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Conserved domains on  [gi|2462579124|ref|XP_054178813|]
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synaptonemal complex protein 2 isoform X6 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SYCP2_ARLD pfam18581
Synaptonemal complex 2 armadillo-repeat-like domain; Synaptonemal complex protein 2 (SYCP2) ...
 16-194 1.42e-66

Synaptonemal complex 2 armadillo-repeat-like domain; Synaptonemal complex protein 2 (SYCP2) N-terminal region contains two separate subdomains an ARLD (armadillo-repeat-like domain) and an SLD (Spt16M-like domain). The ARLD domain belongs to the armadillo-repeat protein family. Armadillo-repeat units often form a superhelix, which typically provides a platform for many protein partners that transduce Wnt signaling, such as beta-catenin. The ARLD of mouse SYCP2 was found to associate with different protein partners, including CENP J and CENP F. ARLD structure is highly similar to that of the 'required for cell differentiation (RCD-1)' protein.


:

Pssm-ID: 465809  Cd Length: 175  Bit Score: 222.56  E-value: 1.42e-66
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462579124   16 QLEKCIDDALRKNDFKPLKTLLQiDICEDVKIKCSKQFFHKVDNLICRELNKEDIHNVSAILVSVGRCGKNisvLGQAGL 95
Cdd:pfam18581    1 QLESLIDDAFRKKGFKKIEEFLQ-QASENPPQKCSKLLLNKLDKLINKELDKNEFKNVSLLLKCIQRFGKD---DGEDGL 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462579124   96 LTMIKQGLIQKMVAWFEKSKDIIQSQGNSKDEAVLNMIEDLVDLLLVIHDVSDEGKKQVVESFVPRICSLVIDSRVNICI 175
Cdd:pfam18581   77 PLLIQQGLVKKMVSWFEKAKEILISDGNSKNALLDNLIEDFFDSLLIIRRSSSEGKIQLLSSFLLRLGLLVTDTRVNIAI 156

                          170
                   ....*....|....*....
gi 2462579124  176 QQEIIKKMNAMLDKMPQDA 194
Cdd:pfam18581  157 QQEALRTLNSMLDAMPREA 175
SYCP2_SLD pfam18584
Synaptonemal complex 2 Spt16M-like domain; Synaptonemal complex protein 2 (SYCP2) N-terminal ...
 285-396 1.53e-56

Synaptonemal complex 2 Spt16M-like domain; Synaptonemal complex protein 2 (SYCP2) N-terminal region contains two separate subdomains an ARLD (armadillo-repeat-like domain) and an SLD (Spt16M-like domain). The SLD structure is highly similar to the middle domain of the histone chaperone FACT. It consists of a twisted ten-stranded beta-sheet flanked by two helices. Since the SLD domain structurally resembles Spt16M, which is known as the well-recognized histone protein H2A-H2B; it is speculated that the SLD may be involved in chromatin binding.


:

Pssm-ID: 465811  Cd Length: 111  Bit Score: 190.95  E-value: 1.53e-56
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462579124  285 VFTFPCLSAFLDKYELQIPSDEKLEEFWIDFNLGSQTLSFYIAgDNDDHQWEAVTVPEEKVQIYSIEVRESKKLLTIILK 364
Cdd:pfam18584    1 VYSFPCLSAFLDKHELRKPADEKLEEFWIDFNLGSQSITFYID-NDESHLWETVRLPKEDVESYSLEEKDKKKLLTIYLK 79

                           90       100       110
                   ....*....|....*....|....*....|..
gi 2462579124  365 NTVKISKREGKELLLYFDASLEITNVTQKIFG 396
Cdd:pfam18584   80 NPITIGKKEGTKIEIHFDSQLEILDVTKKVLG 111
 
Name Accession Description Interval E-value
SYCP2_ARLD pfam18581
Synaptonemal complex 2 armadillo-repeat-like domain; Synaptonemal complex protein 2 (SYCP2) ...
 16-194 1.42e-66

Synaptonemal complex 2 armadillo-repeat-like domain; Synaptonemal complex protein 2 (SYCP2) N-terminal region contains two separate subdomains an ARLD (armadillo-repeat-like domain) and an SLD (Spt16M-like domain). The ARLD domain belongs to the armadillo-repeat protein family. Armadillo-repeat units often form a superhelix, which typically provides a platform for many protein partners that transduce Wnt signaling, such as beta-catenin. The ARLD of mouse SYCP2 was found to associate with different protein partners, including CENP J and CENP F. ARLD structure is highly similar to that of the 'required for cell differentiation (RCD-1)' protein.


Pssm-ID: 465809  Cd Length: 175  Bit Score: 222.56  E-value: 1.42e-66
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462579124   16 QLEKCIDDALRKNDFKPLKTLLQiDICEDVKIKCSKQFFHKVDNLICRELNKEDIHNVSAILVSVGRCGKNisvLGQAGL 95
Cdd:pfam18581    1 QLESLIDDAFRKKGFKKIEEFLQ-QASENPPQKCSKLLLNKLDKLINKELDKNEFKNVSLLLKCIQRFGKD---DGEDGL 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462579124   96 LTMIKQGLIQKMVAWFEKSKDIIQSQGNSKDEAVLNMIEDLVDLLLVIHDVSDEGKKQVVESFVPRICSLVIDSRVNICI 175
Cdd:pfam18581   77 PLLIQQGLVKKMVSWFEKAKEILISDGNSKNALLDNLIEDFFDSLLIIRRSSSEGKIQLLSSFLLRLGLLVTDTRVNIAI 156

                          170
                   ....*....|....*....
gi 2462579124  176 QQEIIKKMNAMLDKMPQDA 194
Cdd:pfam18581  157 QQEALRTLNSMLDAMPREA 175
SYCP2_SLD pfam18584
Synaptonemal complex 2 Spt16M-like domain; Synaptonemal complex protein 2 (SYCP2) N-terminal ...
 285-396 1.53e-56

Synaptonemal complex 2 Spt16M-like domain; Synaptonemal complex protein 2 (SYCP2) N-terminal region contains two separate subdomains an ARLD (armadillo-repeat-like domain) and an SLD (Spt16M-like domain). The SLD structure is highly similar to the middle domain of the histone chaperone FACT. It consists of a twisted ten-stranded beta-sheet flanked by two helices. Since the SLD domain structurally resembles Spt16M, which is known as the well-recognized histone protein H2A-H2B; it is speculated that the SLD may be involved in chromatin binding.


Pssm-ID: 465811  Cd Length: 111  Bit Score: 190.95  E-value: 1.53e-56
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462579124  285 VFTFPCLSAFLDKYELQIPSDEKLEEFWIDFNLGSQTLSFYIAgDNDDHQWEAVTVPEEKVQIYSIEVRESKKLLTIILK 364
Cdd:pfam18584    1 VYSFPCLSAFLDKHELRKPADEKLEEFWIDFNLGSQSITFYID-NDESHLWETVRLPKEDVESYSLEEKDKKKLLTIYLK 79

                           90       100       110
                   ....*....|....*....|....*....|..
gi 2462579124  365 NTVKISKREGKELLLYFDASLEITNVTQKIFG 396
Cdd:pfam18584   80 NPITIGKKEGTKIEIHFDSQLEILDVTKKVLG 111
 
Name Accession Description Interval E-value
SYCP2_ARLD pfam18581
Synaptonemal complex 2 armadillo-repeat-like domain; Synaptonemal complex protein 2 (SYCP2) ...
 16-194 1.42e-66

Synaptonemal complex 2 armadillo-repeat-like domain; Synaptonemal complex protein 2 (SYCP2) N-terminal region contains two separate subdomains an ARLD (armadillo-repeat-like domain) and an SLD (Spt16M-like domain). The ARLD domain belongs to the armadillo-repeat protein family. Armadillo-repeat units often form a superhelix, which typically provides a platform for many protein partners that transduce Wnt signaling, such as beta-catenin. The ARLD of mouse SYCP2 was found to associate with different protein partners, including CENP J and CENP F. ARLD structure is highly similar to that of the 'required for cell differentiation (RCD-1)' protein.


Pssm-ID: 465809  Cd Length: 175  Bit Score: 222.56  E-value: 1.42e-66
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462579124   16 QLEKCIDDALRKNDFKPLKTLLQiDICEDVKIKCSKQFFHKVDNLICRELNKEDIHNVSAILVSVGRCGKNisvLGQAGL 95
Cdd:pfam18581    1 QLESLIDDAFRKKGFKKIEEFLQ-QASENPPQKCSKLLLNKLDKLINKELDKNEFKNVSLLLKCIQRFGKD---DGEDGL 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462579124   96 LTMIKQGLIQKMVAWFEKSKDIIQSQGNSKDEAVLNMIEDLVDLLLVIHDVSDEGKKQVVESFVPRICSLVIDSRVNICI 175
Cdd:pfam18581   77 PLLIQQGLVKKMVSWFEKAKEILISDGNSKNALLDNLIEDFFDSLLIIRRSSSEGKIQLLSSFLLRLGLLVTDTRVNIAI 156

                          170
                   ....*....|....*....
gi 2462579124  176 QQEIIKKMNAMLDKMPQDA 194
Cdd:pfam18581  157 QQEALRTLNSMLDAMPREA 175
SYCP2_SLD pfam18584
Synaptonemal complex 2 Spt16M-like domain; Synaptonemal complex protein 2 (SYCP2) N-terminal ...
 285-396 1.53e-56

Synaptonemal complex 2 Spt16M-like domain; Synaptonemal complex protein 2 (SYCP2) N-terminal region contains two separate subdomains an ARLD (armadillo-repeat-like domain) and an SLD (Spt16M-like domain). The SLD structure is highly similar to the middle domain of the histone chaperone FACT. It consists of a twisted ten-stranded beta-sheet flanked by two helices. Since the SLD domain structurally resembles Spt16M, which is known as the well-recognized histone protein H2A-H2B; it is speculated that the SLD may be involved in chromatin binding.


Pssm-ID: 465811  Cd Length: 111  Bit Score: 190.95  E-value: 1.53e-56
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462579124  285 VFTFPCLSAFLDKYELQIPSDEKLEEFWIDFNLGSQTLSFYIAgDNDDHQWEAVTVPEEKVQIYSIEVRESKKLLTIILK 364
Cdd:pfam18584    1 VYSFPCLSAFLDKHELRKPADEKLEEFWIDFNLGSQSITFYID-NDESHLWETVRLPKEDVESYSLEEKDKKKLLTIYLK 79

                           90       100       110
                   ....*....|....*....|....*....|..
gi 2462579124  365 NTVKISKREGKELLLYFDASLEITNVTQKIFG 396
Cdd:pfam18584   80 NPITIGKKEGTKIEIHFDSQLEILDVTKKVLG 111
 
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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