NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|538283558|gb|AGU99295|]
View 

DBY protein, partial [Mesoplodon perrini]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
DEAD-like_helicase_N super family cl28899
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ...
 1-24 1.81e-09

N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase superfamily is a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. The N-terminal domain contains the ATP-binding region.


The actual alignment was detected with superfamily member cd18051:

Pssm-ID: 475120 [Multi-domain]  Cd Length: 249  Bit Score: 48.88  E-value: 1.81e-09
                         10        20
                 ....*....|....*....|....
gi 538283558   1 ENGRYGRRKQ*PVSLVLAPTRELA 24
Cdd:cd18051   95 ESGYYGRRKQYPLALVLAPTRELA 118
 
Name Accession Description Interval E-value
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
 1-24 1.81e-09

DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD box, X isoform, or DDX14) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. This protein has multiple conserved domains and is thought to play roles in both the nucleus and cytoplasm. Nuclear roles include transcriptional regulation, mRNP assembly, pre-mRNA splicing, and mRNA export. In the cytoplasm, this protein is thought to be involved in translation, cellular signaling, and viral replication. Misregulation of this gene has been implicated in tumorigenesis. Diseases associated with DDX3 include mental retardation, X-linked 102 and agenesis of the corpus callosum, with facial anomalies and robin sequence. DDX3 is a member of the 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 (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350809 [Multi-domain]  Cd Length: 249  Bit Score: 48.88  E-value: 1.81e-09
                         10        20
                 ....*....|....*....|....
gi 538283558   1 ENGRYGRRKQ*PVSLVLAPTRELA 24
Cdd:cd18051   95 ESGYYGRRKQYPLALVLAPTRELA 118
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
 6-24 5.32e-03

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 30.71  E-value: 5.32e-03
                         10
                 ....*....|....*....
gi 538283558   6 GRRKQ*PVSLVLAPTRELA 24
Cdd:PRK04837  78 DRKVNQPRALIMAPTRELA 96
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
8-24 6.21e-03

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 30.50  E-value: 6.21e-03
                         10
                 ....*....|....*..
gi 538283558   8 RKQ*PVSLVLAPTRELA 24
Cdd:COG0513   68 RPRAPQALILAPTRELA 84
 
Name Accession Description Interval E-value
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
 1-24 1.81e-09

DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD box, X isoform, or DDX14) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. This protein has multiple conserved domains and is thought to play roles in both the nucleus and cytoplasm. Nuclear roles include transcriptional regulation, mRNP assembly, pre-mRNA splicing, and mRNA export. In the cytoplasm, this protein is thought to be involved in translation, cellular signaling, and viral replication. Misregulation of this gene has been implicated in tumorigenesis. Diseases associated with DDX3 include mental retardation, X-linked 102 and agenesis of the corpus callosum, with facial anomalies and robin sequence. DDX3 is a member of the 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 (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350809 [Multi-domain]  Cd Length: 249  Bit Score: 48.88  E-value: 1.81e-09
                         10        20
                 ....*....|....*....|....
gi 538283558   1 ENGRYGRRKQ*PVSLVLAPTRELA 24
Cdd:cd18051   95 ESGYYGRRKQYPLALVLAPTRELA 118
DEADc_DDX3_DDX4 cd17967
DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes ...
 1-24 2.14e-06

DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes Drosophila melanogaster Vasa, which is essential for development. DEAD box protein 3 (DDX3) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. DEAD box protein 4 (DDX4, also known as VASA homolog) is an ATP-dependent RNA helicase required during spermatogenesis and is essential for the germline integrity. DDX3 and DDX4 are members of the 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 (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350725 [Multi-domain]  Cd Length: 221  Bit Score: 40.16  E-value: 2.14e-06
                         10        20
                 ....*....|....*....|....
gi 538283558   1 ENGRYGRRKQ*PVSLVLAPTRELA 24
Cdd:cd17967   68 PSVGRGRRKAYPSALILAPTRELA 91
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 7-24 2.59e-03

DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise 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 (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350669 [Multi-domain]  Cd Length: 196  Bit Score: 31.64  E-value: 2.59e-03
                         10
                 ....*....|....*...
gi 538283558   7 RRKQ*PVSLVLAPTRELA 24
Cdd:cd00268   58 KKGRGPQALVLAPTRELA 75
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
 6-24 5.32e-03

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 30.71  E-value: 5.32e-03
                         10
                 ....*....|....*....
gi 538283558   6 GRRKQ*PVSLVLAPTRELA 24
Cdd:PRK04837  78 DRKVNQPRALIMAPTRELA 96
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
8-24 6.21e-03

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 30.50  E-value: 6.21e-03
                         10
                 ....*....|....*..
gi 538283558   8 RKQ*PVSLVLAPTRELA 24
Cdd:COG0513   68 RPRAPQALILAPTRELA 84
DEADc_DDX23 cd17945
DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and ...
 8-24 7.38e-03

DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and PRP28 homolog) is involved in pre-mRNA splicing and its phosphorylated form (by SRPK2) is required for spliceosomal B complex formation. Diseases associated with DDX23 include distal hereditary motor neuropathy, type II. DDX23 is a member of the 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 (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350703 [Multi-domain]  Cd Length: 220  Bit Score: 30.37  E-value: 7.38e-03
                         10
                 ....*....|....*..
gi 538283558   8 RKQ*PVSLVLAPTRELA 24
Cdd:cd17945   63 KDDGPYALILAPTRELA 79
DEADc_DDX5_DDX17 cd17966
DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are ...
 7-24 8.34e-03

DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are members of the 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 (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350724 [Multi-domain]  Cd Length: 197  Bit Score: 30.03  E-value: 8.34e-03
                         10
                 ....*....|....*...
gi 538283558   7 RRKQ*PVSLVLAPTRELA 24
Cdd:cd17966   59 ERGDGPIVLVLAPTRELA 76
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH