Coiled-Coil Domain Containing 11, also known as CCDC11 is a protein, that is encoded by CCDC11 gene located at chromosome 18 in humans. [1]
The CCDC11 gene is located on chromosome 18q21.1 and is made of 39303 BP. [2] The CCDC11 protein is made of 514 amino acids and has a mass of 61835 Da. [2] Its aliases include coiled-coil domain containing protein 11, FLJ32743, OTTHUMP00000163503. [2]
CCDC has orthologs all the way back to betaproteobacteria which is a class of Proteobacteria. [2] The following table represents a small selection of orthologs found using searches in BLAST and BLAT. This is by no means a comprehensive list; however, it shows the diversity of species that CCDC11 is found.
| Species | Organism Common Name | NCBI Accession | Length (AAs) | Sequence Identity | Sequence Similarity |
|---|---|---|---|---|---|
| Homo sapiens | Human | NP_659457 | 514 | 100% | 100% |
| Pan troglodytes | Chimpanzee | XP_523923.3 | 514 | 99% | 99% |
| Callithrix jacchus | Marmoset | XP_002757278.1 | 514 | 92% | 95% |
| Ailuropoda melanoleuca | Panda | XP_002939158.1 | 514 | 83% | 91% |
| Canis familiaris | Dog | XP_547689.3 | 514 | 82% | 91% |
| Bos taurus | Cow | XP_002697813.1 | 514 | 81% | 91% |
| Loxodonata africana | Elephant | XP_003406348.1 | 514 | 80% | 91% |
| Rattus norvegicus | Rat | XP_001053914.2 | 514 | 71% | 87% |
| Mus musculus | Mouse | NP_083224.2 | 514 | 70% | 87% |
| Ornithorhynchus anatinus | Platypus | XP_001509001.2 | 465 | 49% | 72% |
| Monodelphis domestica | Opossum | XP_001372850.2 | 507 | 47% | 70% |
| Xenopus tropicalis | Frog | NP_001120281.1 | 516 | 39% | 65% |
| Anolis carolinensis | Lizard | XP_003227331.1 | 514 | 37% | 62% |
| Nematostella vectensis | Sea anemone | XP_001628275.1 | 440 | 36% | 58% |
| Branchiostoma floridae | Lancelet | XP_002609924.1 | 528 | 35% | 61% |
| Trichoplax adhaerens | Trichoplax | XP_002111027.1 | 514 | 33% | 60% |
| Danio rerio | Zebra fish | NP_001038595.2 | 519 | 32% | 58% |
| Amphimedon queenslandica | Sponge | XP_003389146.1 | 513 | 31% | 60% |
The below image from NCBI shows the gene neighborhood of CCDC11 on chromosome 18. CCDC11 has methyl-CPG binding domain protein 1, MBD1, upstream and myosin VB3, MYO5B, downstream. All CCDC11, MBD1 and MYO5B are oriented negatively. Note the close proximity between MBD1 and CCDC11.
Tools on the ExPASy Proteomics site [3] predict the following post-translational modifications:
| Tool | Predicted Modification | Homo sapiens | Mus musculus | Bos taurus |
|---|---|---|---|---|
| YinOYang [4] | O-β-GlcNAc | T239, S510 | T239 | T239, S509, T510 |
| NetPhos [5] | phosphorylation | T8, T17, S43, S53, S56, S57, Y112, T134, S170, S240, S425, S461 | T17, S43, S53, S56, S107, Y112, S114, S170, T284, S287, S492 | T17, S56, T64, S107, T112, T122, T325, S442, S482, S507 |
One tool on the ExPASy, iPSORT, showed no signal peptide;however, it indicated CCDC11 to be mitochondrial. Another tool on the ExPASy, SOSUI, indicated the protein to be a soluble protein.
Transmembrane protein 53, or TMEM53, is a protein that is encoded on chromosome 1 in humans. It has no paralogs but is predicted to have many orthologs across eukaryotes.
The human gene Chromosome 3 open reading frame 14 is a gene of uncertain function located at 3p14.2 near fragile site FRBA3—which falls between this gene and the centromere. Its protein is expected to localize to the nucleus and bind DNA. Orthologs have been identified in all of the major animal groups, minus amphibians and insects, tracing as far back as the sea anemone; indicating an origin of over 1000 mya, highlighting its importance in the animal genome.
KIAA1704, also known as LSR7, is a protein that in humans is encoded by the GPALPP1 gene. The function of KIAA1704 is not yet well understood. KIAA1704 contains one domain of unknown function, DUF3752. The protein contains a conserved, uncharged, repeated motif GPALPP(GF) near the N terminus and an unusual, conserved, mixed charge throughout. It is predicted to be localized to the nucleus.
Chromosome 20 open reading frame 111, or C20orf111, is the hypothetical protein that in humans is encoded by the C20orf111 gene. C20orf111 is also known as Perit1, HSPC207, and dJ1183I21.1. It was originally located using genomic sequencing of chromosome 20. The National Center for Biotechnology Information, or NCBI, shows that it is located at q13.11 on chromosome 20, however the genome browser at the University of California-Santa Cruz (UCSC) website shows that it is at location q13.12, and within a million base pairs of the adenosine deaminase locus. It was also found to have an increase in expression in cells undergoing hydrogen peroxide(H
2O
2)-induced apoptosis. After analyzing the amino acid content of C20orf111, it was found to be rich in serine residues.
Coiled-coil domain-containing 78 (CCDC78) is a protein in humans encoded by the CCDC78 gene. It has several aliases including C16orf25, FLJ34512, CNM4, and JFP10. It is located on the (-) strand on chromosome 16 (16p13.3). Its gene neighborhood includes NARFL, HAGHL, FAM173A, and METRN. The CCDC78 gene is 10,892 base pairs long, and the protein contains 438 amino acids. The protein weighs approximately 4.852 KDal. There are several isoforms, including one indicated with a unique congenital myopathy. Several expression profiles show it has ubiquitous expression at moderate levels. Although no paralogs exist several orthologs do.
Uncharacterized LOC644249 gene., also known as RP11-195B21.3, is about 1058 base pairs long and is found in Homo sapiens on chromosome 9q12. More specifically, the sequence is located on Chromosome: 9; NC_000009.11(67977457..67987991 bp). This gene’s protein product is the “coiled-coil domain-containing protein 29” which is 291 amino acids long and may contain a conserved domain in the superfamily, pfam 12001. In particular, this conserved domain contains the domain of unknown function DUF3496 which is about 110 amino acids long, functionally uncharacterized, and found in eukaryotes. Other possible motifs for the protein product exist but the DUF3496 remains the most likely. This protein may play a role as a transmembrane protein.
Coiled-coil domain-containing protein 144A is a protein that in humans is encoded by the CCDC144A gene. An alias of this gene is called KIAA0565. There are four members of the CCDC family: CCDC 144A, 144B, 144C and putative CCDC 144 N-terminal like proteins.
Protein FAM214A, also known as protein family with sequence similarity 214, A (FAM214A) is a protein that, in humans, is encoded by the FAM214A gene. FAM214A is a gene with unknown function found at the q21.2-q21.3 locus on Chromosome 15 (human). The protein product of this gene has two conserved domains, one of unknown function (DUF4210) and another one called Chromosome_Seg. Although the function of the FAM214A protein is uncharacterized, both DUF4210 and Chromosome_Seg have been predicted to play a role in chromosome segregation during meiosis.
Coiled-coil domain containing 94 (CCDC94) is a protein that in humans is encoded by the CCDC94 gene. The CCDC94 protein contains a coiled-coil domain, a domain of unknown function (DUF572), an uncharacterized conserved protein (COG5134), and lacks a transmembrane domain.
Coiled Coil Domain Containing protein 42B, also known as CCDC42B, is a protein encoded by the protein-coding gene CCDC42B.
Coiled-coil domain 47 (CCDC47) is a gene located on human chromosome 17, specifically locus 17q23.3 which encodes for the protein CCDC47. The gene has several aliases including GK001 and MSTP041. The protein itself contains coiled-coil domains, the SEEEED superfamily, a domain of unknown function (DUF1682) and a transmembrane domain. The function of the protein is unknown, but it has been proposed that CCDC47 is involved in calcium ion homeostasis and the endoplasmic reticulum overload response.
Neuroblastoma breakpoint family, member 1, or NBPF1, is a protein that is encoded by the gene NBPF1 in humans. This protein is member of the neuroblastoma breakpoint family of proteins, a group of proteins that are thought to be involved in the development of the nervous system.
GPATCH11 is a protein that in humans is encoded by the G-patch domain containing protein 11 gene. The gene has four transcript variants encoding two functional protein isoforms and is expressed in most human tissues. The protein has been found to interact with several other proteins, including two from a splicing pathway. In addition, GPATCH11 has orthologs in all taxa of the eukarya domain.
Chromosome 15 open reading frame 52 is a human protein encoded by the C15orf52 gene, its function is poorly understood.
Chromosome 8 open reading frame 82 is a protein encoded in humans by the C8orf82 gene.
Trinucleotide repeat containing 18 is a protein that in humans is encoded by the TNRC18 gene.
Transmembrane protein 254 is a transmembrane protein that is encoded by the TMEM254 gene, it is predicted to have many orthologs across eukaryotes.
Zinc Finger Protein 800 or ZNF800 is a protein that in humans is encoded by the ZNF800 gene. The specific function of ZNF800 is not yet well understood by the scientific community.
Coiled-coil domain containing 121 (CCDC121) is a protein encoded by the CCDC121 gene in humans. CCDC121 is located on the minus strand of chromosome 2 and encodes three protein isoforms. All isoforms of CCDC121 contain a domain of unknown function referred to as DUF4515 or pfam14988.
MIPOL1 , also known as CCDC193 , is a protein that in humans is encoded by the MIPOL1 gene. Mutation of this gene is associated with mirror-image polydactyly in humans, which is a rare genetic condition characterized by mirror-image duplication of digits.