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Conserved domains on  [gi|1063697231|ref|NP_001323118|]
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partner of SLD five 1 [Arabidopsis thaliana]

Protein Classification

DNA replication complex GINS protein PSF1( domain architecture ID 16826181)

DNA replication complex GINS protein PSF1 is a component of the heterotetrameric GINS complex, which is essential for both the initiation and elongation stages of eukaryotic DNA replication

CATH:  1.20.58.1030
Gene Ontology:  GO:0006260
PubMed:  22918584|20070258

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
GINS_A_psf1 cd11710
Alpha-helical domain of GINS complex protein Psf1; Psf1 is a component of the GINS tetrameric ...
 9-90 1.08e-29

Alpha-helical domain of GINS complex protein Psf1; Psf1 is a component of the GINS tetrameric protein complex. Psf1 is mainly expressed in highly proliferative tissues, such as blastocysts, adult bone marrow, and testis, in which the stem cell system is active. Loss of Psf1 causes embryonic lethality. GINS is a complex of four subunits (Sld5, Psf1, Psf2 and Psf3) that is involved in both initiation and elongation stages of eukaryotic chromosome replication. Besides being essential for the maintenance of genomic integrity, GINS plays a central role in coordinating DNA replication with cell cycle checkpoints and is involved in cell growth. The eukaryotic GINS subunits are homologous and homologs are also found in the archaea; the complex is not found in bacteria. The four subunits of the complex consist of two domains each, termed the alpha-helical (A) and beta-strand (B) domains. The A and B domains of Sld5/Psf1 are permuted with respect to Psf1/Psf3.


:

Pssm-ID: 212548  Cd Length: 129  Bit Score: 104.64  E-value: 1.08e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697231   9 QNNRNADHYGALIHHLALIRNKRCLMAYVYNRAEIVRDLAWRVGLElldLPSEIQEKLTTLEKEYFKNHSVALKSYMGKV 88
Cdd:cd11710    51 EEEDPGLIPGLLVRHLSILRNKRCLLAYLYERLDRIRELRWENGSV---LPEDIKENLSPAEKEYFKQYSKLLAEYMSSL 127


                  ..
gi 1063697231  89 GI 90
Cdd:cd11710   128 GD 129
GINS_B_Psf1 cd21696
beta-strand (B) domain of GINS complex protein Psf1; Psf1 (partner of Sld5 1) is a component ...
 102-150 9.04e-15

beta-strand (B) domain of GINS complex protein Psf1; Psf1 (partner of Sld5 1) is a component of the GINS (named from the Japanese go-ichi-ni-san, meaning 5-1-2-3 for the Sld5, Psf1, Psf2, and Psf3 subunits) tetrameric protein complex, and is mainly expressed in highly proliferative tissues, such as blastocysts, adult bone marrow, and testis, in which the stem cell system is active. Psf1 has been reported to be a prognostic biomarker in breast cancer, prostate cancer, hepatocellular carcinoma, and non-small cell lung cancer (NSCLC) patients treated with surgery following preoperative chemotherapy or chemoradiotherapy. Loss of Psf1 causes embryonic lethality. GINS is a complex of four subunits (Sld5, Psf1, Psf2 and Psf3) and is involved in both the initiation and elongation stages of eukaryotic chromosome replication. Besides being essential for the maintenance of genomic integrity, GINS plays a central role in coordinating DNA replication with cell cycle checkpoints and is involved in cell growth. The eukaryotic GINS subunits Sld5, Psf1, Psf2 and Psf3 are homologous, and homologs are also found in archaea; the complex is not found in bacteria. The four subunits of the complex consist of two domains each, called the alpha-helical (A) and beta-strand (B) domains. The A and B domains of Sld5/Psf1 are permuted with respect to Psf1/Psf3. This model represents the B-domain of GINS subunit Psf1.


:

Pssm-ID: 412032  Cd Length: 49  Bit Score: 64.08  E-value: 9.04e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1063697231 102 PYIKVRILDDIDEGIVLSDKTTNFARHSMHFLKRTDAEPYIARGQMEEL 150
Cdd:cd21696     1 LYIEVRVLKDYGEVETEDGTVINLKKGSQHFLPRSDVEPLIRQGVLEHV 49
 
Name Accession Description Interval E-value
GINS_A_psf1 cd11710
Alpha-helical domain of GINS complex protein Psf1; Psf1 is a component of the GINS tetrameric ...
 9-90 1.08e-29

Alpha-helical domain of GINS complex protein Psf1; Psf1 is a component of the GINS tetrameric protein complex. Psf1 is mainly expressed in highly proliferative tissues, such as blastocysts, adult bone marrow, and testis, in which the stem cell system is active. Loss of Psf1 causes embryonic lethality. GINS is a complex of four subunits (Sld5, Psf1, Psf2 and Psf3) that is involved in both initiation and elongation stages of eukaryotic chromosome replication. Besides being essential for the maintenance of genomic integrity, GINS plays a central role in coordinating DNA replication with cell cycle checkpoints and is involved in cell growth. The eukaryotic GINS subunits are homologous and homologs are also found in the archaea; the complex is not found in bacteria. The four subunits of the complex consist of two domains each, termed the alpha-helical (A) and beta-strand (B) domains. The A and B domains of Sld5/Psf1 are permuted with respect to Psf1/Psf3.


Pssm-ID: 212548  Cd Length: 129  Bit Score: 104.64  E-value: 1.08e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697231   9 QNNRNADHYGALIHHLALIRNKRCLMAYVYNRAEIVRDLAWRVGLElldLPSEIQEKLTTLEKEYFKNHSVALKSYMGKV 88
Cdd:cd11710    51 EEEDPGLIPGLLVRHLSILRNKRCLLAYLYERLDRIRELRWENGSV---LPEDIKENLSPAEKEYFKQYSKLLAEYMSSL 127


                  ..
gi 1063697231  89 GI 90
Cdd:cd11710   128 GD 129
COG5230 COG5230
Uncharacterized conserved protein [Function unknown];
28-150 6.32e-18

Uncharacterized conserved protein [Function unknown];


Pssm-ID: 227555 [Multi-domain]  Cd Length: 194  Bit Score: 76.14  E-value: 6.32e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697231  28 RNKRCLMAYVYNRAEIVRDLAWRVGlelLDLPSEIQEKLTTLEKEYFKNHSVALKSYMGK-VGIELNVDMVPPKDPYIKV 106
Cdd:COG5230    75 RNKRCLRAYKFLRSAALFDSFWSKG---KRMKSVGDTMLSHEEEEYLEKYSNLLREYKGPfKHIDLTGSLVPPVQFFIDV 151

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1063697231 107 RILDDIDEgIVLSDKTTNFARHSMHFLKRTDAEPYIARGQMEEL 150
Cdd:COG5230   152 RVLKDCGV-IMTEYGLINLKKDSQYFVRKNDVERLIDQGFLRKI 194
GINS_B_Psf1 cd21696
beta-strand (B) domain of GINS complex protein Psf1; Psf1 (partner of Sld5 1) is a component ...
 102-150 9.04e-15

beta-strand (B) domain of GINS complex protein Psf1; Psf1 (partner of Sld5 1) is a component of the GINS (named from the Japanese go-ichi-ni-san, meaning 5-1-2-3 for the Sld5, Psf1, Psf2, and Psf3 subunits) tetrameric protein complex, and is mainly expressed in highly proliferative tissues, such as blastocysts, adult bone marrow, and testis, in which the stem cell system is active. Psf1 has been reported to be a prognostic biomarker in breast cancer, prostate cancer, hepatocellular carcinoma, and non-small cell lung cancer (NSCLC) patients treated with surgery following preoperative chemotherapy or chemoradiotherapy. Loss of Psf1 causes embryonic lethality. GINS is a complex of four subunits (Sld5, Psf1, Psf2 and Psf3) and is involved in both the initiation and elongation stages of eukaryotic chromosome replication. Besides being essential for the maintenance of genomic integrity, GINS plays a central role in coordinating DNA replication with cell cycle checkpoints and is involved in cell growth. The eukaryotic GINS subunits Sld5, Psf1, Psf2 and Psf3 are homologous, and homologs are also found in archaea; the complex is not found in bacteria. The four subunits of the complex consist of two domains each, called the alpha-helical (A) and beta-strand (B) domains. The A and B domains of Sld5/Psf1 are permuted with respect to Psf1/Psf3. This model represents the B-domain of GINS subunit Psf1.


Pssm-ID: 412032  Cd Length: 49  Bit Score: 64.08  E-value: 9.04e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1063697231 102 PYIKVRILDDIDEGIVLSDKTTNFARHSMHFLKRTDAEPYIARGQMEEL 150
Cdd:cd21696     1 LYIEVRVLKDYGEVETEDGTVINLKKGSQHFLPRSDVEPLIRQGVLEHV 49
Sld5 pfam05916
GINS complex protein; The eukaryotic GINS complex is essential for the initiation and ...
 17-71 7.35e-04

GINS complex protein; The eukaryotic GINS complex is essential for the initiation and elongation phases of DNA replication. It consists of four paralogous protein subunits (Sld5, Psf1, Psf2 and Psf3), all of which are included in this family. The GINS complex is conserved from yeast to humans, and has been shown in human to bind directly to DNA primase.


Pssm-ID: 399129  Cd Length: 105  Bit Score: 37.09  E-value: 7.35e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1063697231  17 YGALIHHLALIRN---KRCLMAYVYNRAEIVRDLAWRVGLELldLPSEIQEKLTTLEK 71
Cdd:pfam05916  50 YELAVLLLELERDdelKRLLRDYLRIRLAKIRKLAWHLNGSL--SPSDLLDNLSEEEL 105
 
Name Accession Description Interval E-value
GINS_A_psf1 cd11710
Alpha-helical domain of GINS complex protein Psf1; Psf1 is a component of the GINS tetrameric ...
 9-90 1.08e-29

Alpha-helical domain of GINS complex protein Psf1; Psf1 is a component of the GINS tetrameric protein complex. Psf1 is mainly expressed in highly proliferative tissues, such as blastocysts, adult bone marrow, and testis, in which the stem cell system is active. Loss of Psf1 causes embryonic lethality. GINS is a complex of four subunits (Sld5, Psf1, Psf2 and Psf3) that is involved in both initiation and elongation stages of eukaryotic chromosome replication. Besides being essential for the maintenance of genomic integrity, GINS plays a central role in coordinating DNA replication with cell cycle checkpoints and is involved in cell growth. The eukaryotic GINS subunits are homologous and homologs are also found in the archaea; the complex is not found in bacteria. The four subunits of the complex consist of two domains each, termed the alpha-helical (A) and beta-strand (B) domains. The A and B domains of Sld5/Psf1 are permuted with respect to Psf1/Psf3.


Pssm-ID: 212548  Cd Length: 129  Bit Score: 104.64  E-value: 1.08e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697231   9 QNNRNADHYGALIHHLALIRNKRCLMAYVYNRAEIVRDLAWRVGLElldLPSEIQEKLTTLEKEYFKNHSVALKSYMGKV 88
Cdd:cd11710    51 EEEDPGLIPGLLVRHLSILRNKRCLLAYLYERLDRIRELRWENGSV---LPEDIKENLSPAEKEYFKQYSKLLAEYMSSL 127


                  ..
gi 1063697231  89 GI 90
Cdd:cd11710   128 GD 129
COG5230 COG5230
Uncharacterized conserved protein [Function unknown];
28-150 6.32e-18

Uncharacterized conserved protein [Function unknown];


Pssm-ID: 227555 [Multi-domain]  Cd Length: 194  Bit Score: 76.14  E-value: 6.32e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063697231  28 RNKRCLMAYVYNRAEIVRDLAWRVGlelLDLPSEIQEKLTTLEKEYFKNHSVALKSYMGK-VGIELNVDMVPPKDPYIKV 106
Cdd:COG5230    75 RNKRCLRAYKFLRSAALFDSFWSKG---KRMKSVGDTMLSHEEEEYLEKYSNLLREYKGPfKHIDLTGSLVPPVQFFIDV 151

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1063697231 107 RILDDIDEgIVLSDKTTNFARHSMHFLKRTDAEPYIARGQMEEL 150
Cdd:COG5230   152 RVLKDCGV-IMTEYGLINLKKDSQYFVRKNDVERLIDQGFLRKI 194
GINS_B_Psf1 cd21696
beta-strand (B) domain of GINS complex protein Psf1; Psf1 (partner of Sld5 1) is a component ...
 102-150 9.04e-15

beta-strand (B) domain of GINS complex protein Psf1; Psf1 (partner of Sld5 1) is a component of the GINS (named from the Japanese go-ichi-ni-san, meaning 5-1-2-3 for the Sld5, Psf1, Psf2, and Psf3 subunits) tetrameric protein complex, and is mainly expressed in highly proliferative tissues, such as blastocysts, adult bone marrow, and testis, in which the stem cell system is active. Psf1 has been reported to be a prognostic biomarker in breast cancer, prostate cancer, hepatocellular carcinoma, and non-small cell lung cancer (NSCLC) patients treated with surgery following preoperative chemotherapy or chemoradiotherapy. Loss of Psf1 causes embryonic lethality. GINS is a complex of four subunits (Sld5, Psf1, Psf2 and Psf3) and is involved in both the initiation and elongation stages of eukaryotic chromosome replication. Besides being essential for the maintenance of genomic integrity, GINS plays a central role in coordinating DNA replication with cell cycle checkpoints and is involved in cell growth. The eukaryotic GINS subunits Sld5, Psf1, Psf2 and Psf3 are homologous, and homologs are also found in archaea; the complex is not found in bacteria. The four subunits of the complex consist of two domains each, called the alpha-helical (A) and beta-strand (B) domains. The A and B domains of Sld5/Psf1 are permuted with respect to Psf1/Psf3. This model represents the B-domain of GINS subunit Psf1.


Pssm-ID: 412032  Cd Length: 49  Bit Score: 64.08  E-value: 9.04e-15
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1063697231 102 PYIKVRILDDIDEGIVLSDKTTNFARHSMHFLKRTDAEPYIARGQMEEL 150
Cdd:cd21696     1 LYIEVRVLKDYGEVETEDGTVINLKKGSQHFLPRSDVEPLIRQGVLEHV 49
Sld5 pfam05916
GINS complex protein; The eukaryotic GINS complex is essential for the initiation and ...
 17-71 7.35e-04

GINS complex protein; The eukaryotic GINS complex is essential for the initiation and elongation phases of DNA replication. It consists of four paralogous protein subunits (Sld5, Psf1, Psf2 and Psf3), all of which are included in this family. The GINS complex is conserved from yeast to humans, and has been shown in human to bind directly to DNA primase.


Pssm-ID: 399129  Cd Length: 105  Bit Score: 37.09  E-value: 7.35e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1063697231  17 YGALIHHLALIRN---KRCLMAYVYNRAEIVRDLAWRVGLELldLPSEIQEKLTTLEK 71
Cdd:pfam05916  50 YELAVLLLELERDdelKRLLRDYLRIRLAKIRKLAWHLNGSL--SPSDLLDNLSEEEL 105
 
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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