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Conserved domains on  [gi|307111849|gb|EFN60083|]
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hypothetical protein CHLNCDRAFT_18295 [Chlorella variabilis]

Protein Classification

E3 ubiquitin-protein ligase( domain architecture ID 13178741)

RBR-type E3 ubiquitin-protein ligase mediates through its RING domain the ubiquitination of target proteins by bringing the ubiquitin-charged E2 ubiquitin-conjugating enzyme and the acceptor protein together to enable the direct transfer of ubiquitin

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RING-HC_MKRN cd16521
RING finger, HC subclass, found in the makorin (MKRN) proteins; The MKRN protein subfamily ...
 187-246 2.40e-19

RING finger, HC subclass, found in the makorin (MKRN) proteins; The MKRN protein subfamily includes ribonucleoproteins that are characterized by a variety of zinc-finger motifs, including typical arrays of one to four C3H1-type zinc fingers and a C3HC4-type RING-HC finger. Another motif rich in Cys and His residues (CH), with so far unknown function, is also generally present in MKRN proteins. MKRN proteins may have E3 ubiquitin ligase activity.


:

Pssm-ID: 438184 [Multi-domain]  Cd Length: 53  Bit Score: 80.40  E-value: 2.40e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 307111849 187 VECSICLEAVLSKaapgERKFGLLTGCDHPFCLRCIRSWRQNTDGSvdiDTALRTCPVCR 246
Cdd:cd16521    1 IECGICMEVVLEK----ERRFGILSNCNHVFCLECIREWRSSKDFE---NSIVRSCPICR 53
PHA03096 super family cl33708
p28-like protein; Provisional
 134-293 4.71e-11

p28-like protein; Provisional


The actual alignment was detected with superfamily member PHA03096:

Pssm-ID: 222981 [Multi-domain]  Cd Length: 284  Bit Score: 62.51  E-value: 4.71e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 307111849 134 CGRGDRCQLVHGELCQHCHKHALHPTDAPARQQHLAECrlrheRLAARAASSAVECSICLEAVLSKAApGERKFGLLTGC 213
Cdd:PHA03096 131 CYKGKYCEYLHGDICDICEKYLLHPTDIKQRYNEQKTC-----LSYQLRLLLSKICGICLENIKAKYI-IKKYYGILSEI 204

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 307111849 214 DHPFCLRCIRSW---RQNTDGSvdidtalRTCPVCRTTSYYIvPSLVWPTSGEEKERILAGYKAKLSLIDCRYFNFGDGT 290
Cdd:PHA03096 205 KHEFNIFCIKIWmteSLYKETE-------PENRRLNTVIVFI-EKINEDLKNNIPSRYWIDDKYDKNLLSFRYKKMHIRK 276


                 ...
gi 307111849 291 CPF 293
Cdd:PHA03096 277 VCI 279
YTH1 super family cl25862
Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin ...
 4-63 1.18e-05

Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only];


The actual alignment was detected with superfamily member COG5084:

Pssm-ID: 227416 [Multi-domain]  Cd Length: 285  Bit Score: 46.40  E-value: 1.18e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 307111849   4 TSHVLCKYYLHGACKFGAACAFSHSMADGESQV--CKFY-LRGECSYGDRCRYMHTKPDRAQP 63
Cdd:COG5084  102 SSSVVCKFFLRGLCKSGFSCEFLHEYDLRSSQGppCRSFsLKGSCSSGPSCGYSHIDPDSFAG 164
 
Name Accession Description Interval E-value
RING-HC_MKRN cd16521
RING finger, HC subclass, found in the makorin (MKRN) proteins; The MKRN protein subfamily ...
 187-246 2.40e-19

RING finger, HC subclass, found in the makorin (MKRN) proteins; The MKRN protein subfamily includes ribonucleoproteins that are characterized by a variety of zinc-finger motifs, including typical arrays of one to four C3H1-type zinc fingers and a C3HC4-type RING-HC finger. Another motif rich in Cys and His residues (CH), with so far unknown function, is also generally present in MKRN proteins. MKRN proteins may have E3 ubiquitin ligase activity.


Pssm-ID: 438184 [Multi-domain]  Cd Length: 53  Bit Score: 80.40  E-value: 2.40e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 307111849 187 VECSICLEAVLSKaapgERKFGLLTGCDHPFCLRCIRSWRQNTDGSvdiDTALRTCPVCR 246
Cdd:cd16521    1 IECGICMEVVLEK----ERRFGILSNCNHVFCLECIREWRSSKDFE---NSIVRSCPICR 53
PHA02929 PHA02929
N1R/p28-like protein; Provisional
 188-255 3.96e-12

N1R/p28-like protein; Provisional


Pssm-ID: 222944 [Multi-domain]  Cd Length: 238  Bit Score: 65.19  E-value: 3.96e-12
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 307111849 188 ECSICLEAVLSKAAPgERKFGLLTGCDHPFCLRCIRSWRQNTdgsvdidtalRTCPVCRTTSYYIVPS 255
Cdd:PHA02929 176 ECAICMEKVYDKEIK-NMYFGILSNCNHVFCIECIDIWKKEK----------NTCPVCRTPFISVIKS 232
PHA03096 PHA03096
p28-like protein; Provisional
 134-293 4.71e-11

p28-like protein; Provisional


Pssm-ID: 222981 [Multi-domain]  Cd Length: 284  Bit Score: 62.51  E-value: 4.71e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 307111849 134 CGRGDRCQLVHGELCQHCHKHALHPTDAPARQQHLAECrlrheRLAARAASSAVECSICLEAVLSKAApGERKFGLLTGC 213
Cdd:PHA03096 131 CYKGKYCEYLHGDICDICEKYLLHPTDIKQRYNEQKTC-----LSYQLRLLLSKICGICLENIKAKYI-IKKYYGILSEI 204

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 307111849 214 DHPFCLRCIRSW---RQNTDGSvdidtalRTCPVCRTTSYYIvPSLVWPTSGEEKERILAGYKAKLSLIDCRYFNFGDGT 290
Cdd:PHA03096 205 KHEFNIFCIKIWmteSLYKETE-------PENRRLNTVIVFI-EKINEDLKNNIPSRYWIDDKYDKNLLSFRYKKMHIRK 276


                 ...
gi 307111849 291 CPF 293
Cdd:PHA03096 277 VCI 279
YTH1 COG5084
Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin ...
 4-63 1.18e-05

Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only];


Pssm-ID: 227416 [Multi-domain]  Cd Length: 285  Bit Score: 46.40  E-value: 1.18e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 307111849   4 TSHVLCKYYLHGACKFGAACAFSHSMADGESQV--CKFY-LRGECSYGDRCRYMHTKPDRAQP 63
Cdd:COG5084  102 SSSVVCKFFLRGLCKSGFSCEFLHEYDLRSSQGppCRSFsLKGSCSSGPSCGYSHIDPDSFAG 164
ZnF_C3H1 smart00356
zinc finger;
35-55 9.87e-05

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 38.76  E-value: 9.87e-05
                           10        20
                   ....*....|....*....|.
gi 307111849    35 QVCKFYLRGECSYGDRCRYMH 55
Cdd:smart00356   5 ELCKFFKRGYCPRGDRCKFAH 25
zf_CCCH_4 pfam18345
Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch ...
 37-55 3.18e-04

Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch domain-containing proteins such as ZIP. Functional studies indicate that ZIP specifically targets EGFR and represses its transcription, and that the zinc finger and the coiled-coil domains are central to that process.


Pssm-ID: 465719 [Multi-domain]  Cd Length: 19  Bit Score: 37.40  E-value: 3.18e-04
                          10
                  ....*....|....*....
gi 307111849   37 CKFYLRGECSYGDRCRYMH 55
Cdd:pfam18345   1 CKFFLKGRCRYGDKCRFAH 19
 
Name Accession Description Interval E-value
RING-HC_MKRN cd16521
RING finger, HC subclass, found in the makorin (MKRN) proteins; The MKRN protein subfamily ...
 187-246 2.40e-19

RING finger, HC subclass, found in the makorin (MKRN) proteins; The MKRN protein subfamily includes ribonucleoproteins that are characterized by a variety of zinc-finger motifs, including typical arrays of one to four C3H1-type zinc fingers and a C3HC4-type RING-HC finger. Another motif rich in Cys and His residues (CH), with so far unknown function, is also generally present in MKRN proteins. MKRN proteins may have E3 ubiquitin ligase activity.


Pssm-ID: 438184 [Multi-domain]  Cd Length: 53  Bit Score: 80.40  E-value: 2.40e-19
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 307111849 187 VECSICLEAVLSKaapgERKFGLLTGCDHPFCLRCIRSWRQNTDGSvdiDTALRTCPVCR 246
Cdd:cd16521    1 IECGICMEVVLEK----ERRFGILSNCNHVFCLECIREWRSSKDFE---NSIVRSCPICR 53
RING-HC_MKRN1_3 cd16730
RING finger, HC subclass, found in makorin-1 (MKRN1), makorin-3 (MKRN3), and similar proteins; ...
 189-249 7.40e-15

RING finger, HC subclass, found in makorin-1 (MKRN1), makorin-3 (MKRN3), and similar proteins; MKRN1, also known as makorin RING finger protein 1 or RING finger protein 61 (RNF61), is an E3 ubiquitin-protein ligase targeting the telomerase catalytic subunit (TERT) for proteasome processing. It regulates the ubiquitination and degradation of peroxisome-proliferator-activated receptor gamma (PPARgamma), a nuclear receptor that is linked to obesity and metabolic diseases. It also mediates the posttranslational regulation of p14ARF, and thus potentially regulates cellular senescence and tumorigenesis in gastric cancer. Moreover, MKRN1 functions as a differentially negative regulator of p53 and p21, and controls cell cycle arrest and apoptosis. It induces degradation of West Nile virus (WNV) capsid protein to protect cells from WNV. It is a RNA-binding protein involved in the modulation of cellular stress and apoptosis. It predominantly associates with proteins involved in mRNA metabolism including regulators of mRNA turnover, transport, and/or translation, and acts as a component of a ribonucleoprotein complex in embryonic stem cells (ESCs) that is recruited to stress granules upon exposure to environmental stress. MKRN1 interacts with poly(A)-binding protein (PABP), a key component of different ribonucleoprotein complexes, in an RNA-independent manner, and stimulates translation in nerve cells. In addition, MKRN1 is a novel SEREX (serological identification of antigens by recombinant cDNA expression cloning) antigen of esophageal squamous cell carcinoma (SCC). It may be involved in carcinogenesis of the well-differentiated type of tumors possibly via ubiquitination of filamin A interacting protein 1 (L-FILIP). Human MKRN1 contains three N-terminal C3H1-type zinc fingers, a motif rich in Cys and His residues (CH), a C3HC4-type RING-HC finger, and another C3H1-type zinc finger at the C-terminus. MKRN3, also known as makorin RING finger protein 3, RING finger protein 63 (RNF63), or zinc finger protein 127 (ZNF127), is a therian mammal-specific retrocopy of MKRN1. It acts as a putative E3 ubiquitin-protein ligase involved in ubiquitination and cell signaling. MKRN3 shows a potential inhibitory effect on hypothalamic gonadotropin-releasing hormone (GnRH) secretion. Its defects represent the most frequent known genetic cause of familial central precocious puberty (CPP). In contrast to human MKRN1, human MKRN3 lacks the second C3H1-type zinc finger at the N-terminal region. The RING-HC finger of mammalian MKRN4 shows high sequence similarity with that of MKRN3, and is also included in this model.


Pssm-ID: 319644 [Multi-domain]  Cd Length: 61  Bit Score: 68.29  E-value: 7.40e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 307111849 189 CSICLEAVLSKAAPGERKFGLLTGCDHPFCLRCIRSWRQNTDGSVDIdtaLRTCPVCRTTS 249
Cdd:cd16730    4 CGICMEVVYEKANPSERRFGILSNCNHTYCLKCIRKWRSAKQFESKI---IKSCPECRITS 61
RING-HC_MKRN4 cd16732
RING finger, HC subclass, found in makorin-4 (MKRN4) and similar proteins; MKRN4, also known ...
 187-249 1.59e-13

RING finger, HC subclass, found in makorin-4 (MKRN4) and similar proteins; MKRN4, also known as makorin RING finger protein pseudogene 4, makorin RING finger protein pseudogene 5, RING finger protein 64 (RNF64), zinc finger protein 127-Xp (ZNF127-Xp), or zinc finger protein 127-like 1, is a new divergent member of the makorin protein family in vertebrates. It may have an ancestral gonad-specific function and maternal embryonic expression before duplication in vertebrates. MKRN4 contains typical arrays of one to four C3H1-type zinc fingers, a motif rich in Cys and His residues (CH) and a C3HC4-type RING-HC finger. The RING-HC finger of mammalian MKRN4 shows high sequence similarity with that of MKRN3, and is not included in this model.


Pssm-ID: 438390 [Multi-domain]  Cd Length: 61  Bit Score: 64.44  E-value: 1.59e-13
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 307111849 187 VECSICLEAVLSKAAPGERKFGLLTGCDHPFCLRCIRSWRQNTDGSvdiDTALRTCPVCRTTS 249
Cdd:cd16732    2 VACGICMDKVYEKAHAKERVFGILPNCNHAFCVGCIKKWRKSKDFQ---NEVIKACPQCRVKS 61
RING-HC_MKRN2 cd16731
RING finger, HC subclass, found in makorin-2 (MKRN2) and similar proteins; MKRN2, also known ...
 189-246 1.81e-12

RING finger, HC subclass, found in makorin-2 (MKRN2) and similar proteins; MKRN2, also known as makorin RING finger protein 2, RING finger protein 62 (RNF62), or HSPC070, is a putative ribonucleoprotein that acts as a neurogenesis inhibitor acting upstream of glycogen synthase kinase-3beta (GSK-3beta) in the phosphatidylinositol 3-kinase (PI3K)/Akt pathway. It also functions in promoting cell proliferation of primary CD34+ progenitor cells and K562 cells, indicating its possible involvement in normal and malignant hematopoiesis. Mammalian MKRN2 contains three N-terminal C3H1-type zinc fingers, a motif rich in Cys and His residues (CH), a C3HC4-type RING-HC finger, and another C3H1-type zinc finger at the C-terminus. The third C3H1-type zinc finger, the CH motif, as well as the RING zinc finger are necessary for its anti-neurogenic activity.


Pssm-ID: 319645 [Multi-domain]  Cd Length: 58  Bit Score: 61.45  E-value: 1.81e-12
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 307111849 189 CSICLEAVLSKAAPGERKFGLLTGCDHPFCLRCIRSWRQNTDGSVDIdtaLRTCPVCR 246
Cdd:cd16731    4 CSICMEVVYEKASASERRFGILSNCNHTYCLSCIRQWRCAKQFENPI---IKSCPECR 58
PHA02929 PHA02929
N1R/p28-like protein; Provisional
 188-255 3.96e-12

N1R/p28-like protein; Provisional


Pssm-ID: 222944 [Multi-domain]  Cd Length: 238  Bit Score: 65.19  E-value: 3.96e-12
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 307111849 188 ECSICLEAVLSKAAPgERKFGLLTGCDHPFCLRCIRSWRQNTdgsvdidtalRTCPVCRTTSYYIVPS 255
Cdd:PHA02929 176 ECAICMEKVYDKEIK-NMYFGILSNCNHVFCIECIDIWKKEK----------NTCPVCRTPFISVIKS 232
PHA03096 PHA03096
p28-like protein; Provisional
 134-293 4.71e-11

p28-like protein; Provisional


Pssm-ID: 222981 [Multi-domain]  Cd Length: 284  Bit Score: 62.51  E-value: 4.71e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 307111849 134 CGRGDRCQLVHGELCQHCHKHALHPTDAPARQQHLAECrlrheRLAARAASSAVECSICLEAVLSKAApGERKFGLLTGC 213
Cdd:PHA03096 131 CYKGKYCEYLHGDICDICEKYLLHPTDIKQRYNEQKTC-----LSYQLRLLLSKICGICLENIKAKYI-IKKYYGILSEI 204

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 307111849 214 DHPFCLRCIRSW---RQNTDGSvdidtalRTCPVCRTTSYYIvPSLVWPTSGEEKERILAGYKAKLSLIDCRYFNFGDGT 290
Cdd:PHA03096 205 KHEFNIFCIKIWmteSLYKETE-------PENRRLNTVIVFI-EKINEDLKNNIPSRYWIDDKYDKNLLSFRYKKMHIRK 276


                 ...
gi 307111849 291 CPF 293
Cdd:PHA03096 277 VCI 279
PHA02926 PHA02926
zinc finger-like protein; Provisional
 188-247 1.53e-09

zinc finger-like protein; Provisional


Pssm-ID: 165237 [Multi-domain]  Cd Length: 242  Bit Score: 57.76  E-value: 1.53e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 307111849 188 ECSICLEAVLSKAAPGERKFGLLTGCDHPFCLRCIRSW---RQNTDGSvdidtalRTCPVCRT 247
Cdd:PHA02926 172 ECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWhrtRRETGAS-------DNCPICRT 227
YTH1 COG5084
Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin ...
 4-63 1.18e-05

Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only];


Pssm-ID: 227416 [Multi-domain]  Cd Length: 285  Bit Score: 46.40  E-value: 1.18e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 307111849   4 TSHVLCKYYLHGACKFGAACAFSHSMADGESQV--CKFY-LRGECSYGDRCRYMHTKPDRAQP 63
Cdd:COG5084  102 SSSVVCKFFLRGLCKSGFSCEFLHEYDLRSSQGppCRSFsLKGSCSSGPSCGYSHIDPDSFAG 164
RING-HC_Topors cd16574
RING finger, HC subclass, found in topoisomerase I-binding arginine/serine-rich protein ...
 188-247 4.32e-05

RING finger, HC subclass, found in topoisomerase I-binding arginine/serine-rich protein (Topors) and similar proteins; Topors, also known as topoisomerase I-binding RING finger protein, tumor suppressor p53- binding protein 3, or p53-binding protein 3 (p53BP3), is a ubiquitously expressed nuclear E3 ubiquitin-protein ligase that can ligate both ubiquitin and small ubiquitin-like modifier (SUMO) to substrate proteins in the nucleus. It contains an N-terminal C3HC4-type RING-HC finger which ligates ubiquitin to its target proteins including DNA topoisomerase I, p53, NKX3.1, H2AX, and the AAV-2 Rep78/68 proteins. As a RING-dependent E3 ubiquitin ligase, Topors works with the E2 enzymes UbcH5a, UbcH5c, and UbcH6, but not with UbcH7, CDC34, or UbcH2b. Topors acts as a tumor suppressor in various malignancies. It regulates p53 modification, suggesting it may be responsible for astrocyte elevated gene-1 (AEG-1, also known as metadherin, or LYRIC) ubiquitin modification. Plk1-mediated phosphorylation of Topors inhibits Topors-mediated sumoylation of p53, whereas p53 ubiquitination is enhanced, leading to p53 degradation. It also functions as a negative regulator of the prostate tumor suppressor NKX3.1. Moreover, Topors is associated with promyelocytic leukemia nuclear bodies, and may be involved in the cellular response to camptothecin. It also plays a key role in the turnover of H2AX protein, discriminating the type of DNA damaging stress. Furthermore, Topors is a cilia-centrosomal protein associated with autosomal dominant retinal degeneration. Mutations in TOPORS cause autosomal dominant retinitis pigmentosa (adRP).


Pssm-ID: 438236 [Multi-domain]  Cd Length: 47  Bit Score: 40.35  E-value: 4.32e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 307111849 188 ECSICLEAVlskaapgERKFGLLTGCDHPFCLRCIRSWRQNTdgsvdidtalRTCPVCRT 247
Cdd:cd16574    3 SCPICLDRF-------ENEKAFLDGCFHAFCFTCILEWSKVK----------NECPLCKQ 45
ZnF_C3H1 smart00356
zinc finger;
35-55 9.87e-05

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 38.76  E-value: 9.87e-05
                           10        20
                   ....*....|....*....|.
gi 307111849    35 QVCKFYLRGECSYGDRCRYMH 55
Cdd:smart00356   5 ELCKFFKRGYCPRGDRCKFAH 25
zf_CCCH_4 pfam18345
Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch ...
 37-55 3.18e-04

Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch domain-containing proteins such as ZIP. Functional studies indicate that ZIP specifically targets EGFR and represses its transcription, and that the zinc finger and the coiled-coil domains are central to that process.


Pssm-ID: 465719 [Multi-domain]  Cd Length: 19  Bit Score: 37.40  E-value: 3.18e-04
                          10
                  ....*....|....*....
gi 307111849   37 CKFYLRGECSYGDRCRYMH 55
Cdd:pfam18345   1 CKFFLKGRCRYGDKCRFAH 19
mRING-HC-C3HC3D_PHRF1 cd16635
Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger ...
 189-248 4.23e-04

Modified RING finger, HC subclass (C3HC3D-type), found in PHD and RING finger domain-containing protein 1 (PHRF1) and similar proteins; PHRF1, also known as KIAA1542, or CTD-binding SR-like protein rA9, is a ubiquitin ligase which induces the ubiquitination of TGIF (TG-interacting factor) at lysine 130. It acts as a tumor suppressor that promotes the transforming growth factor (TGF)-beta cytostatic program through selective release of TGIF-driven promyelocytic leukemia protein (PML) inactivation. PHRF1 contains a plant homeodomain (PHD) finger and a modified C3HC3D-type RING-HC finger.


Pssm-ID: 438297 [Multi-domain]  Cd Length: 51  Bit Score: 37.79  E-value: 4.23e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 307111849 189 CSICLEAVLskaapgERKFGLLTGCDHPFCLRCIRSWRQNTDgsvdidtalrTCPVCRTT 248
Cdd:cd16635    7 CPICLNTFR------DQAVGTPESCDHIFCLDCILEWSKNAN----------TCPVDRIV 50
RING-HC_RNF213 cd16561
RING finger, HC subclass, found in RING finger protein 213 (RNF213) and similar proteins; ...
 188-247 6.19e-04

RING finger, HC subclass, found in RING finger protein 213 (RNF213) and similar proteins; RNF213, also known as ALK lymphoma oligomerization partner on chromosome 17 or Moyamoya steno-occlusive disease-associated AAA+ and RING finger protein (mysterin), is an intracellular soluble protein that functions as an E3 ubiquitin-protein ligase and AAA+ ATPase, which possibly contributes to vascular development through mechanical processes in the cell. It plays a unique role in endothelial cells for proper gene expression in response to inflammatory signals from the environment. Mutations in RNF213 may be associated with Moyamoya disease (MMD), an idiopathic cerebrovascular occlusive disorder prevalent in East Asia. It also acts as a nuclear marker for acanthomorph phylogeny. RNF213 contains two tandem enzymatically active AAA+ ATPase modules and a C3HC4-type RING-HC finger. It can form a huge ring-shaped oligomeric complex.


Pssm-ID: 438223 [Multi-domain]  Cd Length: 50  Bit Score: 37.26  E-value: 6.19e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 307111849 188 ECSICLEAVlskaapgerKFGLLTGCDHPFCLRCIRSWRQNTdgsvdidtalRTCPVCRT 247
Cdd:cd16561    4 ECSICLEDL---------NDPVKLPCDHVFCEECIRQWLPGQ----------MSCPLCRT 44
RING-HC_RNF141 cd16545
RING finger, HC subclass, found in RING finger protein 141 (RNF141) and similar proteins; ...
 188-246 7.41e-04

RING finger, HC subclass, found in RING finger protein 141 (RNF141) and similar proteins; RNF141, also known as zinc finger protein 230 (ZNF230), is a RING finger protein present primarily in the nuclei of spermatogonia, the acrosome, and the tail of spermatozoa. It may have a broad function during early development of vertebrates. It plays an important role in spermatogenesis, including spermatogenic cell proliferation and sperm maturation, as well as motility and fertilization. It also exhibits DNA binding activity. RNF141/ZNF230 gene mutations may be associated with azoospermia. RNF141 contains a C3HC4-type RING finger domain that may function as an activator module in transcription.


Pssm-ID: 438207 [Multi-domain]  Cd Length: 40  Bit Score: 36.68  E-value: 7.41e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 307111849 188 ECSICLEavlskaapgeRKFGLLTGCDHPFCLRCIRSWRQNTdgsvdidtalRTCPVCR 246
Cdd:cd16545    2 ECCICMD----------RKADLILPCAHSYCQKCIDKWSDRH----------RTCPICR 40
RING-H2_ASR1 cd23120
RING finger, H2 subclass, found in Saccharomyces cerevisiae alcohol-sensitive RING finger ...
 188-253 1.16e-03

RING finger, H2 subclass, found in Saccharomyces cerevisiae alcohol-sensitive RING finger protein 1 (ASR1) and similar proteins; ASR1 is required for tolerance to alcohol. It signals alcohol stress to the nucleus. ASR1 contains a C3H2C3-type RING-H2 finger.


Pssm-ID: 438482 [Multi-domain]  Cd Length: 54  Bit Score: 36.75  E-value: 1.16e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 307111849 188 ECSICLEAVLSKAapgerkfGLLTGCDHPFCLRCIRSWrQNTDGSVDidtalrtCPVCRTTSYYIV 253
Cdd:cd23120    3 ECPICLEEMNSGT-------GYLADCGHEFHLTCIREW-HNKSGNLD-------CPICRVESLLLE 53
RING-HC_BRCA1 cd16498
RING finger, HC subclass, found in breast cancer type 1 susceptibility protein (BRCA1) and ...
 188-247 1.59e-03

RING finger, HC subclass, found in breast cancer type 1 susceptibility protein (BRCA1) and similar proteins; BRCA1, also known as RING finger protein 53 (RNF53), is a RING finger protein encoded by the tumor suppressor gene BRCA1 that regulates all DNA double-strand break (DSB) repair pathways. BRCA1 is frequently mutated in patients with hereditary breast and ovarian cancer (HBOC). Its mutation is also associated with an increased risk of pancreatic, stomach, laryngeal, fallopian tube, and prostate cancer. It plays an important role in the DNA damage response signaling and has been implicated in various cellular processes such as cell cycle regulation, transcriptional regulation, chromatin remodeling, DNA DSBs, and apoptosis. BRCA1 contains an N-terminal C3HC4-type RING-HC finger, and two BRCT (BRCA1 C-terminus domain) repeats at the C-terminus.


Pssm-ID: 438161 [Multi-domain]  Cd Length: 94  Bit Score: 37.28  E-value: 1.59e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 307111849 188 ECSICLEavlskaapgerkfgLL-----TGCDHPFCLRCIRSWRQNTDGSVdidtalrTCPVCRT 247
Cdd:cd16498   18 ECPICLE--------------LLkepvsTKCDHQFCRFCILKLLQKKKKPA-------PCPLCKK 61
YTH1 COG5084
Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin ...
 2-65 1.86e-03

Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only];


Pssm-ID: 227416 [Multi-domain]  Cd Length: 285  Bit Score: 39.47  E-value: 1.86e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 307111849   2 GATSHVLCKYYLH-GACKFGAACAFSHSMADGESQV-CKFYLRGECSYGDRCRYMH-TKPDRAQPPT 65
Cdd:COG5084   70 VPGNTVACISRNFnSIRGSRLSTPNNHVNPVLSSSVvCKFFLRGLCKSGFSCEFLHeYDLRSSQGPP 136
ZnF_C3H1 smart00356
zinc finger;
6-29 1.99e-03

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 35.30  E-value: 1.99e-03
                           10        20
                   ....*....|....*....|....
gi 307111849     6 HVLCKYYLHGACKFGAACAFSHSM 29
Cdd:smart00356   4 TELCKFFKRGYCPRGDRCKFAHPL 27
zf-CCCH pfam00642
Zinc finger C-x8-C-x5-C-x3-H type (and similar);
36-55 3.40e-03

Zinc finger C-x8-C-x5-C-x3-H type (and similar);


Pssm-ID: 459885 [Multi-domain]  Cd Length: 27  Bit Score: 34.48  E-value: 3.40e-03
                          10        20
                  ....*....|....*....|.
gi 307111849   36 VCKFYLR-GECSYGDRCRYMH 55
Cdd:pfam00642   5 LCRFFLRtGYCKYGDRCKFAH 25
RING-HC_ScPSH1-like cd16568
RING finger, HC subclass, found in Saccharomyces cerevisiae POB3/SPT16 histone-associated ...
 187-247 5.20e-03

RING finger, HC subclass, found in Saccharomyces cerevisiae POB3/SPT16 histone-associated protein 1 (ScPSH1) and similar proteins; ScPSH1 is a Cse4-specific E3 ubiquitin ligase that interacts with the kinetochore protein Pat1 and targets the degradation of budding yeast centromeric histone H3 variant, CENP-ACse4, which is essential for faithful chromosome segregation. ScPSH1 contains a C3HC4-type RING-HC finger and a DNA directed RNA polymerase domain.


Pssm-ID: 438230 [Multi-domain]  Cd Length: 54  Bit Score: 34.65  E-value: 5.20e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 307111849 187 VECSICLEAVlskaapgerKFGLLTGCDHPFCLRCIRSWRQNTDGsvdidtalRTCPVCRT 247
Cdd:cd16568    5 QECIICHEYL---------YEPMVTTCGHTYCYTCLNTWFKSNRS--------LSCPDCRT 48
zf_CCCH_4 pfam18345
Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch ...
 9-27 7.66e-03

Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch domain-containing proteins such as ZIP. Functional studies indicate that ZIP specifically targets EGFR and represses its transcription, and that the zinc finger and the coiled-coil domains are central to that process.


Pssm-ID: 465719 [Multi-domain]  Cd Length: 19  Bit Score: 33.54  E-value: 7.66e-03
                          10
                  ....*....|....*....
gi 307111849    9 CKYYLHGACKFGAACAFSH 27
Cdd:pfam18345   1 CKFFLKGRCRYGDKCRFAH 19
 
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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