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Conserved domains on  [gi|2067547450|emb|CAG7891734|]
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unnamed protein product [Brassica rapa]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Rad21_Rec8_N pfam04825
N terminus of Rad21 / Rec8 like protein; This family represents a conserved N-terminal region ...
 1-104 3.24e-54

N terminus of Rad21 / Rec8 like protein; This family represents a conserved N-terminal region found in eukaryotic cohesins of the Rad21, Rec8 and Scc1 families. Members of this family mediate sister chromatid cohesion during mitosis and meiosis, as part of the cohesin complex. Cohesion is necessary for homologous recombination (including double-strand break repair) and correct chromatid segregation. These proteins may also be involved in chromosome condensation. Dissociation at the metaphase to anaphase transition causes loss of cohesion and chromatid segregation.


:

Pssm-ID: 461446  Cd Length: 104  Bit Score: 183.52  E-value: 3.24e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2067547450   1 MFYSQFILAKKGPLGTIWIAAHLERKLRKNQITDTDIGVSVDSILFPEAPIALRLSSHLLLGVVRIYSKKVNYLFDDCSE 80
Cdd:pfam04825   1 MFYSHEILSKKGPLATVWLAATLGKKLSKKQILEVDIPKACETIINPEAPLALRLSGQLLLGVVRIYSRKAKYLLDDCNE 80

                          90       100
                  ....*....|....*....|....
gi 2067547450  81 ALLKVKQAFRSAAVDLPPEESTAP 104
Cdd:pfam04825  81 ALVKIKKAFRPGQVDLPAEGKARA 104
Rad21_Rec8 pfam04824
Conserved region of Rad21 / Rec8 like protein; This family represents a conserved region found ...
 932-986 5.71e-21

Conserved region of Rad21 / Rec8 like protein; This family represents a conserved region found in eukaryotic cohesins of the Rad21, Rec8 and Scc1 families. Members of this family mediate sister chromatid cohesion during mitosis and meiosis, as part of the cohesin complex. Cohesion is necessary for homologous recombination (including double-strand break repair) and correct chromatid segregation. These proteins may also be involved in chromosome condensation. Dissociation at the metaphase to anaphase transition causes loss of cohesion and chromatid segregation.


:

Pssm-ID: 335912  Cd Length: 55  Bit Score: 87.00  E-value: 5.71e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2067547450 932 NGKNAVVADKLLAGKTRKEASRMFFETLVLKTRDYIQVEQAKPYESIIIKPRPKL 986
Cdd:pfam04824   1 TEGEKDSLSLLPAGKTRKEAARLFYELLVLATKGAIKVKQEEPYGDILITPGPKF 55
Rad21_Rec8_M_AtSYN1-like cd21793
Middle HEAT-repeat binding domain found in Arabidopsis thaliana sister chromatid cohesion 1 ...
 549-625 7.95e-19

Middle HEAT-repeat binding domain found in Arabidopsis thaliana sister chromatid cohesion 1 protein 1-4 (SYN1-4) and similar proteins; The family includes a group of plant chromosome cohesin proteins from the Rad21/Rec8 family, such as SYN1-4. SYN1, also called protein DETERMINATE INFERTILE 1 (DIF1), or SCC1 homolog 1, is involved in chromosome condensation, pairing, and segregation during meiosis. It is also responsible for cohesion between replicated sister chromatids. SYN4, also called AtRAD21-3, or AtRAD21.3, is involved in sister chromatid and centromere cohesion during mitosis. Similarly, SYN2 (also called SCC1 homolog 2, or AtRAD21-1) and SYN3 (also called SCC1 homolog 3, or AtRAD21-2) may also be involved in sister chromatid cohesion during mitosis. This model corresponds to a small region in the middle of SYN1-4 that shows high sequence similarity with the HEAT-repeat binding domain found in both the middle of Saccharomyces cerevisiae sister chromatid cohesion protein 1 (ScScc1p) and Homo sapiens nuclear matrix protein 1 (NXP-1), which consists of short helices and two long extended segments.


:

Pssm-ID: 439295  Cd Length: 82  Bit Score: 81.97  E-value: 7.95e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2067547450 549 TATKRKVLM-DDPMVLPGDVIREQLTNTESIRRVRKKAPCTVSEILMLQRQALEDGLLKEPIFTGMSVELVSLHNEPY 625
Cdd:cd21793     2 RPRKRKVLFkDEQTVLPNEVMKSWLQDTSDLVRKRKKAPHTALDIWRANRISKLDQLFSEPLIPGLCSDLRELYRKNF 79
 
Name Accession Description Interval E-value
Rad21_Rec8_N pfam04825
N terminus of Rad21 / Rec8 like protein; This family represents a conserved N-terminal region ...
 1-104 3.24e-54

N terminus of Rad21 / Rec8 like protein; This family represents a conserved N-terminal region found in eukaryotic cohesins of the Rad21, Rec8 and Scc1 families. Members of this family mediate sister chromatid cohesion during mitosis and meiosis, as part of the cohesin complex. Cohesion is necessary for homologous recombination (including double-strand break repair) and correct chromatid segregation. These proteins may also be involved in chromosome condensation. Dissociation at the metaphase to anaphase transition causes loss of cohesion and chromatid segregation.


Pssm-ID: 461446  Cd Length: 104  Bit Score: 183.52  E-value: 3.24e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2067547450   1 MFYSQFILAKKGPLGTIWIAAHLERKLRKNQITDTDIGVSVDSILFPEAPIALRLSSHLLLGVVRIYSKKVNYLFDDCSE 80
Cdd:pfam04825   1 MFYSHEILSKKGPLATVWLAATLGKKLSKKQILEVDIPKACETIINPEAPLALRLSGQLLLGVVRIYSRKAKYLLDDCNE 80

                          90       100
                  ....*....|....*....|....
gi 2067547450  81 ALLKVKQAFRSAAVDLPPEESTAP 104
Cdd:pfam04825  81 ALVKIKKAFRPGQVDLPAEGKARA 104
Rad21_Rec8 pfam04824
Conserved region of Rad21 / Rec8 like protein; This family represents a conserved region found ...
 932-986 5.71e-21

Conserved region of Rad21 / Rec8 like protein; This family represents a conserved region found in eukaryotic cohesins of the Rad21, Rec8 and Scc1 families. Members of this family mediate sister chromatid cohesion during mitosis and meiosis, as part of the cohesin complex. Cohesion is necessary for homologous recombination (including double-strand break repair) and correct chromatid segregation. These proteins may also be involved in chromosome condensation. Dissociation at the metaphase to anaphase transition causes loss of cohesion and chromatid segregation.


Pssm-ID: 335912  Cd Length: 55  Bit Score: 87.00  E-value: 5.71e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2067547450 932 NGKNAVVADKLLAGKTRKEASRMFFETLVLKTRDYIQVEQAKPYESIIIKPRPKL 986
Cdd:pfam04824   1 TEGEKDSLSLLPAGKTRKEAARLFYELLVLATKGAIKVKQEEPYGDILITPGPKF 55
Rad21_Rec8_M_AtSYN1-like cd21793
Middle HEAT-repeat binding domain found in Arabidopsis thaliana sister chromatid cohesion 1 ...
 549-625 7.95e-19

Middle HEAT-repeat binding domain found in Arabidopsis thaliana sister chromatid cohesion 1 protein 1-4 (SYN1-4) and similar proteins; The family includes a group of plant chromosome cohesin proteins from the Rad21/Rec8 family, such as SYN1-4. SYN1, also called protein DETERMINATE INFERTILE 1 (DIF1), or SCC1 homolog 1, is involved in chromosome condensation, pairing, and segregation during meiosis. It is also responsible for cohesion between replicated sister chromatids. SYN4, also called AtRAD21-3, or AtRAD21.3, is involved in sister chromatid and centromere cohesion during mitosis. Similarly, SYN2 (also called SCC1 homolog 2, or AtRAD21-1) and SYN3 (also called SCC1 homolog 3, or AtRAD21-2) may also be involved in sister chromatid cohesion during mitosis. This model corresponds to a small region in the middle of SYN1-4 that shows high sequence similarity with the HEAT-repeat binding domain found in both the middle of Saccharomyces cerevisiae sister chromatid cohesion protein 1 (ScScc1p) and Homo sapiens nuclear matrix protein 1 (NXP-1), which consists of short helices and two long extended segments.


Pssm-ID: 439295  Cd Length: 82  Bit Score: 81.97  E-value: 7.95e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2067547450 549 TATKRKVLM-DDPMVLPGDVIREQLTNTESIRRVRKKAPCTVSEILMLQRQALEDGLLKEPIFTGMSVELVSLHNEPY 625
Cdd:cd21793     2 RPRKRKVLFkDEQTVLPNEVMKSWLQDTSDLVRKRKKAPHTALDIWRANRISKLDQLFSEPLIPGLCSDLRELYRKNF 79
 
Name Accession Description Interval E-value
Rad21_Rec8_N pfam04825
N terminus of Rad21 / Rec8 like protein; This family represents a conserved N-terminal region ...
 1-104 3.24e-54

N terminus of Rad21 / Rec8 like protein; This family represents a conserved N-terminal region found in eukaryotic cohesins of the Rad21, Rec8 and Scc1 families. Members of this family mediate sister chromatid cohesion during mitosis and meiosis, as part of the cohesin complex. Cohesion is necessary for homologous recombination (including double-strand break repair) and correct chromatid segregation. These proteins may also be involved in chromosome condensation. Dissociation at the metaphase to anaphase transition causes loss of cohesion and chromatid segregation.


Pssm-ID: 461446  Cd Length: 104  Bit Score: 183.52  E-value: 3.24e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2067547450   1 MFYSQFILAKKGPLGTIWIAAHLERKLRKNQITDTDIGVSVDSILFPEAPIALRLSSHLLLGVVRIYSKKVNYLFDDCSE 80
Cdd:pfam04825   1 MFYSHEILSKKGPLATVWLAATLGKKLSKKQILEVDIPKACETIINPEAPLALRLSGQLLLGVVRIYSRKAKYLLDDCNE 80

                          90       100
                  ....*....|....*....|....
gi 2067547450  81 ALLKVKQAFRSAAVDLPPEESTAP 104
Cdd:pfam04825  81 ALVKIKKAFRPGQVDLPAEGKARA 104
Rad21_Rec8 pfam04824
Conserved region of Rad21 / Rec8 like protein; This family represents a conserved region found ...
 932-986 5.71e-21

Conserved region of Rad21 / Rec8 like protein; This family represents a conserved region found in eukaryotic cohesins of the Rad21, Rec8 and Scc1 families. Members of this family mediate sister chromatid cohesion during mitosis and meiosis, as part of the cohesin complex. Cohesion is necessary for homologous recombination (including double-strand break repair) and correct chromatid segregation. These proteins may also be involved in chromosome condensation. Dissociation at the metaphase to anaphase transition causes loss of cohesion and chromatid segregation.


Pssm-ID: 335912  Cd Length: 55  Bit Score: 87.00  E-value: 5.71e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2067547450 932 NGKNAVVADKLLAGKTRKEASRMFFETLVLKTRDYIQVEQAKPYESIIIKPRPKL 986
Cdd:pfam04824   1 TEGEKDSLSLLPAGKTRKEAARLFYELLVLATKGAIKVKQEEPYGDILITPGPKF 55
Rad21_Rec8_M_AtSYN1-like cd21793
Middle HEAT-repeat binding domain found in Arabidopsis thaliana sister chromatid cohesion 1 ...
 549-625 7.95e-19

Middle HEAT-repeat binding domain found in Arabidopsis thaliana sister chromatid cohesion 1 protein 1-4 (SYN1-4) and similar proteins; The family includes a group of plant chromosome cohesin proteins from the Rad21/Rec8 family, such as SYN1-4. SYN1, also called protein DETERMINATE INFERTILE 1 (DIF1), or SCC1 homolog 1, is involved in chromosome condensation, pairing, and segregation during meiosis. It is also responsible for cohesion between replicated sister chromatids. SYN4, also called AtRAD21-3, or AtRAD21.3, is involved in sister chromatid and centromere cohesion during mitosis. Similarly, SYN2 (also called SCC1 homolog 2, or AtRAD21-1) and SYN3 (also called SCC1 homolog 3, or AtRAD21-2) may also be involved in sister chromatid cohesion during mitosis. This model corresponds to a small region in the middle of SYN1-4 that shows high sequence similarity with the HEAT-repeat binding domain found in both the middle of Saccharomyces cerevisiae sister chromatid cohesion protein 1 (ScScc1p) and Homo sapiens nuclear matrix protein 1 (NXP-1), which consists of short helices and two long extended segments.


Pssm-ID: 439295  Cd Length: 82  Bit Score: 81.97  E-value: 7.95e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2067547450 549 TATKRKVLM-DDPMVLPGDVIREQLTNTESIRRVRKKAPCTVSEILMLQRQALEDGLLKEPIFTGMSVELVSLHNEPY 625
Cdd:cd21793     2 RPRKRKVLFkDEQTVLPNEVMKSWLQDTSDLVRKRKKAPHTALDIWRANRISKLDQLFSEPLIPGLCSDLRELYRKNF 79
Rad21_Rec8_M cd21747
Middle HEAT-repeat binding domain of Rad21/Rec8-like proteins; This family includes eukaryotic ...
 548-624 1.65e-13

Middle HEAT-repeat binding domain of Rad21/Rec8-like proteins; This family includes eukaryotic cohesins of the Rad21, Rec8, and Scc1 subfamilies. They mediate sister chromatid cohesion during mitosis and meiosis, as part of the cohesin complex. Cohesion is necessary for homologous recombination (including double-strand break repair) and correct chromatid segregation. These proteins may also be involved in chromosome condensation. Dissociation at the metaphase to anaphase transition causes loss of cohesion and chromatid segregation. This model corresponds to a conserved middle/central region of family members, consisting of short helices and two extended segments, which functions in binding to HEAT-repeat containing cohesin subunits. For example, human Scc1 homolog (NXP-1) binds to either SA1 or SA2, two homologous HEAT-containing proteins; the SA-Scc1 heterodimer mediates the binding between cohesin and its regulators, including Scc2-Scc4, Pds5, Wapl, and Sgo1.


Pssm-ID: 439289 [Multi-domain]  Cd Length: 79  Bit Score: 66.72  E-value: 1.65e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2067547450 548 STATKRKVLMDDPMVLPGDVIREQLTNTESIRRVRkkAPCTVSEILMLQRQALEDGLLKEPIFTGMSVELVSLHNEP 624
Cdd:cd21747     1 RRRRKRKLLIDEVTELSTEQMRSQLQDTSDIVRSR--DLNPPTPVRPLRKASGTDSLFSLNPLSGWDNALLELFPSP 75
Rad21_Rec8_M_NXP1-like cd21792
Middle HEAT-repeat binding domain found in Homo sapiens nuclear matrix protein 1 (NXP-1) and ...
 549-621 1.61e-07

Middle HEAT-repeat binding domain found in Homo sapiens nuclear matrix protein 1 (NXP-1) and similar proteins; NXP-1, also called double-strand-break repair protein Rad21 homolog (HR21), or Scc1 homolog, is related to Rad21/Scc1/Mcd1. As a component of the cohesin complex, it is involved in sister chromatid cohesion from the time of DNA replication in S phase to their segregation in mitosis, a function that is essential for proper chromosome segregation, post-replicative DNA repair, and the prevention of inappropriate recombination between repetitive regions. The cohesin complex may also play a role in spindle pole assembly during mitosis. The family also includes double-strand-break repair protein rad21-like protein 1 (RAD21L), which is a meiosis-specific component of some cohesin complex required during the initial steps of prophase I in male meiosis. This model corresponds to the HEAT-repeat binding domain of NXP-1 located in the middle/central region, which consists of four short helices and two long extended segments. It is responsible for the binding of cohesin HEAT-repeat subunit SA2. The SA2:NXP-1 heterodimer mediates the binding between cohesin and its regulators, including Scc2-Scc4, Pds5, Wapl, and Sgo1.


Pssm-ID: 439294 [Multi-domain]  Cd Length: 81  Bit Score: 49.55  E-value: 1.61e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2067547450 549 TATKRKVLMDDPMVLPGDVIREQLTNTESIRRVRKKAPCTVSeiLMLQRQALE-DGLLKEPIFTGMSVELVSLH 621
Cdd:cd21792     3 RKRKRKLIVDTVKEISGEEMKAQLSDTSDIVTTLDLAPPTKK--LMRWKETGGvDKLFSLPGRPILSSPLLKLF 74
 
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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