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Conserved domains on  [gi|30678682|ref|NP_186931|]
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zinc knuckle (CCHC-type) family protein [Arabidopsis thaliana]

Protein Classification

zf-CCHC and Swi3 domain-containing protein( domain architecture ID 10443458)

zf-CCHC and Swi3 domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Swi3 pfam07962
Replication Fork Protection Component Swi3; Replication fork pausing is required to initiate a ...
 73-155 1.47e-30

Replication Fork Protection Component Swi3; Replication fork pausing is required to initiate a recombination events. More specifically, Swi1 is required for recombination near the mat1 locus. Swi3 has been found to co-purify with Swi1 Swi3, together with Swi1, define a fork protection complex that coordinates leading- and lagging-strand synthesis and stabilizes stalled replication forks. The Swi1-Swi3 complex is required for accurate replication, fork protection and replication checkpoint signalling


:

Pssm-ID: 462324  Cd Length: 83  Bit Score: 109.51  E-value: 1.47e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30678682    73 KLTPELLLSEDGLGYVLRYFpKSFKYRGRGKEVSDLGNLIRLYSEWHTHLLPYYSFDHFVHKVQQVASTKRVKNCINELR 152
Cdd:pfam07962   1 KLDEERLLSPKGLPYLRKNF-KKFKFKGKGHEYEDLGRLLQFYQLWAHDLFPKAKFKDFIERVEKLGKKKRVRTYRRELR 79


                  ...
gi 30678682   153 ERV 155
Cdd:pfam07962  80 DEE 82
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 7-23 1.58e-06

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: 43.67  E-value: 1.58e-06
                          10
                  ....*....|....*..
gi 30678682     7 GCFKCGRPGHWSRDCPS 23
Cdd:pfam00098   2 KCYNCGEPGHIARDCPK 18
 
Name Accession Description Interval E-value
Swi3 pfam07962
Replication Fork Protection Component Swi3; Replication fork pausing is required to initiate a ...
 73-155 1.47e-30

Replication Fork Protection Component Swi3; Replication fork pausing is required to initiate a recombination events. More specifically, Swi1 is required for recombination near the mat1 locus. Swi3 has been found to co-purify with Swi1 Swi3, together with Swi1, define a fork protection complex that coordinates leading- and lagging-strand synthesis and stabilizes stalled replication forks. The Swi1-Swi3 complex is required for accurate replication, fork protection and replication checkpoint signalling


Pssm-ID: 462324  Cd Length: 83  Bit Score: 109.51  E-value: 1.47e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30678682    73 KLTPELLLSEDGLGYVLRYFpKSFKYRGRGKEVSDLGNLIRLYSEWHTHLLPYYSFDHFVHKVQQVASTKRVKNCINELR 152
Cdd:pfam07962   1 KLDEERLLSPKGLPYLRKNF-KKFKFKGKGHEYEDLGRLLQFYQLWAHDLFPKAKFKDFIERVEKLGKKKRVRTYRRELR 79


                  ...
gi 30678682   153 ERV 155
Cdd:pfam07962  80 DEE 82
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 7-23 1.58e-06

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: 43.67  E-value: 1.58e-06
                          10
                  ....*....|....*..
gi 30678682     7 GCFKCGRPGHWSRDCPS 23
Cdd:pfam00098   2 KCYNCGEPGHIARDCPK 18
ZnF_C2HC smart00343
zinc finger;
7-23 2.24e-06

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 43.20  E-value: 2.24e-06
                           10
                   ....*....|....*..
gi 30678682      7 GCFKCGRPGHWSRDCPS 23
Cdd:smart00343   1 KCYNCGKEGHIARDCPS 17
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 8-29 1.90e-05

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 43.64  E-value: 1.90e-05
                         10        20
                 ....*....|....*....|..
gi 30678682    8 CFKCGRPGHWSRDCPSSAPVAG 29
Cdd:PTZ00368  30 CYKCGEPGHLSRECPSAPGGRG 51
 
Name Accession Description Interval E-value
Swi3 pfam07962
Replication Fork Protection Component Swi3; Replication fork pausing is required to initiate a ...
 73-155 1.47e-30

Replication Fork Protection Component Swi3; Replication fork pausing is required to initiate a recombination events. More specifically, Swi1 is required for recombination near the mat1 locus. Swi3 has been found to co-purify with Swi1 Swi3, together with Swi1, define a fork protection complex that coordinates leading- and lagging-strand synthesis and stabilizes stalled replication forks. The Swi1-Swi3 complex is required for accurate replication, fork protection and replication checkpoint signalling


Pssm-ID: 462324  Cd Length: 83  Bit Score: 109.51  E-value: 1.47e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30678682    73 KLTPELLLSEDGLGYVLRYFpKSFKYRGRGKEVSDLGNLIRLYSEWHTHLLPYYSFDHFVHKVQQVASTKRVKNCINELR 152
Cdd:pfam07962   1 KLDEERLLSPKGLPYLRKNF-KKFKFKGKGHEYEDLGRLLQFYQLWAHDLFPKAKFKDFIERVEKLGKKKRVRTYRRELR 79


                  ...
gi 30678682   153 ERV 155
Cdd:pfam07962  80 DEE 82
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 7-23 1.58e-06

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: 43.67  E-value: 1.58e-06
                          10
                  ....*....|....*..
gi 30678682     7 GCFKCGRPGHWSRDCPS 23
Cdd:pfam00098   2 KCYNCGEPGHIARDCPK 18
ZnF_C2HC smart00343
zinc finger;
7-23 2.24e-06

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 43.20  E-value: 2.24e-06
                           10
                   ....*....|....*..
gi 30678682      7 GCFKCGRPGHWSRDCPS 23
Cdd:smart00343   1 KCYNCGKEGHIARDCPS 17
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 8-29 1.90e-05

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 43.64  E-value: 1.90e-05
                         10        20
                 ....*....|....*....|..
gi 30678682    8 CFKCGRPGHWSRDCPSSAPVAG 29
Cdd:PTZ00368  30 CYKCGEPGHLSRECPSAPGGRG 51
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 8-30 4.09e-05

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 42.87  E-value: 4.09e-05
                         10        20
                 ....*....|....*....|...
gi 30678682    8 CFKCGRPGHWSRDCPSSAPVAGN 30
Cdd:PTZ00368  55 CYNCGKTGHLSRECPEAPPGSGP 77
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 4-24 4.63e-04

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 39.79  E-value: 4.63e-04
                         10        20
                 ....*....|....*....|.
gi 30678682    4 APTGCFKCGRPGHWSRDCPSS 24
Cdd:PTZ00368 128 GDKTCYNCGQTGHLSRDCPDK 148
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 8-26 2.13e-03

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 37.86  E-value: 2.13e-03
                         10
                 ....*....|....*....
gi 30678682    8 CFKCGRPGHWSRDCPSSAP 26
Cdd:PTZ00368   3 CYRCGGVGHQSRECPNSAP 21
zf-CCHC_2 pfam13696
Zinc knuckle; This is a zinc-binding domain of the form CxxCxxxGHxxxxC from a variety of ...
 8-23 2.19e-03

Zinc knuckle; This is a zinc-binding domain of the form CxxCxxxGHxxxxC from a variety of different species.


Pssm-ID: 463959 [Multi-domain]  Cd Length: 21  Bit Score: 34.80  E-value: 2.19e-03
                          10
                  ....*....|....*.
gi 30678682     8 CFKCGRPGHWSRDCPS 23
Cdd:pfam13696   6 CHICGKKGHYIQDCPT 21
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 3-29 3.08e-03

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 37.48  E-value: 3.08e-03
                         10        20
                 ....*....|....*....|....*..
gi 30678682    3 SAPTGCFKCGRPGHWSRDCPSSAPVAG 29
Cdd:PTZ00368  75 SGPRSCYNCGQTGHISRECPNRAKGGA 101
PTZ00368 PTZ00368
universal minicircle sequence binding protein (UMSBP); Provisional
 8-29 4.10e-03

universal minicircle sequence binding protein (UMSBP); Provisional


Pssm-ID: 173561 [Multi-domain]  Cd Length: 148  Bit Score: 37.09  E-value: 4.10e-03
                         10        20
                 ....*....|....*....|..
gi 30678682    8 CFKCGRPGHWSRDCPSSAPVAG 29
Cdd:PTZ00368 106 CYNCGGEGHISRDCPNAGKRPG 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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