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Conserved domains on  [gi|557016846|ref|XP_006008847|]
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zinc finger protein 593 [Latimeria chalumnae]

Protein Classification

putative zinc finger protein( domain architecture ID 1750221)

putative Cys2His2 (C2H2)-type zinc finger protein may be involved in transcriptional regulation

CATH:  3.30.160.60
Gene Ontology:  GO:0003676|GO:0008270
PubMed:  11361095
SCOP:  4003583

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
UFD2 super family cl40793
U1-like Zn-finger-containing protein [General function prediction only];
11-120 4.46e-25

U1-like Zn-finger-containing protein [General function prediction only];


The actual alignment was detected with superfamily member COG5112:

Pssm-ID: 227443  Cd Length: 126  Bit Score: 92.07  E-value: 4.46e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557016846  11 KSDKKKNISKQWKVKRRTKDLDQVHEDMKPENAEKLLhqEVDYDVTGNAQHYCLHCARYFVDQKSLKDHFTSKVHKRRLK 90
Cdd:COG5112    8 RKKRRSNRLRIKRTRLFGRDLDQIKNDLSTKESQKKL--PYDPELPGLGQHYCIECARYFITEKALMEHKKGKVHKRRAK 85

                         90       100       110
                 ....*....|....*....|....*....|
gi 557016846  91 QLREEPYTQAEAERAAGMGSYIPPKKVEVK 120
Cdd:COG5112   86 ELREVPYTQEDAEAAVGLTVGPEKESNEAL 115
 
Name Accession Description Interval E-value
UFD2 COG5112
U1-like Zn-finger-containing protein [General function prediction only];
11-120 4.46e-25

U1-like Zn-finger-containing protein [General function prediction only];


Pssm-ID: 227443  Cd Length: 126  Bit Score: 92.07  E-value: 4.46e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557016846  11 KSDKKKNISKQWKVKRRTKDLDQVHEDMKPENAEKLLhqEVDYDVTGNAQHYCLHCARYFVDQKSLKDHFTSKVHKRRLK 90
Cdd:COG5112    8 RKKRRSNRLRIKRTRLFGRDLDQIKNDLSTKESQKKL--PYDPELPGLGQHYCIECARYFITEKALMEHKKGKVHKRRAK 85

                         90       100       110
                 ....*....|....*....|....*....|
gi 557016846  91 QLREEPYTQAEAERAAGMGSYIPPKKVEVK 120
Cdd:COG5112   86 ELREVPYTQEDAEAAVGLTVGPEKESNEAL 115
zf-C2H2_jaz pfam12171
Zinc-finger double-stranded RNA-binding; This domain family is found in archaea and eukaryotes, ...
 60-86 1.88e-06

Zinc-finger double-stranded RNA-binding; This domain family is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localize in the nucleus, particularly the nucleolus. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localization.


Pssm-ID: 432381 [Multi-domain]  Cd Length: 27  Bit Score: 41.77  E-value: 1.88e-06
                          10        20
                  ....*....|....*....|....*..
gi 557016846   60 QHYCLHCARYFVDQKSLKDHFTSKVHK 86
Cdd:pfam12171   1 QFYCVLCDKYFKSENALQNHLKSKKHK 27
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 60-92 5.08e-04

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 35.31  E-value: 5.08e-04
                           10        20        30
                   ....*....|....*....|....*....|...
gi 557016846    60 QHYCLHCARYFVDQKSLKDHFTSKVHKRRLKQL 92
Cdd:smart00451   3 GFYCKLCNVTFTDEISVEAHLKGKKHKKNVKKR 35
 
Name Accession Description Interval E-value
UFD2 COG5112
U1-like Zn-finger-containing protein [General function prediction only];
11-120 4.46e-25

U1-like Zn-finger-containing protein [General function prediction only];


Pssm-ID: 227443  Cd Length: 126  Bit Score: 92.07  E-value: 4.46e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 557016846  11 KSDKKKNISKQWKVKRRTKDLDQVHEDMKPENAEKLLhqEVDYDVTGNAQHYCLHCARYFVDQKSLKDHFTSKVHKRRLK 90
Cdd:COG5112    8 RKKRRSNRLRIKRTRLFGRDLDQIKNDLSTKESQKKL--PYDPELPGLGQHYCIECARYFITEKALMEHKKGKVHKRRAK 85

                         90       100       110
                 ....*....|....*....|....*....|
gi 557016846  91 QLREEPYTQAEAERAAGMGSYIPPKKVEVK 120
Cdd:COG5112   86 ELREVPYTQEDAEAAVGLTVGPEKESNEAL 115
zf-C2H2_jaz pfam12171
Zinc-finger double-stranded RNA-binding; This domain family is found in archaea and eukaryotes, ...
 60-86 1.88e-06

Zinc-finger double-stranded RNA-binding; This domain family is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localize in the nucleus, particularly the nucleolus. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localization.


Pssm-ID: 432381 [Multi-domain]  Cd Length: 27  Bit Score: 41.77  E-value: 1.88e-06
                          10        20
                  ....*....|....*....|....*..
gi 557016846   60 QHYCLHCARYFVDQKSLKDHFTSKVHK 86
Cdd:pfam12171   1 QFYCVLCDKYFKSENALQNHLKSKKHK 27
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 60-92 5.08e-04

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 35.31  E-value: 5.08e-04
                           10        20        30
                   ....*....|....*....|....*....|...
gi 557016846    60 QHYCLHCARYFVDQKSLKDHFTSKVHKRRLKQL 92
Cdd:smart00451   3 GFYCKLCNVTFTDEISVEAHLKGKKHKKNVKKR 35
 
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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