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Conserved domains on  [gi|24647508|ref|NP_650571|]
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uncharacterized protein Dmel_CG10324 [Drosophila melanogaster]

Protein Classification

pre-mRNA-splicing factor SPP2; KOW domain-containing RNA-binding protein( domain architecture ID 10576963)

pre-mRNA-splicing factor SPP2 is involved in pre-mRNA splicing; specifically in the final stages of spliceosome maturation| KOW domain-containing RNA-binding protein similar to the KOW motif in 60S ribosomal protein L27, which is a component of the large ribosomal subunit; the KOW domain is known as an RNA-binding motif that is shared among some families of ribosomal proteins

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
KOW_GPKOW_A cd13152
KOW motif of the "G-patch domain and KOW motifs-containing protein" (GPKOW) repeat A; GPKOW ...
 227-282 5.50e-22

KOW motif of the "G-patch domain and KOW motifs-containing protein" (GPKOW) repeat A; GPKOW contains one G-patch domain and two KOW motifs. GPKOW is a nuclear protein that regulated by catalytic (C) subunit of Protein Kinase A (PKA) and bind RNA in vivo. PKA may be involved in regulating multiple steps in post-transcriptional processing of pre-mRNAs. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. GPKOW is also known as T54 protein or MOS2 homolog.


:

Pssm-ID: 240516  Cd Length: 57  Bit Score: 89.17  E-value: 5.50e-22
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 24647508 227 AYVRILGGKQKDQYGQIQGFDDHAGRVIVKMAIGGAKEAFNEFLCQPVSRKEYSQY 282
Cdd:cd13152   2 AYVKILSGKHKGLYGKVEGFDEDNSRVIVKLAIGGETVSVSEFAVKLVTKKEYKKY 57
G-patch_2 pfam12656
G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ...
 148-205 1.23e-16

G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ATP-dependent DExH-box splicing factor Prp2. As this interaction involves the G-patch sequence in Spp2 and is required for the recruitment of Prp2 to the spliceosome before the first catalytic step of splicing, it is proposed that Spp2 might be an accessory factor that confers spliceosome specificity on Prp2.


:

Pssm-ID: 432700 [Multi-domain]  Cd Length: 61  Bit Score: 74.24  E-value: 1.23e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647508   148 AKEATLDDYDNIPIQQFGLAMLRGMGWVDPPPKKKGSGPIDDA--PFLRPKGMGLGADKA 205
Cdd:pfam12656   1 PDEASLEDYEKVPVEEFGAAMLRGMGWKPGQGIGKNKKGDVKPkeYKRRPGGLGLGAKPA 60
MSCRAMM_ClfA super family cl41352
MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial ...
 325-507 3.65e-03

MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial Surface Components Recognizing Adhesive Matrix Molecules). It is heavily studied in Staphylococcus aureus both for its biological role in adhesion and for its potential for vaccination. Features of the sequence, but also of other MSCRAMM adhesins, include a long run of Ser-Asp dipeptide repeats and a C-terminal cell wall anchoring LPXTG motif.


The actual alignment was detected with superfamily member NF033609:

Pssm-ID: 468110 [Multi-domain]  Cd Length: 934  Bit Score: 40.28  E-value: 3.65e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647508  325 SDRDEAQNQKSSKPGDQRSSKEDYRMKCKEEDKRSYKYEDKKTYKDEHRRTYKDERKSYKEAKSNKEEVDrekkyvrSGS 404
Cdd:NF033609 602 SDSDSASDSDSASDSDSASDSDSASDSDSASDSDSASDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD-------SDS 674

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647508  405 SSVSKREERERRRSPSPRGRSPSKSKREDRDQKRSQSPRSTRRTKSSSDEADDTGESTESDSDSAYERRKHKKKSSSHKS 484
Cdd:NF033609 675 DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDS 754

                        170       180
                 ....*....|....*....|...
gi 24647508  485 RKHSKKSKNKSRKADNDSSLESD 507
Cdd:NF033609 755 DSDSDSDSDSDSDSDSDSDSDSD 777
 
Name Accession Description Interval E-value
KOW_GPKOW_A cd13152
KOW motif of the "G-patch domain and KOW motifs-containing protein" (GPKOW) repeat A; GPKOW ...
 227-282 5.50e-22

KOW motif of the "G-patch domain and KOW motifs-containing protein" (GPKOW) repeat A; GPKOW contains one G-patch domain and two KOW motifs. GPKOW is a nuclear protein that regulated by catalytic (C) subunit of Protein Kinase A (PKA) and bind RNA in vivo. PKA may be involved in regulating multiple steps in post-transcriptional processing of pre-mRNAs. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. GPKOW is also known as T54 protein or MOS2 homolog.


Pssm-ID: 240516  Cd Length: 57  Bit Score: 89.17  E-value: 5.50e-22
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 24647508 227 AYVRILGGKQKDQYGQIQGFDDHAGRVIVKMAIGGAKEAFNEFLCQPVSRKEYSQY 282
Cdd:cd13152   2 AYVKILSGKHKGLYGKVEGFDEDNSRVIVKLAIGGETVSVSEFAVKLVTKKEYKKY 57
G-patch_2 pfam12656
G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ...
 148-205 1.23e-16

G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ATP-dependent DExH-box splicing factor Prp2. As this interaction involves the G-patch sequence in Spp2 and is required for the recruitment of Prp2 to the spliceosome before the first catalytic step of splicing, it is proposed that Spp2 might be an accessory factor that confers spliceosome specificity on Prp2.


Pssm-ID: 432700 [Multi-domain]  Cd Length: 61  Bit Score: 74.24  E-value: 1.23e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647508   148 AKEATLDDYDNIPIQQFGLAMLRGMGWVDPPPKKKGSGPIDDA--PFLRPKGMGLGADKA 205
Cdd:pfam12656   1 PDEASLEDYEKVPVEEFGAAMLRGMGWKPGQGIGKNKKGDVKPkeYKRRPGGLGLGAKPA 60
KOW pfam00467
KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, ...
 225-256 3.44e-03

KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and NusG.


Pssm-ID: 425698 [Multi-domain]  Cd Length: 32  Bit Score: 35.06  E-value: 3.44e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 24647508   225 KQAYVRILGGKQKDQYGQIQGFDDHAGRVIVK 256
Cdd:pfam00467   1 KGDVVRVIAGPFKGKVGKVVEVDDKKNRVLVE 32
MSCRAMM_ClfA NF033609
MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial ...
 325-507 3.65e-03

MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial Surface Components Recognizing Adhesive Matrix Molecules). It is heavily studied in Staphylococcus aureus both for its biological role in adhesion and for its potential for vaccination. Features of the sequence, but also of other MSCRAMM adhesins, include a long run of Ser-Asp dipeptide repeats and a C-terminal cell wall anchoring LPXTG motif.


Pssm-ID: 468110 [Multi-domain]  Cd Length: 934  Bit Score: 40.28  E-value: 3.65e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647508  325 SDRDEAQNQKSSKPGDQRSSKEDYRMKCKEEDKRSYKYEDKKTYKDEHRRTYKDERKSYKEAKSNKEEVDrekkyvrSGS 404
Cdd:NF033609 602 SDSDSASDSDSASDSDSASDSDSASDSDSASDSDSASDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD-------SDS 674

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647508  405 SSVSKREERERRRSPSPRGRSPSKSKREDRDQKRSQSPRSTRRTKSSSDEADDTGESTESDSDSAYERRKHKKKSSSHKS 484
Cdd:NF033609 675 DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDS 754

                        170       180
                 ....*....|....*....|...
gi 24647508  485 RKHSKKSKNKSRKADNDSSLESD 507
Cdd:NF033609 755 DSDSDSDSDSDSDSDSDSDSDSD 777
 
Name Accession Description Interval E-value
KOW_GPKOW_A cd13152
KOW motif of the "G-patch domain and KOW motifs-containing protein" (GPKOW) repeat A; GPKOW ...
 227-282 5.50e-22

KOW motif of the "G-patch domain and KOW motifs-containing protein" (GPKOW) repeat A; GPKOW contains one G-patch domain and two KOW motifs. GPKOW is a nuclear protein that regulated by catalytic (C) subunit of Protein Kinase A (PKA) and bind RNA in vivo. PKA may be involved in regulating multiple steps in post-transcriptional processing of pre-mRNAs. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. GPKOW is also known as T54 protein or MOS2 homolog.


Pssm-ID: 240516  Cd Length: 57  Bit Score: 89.17  E-value: 5.50e-22
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 24647508 227 AYVRILGGKQKDQYGQIQGFDDHAGRVIVKMAIGGAKEAFNEFLCQPVSRKEYSQY 282
Cdd:cd13152   2 AYVKILSGKHKGLYGKVEGFDEDNSRVIVKLAIGGETVSVSEFAVKLVTKKEYKKY 57
G-patch_2 pfam12656
G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ...
 148-205 1.23e-16

G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ATP-dependent DExH-box splicing factor Prp2. As this interaction involves the G-patch sequence in Spp2 and is required for the recruitment of Prp2 to the spliceosome before the first catalytic step of splicing, it is proposed that Spp2 might be an accessory factor that confers spliceosome specificity on Prp2.


Pssm-ID: 432700 [Multi-domain]  Cd Length: 61  Bit Score: 74.24  E-value: 1.23e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647508   148 AKEATLDDYDNIPIQQFGLAMLRGMGWVDPPPKKKGSGPIDDA--PFLRPKGMGLGADKA 205
Cdd:pfam12656   1 PDEASLEDYEKVPVEEFGAAMLRGMGWKPGQGIGKNKKGDVKPkeYKRRPGGLGLGAKPA 60
KOW pfam00467
KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, ...
 225-256 3.44e-03

KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and NusG.


Pssm-ID: 425698 [Multi-domain]  Cd Length: 32  Bit Score: 35.06  E-value: 3.44e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 24647508   225 KQAYVRILGGKQKDQYGQIQGFDDHAGRVIVK 256
Cdd:pfam00467   1 KGDVVRVIAGPFKGKVGKVVEVDDKKNRVLVE 32
MSCRAMM_ClfA NF033609
MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial ...
 325-507 3.65e-03

MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial Surface Components Recognizing Adhesive Matrix Molecules). It is heavily studied in Staphylococcus aureus both for its biological role in adhesion and for its potential for vaccination. Features of the sequence, but also of other MSCRAMM adhesins, include a long run of Ser-Asp dipeptide repeats and a C-terminal cell wall anchoring LPXTG motif.


Pssm-ID: 468110 [Multi-domain]  Cd Length: 934  Bit Score: 40.28  E-value: 3.65e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647508  325 SDRDEAQNQKSSKPGDQRSSKEDYRMKCKEEDKRSYKYEDKKTYKDEHRRTYKDERKSYKEAKSNKEEVDrekkyvrSGS 404
Cdd:NF033609 602 SDSDSASDSDSASDSDSASDSDSASDSDSASDSDSASDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD-------SDS 674

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647508  405 SSVSKREERERRRSPSPRGRSPSKSKREDRDQKRSQSPRSTRRTKSSSDEADDTGESTESDSDSAYERRKHKKKSSSHKS 484
Cdd:NF033609 675 DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDS 754

                        170       180
                 ....*....|....*....|...
gi 24647508  485 RKHSKKSKNKSRKADNDSSLESD 507
Cdd:NF033609 755 DSDSDSDSDSDSDSDSDSDSDSD 777
 
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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