SPO0413 protein (Ruegeria pomeroyi) - STRING interaction network

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Predicted Interactions

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SPO0413

Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053. (403 aa)

Predicted Functional Partners:

SPO1921

0.733

SPO1153

0.717

cysK

0.694

metF

0.604

SPO1862

0.589

metA

0.559

SPO0414

0.550

sat

0.550

SPO0412

0.538

hom

0.452

Your Current Organism:

Ruegeria pomeroyi

NCBI taxonomy Id: 246200
Other names: R. pomeroyi DSS-3, Ruegeria pomeroyi DSS-3, Ruegeria pomeroyi str. DSS-3, Ruegeria pomeroyi strain DSS-3, Silicibacter pomeroyi DSS-3

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SPO0412	SPO0413	SPO0412	SPO0413	Hypothetical protein; Identified by Glimmer2; putative.	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	0.538
SPO0413	SPO0412	SPO0413	SPO0412	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	Hypothetical protein; Identified by Glimmer2; putative.	0.538
SPO0413	SPO0414	SPO0413	SPO0414	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	Peptidyl-dipeptidase, putative; Identified by similarity to SP:P27236; match to protein family HMM PF01432.	0.550
SPO0413	SPO1153	SPO0413	SPO1153	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	CoA-binding domain protein; Identified by match to protein family HMM PF02629.	0.717
SPO0413	SPO1862	SPO0413	SPO1862	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	metFprotein-like protein; Identified by similarity to PIR:B97532.	0.589
SPO0413	SPO1921	SPO0413	SPO1921	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	Pyridoxal-phosphate dependent enzyme; Identified by match to protein family HMM PF00291.	0.733
SPO0413	cysK	SPO0413	SPO2246	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	Cysteine synthase A; Identified by similarity to SP:P37887; match to protein family HMM PF00291; match to protein family HMM TIGR01136; match to protein family HMM TIGR01139.	0.694
SPO0413	hom	SPO0413	SPO1734	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	Homoserine dehydrogenase; Identified by similarity to SP:P08499; match to protein family HMM PF00742; match to protein family HMM PF01842; match to protein family HMM PF03447.	0.452
SPO0413	metA	SPO0413	SPO1729	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	Homoserine O-succinyltransferase; Transfers an acetyl group from acetyl-CoA to L-homoserine, forming acetyl-L-homoserine; Belongs to the MetA family.	0.559
SPO0413	metF	SPO0413	SPO3016	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	5,10-methylenetetrahydrofolate reductase; Identified by similarity to SP:P00394; match to protein family HMM PF02219; match to protein family HMM TIGR00676; Belongs to the methylenetetrahydrofolate reductase family.	0.604
SPO0413	sat	SPO0413	SPO0900	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	Sulfate adenylyltransferase; Catalyzes the synthesis of activated sulfate.	0.550
SPO0414	SPO0413	SPO0414	SPO0413	Peptidyl-dipeptidase, putative; Identified by similarity to SP:P27236; match to protein family HMM PF01432.	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	0.550
SPO1153	SPO0413	SPO1153	SPO0413	CoA-binding domain protein; Identified by match to protein family HMM PF02629.	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	0.717
SPO1862	SPO0413	SPO1862	SPO0413	metFprotein-like protein; Identified by similarity to PIR:B97532.	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	0.589
SPO1862	hom	SPO1862	SPO1734	metFprotein-like protein; Identified by similarity to PIR:B97532.	Homoserine dehydrogenase; Identified by similarity to SP:P08499; match to protein family HMM PF00742; match to protein family HMM PF01842; match to protein family HMM PF03447.	0.485
SPO1862	metA	SPO1862	SPO1729	metFprotein-like protein; Identified by similarity to PIR:B97532.	Homoserine O-succinyltransferase; Transfers an acetyl group from acetyl-CoA to L-homoserine, forming acetyl-L-homoserine; Belongs to the MetA family.	0.849
SPO1862	metF	SPO1862	SPO3016	metFprotein-like protein; Identified by similarity to PIR:B97532.	5,10-methylenetetrahydrofolate reductase; Identified by similarity to SP:P00394; match to protein family HMM PF02219; match to protein family HMM TIGR00676; Belongs to the methylenetetrahydrofolate reductase family.	0.936
SPO1862	sat	SPO1862	SPO0900	metFprotein-like protein; Identified by similarity to PIR:B97532.	Sulfate adenylyltransferase; Catalyzes the synthesis of activated sulfate.	0.454
SPO1921	SPO0413	SPO1921	SPO0413	Pyridoxal-phosphate dependent enzyme; Identified by match to protein family HMM PF00291.	Cys/Met metabolism PLP-dependent enzyme family protein; Identified by match to protein family HMM PF01053.	0.733
SPO1921	cysK	SPO1921	SPO2246	Pyridoxal-phosphate dependent enzyme; Identified by match to protein family HMM PF00291.	Cysteine synthase A; Identified by similarity to SP:P37887; match to protein family HMM PF00291; match to protein family HMM TIGR01136; match to protein family HMM TIGR01139.	0.920

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Network Stats

number of nodes:

11

number of edges:

39

average node degree:

7.09

avg. local clustering coefficient:

0.968

expected number of edges:

11

PPI enrichment p-value:

3.84e-11

your network has significantly more interactions
than expected (what does that mean?)

Functional enrichments in your networkNote: some enrichments may be expected here (why?)
disable highlight explain columns

Biological Process (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0006525

Arginine metabolic process

11 of 34

2.23

8.23

2.82e-21

GO:0006526

Arginine biosynthetic process

9 of 17

2.45

8.04

4.90e-18

GO:0006591

Ornithine metabolic process

4 of 6

2.55

3.56

1.65e-07

GO:0042450

Arginine biosynthetic process via ornithine

2 of 2

2.72

1.57

0.0014

GO:0044205

De novo UMP biosynthetic process

2 of 7

2.18

1.12

0.0079

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0103045

Methione N-acyltransferase activity

2 of 2

2.72

0.93

0.0203

GO:0004088

Carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity

2 of 2

2.72

0.93

0.0203

GO:0004042

acetyl-CoA:L-glutamate N-acetyltransferase activity

2 of 2

2.72

0.93

0.0203

GO:0016774

Phosphotransferase activity, carboxyl group as acceptor

2 of 7

2.18

0.82

0.0303

GO:0016879

Ligase activity, forming carbon-nitrogen bonds

3 of 51

1.49

0.73

0.0303

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005737

Cytoplasm

11 of 1829

0.5

0.42

0.00052

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:1505

Arginine biosynthesis, and Amino acid antiporter

9 of 15

2.5

8.22

4.37e-18

CL:1510

Arginine biosynthesis

6 of 6

2.72

6.12

1.70e-12

CL:1367

Cellular amino acid biosynthetic process, and Ribonucleoside monophosphate biosynthetic process

11 of 152

1.58

3.6

3.78e-15

CL:1525

Amino acid antiporter, and Arginine catabolic process to ornithine

2 of 5

2.33

1.03

0.0127

CL:1578

Pyrimidine biosynthesis, and Dihydroorotase, conserved site

2 of 6

2.25

0.99

0.0148

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

pfn00220

Arginine biosynthesis

9 of 36

2.12

6.25

3.12e-16

pfn00250

Alanine, aspartate and glutamate metabolism

4 of 39

1.74

1.95

3.78e-05

pfn01230

Biosynthesis of amino acids

7 of 179

1.32

1.75

6.17e-07

pfn01210

2-Oxocarboxylic acid metabolism

4 of 51

1.62

1.75

6.84e-05

pfn01110

Biosynthesis of secondary metabolites

8 of 614

0.84

0.78

6.84e-05

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0005951

Carbamoyl-phosphate synthase complex

2 of 2

2.72

1.18

0.0073

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0055

Arginine biosynthesis

9 of 13

2.56

8.87

2.96e-19

KW-0963

Cytoplasm

8 of 311

1.13

1.38

8.14e-07

KW-0665

Pyrimidine biosynthesis

2 of 10

2.03

1.0

0.0124

KW-0436

Ligase

3 of 73

1.34

0.8

0.0152

KW-0808

Transferase

5 of 407

0.81

0.51

0.0216

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF00696

Amino acid kinase family

3 of 6

2.42

1.85

0.00035

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR036393

Acetylglutamate kinase-like superfamily

3 of 6

2.42

1.71

0.00065

IPR001048

Aspartate/glutamate/uridylate kinase

3 of 6

2.42

1.71

0.00065

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