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Conserved domains on  [gi|2462628219|ref|XP_054182437|]
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PWWP domain-containing DNA repair factor 3B isoform X1 [Homo sapiens]

Protein Classification

PWWP domain-containing protein( domain architecture ID 10149510)

PWWP domain-containing protein similar to Homo sapiens hepatoma-derived growth factor that may act as a transcriptional repressor

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PWWP_MUM1-like cd06080
PWWP domain found in mutated melanoma-associated antigen 1 (MUM-1) and similar proteins; MUM-1, ...
 390-479 4.08e-34

PWWP domain found in mutated melanoma-associated antigen 1 (MUM-1) and similar proteins; MUM-1, also called PWWP domain-containing DNA repair factor 3A (PWWP3A), or protein expandere (EXPAND1), is a melanoma-associated antigen (MAA) that belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers and involved in the DNA damage response pathway by contributing to the maintenance of chromatin architecture. MUM-1 is recruited to the vicinity of DNA breaks by TP53BP1 and plays an accessory role to facilitate damage-induced chromatin changes and promoting chromatin relaxation. It is required for efficient DNA repair and cell survival following DNA damage. This subfamily also includes mutated melanoma-associated antigen 1-like protein 1 (MUM1L1), also called MUM1-like protein 1, or PWWP domain-containing DNA repair factor 3B (PWWP3B). Its biological function remains unclear. The PWWP domain specifically recognizes DNA and histone methylated lysines.


:

Pssm-ID: 438967  Cd Length: 90  Bit Score: 125.06  E-value: 4.08e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462628219 390 FETGMIVWFKYQKYPFWPAVIKSIRRKERKASVLFVEAnmNSEKKGIRVNFRRLKKFDCKEKQMLVDKARED-YSESIDW 468
Cdd:cd06080     1 FSKGDIVWAKYRKYPYWPAVVKSVYKKPKKASVLFLEL--PPEKKGIKVSLKKLKPFDCKEKEELLEEGKESpYSEDFKE 78

                          90
                  ....*....|.
gi 2462628219 469 CISLICDYRVR 479
Cdd:cd06080    79 AVELAEDYLIK 89
 
Name Accession Description Interval E-value
PWWP_MUM1-like cd06080
PWWP domain found in mutated melanoma-associated antigen 1 (MUM-1) and similar proteins; MUM-1, ...
 390-479 4.08e-34

PWWP domain found in mutated melanoma-associated antigen 1 (MUM-1) and similar proteins; MUM-1, also called PWWP domain-containing DNA repair factor 3A (PWWP3A), or protein expandere (EXPAND1), is a melanoma-associated antigen (MAA) that belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers and involved in the DNA damage response pathway by contributing to the maintenance of chromatin architecture. MUM-1 is recruited to the vicinity of DNA breaks by TP53BP1 and plays an accessory role to facilitate damage-induced chromatin changes and promoting chromatin relaxation. It is required for efficient DNA repair and cell survival following DNA damage. This subfamily also includes mutated melanoma-associated antigen 1-like protein 1 (MUM1L1), also called MUM1-like protein 1, or PWWP domain-containing DNA repair factor 3B (PWWP3B). Its biological function remains unclear. The PWWP domain specifically recognizes DNA and histone methylated lysines.


Pssm-ID: 438967  Cd Length: 90  Bit Score: 125.06  E-value: 4.08e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462628219 390 FETGMIVWFKYQKYPFWPAVIKSIRRKERKASVLFVEAnmNSEKKGIRVNFRRLKKFDCKEKQMLVDKARED-YSESIDW 468
Cdd:cd06080     1 FSKGDIVWAKYRKYPYWPAVVKSVYKKPKKASVLFLEL--PPEKKGIKVSLKKLKPFDCKEKEELLEEGKESpYSEDFKE 78

                          90
                  ....*....|.
gi 2462628219 469 CISLICDYRVR 479
Cdd:cd06080    79 AVELAEDYLIK 89
PWWP smart00293
domain with conserved PWWP motif; conservation of Pro-Trp-Trp-Pro residues
 390-424 5.07e-03

domain with conserved PWWP motif; conservation of Pro-Trp-Trp-Pro residues


Pssm-ID: 214603 [Multi-domain]  Cd Length: 63  Bit Score: 35.78  E-value: 5.07e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 2462628219  390 FETGMIVWFKYQKYPFWPAVI---KSIR---RKERKASVLF 424
Cdd:smart00293   1 FKPGDLVWAKMKGFPWWPALVispKMTPdniMKRKSDENLY 41
PWWP pfam00855
PWWP domain; The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. The domain ...
 393-459 5.51e-03

PWWP domain; The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. The domain binds to Histone-4 methylated at lysine-20, H4K20me, suggesting that it is methyl-lysine recognition motif. Removal of two conserved aromatic residues in a hydrophobic cavity created by this domain within the full-length protein, Pdp1, abolishes the interaction o f the protein with H4K20me3. In fission yeast, Set9 is the sole enzyme that catalyzes all three states of H4K20me, and Set9-mediated H4K20me is required for efficient recruitment of checkpoint protein Crb2 to sites of DNA damage. The methylation of H4K20 is involved in a diverse array of cellular processes, such as organizing higher-order chromatin, maintaining genome stability, and regulating cell-cycle progression.


Pssm-ID: 459964 [Multi-domain]  Cd Length: 92  Bit Score: 36.63  E-value: 5.51e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2462628219 393 GMIVWFKYQKYPFWPAVI----------KSIRRKERKASVLFVEANMNSekkgiRVNFRRLKKFDCKEKQMLVDKAR 459
Cdd:pfam00855   1 GDLVWAKLKGYPWWPARVvdpeelpenvLKPKKKDGEYLVRFFGDSEFA-----WVKPKDLKPFDEGDEFEYLKKKK 72
 
Name Accession Description Interval E-value
PWWP_MUM1-like cd06080
PWWP domain found in mutated melanoma-associated antigen 1 (MUM-1) and similar proteins; MUM-1, ...
 390-479 4.08e-34

PWWP domain found in mutated melanoma-associated antigen 1 (MUM-1) and similar proteins; MUM-1, also called PWWP domain-containing DNA repair factor 3A (PWWP3A), or protein expandere (EXPAND1), is a melanoma-associated antigen (MAA) that belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers and involved in the DNA damage response pathway by contributing to the maintenance of chromatin architecture. MUM-1 is recruited to the vicinity of DNA breaks by TP53BP1 and plays an accessory role to facilitate damage-induced chromatin changes and promoting chromatin relaxation. It is required for efficient DNA repair and cell survival following DNA damage. This subfamily also includes mutated melanoma-associated antigen 1-like protein 1 (MUM1L1), also called MUM1-like protein 1, or PWWP domain-containing DNA repair factor 3B (PWWP3B). Its biological function remains unclear. The PWWP domain specifically recognizes DNA and histone methylated lysines.


Pssm-ID: 438967  Cd Length: 90  Bit Score: 125.06  E-value: 4.08e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462628219 390 FETGMIVWFKYQKYPFWPAVIKSIRRKERKASVLFVEAnmNSEKKGIRVNFRRLKKFDCKEKQMLVDKARED-YSESIDW 468
Cdd:cd06080     1 FSKGDIVWAKYRKYPYWPAVVKSVYKKPKKASVLFLEL--PPEKKGIKVSLKKLKPFDCKEKEELLEEGKESpYSEDFKE 78

                          90
                  ....*....|.
gi 2462628219 469 CISLICDYRVR 479
Cdd:cd06080    79 AVELAEDYLIK 89
PWWP cd05162
PWWP (Pro-Trp-Trp-Pro) domain; The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, ...
 393-476 1.00e-05

PWWP (Pro-Trp-Trp-Pro) domain; The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids and is composed of a five-stranded antiparallel beta-barrel followed by a helical region. It is found in numerous proteins that are involved in cell division, growth, and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. PWWP domains specifically recognize DNA and histone methylated lysines at the level of the nucleosome. Based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.


Pssm-ID: 438958 [Multi-domain]  Cd Length: 86  Bit Score: 44.41  E-value: 1.00e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462628219 393 GMIVWFKYQKYPFWPAVIKSIR---------RKERKASVLFVEANMNSEkkgirVNFRRLKKFDCKEKQMLVDKARedYS 463
Cdd:cd05162     1 GDLVWAKLKGYPWWPARVVDPEelpeevgkkKKKGGVLVQFFGDNDYAW-----VKSKNIKPFEEGFKKEFKKKKK--KS 73

                          90
                  ....*....|...
gi 2462628219 464 ESIDWCISLICDY 476
Cdd:cd05162    74 KKFKKAVEEAEEA 86
PWWP smart00293
domain with conserved PWWP motif; conservation of Pro-Trp-Trp-Pro residues
 390-424 5.07e-03

domain with conserved PWWP motif; conservation of Pro-Trp-Trp-Pro residues


Pssm-ID: 214603 [Multi-domain]  Cd Length: 63  Bit Score: 35.78  E-value: 5.07e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 2462628219  390 FETGMIVWFKYQKYPFWPAVI---KSIR---RKERKASVLF 424
Cdd:smart00293   1 FKPGDLVWAKMKGFPWWPALVispKMTPdniMKRKSDENLY 41
PWWP pfam00855
PWWP domain; The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. The domain ...
 393-459 5.51e-03

PWWP domain; The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. The domain binds to Histone-4 methylated at lysine-20, H4K20me, suggesting that it is methyl-lysine recognition motif. Removal of two conserved aromatic residues in a hydrophobic cavity created by this domain within the full-length protein, Pdp1, abolishes the interaction o f the protein with H4K20me3. In fission yeast, Set9 is the sole enzyme that catalyzes all three states of H4K20me, and Set9-mediated H4K20me is required for efficient recruitment of checkpoint protein Crb2 to sites of DNA damage. The methylation of H4K20 is involved in a diverse array of cellular processes, such as organizing higher-order chromatin, maintaining genome stability, and regulating cell-cycle progression.


Pssm-ID: 459964 [Multi-domain]  Cd Length: 92  Bit Score: 36.63  E-value: 5.51e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2462628219 393 GMIVWFKYQKYPFWPAVI----------KSIRRKERKASVLFVEANMNSekkgiRVNFRRLKKFDCKEKQMLVDKAR 459
Cdd:pfam00855   1 GDLVWAKLKGYPWWPARVvdpeelpenvLKPKKKDGEYLVRFFGDSEFA-----WVKPKDLKPFDEGDEFEYLKKKK 72
 
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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