SpermatogenesisOnline 1.0

Tag Content
SG ID
SG00007697 
UniProt Accession
Theoretical PI
6.09  
Molecular Weight
164618 Da  
Genbank Nucleotide ID
Genbank Protein ID
Gene Name
Cps1 
Gene Synonyms/Alias
 
Protein Name
Carbamoyl-phosphate synthase [ammonia], mitochondrial 
Protein Synonyms/Alias
EC=6.3.4.16 Carbamoyl-phosphate synthetase I;CPSase IFlags: Precursor 
Organism
Mus musculus (Mouse) 
NCBI Taxonomy ID
10090 
Chromosome Location
chr:1;67169600-67277833;1
View in Ensembl genome browser  
Function in Stage
Uncertain 
Function in Cell Type
Uncertain 
Probability (GAS) of Function in Spermatogenesis
0.180860487 
The probability was calculated by GAS algorithm, ranging from 0 to 1. The closer it is to 1, the more possibly it functions in spermatogenesis.
Description
Temporarily unavailable 
Abstract of related literatures
1. The mouse (Mus musculus) is the premier animal model for understanding human disease and development. Here we show that a comprehensive understanding of mouse biology is only possible with the availability of a finished, high-quality genome assembly. The finished clone-based assembly of the mouse strain C57BL/6J reported here has over 175,000 fewer gaps and over 139 Mb more of novel sequence, compared with the earlier MGSCv3 draft genome assembly. In a comprehensive analysis of this revised genome sequence, we are now able to define 20,210 protein-coding genes, over a thousand more than predicted in the human genome (19,042 genes). In addition, we identified 439 long, non-protein-coding RNAs with evidence for transcribed orthologs in human. We analyzed the complex and repetitive landscape of 267 Mb of sequence that was missing or misassembled in the previously published assembly, and we provide insights into the reasons for its resistance to sequencing and assembly by whole-genome shotgun approaches. Duplicated regions within newly assembled sequence tend to be of more recent ancestry than duplicates in the published draft, correcting our initial understanding of recent evolution on the mouse lineage. These duplicates appear to be largely composed of sequence regions containing transposable elements and duplicated protein-coding genes; of these, some may be fixed in the mouse population, but at least 40% of segmentally duplicated sequences are copy number variable even among laboratory mouse strains. Mouse lineage-specific regions contain 3,767 genes drawn mainly from rapidly-changing gene families associated with reproductive functions. The finished mouse genome assembly, therefore, greatly improves our understanding of rodent-specific biology and allows the delineation of ancestral biological functions that are shared with human from derived functions that are not. PMID: [19468303] 

2. The National Institutes of Health's Mammalian Gene Collection (MGC) project was designed to generate and sequence a publicly accessible cDNA resource containing a complete open reading frame (ORF) for every human and mouse gene. The project initially used a random strategy to select clones from a large number of cDNA libraries from diverse tissues. Candidate clones were chosen based on 5'-EST sequences, and then fully sequenced to high accuracy and analyzed by algorithms developed for this project. Currently, more than 11,000 human and 10,000 mouse genes are represented in MGC by at least one clone with a full ORF. The random selection approach is now reaching a saturation point, and a transition to protocols targeted at the missing transcripts is now required to complete the mouse and human collections. Comparison of the sequence of the MGC clones to reference genome sequences reveals that most cDNA clones are of very high sequence quality, although it is likely that some cDNAs may carry missense variants as a consequence of experimental artifact, such as PCR, cloning, or reverse transcriptase errors. Recently, a rat cDNA component was added to the project, and ongoing frog (Xenopus) and zebrafish (Danio) cDNA projects were expanded to take advantage of the high-throughput MGC pipeline. PMID: [15489334] 

3. This study describes comprehensive polling of transcription start and termination sites and analysis of previously unidentified full-length complementary DNAs derived from the mouse genome. We identify the 5' and 3' boundaries of 181,047 transcripts with extensive variation in transcripts arising from alternative promoter usage, splicing, and polyadenylation. There are 16,247 new mouse protein-coding transcripts, including 5154 encoding previously unidentified proteins. Genomic mapping of the transcriptome reveals transcriptional forests, with overlapping transcription on both strands, separated by deserts in which few transcripts are observed. The data provide a comprehensive platform for the comparative analysis of mammalian transcriptional regulation in differentiation and development. PMID: [16141072] 

4. Acetylation of proteins on lysine residues is a dynamic posttranslational modification that is known to play a key role in regulating transcription and other DNA-dependent nuclear processes. However, the extent of this modification in diverse cellular proteins remains largely unknown, presenting a major bottleneck for lysine-acetylation biology. Here we report the first proteomic survey of this modification, identifying 388 acetylation sites in 195 proteins among proteins derived from HeLa cells and mouse liver mitochondria. In addition to regulators of chromatin-based cellular processes, nonnuclear localized proteins with diverse functions were identified. Most strikingly, acetyllysine was found in more than 20% of mitochondrial proteins, including many longevity regulators and metabolism enzymes. Our study reveals previously unappreciated roles for lysine acetylation in the regulation of diverse cellular pathways outside of the nucleus. The combined data sets offer a rich source for further characterization of the contribution of this modification to cellular physiology and human diseases. PMID: [16916647] 

5. Protein phosphorylation is a complex network of signaling and regulatory events that affects virtually every cellular process. Our understanding of the nature of this network as a whole remains limited, largely because of an array of technical challenges in the isolation and high-throughput sequencing of phosphorylated species. In the present work, we demonstrate that a combination of tandem phosphopeptide enrichment methods, high performance MS, and optimized database search/data filtering strategies is a powerful tool for surveying the phosphoproteome. Using our integrated analytical platform, we report the identification of 5,635 nonredundant phosphorylation sites from 2,328 proteins from mouse liver. From this list of sites, we extracted both novel and known motifs for specific Ser/Thr kinases including a "dipolar" motif. We also found that C-terminal phosphorylation was more frequent than at any other location and that the distribution of potential kinases for these sites was unique. Finally, we identified double phosphorylation motifs that may be involved in ordered phosphorylation. PMID: [17242355] 

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Function
Involved in the urea cycle of ureotelic animals wherethe enzyme plays an important role in removing excess ammonia fromthe cell. 
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Subcellular Location
Mitochondrion (By similarity). Nucleus,nucleolus (By similarity). 
Tissue Specificity
 
Gene Ontology
GO IDGO termEvidence
GO:0005743 C:mitochondrial inner membrane IEA:Compara.
GO:0042645 C:mitochondrial nucleoid IEA:Compara.
GO:0005739 C:mitochondrion IDA:MGI.
GO:0005730 C:nucleolus IEA:UniProtKB-SubCell.
GO:0043234 C:protein complex IEA:Compara.
GO:0005524 F:ATP binding IEA:UniProtKB-KW.
GO:0005509 F:calcium ion binding IEA:Compara.
GO:0004087 F:carbamoyl-phosphate synthase (ammonia) activity IMP:MGI.
GO:0004175 F:endopeptidase activity IEA:Compara.
GO:0016595 F:glutamate binding IEA:Compara.
GO:0072341 F:modified amino acid binding IEA:Compara.
GO:0005543 F:phospholipid binding IEA:Compara.
GO:0055081 P:anion homeostasis IEA:Compara.
GO:0070409 P:carbamoyl phosphate biosynthetic process IEA:Compara.
GO:0071320 P:cellular response to cAMP IEA:Compara.
GO:0044344 P:cellular response to fibroblast growth factor stimulus IEA:Compara.
GO:0071377 P:cellular response to glucagon stimulus IEA:Compara.
GO:0071400 P:cellular response to oleic acid IEA:Compara.
GO:0006543 P:glutamine catabolic process IEA:InterPro.
GO:0005980 P:glycogen catabolic process IEA:Compara.
GO:0070365 P:hepatocyte differentiation IEA:Compara.
GO:0050667 P:homocysteine metabolic process IEA:Compara.
GO:0007494 P:midgut development IEA:Compara.
GO:0046209 P:nitric oxide metabolic process IEA:Compara.
GO:0045909 P:positive regulation of vasodilation IEA:Compara.
GO:0043200 P:response to amino acid stimulus IEA:Compara.
GO:0071548 P:response to dexamethasone stimulus IEA:Compara.
GO:0042493 P:response to drug IEA:Compara.
GO:0032094 P:response to food IEA:Compara.
GO:0060416 P:response to growth hormone stimulus IEA:Compara.
GO:0032496 P:response to lipopolysaccharide IEA:Compara.
GO:0042594 P:response to starvation IEA:Compara.
GO:0009636 P:response to toxin IEA:Compara.
GO:0010043 P:response to zinc ion IEA:Compara.
GO:0019433 P:triglyceride catabolic process IEA:Compara.
GO:0000050 P:urea cycle IC:MGI.
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Interpro
IPR011761;    ATP-grasp.
IPR013815;    ATP_grasp_subdomain_1.
IPR013816;    ATP_grasp_subdomain_2.
IPR006275;    CarbamoylP_synth_lsu.
IPR005481;    CarbamoylP_synth_lsu_N.
IPR005480;    CarbamoylP_synth_lsu_oligo.
IPR006274;    CarbamoylP_synth_ssu.
IPR002474;    CarbamoylP_synth_ssu_N.
IPR005479;    CbamoylP_synth_lsu-like_ATP-bd.
IPR005483;    CbamoylP_synth_lsu_CPSase_dom.
IPR017926;    GATASE_1.
IPR011607;    MGS-like_dom.
IPR016185;    PreATP-grasp_fold.
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Pfam
PF00289;    CPSase_L_chain;    2.
PF02786;    CPSase_L_D2;    2.
PF02787;    CPSase_L_D3;    1.
PF00988;    CPSase_sm_chain;    1.
PF00117;    GATase;    1.
PF02142;    MGS;    1.
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SMART
SM01096;    CPSase_L_D3;    1.
SM01097;    CPSase_sm_chain;    1.
SM00851;    MGS;    1.
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PROSITE
PS50975;    ATP_GRASP;    2.
PS00866;    CPSASE_1;    2.
PS00867;    CPSASE_2;    2.
PS51273;    GATASE_TYPE_1;    1.
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PRINTS
PR00098;    CPSASE.;   
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Created Date
18-Oct-2012 
Record Type
GAS predicted 
Sequence Annotation
TRANSIT       1     38       Mitochondrion (By similarity).
CHAIN        39   1500       Carbamoyl-phosphate synthase [ammonia],
                             mitochondrial (By similarity).
                             /FTId=PRO_0000029898.
DOMAIN      219    404       Glutamine amidotransferase type-1.
DOMAIN      551    743       ATP-grasp 1.
DOMAIN     1093   1284       ATP-grasp 2.
REGION       39    218       Anthranilate phosphoribosyltransferase
                             homolog.
BINDING    1391   1391       Allosteric activator (By similarity).
BINDING    1394   1394       Allosteric activator (By similarity).
BINDING    1410   1410       Allosteric activator (By similarity).
BINDING    1437   1437       Allosteric activator (By similarity).
BINDING    1440   1440       Allosteric activator (By similarity).
BINDING    1449   1449       Allosteric activator (By similarity).
MOD_RES      44     44       N6-acetyllysine; alternate.
MOD_RES      44     44       N6-succinyllysine; alternate.
MOD_RES      55     55       N6-acetyllysine.
MOD_RES     119    119       N6-acetyllysine.
MOD_RES     287    287       N6-acetyllysine; alternate.
MOD_RES     287    287       N6-succinyllysine; alternate.
MOD_RES     527    527       N6-acetyllysine.
MOD_RES     603    603       N6-acetyllysine.
MOD_RES     840    840       N6-acetyllysine.
MOD_RES     841    841       N6-acetyllysine.
MOD_RES     892    892       N6-acetyllysine.
MOD_RES     898    898       Phosphoserine.
MOD_RES    1291   1291       N6-acetyllysine; alternate.
MOD_RES    1291   1291       N6-succinyllysine; alternate.
CONFLICT    931    934       LRLK -> HASE (in Ref. 2; AAH67211).
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Nucleotide Sequence
Length: 190474 bp   Go to nucleotide: FASTA
Protein Sequence
Length: 1500 bp   Go to amino acid: FASTA
The verified Protein-Protein interaction information
UniProt
 Gene Symbol Ref Databases
Amy1IntAct 
Sirt5IntAct 
Sirt5IntAct 
Other Protein-Protein interaction resources
String database  
View Microarray data
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