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Conserved domains on  [gi|169808385|ref|NP_081770|]
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zinc finger CCHC domain-containing protein 8 [Mus musculus]

Protein Classification

zinc finger CCHC domain-containing protein( domain architecture ID 10443319)

zinc finger CCHC (ZCCHC) domain-containing protein contains a zinc knuckle or a zinc binding motif, CX2CX4HX4C, where X can be any amino acid, and may bind single-stranded RNA

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PSP super family cl02643
PSP; Proline rich domain found in numerous spliceosome associated proteins.
 286-338 3.34e-20

PSP; Proline rich domain found in numerous spliceosome associated proteins.


The actual alignment was detected with superfamily member smart00581:

Pssm-ID: 470641  Cd Length: 54  Bit Score: 84.33  E-value: 3.34e-20
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 169808385   286 FGRFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGLAL 338
Cdd:smart00581   1 FKHFKPGRISDELREALGLPPGQPPPWLYRMRRLGYPPGYPrLKIPGLNAPIPL 54
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 230-247 1.89e-03

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


:

Pssm-ID: 395050 [Multi-domain]  Cd Length: 18  Bit Score: 35.97  E-value: 1.89e-03
                          10
                  ....*....|....*...
gi 169808385  230 PHCFNCGSEEHQMKECPM 247
Cdd:pfam00098   1 GKCYNCGEPGHIARDCPK 18
PRK07003 super family cl35530
DNA polymerase III subunit gamma/tau;
501-663 7.36e-03

DNA polymerase III subunit gamma/tau;


The actual alignment was detected with superfamily member PRK07003:

Pssm-ID: 235906 [Multi-domain]  Cd Length: 830  Bit Score: 39.83  E-value: 7.36e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 169808385 501 SDSPQARPAASAMDEDALTLEELEEQQRQIWAALQQAEGGNGDSDVPgdtpltgnsvasSPCPNEFDLPVPEGKALEKPV 580
Cdd:PRK07003 439 GDDAADGDAPVPAKANARASADSRCDERDAQPPADSGSASAPASDAP------------PDAAFEPAPRAAAPSAATPAA 506

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 169808385 581 LAEPQEPAASVDTAGPEPSCSPAAGAAVLSQREEEAAAEGGPGDALLD---NGGvlnMNMSNGSNQQP---IHPDSRPPM 654
Cdd:PRK07003 507 VPDARAPAAASREDAPAAAAPPAPEARPPTPAAAAPAARAGGAAAALDvlrNAG---MRVSSDRGARAaaaAKPAAAPAA 583


                 ....*....
gi 169808385 655 APKTHSPVP 663
Cdd:PRK07003 584 APKPAAPRV 592
VPA1267_fam super family cl48955
VPA1267 family protein; Members of this family occur in mobile elements, as for VPA1267 found ...
 50-77 8.36e-03

VPA1267 family protein; Members of this family occur in mobile elements, as for VPA1267 found in pathogenicity island 6 of Vibrio parahaemolyticus RIMD2210633.


The actual alignment was detected with superfamily member NF040697:

Pssm-ID: 468661 [Multi-domain]  Cd Length: 143  Bit Score: 37.21  E-value: 8.36e-03
                         10        20
                 ....*....|....*....|....*...
gi 169808385  50 AELQEQLRRCEATIEQLRAENQELKRKL 77
Cdd:NF040697 100 ARDAERLRRLEQENAELKAENAELKAKL 127
 
Name Accession Description Interval E-value
PSP smart00581
proline-rich domain in spliceosome associated proteins;
286-338 3.34e-20

proline-rich domain in spliceosome associated proteins;


Pssm-ID: 128850  Cd Length: 54  Bit Score: 84.33  E-value: 3.34e-20
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 169808385   286 FGRFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGLAL 338
Cdd:smart00581   1 FKHFKPGRISDELREALGLPPGQPPPWLYRMRRLGYPPGYPrLKIPGLNAPIPL 54
PSP pfam04046
PSP; Proline rich domain found in numerous spliceosome associated proteins.
 290-336 2.66e-17

PSP; Proline rich domain found in numerous spliceosome associated proteins.


Pssm-ID: 461145  Cd Length: 46  Bit Score: 75.94  E-value: 2.66e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 169808385  290 KPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWlkeAELENSGL 336
Cdd:pfam04046   1 KPGKLSDELREALGLPEGQPPPWLYRMQRLGPPPSY---PNLKIPGL 44
CUS1 COG5182
Splicing factor 3b, subunit 2 [RNA processing and modification];
290-325 5.67e-04

Splicing factor 3b, subunit 2 [RNA processing and modification];


Pssm-ID: 227509 [Multi-domain]  Cd Length: 429  Bit Score: 43.05  E-value: 5.67e-04
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 169808385 290 KPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGW 325
Cdd:COG5182  279 RPGAISAELREALGIDSGTPPPWLFNMQKHGMPPSY 314
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 230-247 1.89e-03

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


Pssm-ID: 395050 [Multi-domain]  Cd Length: 18  Bit Score: 35.97  E-value: 1.89e-03
                          10
                  ....*....|....*...
gi 169808385  230 PHCFNCGSEEHQMKECPM 247
Cdd:pfam00098   1 GKCYNCGEPGHIARDCPK 18
ZnF_C2HC smart00343
zinc finger;
232-246 2.18e-03

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 35.88  E-value: 2.18e-03
                           10
                   ....*....|....*
gi 169808385   232 CFNCGSEEHQMKECP 246
Cdd:smart00343   2 CYNCGKEGHIARDCP 16
PRK07003 PRK07003
DNA polymerase III subunit gamma/tau;
501-663 7.36e-03

DNA polymerase III subunit gamma/tau;


Pssm-ID: 235906 [Multi-domain]  Cd Length: 830  Bit Score: 39.83  E-value: 7.36e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 169808385 501 SDSPQARPAASAMDEDALTLEELEEQQRQIWAALQQAEGGNGDSDVPgdtpltgnsvasSPCPNEFDLPVPEGKALEKPV 580
Cdd:PRK07003 439 GDDAADGDAPVPAKANARASADSRCDERDAQPPADSGSASAPASDAP------------PDAAFEPAPRAAAPSAATPAA 506

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 169808385 581 LAEPQEPAASVDTAGPEPSCSPAAGAAVLSQREEEAAAEGGPGDALLD---NGGvlnMNMSNGSNQQP---IHPDSRPPM 654
Cdd:PRK07003 507 VPDARAPAAASREDAPAAAAPPAPEARPPTPAAAAPAARAGGAAAALDvlrNAG---MRVSSDRGARAaaaAKPAAAPAA 583


                 ....*....
gi 169808385 655 APKTHSPVP 663
Cdd:PRK07003 584 APKPAAPRV 592
VPA1267_fam NF040697
VPA1267 family protein; Members of this family occur in mobile elements, as for VPA1267 found ...
 50-77 8.36e-03

VPA1267 family protein; Members of this family occur in mobile elements, as for VPA1267 found in pathogenicity island 6 of Vibrio parahaemolyticus RIMD2210633.


Pssm-ID: 468661 [Multi-domain]  Cd Length: 143  Bit Score: 37.21  E-value: 8.36e-03
                         10        20
                 ....*....|....*....|....*...
gi 169808385  50 AELQEQLRRCEATIEQLRAENQELKRKL 77
Cdd:NF040697 100 ARDAERLRRLEQENAELKAENAELKAKL 127
 
Name Accession Description Interval E-value
PSP smart00581
proline-rich domain in spliceosome associated proteins;
286-338 3.34e-20

proline-rich domain in spliceosome associated proteins;


Pssm-ID: 128850  Cd Length: 54  Bit Score: 84.33  E-value: 3.34e-20
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 169808385   286 FGRFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGLAL 338
Cdd:smart00581   1 FKHFKPGRISDELREALGLPPGQPPPWLYRMRRLGYPPGYPrLKIPGLNAPIPL 54
PSP pfam04046
PSP; Proline rich domain found in numerous spliceosome associated proteins.
 290-336 2.66e-17

PSP; Proline rich domain found in numerous spliceosome associated proteins.


Pssm-ID: 461145  Cd Length: 46  Bit Score: 75.94  E-value: 2.66e-17
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 169808385  290 KPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWlkeAELENSGL 336
Cdd:pfam04046   1 KPGKLSDELREALGLPEGQPPPWLYRMQRLGPPPSY---PNLKIPGL 44
CUS1 COG5182
Splicing factor 3b, subunit 2 [RNA processing and modification];
290-325 5.67e-04

Splicing factor 3b, subunit 2 [RNA processing and modification];


Pssm-ID: 227509 [Multi-domain]  Cd Length: 429  Bit Score: 43.05  E-value: 5.67e-04
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 169808385 290 KPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGW 325
Cdd:COG5182  279 RPGAISAELREALGIDSGTPPPWLFNMQKHGMPPSY 314
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 230-247 1.89e-03

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


Pssm-ID: 395050 [Multi-domain]  Cd Length: 18  Bit Score: 35.97  E-value: 1.89e-03
                          10
                  ....*....|....*...
gi 169808385  230 PHCFNCGSEEHQMKECPM 247
Cdd:pfam00098   1 GKCYNCGEPGHIARDCPK 18
ZnF_C2HC smart00343
zinc finger;
232-246 2.18e-03

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 35.88  E-value: 2.18e-03
                           10
                   ....*....|....*
gi 169808385   232 CFNCGSEEHQMKECP 246
Cdd:smart00343   2 CYNCGKEGHIARDCP 16
PRK07003 PRK07003
DNA polymerase III subunit gamma/tau;
501-663 7.36e-03

DNA polymerase III subunit gamma/tau;


Pssm-ID: 235906 [Multi-domain]  Cd Length: 830  Bit Score: 39.83  E-value: 7.36e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 169808385 501 SDSPQARPAASAMDEDALTLEELEEQQRQIWAALQQAEGGNGDSDVPgdtpltgnsvasSPCPNEFDLPVPEGKALEKPV 580
Cdd:PRK07003 439 GDDAADGDAPVPAKANARASADSRCDERDAQPPADSGSASAPASDAP------------PDAAFEPAPRAAAPSAATPAA 506

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 169808385 581 LAEPQEPAASVDTAGPEPSCSPAAGAAVLSQREEEAAAEGGPGDALLD---NGGvlnMNMSNGSNQQP---IHPDSRPPM 654
Cdd:PRK07003 507 VPDARAPAAASREDAPAAAAPPAPEARPPTPAAAAPAARAGGAAAALDvlrNAG---MRVSSDRGARAaaaAKPAAAPAA 583


                 ....*....
gi 169808385 655 APKTHSPVP 663
Cdd:PRK07003 584 APKPAAPRV 592
VPA1267_fam NF040697
VPA1267 family protein; Members of this family occur in mobile elements, as for VPA1267 found ...
 50-77 8.36e-03

VPA1267 family protein; Members of this family occur in mobile elements, as for VPA1267 found in pathogenicity island 6 of Vibrio parahaemolyticus RIMD2210633.


Pssm-ID: 468661 [Multi-domain]  Cd Length: 143  Bit Score: 37.21  E-value: 8.36e-03
                         10        20
                 ....*....|....*....|....*...
gi 169808385  50 AELQEQLRRCEATIEQLRAENQELKRKL 77
Cdd:NF040697 100 ARDAERLRRLEQENAELKAENAELKAKL 127
 
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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