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Conserved domains on  [gi|1529465490|emb|VDM85398|]
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unnamed protein product [Strongylus vulgaris]

Protein Classification

oligonucleotide/oligosaccharide-binding-fold domain-containing protein( domain architecture ID 10543240)

oligonucleotide/oligosaccharide-binding (OB)-fold domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 18-94 5.83e-35

Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus of the DEAD-box helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. There do seem to be a couple of instances where it occurs by itself -. The structure PDB:3i4u adopts an OB-fold. helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. This C-terminal domain of the yeast helicase contains an oligonucleotide/oligosaccharide-binding (OB)-fold which seems to be placed at the entrance of the putative nucleic acid cavity. It also constitutes the binding site for the G-patch-containing domain of Pfa1p. When found on DEAH/RHA helicases, this domain is central to the regulation of the helicase activity through its binding of both RNA and G-patch domain proteins.


:

Pssm-ID: 400182 [Multi-domain]  Cd Length: 82  Bit Score: 116.20  E-value: 5.83e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1529465490  18 IQKAICSGFFKNAAKRDPQ-DGYRTLVDGQNVFIHPSSALFQNQ---PEWVVYHELVMTTKEYMREVTAIDPRWLVEFAP 93
Cdd:pfam07717   1 LRAALAAGLYPNVARRDPKgKGYTTLSDNQRVFIHPSSVLFNEKtfpPEWVVYQELVETTKVYIRTVTAISPEWLLLFAP 80


                  .
gi 1529465490  94 S 94
Cdd:pfam07717  81 H 81
 
Name Accession Description Interval E-value
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 18-94 5.83e-35

Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus of the DEAD-box helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. There do seem to be a couple of instances where it occurs by itself -. The structure PDB:3i4u adopts an OB-fold. helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. This C-terminal domain of the yeast helicase contains an oligonucleotide/oligosaccharide-binding (OB)-fold which seems to be placed at the entrance of the putative nucleic acid cavity. It also constitutes the binding site for the G-patch-containing domain of Pfa1p. When found on DEAH/RHA helicases, this domain is central to the regulation of the helicase activity through its binding of both RNA and G-patch domain proteins.


Pssm-ID: 400182 [Multi-domain]  Cd Length: 82  Bit Score: 116.20  E-value: 5.83e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1529465490  18 IQKAICSGFFKNAAKRDPQ-DGYRTLVDGQNVFIHPSSALFQNQ---PEWVVYHELVMTTKEYMREVTAIDPRWLVEFAP 93
Cdd:pfam07717   1 LRAALAAGLYPNVARRDPKgKGYTTLSDNQRVFIHPSSVLFNEKtfpPEWVVYQELVETTKVYIRTVTAISPEWLLLFAP 80


                  .
gi 1529465490  94 S 94
Cdd:pfam07717  81 H 81
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
 50-97 5.19e-07

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 47.36  E-value: 5.19e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 1529465490   50 IHPSSALFQNQPEWVVYHELVMTTKEYMREVTAIDPRWLVEFAPSFFK 97
Cdd:PRK11131   650 IFPGSGLFKKPPKWVMVAELVETSRLWGRIAARIEPEWIEPLAQHLIK 697
 
Name Accession Description Interval E-value
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 18-94 5.83e-35

Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus of the DEAD-box helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. There do seem to be a couple of instances where it occurs by itself -. The structure PDB:3i4u adopts an OB-fold. helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. This C-terminal domain of the yeast helicase contains an oligonucleotide/oligosaccharide-binding (OB)-fold which seems to be placed at the entrance of the putative nucleic acid cavity. It also constitutes the binding site for the G-patch-containing domain of Pfa1p. When found on DEAH/RHA helicases, this domain is central to the regulation of the helicase activity through its binding of both RNA and G-patch domain proteins.


Pssm-ID: 400182 [Multi-domain]  Cd Length: 82  Bit Score: 116.20  E-value: 5.83e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1529465490  18 IQKAICSGFFKNAAKRDPQ-DGYRTLVDGQNVFIHPSSALFQNQ---PEWVVYHELVMTTKEYMREVTAIDPRWLVEFAP 93
Cdd:pfam07717   1 LRAALAAGLYPNVARRDPKgKGYTTLSDNQRVFIHPSSVLFNEKtfpPEWVVYQELVETTKVYIRTVTAISPEWLLLFAP 80


                  .
gi 1529465490  94 S 94
Cdd:pfam07717  81 H 81
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
 50-97 5.19e-07

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 47.36  E-value: 5.19e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 1529465490   50 IHPSSALFQNQPEWVVYHELVMTTKEYMREVTAIDPRWLVEFAPSFFK 97
Cdd:PRK11131   650 IFPGSGLFKKPPKWVMVAELVETSRLWGRIAARIEPEWIEPLAQHLIK 697
 
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.
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