitrogen regulatory 0.564 0.973 0.5 3.6e-25
UNIPROTKB|Q9KPX3114 VC_2239 "Nitrogen regulatory p 0.564 0.956 0.509 5.9e-25
TIGR_CMR|SO_3519112 SO_3519 "nitrogen regulatory p 0.564 0.973 0.518 5.9e-25
TIGR_CMR|VC_2239114 VC_2239 "nitrogen regulatory p 0.564 0.956 0.509 5.9e-25
TIGR_CMR|GSU_0939112 GSU_0939 "nitrogen regulatory 0.559 0.964 0.467 5.3e-24
UNIPROTKB|P0A9Z1112 glnB "PII" [Escherichia coli K 0.564 0.973 0.490 1.4e-23
TAIR|locus:2141355 GLB1 "GLNB1 homolog" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 596 (214.9 bits), Expect = 5.1e-58, P = 5.1e-58
 Identities = 128/188 (68%), Positives = 142/188 (75%)

Query:     2 AAIANPASFTPLNFSSHLKELPLVNFGSV----RPXXXXXXXXXXKCTRNVSN-LHVIRA 56
             A++  P S T L F S  K +   +  S+    R           K   N S  L V+ A
Sbjct:     3 ASMTKPISITSLGFYSDRKNIAFSDCISICSGFRHSRPSCLDLVTKSPSNNSRVLPVVSA 62

Query:    57 QSSPDYIPDSKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGS 116
             Q S DYIPDSKFYKVEAI+RPWR+QQVSSALL +GIRGVTVSDVRGFGAQGGSTERHGGS
Sbjct:    63 QISSDYIPDSKFYKVEAIVRPWRIQQVSSALLKIGIRGVTVSDVRGFGAQGGSTERHGGS 122

Query:   117 EFSEDKFVAKVKMEIVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTGERG 176
             EFSEDKFVAKVKMEIVV KDQVE VI+ I+E ARTGEIGDGKIF++PVSDVIRVRTGERG
Sbjct:   123 EFSEDKFVAKVKMEIVVKKDQVESVINTIIEGARTGEIGDGKIFVLPVSDVIRVRTGERG 182

Query:   177 EKAERMAG 184
             EKAE+M G
Sbjct:   183 EKAEKMTG 190
GO:0006808 "regulation of nitrogen utilization" evidence=IEA
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0030234 "enzyme regulator activity" evidence=IEA
GO:0005515 "protein binding" evidence=IPI
GO:0010307 "acetylglutamate kinase regulator activity" evidence=IDA
GO:2000013 "regulation of arginine biosynthetic process via ornithine" evidence=TAS
GO:0000287 "magnesium ion binding" evidence=IDA
GO:0005524 "ATP binding" evidence=IDA
GO:0009534 "chloroplast thylakoid" evidence=IDA
GO:0009536 "plastid" evidence=IDA
GO:0042304 "regulation of fatty acid biosynthetic process" evidence=IMP
GO:0005829 "cytosol" evidence=IDA
GO:0000096 "sulfur amino acid metabolic process" evidence=RCA
GO:0006546 "glycine catabolic process" evidence=RCA
GO:0006636 "unsaturated fatty acid biosynthetic process" evidence=RCA
GO:0006733 "oxidoreduction coenzyme metabolic process" evidence=RCA
GO:0006766 "vitamin metabolic process" evidence=RCA
GO:0006816 "calcium ion transport" evidence=RCA
GO:0007030 "Golgi organization" evidence=RCA
GO:0008652 "cellular amino acid biosynthetic process" evidence=RCA
GO:0009072 "aromatic amino acid family metabolic process" evidence=RCA
GO:0009106 "lipoate metabolic process" evidence=RCA
GO:0009108 "coenzyme biosynthetic process" evidence=RCA
GO:0009117 "nucleotide metabolic process" evidence=RCA
GO:0009409 "response to cold" evidence=RCA
GO:0009651 "response to salt stress" evidence=RCA
GO:0009695 "jasmonic acid biosynthetic process" evidence=RCA
GO:0009744 "response to sucrose stimulus" evidence=IEP;RCA
GO:0009749 "response to glucose stimulus" evidence=RCA
GO:0009750 "response to fructose stimulus" evidence=RCA
GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA
GO:0019748 "secondary metabolic process" evidence=RCA
GO:0044272 "sulfur compound biosynthetic process" evidence=RCA
GO:0006807 "nitrogen compound metabolic process" evidence=ISS
GO:0009416 "response to light stimulus" evidence=IEP
GO:0009718 "anthocyanin-containing compound biosynthetic process" evidence=IMP
UNIPROTKB|Q55247 glnB "Nitrogen regulatory protein P-II" [Synechocystis sp. PCC 6803 substr. Kazusa (taxid:1111708)] Back     alignment and assigned GO terms
UNIPROTKB|P0A3F4 glnB "Nitrogen regulatory protein P-II" [Synechococcus elongatus PCC 7942 (taxid:1140)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_1836 GSU_1836 "nitrogen regulatory protein P-II" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
TIGR_CMR|CPS_3917 CPS_3917 "Nitrogen regulatory protein P-II" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
UNIPROTKB|Q9KPX3 VC_2239 "Nitrogen regulatory protein P-II" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)] Back     alignment and assigned GO terms
TIGR_CMR|SO_3519 SO_3519 "nitrogen regulatory protein P-II 1" [Shewanella oneidensis MR-1 (taxid:211586)] Back     alignment and assigned GO terms
TIGR_CMR|VC_2239 VC_2239 "nitrogen regulatory protein P-II" [Vibrio cholerae O1 biovar El Tor (taxid:686)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_0939 GSU_0939 "nitrogen regulatory protein P-II, putative" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
UNIPROTKB|P0A9Z1 glnB "PII" [Escherichia coli K-12 (taxid:83333)] 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) ?
Q9ZST4GLNB_ARATHNo assigned EC number0.70210.94810.9336yesno
Q6AUR2GLNB_ORYSJNo assigned EC number0.81950.68390.6226yesno

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:
GSVIVG00028171001
SubName- Full=Chromosome chr7 scaffold_42, whole genome shotgun sequence; (198 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00024113001
SubName- Full=Chromosome chr6 scaffold_3, whole genome shotgun sequence; (465 aa)
• •   • 0.900
GSVIVG00020387001
SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (502 aa)
• •   • 0.868
GSVIVG00032389001
SubName- Full=Chromosome chr4 scaffold_6, whole genome shotgun sequence; (351 aa)
•   • • 0.823
GSVIVG00000595001
SubName- Full=Chromosome chr8 scaffold_106, whole genome shotgun sequence; (351 aa)
•     • 0.764
GSVIVG00032606001
SubName- Full=Chromosome chr4 scaffold_6, whole genome shotgun sequence; (468 aa)
•     • 0.743
GSVIVG00023814001
SubName- Full=Chromosome chr7 scaffold_31, whole genome shotgun sequence; (472 aa)
•     • 0.706
GSVIVG00012370001
SubName- Full=Chromosome chr4 scaffold_373, whole genome shotgun sequence; (412 aa)
•     • 0.703
GSVIVG00001322001
SubName- Full=Chromosome chr8 scaffold_115, whole genome shotgun sequence; (476 aa)
•     • 0.697
GSVIVG00031179001
SubName- Full=Chromosome chr14 scaffold_54, whole genome shotgun sequence; (473 aa)
•     • 0.688
GSVIVG00019241001
SubName- Full=Chromosome chr7 scaffold_20, whole genome shotgun sequence; (485 aa)
•     • 0.665

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 ?
Query193
pfam00543102 pfam00543, P-II, Nitrogen regulatory protein P-II 2e-43
COG0347112 COG0347, GlnK, Nitrogen regulatory protein PII [Am 1e-42
smart00938102 smart00938, P-II, Nitrogen regulatory protein P-II 2e-42
PRK10858112 PRK10858, PRK10858, nitrogen regulatory protein P- 4e-31
PRK10665112 PRK10665, PRK10665, nitrogen regulatory protein P- 2e-27
>gnl|CDD|201295 pfam00543, P-II, Nitrogen regulatory protein P-II Back     alignment and domain information 
 Score =  139 bits (354), Expect = 2e-43
 Identities = 50/103 (48%), Positives = 76/103 (73%), Gaps = 1/103 (0%)

Query: 71  VEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGSEFSEDKFVAKVKME 130
           +EAI+RP ++ +V  AL   G+ G+TV++V+G G Q G TE + G+E+   +F+ KVK+E
Sbjct: 1   IEAIIRPEKLDEVKEALEKAGVPGMTVTEVKGRGRQKGHTEIYRGAEY-YVEFLPKVKIE 59

Query: 131 IVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTG 173
           IVV  + V+ V++ I++ ARTG+IGDGKIF+ PV + IR+RTG
Sbjct: 60  IVVPDEDVDEVVEAIIKAARTGKIGDGKIFVSPVEEAIRIRTG 102

P-II modulates the activity of glutamine synthetase. Length = 102
>gnl|CDD|223424 COG0347, GlnK, Nitrogen regulatory protein PII [Amino acid transport and metabolism] Back     alignment and domain information
>gnl|CDD|198006 smart00938, P-II, Nitrogen regulatory protein P-II Back     alignment and domain information
>gnl|CDD|182784 PRK10858, PRK10858, nitrogen regulatory protein P-II 1; Provisional Back     alignment and domain information
>gnl|CDD|182629 PRK10665, PRK10665, nitrogen regulatory protein P-II 2; 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 193
COG0347112 GlnK Nitrogen regulatory protein PII [Amino acid t 100.0
PRK10858112 nitrogen regulatory protein P-II 1; Provisional 100.0
PRK10665112 nitrogen regulatory protein P-II 2; Provisional 100.0
PF00543102 P-II: Nitrogen regulatory protein P-II members of 99.97
PF06153109 DUF970: Protein of unknown function (DUF970); Inte 99.17
COG3870109 Uncharacterized protein conserved in bacteria [Fun 98.83
PF11582102 DUF3240: Protein of unknown function (DUF3240); In 98.56
COG3323109 Uncharacterized protein conserved in bacteria [Fun 98.32
PF02641101 DUF190: Uncharacterized ACR, COG1993; InterPro: IP 97.81
COG4075110 Uncharacterized conserved protein, homolog of nitr 97.11
COG1993109 PII-like signaling protein [Signal transduction me 96.59
PF10126110 Nit_Regul_Hom: Uncharacterized protein, homolog of 96.3
TIGR00341 325 conserved hypothetical protein TIGR00341. This con 94.73
PF0802975 HisG_C: HisG, C-terminal domain; InterPro: IPR0131 93.84
PRK04164181 hypothetical protein; Provisional 93.62
TIGR03455100 HisG_C-term ATP phosphoribosyltransferase, C-termi 88.92
PF1003555 DUF2179: Uncharacterized protein conserved in bact 87.02
>COG0347 GlnK Nitrogen regulatory protein PII [Amino acid transport and metabolism] Back     alignment and domain information 
Probab=100.00  E-value=6.8e-39  Score=247.96  Aligned_cols=112  Identities=53%  Similarity=0.867  Sum_probs=110.0

Q ss_pred             eEEEEEEECCCCHHHHHHHHHhCCCceEEEEeeeeecccCCCceecccccccccccceeEEEEEEEcCccHHHHHHHHHH
Q 029477           68 FYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGSEFSEDKFVAKVKMEIVVSKDQVEGVIDKIME  147 (193)
Q Consensus        68 MKkIeAIIrp~kld~V~eAL~e~Gv~G~TV~~V~G~G~~~g~~e~~~G~~~~~d~~~~KvkIeIVV~de~ve~VIeaI~~  147 (193)
                      ||+|+|||||+++++|++||.++|++|||+++|.|+|+|+|.++.|+|.+|..+ |.||++|||+|+|+++|+++++|.+
T Consensus         1 MK~I~aIiRP~kl~~vkeaL~~~G~~gmTv~~V~G~G~Qkg~~e~yrg~~~~~~-~lpK~~ieIvV~de~ve~vie~I~~   79 (112)
T COG0347           1 MKKIEAIIRPFKLDDVKEALEKAGVPGMTVTEVKGRGRQKGHTELYRGAEYEVD-FLPKVKIEIVVSDEDVDEVIEAIKK   79 (112)
T ss_pred             CcEEEEEeCHHHhHHHHHHHHHcCCCceEEEeeeeecccCCccccccchhhhhh-cccceEEEEEEChHHHHHHHHHHHH
Confidence            899999999999999999999999999999999999999999999999999984 9999999999999999999999999


Q ss_pred             HhccCCCCCeEEEEEecCceEEcccCCcchhhh
Q 029477          148 EARTGEIGDGKIFLVPVSDVIRVRTGERGEKAE  180 (193)
Q Consensus       148 va~TG~~GDGkIFV~pVeeavrIrTgE~G~~Al  180 (193)
                      +|+||++|||||||+||++++||||||+|++||
T Consensus        80 ~a~tG~~GDGkIFV~~V~~~irIRTge~g~~al  112 (112)
T COG0347          80 AARTGKIGDGKIFVSPVEEVIRIRTGEEGEDAL  112 (112)
T ss_pred             HHhcCCCCCeEEEEEEhheEEEEecCCcccccC
Confidence            999999999999999999999999999999996

>PRK10858 nitrogen regulatory protein P-II 1; Provisional Back     alignment and domain information
>PRK10665 nitrogen regulatory protein P-II 2; Provisional Back     alignment and domain information
>PF00543 P-II: Nitrogen regulatory protein P-II members of this family Back     alignment and domain information
>PF06153 DUF970: Protein of unknown function (DUF970); InterPro: IPR010375 This is a family of uncharacterised bacterial proteins Back     alignment and domain information
>COG3870 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>PF11582 DUF3240: Protein of unknown function (DUF3240); InterPro: IPR021634 This family of proteins with unknown function appears to be restricted to Proteobacteria Back     alignment and domain information
>COG3323 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>PF02641 DUF190: Uncharacterized ACR, COG1993; InterPro: IPR003793 This is an uncharacterised domain found in proteins of unknown function Back     alignment and domain information
>COG4075 Uncharacterized conserved protein, homolog of nitrogen regulatory protein PII [Function unknown] Back     alignment and domain information
>COG1993 PII-like signaling protein [Signal transduction mechanisms] Back     alignment and domain information
>PF10126 Nit_Regul_Hom: Uncharacterized protein, homolog of nitrogen regulatory protein PII; InterPro: IPR019296 This family consists of various hypothetical archaeal proteins Back     alignment and domain information
>TIGR00341 conserved hypothetical protein TIGR00341 Back     alignment and domain information
>PF08029 HisG_C: HisG, C-terminal domain; InterPro: IPR013115 ATP phosphoribosyltransferase (2 Back     alignment and domain information
>PRK04164 hypothetical protein; Provisional Back     alignment and domain information
>TIGR03455 HisG_C-term ATP phosphoribosyltransferase, C-terminal domain Back     alignment and domain information
>PF10035 DUF2179: Uncharacterized protein conserved in bacteria (DUF2179); InterPro: IPR019264 This entry, found mostly in hypothetical bacterial proteins, has no known function 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 ?
Query193
2o66_A135 Crystal Structure Of Arabidopsis Thaliana Pii Bound 2e-60
3n5b_A112 The Complex Of Pii And Pipx From Anabaena Length = 1e-30
2jj4_D112 The Complex Of Pii And Acetylglutamate Kinase From 7e-30
2xul_A115 Structure Of Pii From Synechococcus Elongatus In Co 1e-29
1ul3_A112 Crystal Structure Of Pii From Synechocystis Sp. Pcc 1e-29
1qy7_A112 The Structure Of The Pii Protein From The Cyanobact 1e-29
2xbp_A113 A Novel Signal Transduction Protein Pii Variant Fro 5e-29
4aff_A116 High Resolution Structure Of A Pii Mutant (I86n) Pr 7e-29
2eg1_A112 The Crystal Structure Of Pii Protein Length = 112 2e-28
2gw8_A114 Structure Of The Pii Signal Transduction Protein Of 1e-26
2j9c_A119 Structure Of Glnk1 With Bound Effectors Indicates R 5e-24
2j9d_E119 Structure Of Glnk1 With Bound Effectors Indicates R 5e-24
1pil_A112 Structure Of The Escherichia Coli Signal Transducin 8e-24
3mhy_A112 A New Pii Protein Structure Length = 112 1e-23
3lf0_A114 Crystal Structure Of The Atp Bound Mycobacterium Tu 4e-23
3bzq_A114 High Resolution Crystal Structure Of Nitrogen Regul 6e-23
2gnk_A112 Glnk, A Signal Protein From E. Coli Length = 112 4e-22
2ns1_B116 Crystal Structure Of The E. Coli Ammonia Channel Am 5e-22
1gnk_A112 Glnk, A Signal Protein From E. Coli Length = 112 8e-22
3ncp_A119 Glnk2 From Archaeoglobus Fulgidus Length = 119 5e-20
1hwu_A112 Structure Of Pii Protein From Herbaspirillum Serope 2e-19
3l7p_A115 Crystal Structure Of Smu.1657c, Putative Nitrogen R 1e-18
1ufl_A116 Crystal Structure Of Tt1020 From Thermus Thermophil 1e-16
3o8w_A118 Archaeoglobus Fulgidus Glnk1 Length = 118 4e-16
3t9z_A118 A. Fulgidus Glnk3, Ligand-Free Length = 118 1e-15
>pdb|2O66|A Chain A, Crystal Structure Of Arabidopsis Thaliana Pii Bound To Citrate Length = 135 Back     alignment and structure 
Iteration: 1

 Score =  228 bits (580), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 112/128 (87%), Positives = 120/128 (93%)
Query: 57  QSSPDYIPDSKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGS 116
           Q S DYIPDSKFYKVEAI+RPWR+QQVSSALL +GIRGVTVSDVRGFGAQGGSTERHGGS
Sbjct: 2   QISSDYIPDSKFYKVEAIVRPWRIQQVSSALLKIGIRGVTVSDVRGFGAQGGSTERHGGS 61
Query: 117 EFSEDKFVAKVKMEIVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTGERG 176
           EFSEDKFVAKVKMEIVV KDQVE VI+ I+E ARTGEIGDGKIF++PVSDVIRVRTGERG
Sbjct: 62  EFSEDKFVAKVKMEIVVKKDQVESVINTIIEGARTGEIGDGKIFVLPVSDVIRVRTGERG 121
Query: 177 EKAERMAG 184
           EKAE+M G
Sbjct: 122 EKAEKMTG 129
>pdb|3N5B|A Chain A, The Complex Of Pii And Pipx From Anabaena Length = 112 Back     alignment and structure
>pdb|2JJ4|D Chain D, The Complex Of Pii And Acetylglutamate Kinase From Synechococcus Elongatus Pcc7942 Length = 112 Back     alignment and structure
>pdb|2XUL|A Chain A, Structure Of Pii From Synechococcus Elongatus In Complex With 2-Oxoglutarate At High 2-Og Concentrations Length = 115 Back     alignment and structure
>pdb|1UL3|A Chain A, Crystal Structure Of Pii From Synechocystis Sp. Pcc 6803 Length = 112 Back     alignment and structure
>pdb|1QY7|A Chain A, The Structure Of The Pii Protein From The Cyanobacteria Synechococcus Sp. Pcc 7942 Length = 112 Back     alignment and structure
>pdb|2XBP|A Chain A, A Novel Signal Transduction Protein Pii Variant From Synechococcus Elongatus Pcc7942 Indicates A Two-Step Process For Nagk Pii Complex Formation Length = 113 Back     alignment and structure
>pdb|4AFF|A Chain A, High Resolution Structure Of A Pii Mutant (I86n) Protein In Complex With Atp, Mg And Flc Length = 116 Back     alignment and structure
>pdb|2EG1|A Chain A, The Crystal Structure Of Pii Protein Length = 112 Back     alignment and structure
>pdb|2GW8|A Chain A, Structure Of The Pii Signal Transduction Protein Of Neisseria Meningitidis At 1.85 Resolution Length = 114 Back     alignment and structure
>pdb|2J9C|A Chain A, Structure Of Glnk1 With Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake Length = 119 Back     alignment and structure
>pdb|2J9D|E Chain E, Structure Of Glnk1 With Bound Effectors Indicates Regulatory Mechanism For Ammonia Uptake Length = 119 Back     alignment and structure
>pdb|1PIL|A Chain A, Structure Of The Escherichia Coli Signal Transducing Protein Pii Length = 112 Back     alignment and structure
>pdb|3MHY|A Chain A, A New Pii Protein Structure Length = 112 Back     alignment and structure
>pdb|3LF0|A Chain A, Crystal Structure Of The Atp Bound Mycobacterium Tuberculosis Nitrogen Regulatory Pii Protein Length = 114 Back     alignment and structure
>pdb|3BZQ|A Chain A, High Resolution Crystal Structure Of Nitrogen Regulatory Protein (Rv2919c) Of Mycobacterium Tuberculosis Length = 114 Back     alignment and structure
>pdb|2GNK|A Chain A, Glnk, A Signal Protein From E. Coli Length = 112 Back     alignment and structure
>pdb|2NS1|B Chain B, Crystal Structure Of The E. Coli Ammonia Channel Amtb Complexed With The Signal Transduction Protein Glnk Length = 116 Back     alignment and structure
>pdb|1GNK|A Chain A, Glnk, A Signal Protein From E. Coli Length = 112 Back     alignment and structure
>pdb|3NCP|A Chain A, Glnk2 From Archaeoglobus Fulgidus Length = 119 Back     alignment and structure
>pdb|1HWU|A Chain A, Structure Of Pii Protein From Herbaspirillum Seropedicae Length = 112 Back     alignment and structure
>pdb|3L7P|A Chain A, Crystal Structure Of Smu.1657c, Putative Nitrogen Regulatory Protein Pii From Streptococcus Mutans Length = 115 Back     alignment and structure
>pdb|1UFL|A Chain A, Crystal Structure Of Tt1020 From Thermus Thermophilus Hb8 Length = 116 Back     alignment and structure
>pdb|3O8W|A Chain A, Archaeoglobus Fulgidus Glnk1 Length = 118 Back     alignment and structure
>pdb|3T9Z|A Chain A, A. Fulgidus Glnk3, Ligand-Free Length = 118 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 ?
Query193
2o66_A135 PII protein; regulation of nitrogen and carbon met 1e-63
3ncq_A119 Nitrogen regulatory protein P-II (GLNB-2); PII sig 7e-49
2j9c_A119 GLNK1, hypothetical nitrogen regulatory PII-like p 1e-48
3t9z_A118 GLNK3, nitrogen regulatory protein P-II (GLNB-3); 2e-48
4aff_A116 Nitrogen regulatory protein P-II; signaling protei 6e-48
2eg2_A112 Nitrogen regulatory protein P-II; structural genom 1e-47
1vfj_A116 Nitrogen regulatory protein P-II; structural genom 1e-47
2gw8_A114 PII signal transduction protein; transcriptional r 2e-47
3bzq_A114 Nitrogen regulatory protein P-II; GLNB, GLNK, sign 2e-47
1hwu_A112 PII protein; herbaspirillum seropedicae PII, beta- 3e-47
3mhy_A112 PII-like protein PZ; PII protein, alpha-beta prote 4e-47
2ns1_B116 Nitrogen regulatory protein P-II 2; protein-protei 5e-47
3l7p_A115 Putative nitrogen regulatory protein PII; SMU_1 tr 2e-46
3dfe_A111 Putative PII-like signaling protein; YP_323533.1, 1e-05
2cz4_A119 Hypothetical protein TTHA0516; conserved hypotheti 8e-05
>2o66_A PII protein; regulation of nitrogen and carbon metabolism, biosynthetic protein; HET: FLC; 1.90A {Arabidopsis thaliana} PDB: 2o67_A 2rd5_C* Length = 135 Back     alignment and structure
 Score =  191 bits (488), Expect = 1e-63
 Identities = 112/129 (86%), Positives = 120/129 (93%)

Query: 57  QSSPDYIPDSKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGS 116
           Q S DYIPDSKFYKVEAI+RPWR+QQVSSALL +GIRGVTVSDVRGFGAQGGSTERHGGS
Sbjct: 2   QISSDYIPDSKFYKVEAIVRPWRIQQVSSALLKIGIRGVTVSDVRGFGAQGGSTERHGGS 61

Query: 117 EFSEDKFVAKVKMEIVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTGERG 176
           EFSEDKFVAKVKMEIVV KDQVE VI+ I+E ARTGEIGDGKIF++PVSDVIRVRTGERG
Sbjct: 62  EFSEDKFVAKVKMEIVVKKDQVESVINTIIEGARTGEIGDGKIFVLPVSDVIRVRTGERG 121

Query: 177 EKAERMAGG 185
           EKAE+M G 
Sbjct: 122 EKAEKMTGD 130
>3ncq_A Nitrogen regulatory protein P-II (GLNB-2); PII signaling, nucleotide binding, GLNK, signaling Pro; HET: ATP; 1.24A {Archaeoglobus fulgidus} PDB: 3ncp_A* 3ncr_A* Length = 119 Back     alignment and structure
>2j9c_A GLNK1, hypothetical nitrogen regulatory PII-like protein MJ0059; EM single particle, nitrogen metabolism, signalling, transcription; HET: ATP; 1.30A {Methanococcus jannaschii} PDB: 2j9d_A* 2j9e_A* 2j9d_E* Length = 119 Back     alignment and structure
>3t9z_A GLNK3, nitrogen regulatory protein P-II (GLNB-3); PII-family, AMT3, signaling protein; HET: FLC; 1.82A {Archaeoglobus fulgidus} PDB: 3ta0_A* 3ta1_A* 3ta2_A* 3o8w_A Length = 118 Back     alignment and structure
>4aff_A Nitrogen regulatory protein P-II; signaling protein; HET: ATP FLC; 1.05A {Synechococcus elongatus} PDB: 2xun_A* 2xul_A* 2xzw_A* 2xbp_A* 2v5h_G* 2jj4_D* 2xg8_A 1qy7_A 3n5b_A* 1ul3_A Length = 116 Back     alignment and structure
>2eg2_A Nitrogen regulatory protein P-II; structural genomics, NPPSFA, Na project on protein structural and functional analyses; HET: ATP; 1.72A {Aquifex aeolicus} PDB: 2eg1_A* 2z0g_A 2pii_A 1pil_A Length = 112 Back     alignment and structure
>1vfj_A Nitrogen regulatory protein P-II; structural genomics, signal transducing protein, riken structural genomics/proteomics initiative, RSGI; 1.70A {Thermus thermophilus} SCOP: d.58.5.1 PDB: 1ufl_A 1v3s_A* 1v9o_A* 1v3r_A Length = 116 Back     alignment and structure
>2gw8_A PII signal transduction protein; transcriptional regulation, neisse structural genomics, oxford protein production facility; 1.85A {Neisseria meningitidis} Length = 114 Back     alignment and structure
>3bzq_A Nitrogen regulatory protein P-II; GLNB, GLNK, signal transdu protein, nucleotide-binding, transcription; 1.40A {Mycobacterium tuberculosis H37RV} PDB: 3lf0_A* Length = 114 Back     alignment and structure
>1hwu_A PII protein; herbaspirillum seropedicae PII, beta-alpha-beta motif, signal transduction protein, signaling protein; 2.10A {Herbaspirillum seropedicae} SCOP: d.58.5.1 Length = 112 Back     alignment and structure
>3mhy_A PII-like protein PZ; PII protein, alpha-beta protein, homotrimer, signaling prote; HET: PG6 ATP AKG MES; 1.40A {Azospirillum brasilense} PDB: 3o5t_B* Length = 112 Back     alignment and structure
>2ns1_B Nitrogen regulatory protein P-II 2; protein-protein complex, membrane protein, ammonia, channel, inhibitor, signal protein, ADP, BOG; HET: BOG ADP; 1.96A {Escherichia coli} SCOP: d.58.5.1 PDB: 1gnk_A 2nuu_G* 2gnk_A* Length = 116 Back     alignment and structure
>3l7p_A Putative nitrogen regulatory protein PII; SMU_1 transcription, transcription regulation; 2.00A {Streptococcus mutans} Length = 115 Back     alignment and structure
>3dfe_A Putative PII-like signaling protein; YP_323533.1, structur genomics, joint center for structural genomics, JCSG; 2.35A {Anabaena variabilis atcc 29413} Length = 111 Back     alignment and structure
>2cz4_A Hypothetical protein TTHA0516; conserved hypothetical protein, PII-like signaling protein, structural genomics, NPPSFA; 1.93A {Thermus thermophilus} SCOP: d.58.5.1 Length = 119 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query193
2o66_A135 PII protein; regulation of nitrogen and carbon met 100.0
3ncq_A119 Nitrogen regulatory protein P-II (GLNB-2); PII sig 100.0
3mhy_A112 PII-like protein PZ; PII protein, alpha-beta prote 100.0
4aff_A116 Nitrogen regulatory protein P-II; signaling protei 100.0
3l7p_A115 Putative nitrogen regulatory protein PII; SMU_1 tr 100.0
3t9z_A118 GLNK3, nitrogen regulatory protein P-II (GLNB-3); 100.0
1hwu_A112 PII protein; herbaspirillum seropedicae PII, beta- 100.0
2ns1_B116 Nitrogen regulatory protein P-II 2; protein-protei 100.0
2j9c_A119 GLNK1, hypothetical nitrogen regulatory PII-like p 100.0
3bzq_A114 Nitrogen regulatory protein P-II; GLNB, GLNK, sign 100.0
1vfj_A116 Nitrogen regulatory protein P-II; structural genom 100.0
2eg2_A112 Nitrogen regulatory protein P-II; structural genom 100.0
2gw8_A114 PII signal transduction protein; transcriptional r 100.0
3ce8_A120 Putative PII-like nitrogen regulatory protein; str 99.93
3dfe_A111 Putative PII-like signaling protein; YP_323533.1, 99.9
2cz4_A119 Hypothetical protein TTHA0516; conserved hypotheti 99.89
3m05_A114 Uncharacterized protein PEPE_1480; structural geno 99.78
1o51_A114 Hypothetical protein TM0021; ferredoxin-like fold, 98.15
2dcl_A127 Hypothetical UPF0166 protein PH1503; hexamer, stru 97.9
2gx8_A 397 NIF3-related protein; structural genomics, unknown 95.74
2nyd_A 370 UPF0135 protein SA1388; hypothetical protein SA138 94.54
3hlu_A96 Uncharacterized protein DUF2179; alpha-beta half s 88.96
>2o66_A PII protein; regulation of nitrogen and carbon metabolism, biosynthetic protein; HET: FLC; 1.90A {Arabidopsis thaliana} PDB: 2o67_A 2rd5_C* Back     alignment and structure
Probab=100.00  E-value=5e-42  Score=271.82  Aligned_cols=133  Identities=86%  Similarity=1.277  Sum_probs=105.1

Q ss_pred             ecCCCCCCCCCeEEEEEEECCCCHHHHHHHHHhCCCceEEEEeeeeecccCCCceecccccccccccceeEEEEEEEcCc
Q 029477           57 QSSPDYIPDSKFYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGSEFSEDKFVAKVKMEIVVSKD  136 (193)
Q Consensus        57 ~~~~~~~~~~~MKkIeAIIrp~kld~V~eAL~e~Gv~G~TV~~V~G~G~~~g~~e~~~G~~~~~d~~~~KvkIeIVV~de  136 (193)
                      |++|+|+|+..||+|+|||||+++++|++||.++|++|+|+++|+|+|+|+|.++.|+|.+|..+++.||++|+++|+|+
T Consensus         2 ~~~~~~~~~~~MK~I~AIIr~~k~~~V~~AL~~~G~~G~Tv~~v~G~G~q~g~~~~~rG~~~~~~~~~pK~~ieivV~de   81 (135)
T 2o66_A            2 QISSDYIPDSKFYKVEAIVRPWRIQQVSSALLKIGIRGVTVSDVRGFGAQGGSTERHGGSEFSEDKFVAKVKMEIVVKKD   81 (135)
T ss_dssp             --CCSCSSCCSEEEEEEEECGGGHHHHHHHHHHTTCCCCEEEEEEECC---------------CCCCEEEEEEEEEEEGG
T ss_pred             ccCcCcCCCCCeEEEEEEECHHHHHHHHHHHHHCCCceEEEEeeEeEeccCCCceeEcceeeeccccCceEEEEEEEcHH
Confidence            67999999999999999999999999999999999999999999999999998888999998753589999999999999


Q ss_pred             cHHHHHHHHHHHhccCCCCCeEEEEEecCceEEcccCCcchhhhhccCCccccccC
Q 029477          137 QVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTGERGEKAERMAGGWSDISSA  192 (193)
Q Consensus       137 ~ve~VIeaI~~va~TG~~GDGkIFV~pVeeavrIrTgE~G~~Al~~~~~~~~~~~~  192 (193)
                      ++++++++|.++++||++|||+|||+||++++||||||+|++||+|+|   ||.++
T Consensus        82 ~ve~Vv~~I~~~~~tg~~GdGkIFV~pVe~~vrIrTge~g~~al~~~~---~~~~~  134 (135)
T 2o66_A           82 QVESVINTIIEGARTGEIGDGKIFVLPVSDVIRVRTGERGEKAEKMTG---DMLSP  134 (135)
T ss_dssp             GHHHHHHHHHHHHCCSSTTCCEEEEEEECEEEETTTCCBGGGTC------------
T ss_pred             HHHHHHHHHHHHhCCCCCCCEEEEEEEhHHEEEecCCCccHHHHhhcc---CCcCC
Confidence            999999999999999999999999999999999999999999999999   77543
>3ncq_A Nitrogen regulatory protein P-II (GLNB-2); PII signaling, nucleotide binding, GLNK, signaling Pro; HET: ATP; 1.24A {Archaeoglobus fulgidus} SCOP: d.58.5.0 PDB: 3ncp_A* 3ncr_A* Back     alignment and structure
>3mhy_A PII-like protein PZ; PII protein, alpha-beta protein, homotrimer, signaling prote; HET: PG6 ATP AKG MES; 1.40A {Azospirillum brasilense} SCOP: d.58.5.1 PDB: 3o5t_B* Back     alignment and structure
>4aff_A Nitrogen regulatory protein P-II; signaling protein; HET: ATP FLC; 1.05A {Synechococcus elongatus} SCOP: d.58.5.1 PDB: 2xun_A* 2xul_A* 2xzw_A* 2xbp_A* 2v5h_G* 2jj4_D* 2xg8_A 1qy7_A 3n5b_A* 1ul3_A Back     alignment and structure
>3l7p_A Putative nitrogen regulatory protein PII; SMU_1 transcription, transcription regulation; 2.00A {Streptococcus mutans} SCOP: d.58.5.1 Back     alignment and structure
>3t9z_A GLNK3, nitrogen regulatory protein P-II (GLNB-3); PII-family, AMT3, signaling protein; HET: FLC; 1.82A {Archaeoglobus fulgidus} SCOP: d.58.5.0 PDB: 3ta0_A* 3ta1_A* 3ta2_A* 3o8w_A Back     alignment and structure
>1hwu_A PII protein; herbaspirillum seropedicae PII, beta-alpha-beta motif, signal transduction protein, signaling protein; 2.10A {Herbaspirillum seropedicae} SCOP: d.58.5.1 Back     alignment and structure
>2ns1_B Nitrogen regulatory protein P-II 2; protein-protein complex, membrane protein, ammonia, channel, inhibitor, signal protein, ADP, BOG; HET: BOG ADP; 1.96A {Escherichia coli} SCOP: d.58.5.1 PDB: 1gnk_A 2nuu_G* 2gnk_A* Back     alignment and structure
>2j9c_A GLNK1, hypothetical nitrogen regulatory PII-like protein MJ0059; EM single particle, nitrogen metabolism, signalling, transcription; HET: ATP; 1.30A {Methanococcus jannaschii} PDB: 2j9d_A* 2j9e_A* 2j9d_E* Back     alignment and structure
>3bzq_A Nitrogen regulatory protein P-II; GLNB, GLNK, signal transdu protein, nucleotide-binding, transcription; 1.40A {Mycobacterium tuberculosis H37RV} PDB: 3lf0_A* Back     alignment and structure
>1vfj_A Nitrogen regulatory protein P-II; structural genomics, signal transducing protein, riken structural genomics/proteomics initiative, RSGI; 1.70A {Thermus thermophilus} SCOP: d.58.5.1 PDB: 1ufl_A 1v3s_A* 1v9o_A* 1v3r_A Back     alignment and structure
>2eg2_A Nitrogen regulatory protein P-II; structural genomics, NPPSFA, Na project on protein structural and functional analyses; HET: ATP; 1.72A {Aquifex aeolicus} PDB: 2eg1_A* 2z0g_A 2pii_A 1pil_A Back     alignment and structure
>2gw8_A PII signal transduction protein; transcriptional regulation, neisse structural genomics, oxford protein production facility; 1.85A {Neisseria meningitidis} Back     alignment and structure
>3ce8_A Putative PII-like nitrogen regulatory protein; structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: MSE; 2.40A {Shewanella baltica} Back     alignment and structure
>3dfe_A Putative PII-like signaling protein; YP_323533.1, structur genomics, joint center for structural genomics, JCSG; 2.35A {Anabaena variabilis atcc 29413} SCOP: d.58.5.0 Back     alignment and structure
>2cz4_A Hypothetical protein TTHA0516; conserved hypothetical protein, PII-like signaling protein, structural genomics, NPPSFA; 1.93A {Thermus thermophilus} SCOP: d.58.5.1 Back     alignment and structure
>3m05_A Uncharacterized protein PEPE_1480; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics; 3.15A {Pediococcus pentosaceus} Back     alignment and structure
>1o51_A Hypothetical protein TM0021; ferredoxin-like fold, structural genomics, joint center for structural genomics, JCSG; HET: ADP; 2.50A {Thermotoga maritima} SCOP: d.58.5.4 Back     alignment and structure
>2dcl_A Hypothetical UPF0166 protein PH1503; hexamer, structural genomics, NPPSFA, national project on PR structural and functional analyses; HET: AMP; 2.28A {Pyrococcus horikoshii} Back     alignment and structure
>2gx8_A NIF3-related protein; structural genomics, unknown function, protein structure initiative, midwest center for structural genomics, MCSG; HET: EPE; 2.20A {Bacillus cereus} SCOP: c.135.1.1 Back     alignment and structure
>2nyd_A UPF0135 protein SA1388; hypothetical protein SA1388, selenomethionine SAD, unknown F; 2.00A {Staphylococcus aureus subsp} PDB: 3lnl_A* Back     alignment and structure
>3hlu_A Uncharacterized protein DUF2179; alpha-beta half sandwich, structural genomics, PSI-2, protei structure initiative; 2.65A {Eubacterium ventriosum} 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 193
d1qy7a_112 d.58.5.1 (A:) PII (product of glnB) {Cyanobacteria 3e-40
d2ns1b1112 d.58.5.1 (B:1-112) PII-homolog GlnK {Shigella flex 4e-40
d1vfja_116 d.58.5.1 (A:) PII (product of glnB) {Thermus therm 1e-38
d2piia_112 d.58.5.1 (A:) PII (product of glnB) {Escherichia c 1e-37
d2cz4a1100 d.58.5.1 (A:1-100) Hypothetical protein TTHA0516 { 7e-20
>d1qy7a_ d.58.5.1 (A:) PII (product of glnB) {Cyanobacteria (Synechococcus sp.) pcc 7942 [TaxId: 1131]} Length = 112 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: GlnB-like
family: Prokaryotic signal transducing protein
domain: PII (product of glnB)
species: Cyanobacteria (Synechococcus sp.) pcc 7942 [TaxId: 1131]

 Score =  130 bits (329), Expect = 3e-40
 Identities = 63/110 (57%), Positives = 85/110 (77%), Gaps = 1/110 (0%)

Query: 70  KVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGSEFSEDKFVAKVKM 129
           K+EAI+RP+++ +V  AL+N GI G+TVS+VRGFG Q G TER+ G+E++ + F+ K+K+
Sbjct: 3   KIEAIIRPFKLDEVKIALVNAGIVGMTVSEVRGFGRQKGQTERYRGAEYTVE-FLQKLKL 61

Query: 130 EIVVSKDQVEGVIDKIMEEARTGEIGDGKIFLVPVSDVIRVRTGERGEKA 179
           EIVV   QV+ VIDKI+  ARTGEIGDGKIF+ PV   IR+RTGE+   A
Sbjct: 62  EIVVEDAQVDTVIDKIVAAARTGEIGDGKIFVSPVDQTIRIRTGEKNADA 111
>d2ns1b1 d.58.5.1 (B:1-112) PII-homolog GlnK {Shigella flexneri [TaxId: 623]} Length = 112 Back     information, alignment and structure
>d1vfja_ d.58.5.1 (A:) PII (product of glnB) {Thermus thermophilus [TaxId: 274]} Length = 116 Back     information, alignment and structure
>d2piia_ d.58.5.1 (A:) PII (product of glnB) {Escherichia coli [TaxId: 562]} Length = 112 Back     information, alignment and structure
>d2cz4a1 d.58.5.1 (A:1-100) Hypothetical protein TTHA0516 {Thermus thermophilus [TaxId: 274]} Length = 100 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query193
d1vfja_116 PII (product of glnB) {Thermus thermophilus [TaxId 100.0
d2ns1b1112 PII-homolog GlnK {Shigella flexneri [TaxId: 623]} 100.0
d1qy7a_112 PII (product of glnB) {Cyanobacteria (Synechococcu 100.0
d2piia_112 PII (product of glnB) {Escherichia coli [TaxId: 56 100.0
d2cz4a1100 Hypothetical protein TTHA0516 {Thermus thermophilu 99.85
d1o51a_102 Hypothetical protein TM0021 {Thermotoga maritima [ 97.72
d2gx8a1370 Nif3-related protein BC4286 {Bacillus cereus [TaxI 90.25
d1nh8a274 ATP phosphoribosyltransferase (ATP-PRTase, HisG), 89.75
d1h3da275 ATP phosphoribosyltransferase (ATP-PRTase, HisG), 84.43
>d1vfja_ d.58.5.1 (A:) PII (product of glnB) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: GlnB-like
family: Prokaryotic signal transducing protein
domain: PII (product of glnB)
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=1.3e-38  Score=244.48  Aligned_cols=114  Identities=39%  Similarity=0.629  Sum_probs=110.3

Q ss_pred             eEEEEEEECCCCHHHHHHHHHhCCCceEEEEeeeeecccCCCceecccccccccccceeEEEEEEEcCccHHHHHHHHHH
Q 029477           68 FYKVEAILRPWRVQQVSSALLNMGIRGVTVSDVRGFGAQGGSTERHGGSEFSEDKFVAKVKMEIVVSKDQVEGVIDKIME  147 (193)
Q Consensus        68 MKkIeAIIrp~kld~V~eAL~e~Gv~G~TV~~V~G~G~~~g~~e~~~G~~~~~d~~~~KvkIeIVV~de~ve~VIeaI~~  147 (193)
                      ||+|+|||||+|+++|++||.++|++|||+++|+|+|++.+..+.|+|.++.. ++.||++||++|+|+++++++++|++
T Consensus         1 MK~I~AIIrp~kl~~V~~aL~~~Gv~g~Tv~~v~G~G~~~~~~~~~~g~~~~~-~~~~k~~ieivv~d~~ve~vv~~I~~   79 (116)
T d1vfja_           1 MKLIVAIVRPEKLNEVLKALFQAEVRGLTLSRVQGHGGETERVETYRGTTVKM-ELHEKVRLEIGVSEPFVKPTVEAILK   79 (116)
T ss_dssp             CEEEEEEECGGGHHHHHHHHHHTTCCCCEEEEEEEECTTCCCHHHHTTSCCST-TCEEEEEEEEEECGGGHHHHHHHHHH
T ss_pred             CcEEEEEECHHHHHHHHHHHHhCCCCcEEEEeeEecCCcccccccccceEEEe-ecCCceEEEEEEcHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999888899998876 59999999999999999999999999


Q ss_pred             HhccCCCCCeEEEEEecCceEEcccCCcchhhhhc
Q 029477          148 EARTGEIGDGKIFLVPVSDVIRVRTGERGEKAERM  182 (193)
Q Consensus       148 va~TG~~GDGkIFV~pVeeavrIrTgE~G~~Al~~  182 (193)
                      +++||+.|||||||+||++++||||||+|++||..
T Consensus        80 ~a~TG~~GDGkIfV~~Ve~a~rIrTge~G~~Al~~  114 (116)
T d1vfja_          80 AARTGEVGDGKIFVLPVEKVYRIRTGEEDEAAVTP  114 (116)
T ss_dssp             HHCCSSTTCCEEEEEECSEEEETTTCCBTHHHHSC
T ss_pred             HhccCCCCCceEEEEEhHheEEecCCCcChHHhcc
Confidence            99999999999999999999999999999999964
>d2ns1b1 d.58.5.1 (B:1-112) PII-homolog GlnK {Shigella flexneri [TaxId: 623]} Back     information, alignment and structure
>d1qy7a_ d.58.5.1 (A:) PII (product of glnB) {Cyanobacteria (Synechococcus sp.) pcc 7942 [TaxId: 1131]} Back     information, alignment and structure
>d2piia_ d.58.5.1 (A:) PII (product of glnB) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2cz4a1 d.58.5.1 (A:1-100) Hypothetical protein TTHA0516 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1o51a_ d.58.5.4 (A:) Hypothetical protein TM0021 {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d2gx8a1 c.135.1.1 (A:4-373) Nif3-related protein BC4286 {Bacillus cereus [TaxId: 1396]} Back     information, alignment and structure
>d1nh8a2 d.58.5.3 (A:211-284) ATP phosphoribosyltransferase (ATP-PRTase, HisG), regulatory C-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]} Back     information, alignment and structure
>d1h3da2 d.58.5.3 (A:225-299) ATP phosphoribosyltransferase (ATP-PRTase, HisG), regulatory C-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure