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DDX55 DEAD-box helicase 55 [ Homo sapiens (human) ]

Gene ID: 57696, updated on 10-Oct-2024

Summary

Official Symbol
DDX55provided by HGNC
Official Full Name
DEAD-box helicase 55provided by HGNC
Primary source
HGNC:HGNC:20085
See related
Ensembl:ENSG00000111364 MIM:620176; AllianceGenome:HGNC:20085
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This gene encodes a member of protein family containing a characteristic Asp-Glu-Ala-Asp (DEAD) motif. These proteins are putative RNA helicases, and may be involved in a range of nuclear processes including translational initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. Multiple alternatively spliced transcript variants have been found for this gene. Pseudogenes have been identified on chromosomes 1 and 12. [provided by RefSeq, Feb 2016]
Expression
Ubiquitous expression in lymph node (RPKM 4.3), bone marrow (RPKM 4.0) and 25 other tissues See more
Orthologs
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Genomic context

See DDX55 in Genome Data Viewer
Location:
12q24.31
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (123602099..123620943)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (123600963..123619807)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (124086646..124105490)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5047 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7271 Neighboring gene TMED2 divergent transcript Neighboring gene transmembrane p24 trafficking protein 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5048 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7272 Neighboring gene uncharacterized LOC105370041 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr12:124105924-124107123 Neighboring gene small nucleolar RNA, H/ACA box 9B Neighboring gene eukaryotic translation initiation factor 2B subunit alpha Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7273 Neighboring gene general transcription factor IIH subunit 3 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:124129599-124129794 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr12:124143885-124145084 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7274 Neighboring gene tectonic family member 2 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:124184156-124184331

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Phenotypes

EBI GWAS Catalog

Description
Genome-wide association and longitudinal analyses reveal genetic loci linking pubertal height growth, pubertal timing and childhood adiposity.
EBI GWAS Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of DEAD (Asp-Glu-Ala-Asp) box polypeptide 55 (DDX55) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ16577, KIAA1595, MGC33209

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables ATP hydrolysis activity IEA
Inferred from Electronic Annotation
more info
 
enables RNA binding HDA PubMed 
enables RNA helicase activity IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
located_in cytosol IDA
Inferred from Direct Assay
more info
 
located_in membrane HDA PubMed 
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleolus IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
ATP-dependent RNA helicase DDX55
Names
DEAD (Asp-Glu-Ala-Asp) box polypeptide 55
DEAD box protein 55
epididymis secretory sperm binding protein
NP_065987.1
XP_011536910.1
XP_016875199.1
XP_016875200.1
XP_016875201.1
XP_016875204.1
XP_016875205.1
XP_016875210.1
XP_047285177.1
XP_047285178.1
XP_047285179.1
XP_047285180.1
XP_047285181.1
XP_047285182.1
XP_047285183.1
XP_047285184.1
XP_047285185.1
XP_054228667.1
XP_054228668.1
XP_054228669.1
XP_054228670.1
XP_054228671.1
XP_054228672.1
XP_054228673.1
XP_054228674.1
XP_054228675.1
XP_054228676.1
XP_054228677.1
XP_054228678.1
XP_054228679.1
XP_054228680.1
XP_054228681.1
XP_054228682.1
XP_054228683.1
XP_054228684.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_020936.3NP_065987.1  ATP-dependent RNA helicase DDX55

    See identical proteins and their annotated locations for NP_065987.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the protein.
    Source sequence(s)
    AA403154, AB046815, AC055713, BC030020, BU619784
    Consensus CDS
    CCDS9251.1
    UniProtKB/Swiss-Prot
    Q658L6, Q8IYH0, Q8NHQ9, Q9HCH7
    UniProtKB/TrEMBL
    A0A384N652
    Related
    ENSP00000238146.3, ENST00000238146.9
    Conserved Domains (3) summary
    cd18787
    Location:242372
    SF2_C_DEAD; C-terminal helicase domain of the DEAD box helicases
    cd17960
    Location:20224
    DEADc_DDX55; DEAD-box helicase domain of DEAD box protein 55
    pfam13959
    Location:405462
    DUF4217; Domain of unknown function (DUF4217)

RNA

  1. NR_135104.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate internal splice site compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AA403154, AB046815, AC117503, AK301043, BU619784, DA806426
  2. NR_135105.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate internal splice site compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC055713, AC117503

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    123602099..123620943
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047429221.1XP_047285177.1  ATP-dependent RNA helicase DDX55 isoform X3

  2. XM_047429222.1XP_047285178.1  ATP-dependent RNA helicase DDX55 isoform X4

  3. XM_017019711.2XP_016875200.1  ATP-dependent RNA helicase DDX55 isoform X2

    UniProtKB/TrEMBL
    A0A384N652
  4. XM_017019710.2XP_016875199.1  ATP-dependent RNA helicase DDX55 isoform X1

    UniProtKB/TrEMBL
    A0A384N652
  5. XM_017019715.2XP_016875204.1  ATP-dependent RNA helicase DDX55 isoform X5

    UniProtKB/TrEMBL
    F5H5U2
  6. XM_017019716.2XP_016875205.1  ATP-dependent RNA helicase DDX55 isoform X6

    UniProtKB/TrEMBL
    F5H5U2
  7. XM_047429227.1XP_047285183.1  ATP-dependent RNA helicase DDX55 isoform X11

  8. XM_047429224.1XP_047285180.1  ATP-dependent RNA helicase DDX55 isoform X8

  9. XM_011538608.4XP_011536910.1  ATP-dependent RNA helicase DDX55 isoform X14

    UniProtKB/TrEMBL
    Q8TEC9
    Conserved Domains (3) summary
    smart00487
    Location:24228
    DEXDc; DEAD-like helicases superfamily
    cd00268
    Location:9224
    DEADc; DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif ...
    pfam00271
    Location:252366
    Helicase_C; Helicase conserved C-terminal domain
  10. XM_017019721.2XP_016875210.1  ATP-dependent RNA helicase DDX55 isoform X15

    UniProtKB/TrEMBL
    Q8TEC9
  11. XM_047429229.1XP_047285185.1  ATP-dependent RNA helicase DDX55 isoform X13

  12. XM_047429225.1XP_047285181.1  ATP-dependent RNA helicase DDX55 isoform X9

  13. XM_047429226.1XP_047285182.1  ATP-dependent RNA helicase DDX55 isoform X10

  14. XM_047429228.1XP_047285184.1  ATP-dependent RNA helicase DDX55 isoform X12

  15. XM_017019712.2XP_016875201.1  ATP-dependent RNA helicase DDX55 isoform X3

    UniProtKB/TrEMBL
    A0A384N652
  16. XM_047429223.1XP_047285179.1  ATP-dependent RNA helicase DDX55 isoform X7

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    123600963..123619807
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054372693.1XP_054228668.1  ATP-dependent RNA helicase DDX55 isoform X3

  2. XM_054372696.1XP_054228671.1  ATP-dependent RNA helicase DDX55 isoform X4

  3. XM_054372701.1XP_054228676.1  ATP-dependent RNA helicase DDX55 isoform X16

  4. XM_054372699.1XP_054228674.1  ATP-dependent RNA helicase DDX55 isoform X7

  5. XM_054372694.1XP_054228669.1  ATP-dependent RNA helicase DDX55 isoform X3

  6. XM_054372692.1XP_054228667.1  ATP-dependent RNA helicase DDX55 isoform X1

  7. XM_054372697.1XP_054228672.1  ATP-dependent RNA helicase DDX55 isoform X5

  8. XM_054372698.1XP_054228673.1  ATP-dependent RNA helicase DDX55 isoform X6

  9. XM_054372704.1XP_054228679.1  ATP-dependent RNA helicase DDX55 isoform X11

  10. XM_054372708.1XP_054228683.1  ATP-dependent RNA helicase DDX55 isoform X17

  11. XM_054372700.1XP_054228675.1  ATP-dependent RNA helicase DDX55 isoform X8

  12. XM_054372709.1XP_054228684.1  ATP-dependent RNA helicase DDX55 isoform X15

  13. XM_054372707.1XP_054228682.1  ATP-dependent RNA helicase DDX55 isoform X14

  14. XM_054372706.1XP_054228681.1  ATP-dependent RNA helicase DDX55 isoform X13

  15. XM_054372702.1XP_054228677.1  ATP-dependent RNA helicase DDX55 isoform X9

  16. XM_054372703.1XP_054228678.1  ATP-dependent RNA helicase DDX55 isoform X10

  17. XM_054372705.1XP_054228680.1  ATP-dependent RNA helicase DDX55 isoform X12

  18. XM_054372695.1XP_054228670.1  ATP-dependent RNA helicase DDX55 isoform X3