Zf-C2H2 on iso ryhmä ja siitä löytyy ZSCAN geenejä joukosta

https://www.genenames.org/data/genegroup/#!/group/28
SCAN ja  Krabb sekä SCAN  domeeneja sisältäviä geenejä havaitsin  yli 50.    Näillä geeneillä oli  ryhmänimiä  ZNF-luettelossa jossa saattoi olla   jo numero 990  olemassa.
ZFP- ryhmnimiä  ilmeni myös  ja numerot olivat useita kymmeniä, .
ZSCAN -numeroita  havaitsin  ainakin 54.ään asti
ZKSCAN numeroita ilmeni 24:ään asti.
Sinkkisormiproteiinit ilmenivät klustereina.

Tässä tarkkasin tuon myeloisen sinkkisormiproteiini MZF1:n geenin  sijaintikohtaa  19q13.43 ja huomasin että hyvin usea  ZSCAN ja ZKSCANgeeni lokalisoitui  siihen kohtaan ja  niiden lisäksi  hyvin moni ZNF- proteiini, jolla ei ollut Krab tai  SCAN domeenia.

SNAIL  ja SLUG kuuluvat tähän  Zf- C2H2 ryhmään.

2.11. 2019:
Lisäys, SCAn, KRABB domeeneihin  lisätään myös POZ-(BTB) eräissä C2H2- sinkkisormiproteiineja kuvaavassa artikkelissa.
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC86980/
Näistä tarkemmin Kelch superperhettä koskevissa muistiinpaoissa. 
BTB/POZ- domaaneja on KLHL ja KBTBD- alaperheissä  Kelch-superperheen perheen proteiineilla

MZF1 (19q13.43), ZNF42. ZSCAN6, SCAN domainin (leusiinipitoinen) sisältävä C2H2-tyyppinen Zf

http://ar.iiarjournals.org/search?fulltext=myeloid+zinc+finger+1+(MZF1)&sortspec=date&submit=Submit&andorexactfulltext=phrase
Mihin sinkkisormiproteiiniryhmään tämä kuuluu? MZF1

Experimental Studies

Myeloid Zinc Finger 1 (MZF1) Maintains the Mesenchymal Phenotype by Down-regulating IGF1R/p38 MAPK/ERα Signaling Pathway in High-level MZF1-expressing TNBC cells Anticancer Res August 2019 39 (8) 4149-4164; doi:10.21873/anticanres.13574 
 

...Myeloid Zinc Finger 1 (MZF1) Maintains the Mesenchymal Phenotype by Down-regulating IGF1R/p38 MAPK/ER Signaling Pathway in High-level MZF1-expressing TNBC cells CHIA-HERNG YUE1,2, JER-YUH LIU3,4, CHING-SHIANG CHI5, CHING-WEN HU6, KOK-TONG TAN1, FU-MEI HUANG7, YING-RU PAN8, KUN-I LIN9,10 and CHIA ...

• Abstract
• Full Text
• Full Text (PDF)
• Figures Only

HAKU 5.9. 2019
 Geeni MZF1 (19q13.43)
https://www.ncbi.nlm.nih.gov/gene/7593

Also known as

MZF-1; MZF1B; ZFP98; ZNF42; ZSCAN6

Expression

Ubiquitous expression in spleen (RPKM 4.6), prostate (RPKM 4.2) and 25 other tissues See more

Orthologs

 

Preferred Names

myeloid zinc finger 1

Names

zinc finger and SCAN domain-containing protein 6

zinc finger protein 42 (myeloid-specific retinoic acid-responsive)

NM_003422.2 → NP_003413.2  myeloid zinc finger 1 isoform 1

onserved Domains (4) summary

smart00431
Location:40 → 152

SCAN; leucine rich region

SCAN domain

The SCAN domain (named after SRE-ZBP, CTfin51, AW-1 and Number 18 cDNA) is found in several pfam00096 proteins. The domain has been shown to be able to mediate homo- and hetero-oligomerization.

• Isolation and characterization of a novel zinc-finger protein with transcription repressor activity.J. Biol. Chem. 1995 Sep 22; 270(38):22143-52
• The zinc finger-associated SCAN box is a conserved oligomerization domain.Mol. Cell. Biol. 1999 Dec ; 19(12):8526-35Abstract
  

  A number of Cys(2)His(2) zinc finger proteins contain a highly conserved amino-terminal motif termed the SCAN domain. This element is an 80-residue, leucine-rich region that contains three segments strongly predicted to be alpha-helices. In this report, we show that the SCAN motif functions as an oligomerization domain mediating self-association or association with other proteins bearing SCAN domains. These findings suggest that the SCAN domain plays an important role in the assembly and function of this newly defined subclass of transcriptional regulators.

COG5048
Location:358 → 716

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:543 → 563

ZF_C2H2; C2H2 Zn finger [structural motif]

sd00019
Location:442 → 462

ZF_C2H2; C2H2 Zn finger [structural motif]

ZCW, CW- tyyppiset sinkkisormiprotiinit

https://www.genenames.org/data/genegroup/#!/group/96
 Gene: ZCWPW1,UniProt: Q9H0M4648 amino acids

Genes contained within the group: 7

HGNC ID (gene)	Approved symbol	Approved name	Previous symbols	Synonyms	Chromosome
HGNC:23486	ZCWPW1	zinc finger CW-type and PWWP domain containing 1		FLJ10057,DKFZp434N0510,ZCW1	7q22.1
HGNC:23574	ZCWPW2	zinc finger CW-type and PWWP domain containing 2		ZCW2	3p24.1
HGNC:23573	MORC2	MORC family CW-type zinc finger 2	ZCWCC1	ZCW3,KIAA0852,AC004542.C22.1	22q12.2
HGNC:23485	MORC4	MORC family CW-type zinc finger 4	ZCWCC2	ZCW4,FLJ11565	Xq22.3
HGNC:23572	MORC3	MORC family CW-type zinc finger 3	ZCWCC3	ZCW5,NXP2,KIAA0136	21q22.12
HGNC:7198	MORC1	MORC family CW-type zinc finger 1	MORC	ZCW6,CT33	3q13.13
HGNC:21577	KDM1B	lysine demethylase 1B	C6orf193,AOF1	FLJ34109,FLJ33898,dJ298J15.2,bA204B7.3,FLJ43328,LSD2

ZCCHC, zf-CCHC, "zinc knuckled contgaining2 ( 24 geeniä)

 

Gene group: Zinc fingers CCHC-type (ZCCHC)

Also known as : "zf-CCHC", "zinc knuckle containing"

 

Genes contained within the group: 24

HGNC ID (gene)	Approved symbol	Approved name	Previous symbols	Synonyms	Chromosome
HGNC:15986	LIN28A	lin-28 homolog A	LIN28	LIN-28,FLJ12457,ZCCHC1,CSDD1	1p36.11
HGNC:22916	ZCCHC2	zinc finger CCHC-type containing 2	C18orf49	FLJ20281,KIAA1744,FLJ20222	18q21.33
HGNC:16230	ZCCHC3	zinc finger CCHC-type containing 3	C20orf99	dJ1103G7.7	20p13
HGNC:22917	ZCCHC4	zinc finger CCHC-type containing 4		HSPC052,FLJ23024,ZGRF4	4p15.2
HGNC:22997	RTL3	retrotransposon Gag like 3	ZCCHC5	FLJ38865,Mar3,Mart3,ZHC5,SIRH9	Xq21.1
HGNC:25817	TUT7	terminal uridylyl transferase 7	ZCCHC6	KIAA1711,FLJ13409,PAPD6,TENT3B	9q21.33
HGNC:26209	ZCCHC7	zinc finger CCHC-type containing 7		FLJ22611,AIR1	9p13.2
HGNC:25265	ZCCHC8	zinc finger CCHC-type containing 8		DKFZp434E2220	12q24.31
HGNC:25424	ZCCHC9	zinc finger CCHC-type containing 9		DKFZp761J139,PPP1R41	5q14.1
HGNC:25954	ZCCHC10	zinc finger CCHC-type containing 10		FLJ20094	5q31.1
HGNC:28981	TUT4	terminal uridylyl transferase 4	ZCCHC11	KIAA0191,PAPD3,TENT3A	1p32.3
HGNC:27273	ZCCHC12	zinc finger CCHC-type containing 12		FLJ16123,SIZN,SIZN1,PNMA7A	Xq24
HGNC:31749	ZCCHC13	zinc finger CCHC-type containing 13		4930513O09RIK,Cnbp2,ZNF9L	Xq13.2
HGNC:24134	ZCCHC14	zinc finger CCHC-type containing 14		BDG29,MGC14139	16q24.2
HGNC:28842	RBM4B	RNA binding motif protein 4B	RBM30	MGC10871,ZCCHC15,RBM4L,ZCRB3B,ZCCHC21B	11q13
HGNC:25214	RTL4	retrotransposon Gag like 4	ZCCHC16	Mart4,Mar4,FLJ46608,SIRH11	Xq23
HGNC:30246	ZCCHC17	zinc finger CCHC-type containing 17		PS1D,HSPC251,pNO40	1p35.2
HGNC:32459	ZCCHC18	zinc finger CCHC-type containing 18		SIZN2,PNMA7B	Xq22.2
HGNC:29620	ZCRB1	zinc finger CCHC-type and RNA binding motif containing 1		MADP-1,MADP1,RBM36,ZCCHC19,SNRNP31	12q12
HGNC:10789	SRSF7	serine and arginine rich splicing factor 7	SFRS7	9G8,ZCRB2,HSSG1,AAG3,RBM37,ZCCHC20	2p22.1
HGNC:9901	RBM4	RNA binding motif protein 4		LARK,RBM4A,ZCRB3A,ZCCHC21	11q13.2
HGNC:13164	CNBP	CCHC-type zinc finger nucleic acid binding protein	DM2,ZNF9	RNF163,ZCCHC22,CNBP1	3q21.3
HGNC:26911	ZCCHC24	zinc finger CCHC-type containing 24	C10orf56	FLJ90798,Z3CXXC8	10q22.3
HGNC:12950	SF1	splicing factor 1	ZNF162	ZFM1,ZCCHC25	11q13.1

ZC3H sinkkisormiproteiini, CCCH tyyppiset sinkkisormiproteiinit , 38 geeniä

https://www.genenames.org/data/genegroup/#!/group/73

Mielenkiintoinen ryhmä. 38 geeniä. Eräs lähde sanoo: 35 geeni ja niistä 2 transkriptiotekijää. Linkistä sa nimet, synoyymit ja geenin sijainnin kromosomissa.

Näistä mainittiin ZFP36  seuraavassa yhteydessä:

Review ARTICLE:

Front. Mol. Neurosci., 01 July 2011 | https://doi.org/10.3389/fnmol.2011.00007

Post-transcriptional control of the hypoxic response by RNA-binding proteins and microRNAs

Myriam Gorospe¹*, Kumiko Tominaga¹, Xue Wu², Michael Fähling³* and Mircea Ivan²

ZFP36 (19q13.2) ; TTP , tristetraproliini
Muita nimiä: RNF162A, EGF response factor 1, NUP475,TIS11, Zfp-36,  GOS24, RNA decay activator protein.

( Kun Nobelin palkinto tnä vuonna tuli  hypoxian ja normoxian  homeostaasia käsittelevästä asiasta, huomasin  että usea sinkkiproteiinikin on tässä säätelyssä mukana.
Myös tästä sikkisormirakenteen C3H- omaavasta ryhmästä  mainitaan tekijää).


Abstraktista sitaatti:

 "Mammalian gene expression patterns change profoundly in response to low oxygen levels (HYPOXIA). These changes in gene expression programs are strongly influenced by post-transcriptional mechanisms mediated by mRNA-binding factors: RNA-binding proteins (RBPs) and microRNAs (miRNAs).

Here, we review the RBPs and miRNAs that modulate mRNA turnover and translation in response to hypoxic challenge.
 RBPs such as HuR (human antigen R), PTB (polypyrimidine tract-binding protein), heterogeneous nuclear ribonucleoproteins (hnRNPs), tristetraprolin, ZFP36, Zf-C3H type) ), nucleolin, iron-response element-binding proteins (IRPs), and cytoplasmic polyadenylation-element-binding proteins (CPEBs), selectively bind to numerous hypoxia-regulated transcripts and play a major role in establishing hypoxic gene expression patterns. MiRNAs including miR-210, miR-373, and miR-21 associate with hypoxia-regulated transcripts and further modulate the levels of the encoded proteins to implement the hypoxic gene expression profile. We discuss the potent regulation of hypoxic gene expression by RBPs and miRNAs and their integrated actions in the cellular hypoxic response."

(Otan sitaatin myös kappaleesta jossa tämä ZFP36 mainitaan (TTP, tristetraproliini,  RNA decay activating protein) 

• MicroRNAs and several RBPs such as TTP can modulate mRNA stability in response to hypoxia.
•  
  The tristetraprolin (TTP) family consists of three proteins with characteristic tandem zinc-finger domains, including 
  TTP (also known as zinc-finger protein 36, ZFP36),
   ZFP36L1 or TIS11B (tetradecanoylphorbol acetate-inducible sequence 11B),
   and ZFP36L2 or TIS11D.  
  TTP is inducible by different stimuli, including hypoxia, is predominantly cytoplasmic, and promotes the decay of target mRNAs in a variety of systems (Carballo et al., 1998; Kim et al., 2010). 
  TTP was found to interact with the HIF-1α 3^′UTR and promoted the degradation of HIF-1α mRNA (Kim et al., 2010). 
  The generally reduced levels of TTP in many cancers was further proposed to contribute to the increased HIF-1α levels seen in many cancers (Brennan et al., 2009; Kim et al., 2010).
   In macrophages, the joint presence of hypoxia and lipopolysaccharide (LPS) led to decreased tumor necrosis factor (TNF)-α mRNA stability and TNF-α production, as well as to the reduced half-life and steady-state levels of mRNAs encoding other proinflammatory cytokines [macrophage inflammatory protein 2 (MIP2), interleukin (IL)-6, and granulocyte macrophage colony-stimulating factor (GM-CSF)]. This reduction was due, at least in part, to the decreased activity of p38, a kinase that phosphorylates and thereby inactivates TTP in hypoxic, LPS-treated cells (Werno et al., 2010). 
  Hypoxia also increased the levels of MKP-3 [the mitogen-activated protein (MAP) kinase phosphatase-3], a dual-specificity phosphatase for MAP kinases ERK1/2.
   As TTP associated with the MKP-3 3^′UTR and lowered the stability of an MKP-3 3^′UTR reporter transcript, MKP-3 upregulation was attributed to the reduced decay-promoting influence of TTP upon MKP-3 mRNA during hypoxia (Bermudez et al., 2011).
  The TTP-related protein TIS11B,  RNF162B was found to interact with the 3^′UTR of the VEGF mRNA and lowered VEGF mRNA stability (Ciais et al., 2004).
   Very recently, the levels of TIS11B were shown to be controlled by pVHL. In normoxic renal cell carcinoma (RCC) cells ectopically expressing pVHL, increased abundance of the microRNA hsa-miR-29b was responsible for decreasing TIS11B mRNA stability and TIS11B protein levels (Sinha et al., 2009). Hypoxia also increased TIS11B expression in pVHL-expressing RCC cells, although the specific mechanisms were not identified.

 6.4. Tristetraprolin Additional control of the HIF1α3′UTR is provided by the Tristetraprolin (TTP) family of RNAbinding proteins [91,92]. The human TTP family consists of three members, TTP (TIS11/ZFP36), TIS11b(ZFP36L1/BRF1) and TIS11d (ZFP36L2/BRF2), which own the same characteristic CCCH tandem zinc-fingers and share similar mRNA-destabilising activity in vitro [93,94]. 
The overexpression of each of the three family members can suppress the expression of a HIF1α3′UTR reporter construct through the control of mRNA stability [92]. 
TTP family members bind to AU-rich elements within the UTRsof a variety of genes and endogenous TTP physically interacts with HIF1αmRNA as measured byRNA IP [92]. In the case of the HIF1α transcript, TTP can bind to a well-defined region in the 3′UTRof HIF1α and induce its degradation [91,92]. siRNA knock down experiments show that TTP can specifically destabilise HIF1α mRNA in cells exposed to prolonged hypoxia, but not normoxic cells,perhaps indicating that TTP plays a role in a hypoxia-specific HIF1 negative feedback loop [91,92].The m RNAs targeted by TTP encode protein products such as HIF1α, which are critical for the progression of several malignancies [95–98]. The loss of TTP has been reported in several human cancers; this correlates with the elevation of HIF1α and poor prognosis [95–98].6.5. RNA Binding Motif Protein 38RNA Binding Motif Protein 38 (RBM38) is an ad

TTP, tristetraproliini on DNA:n degradaatiota aktivoiva proteiini ja säätelee täten myös HIF1alfaa hypoksiasta riippuvalla tavalla.

ZFAND, AN1 tyyppiset sinkkisormiproteiinit

Zinc fingers AN1-type (ZFAND)
AN1 zinc finger In molecular biology, the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1, a ubiquitin-like protein in Xenopus laevis. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. [Source: Wikipedia]

Genes contained within the group: 8

HGNC ID (gene)	Approved symbol	Approved name	Previous symbols	Synonyms	Chromosome
HGNC:25858	ZFAND1	zinc finger AN1-type containing 1		FLJ14007	8q21.13
HGNC:28073	ZFAND2A	zinc finger AN1-type containing 2A		AIRAP	7p22.3
HGNC:25206	ZFAND2B	zinc finger AN1-type containing 2B		AIRAPL	2q35
HGNC:18019	ZFAND3	zinc finger AN1-type containing 3	TEX27	FLJ13222	6p21.2
HGNC:23504	ZFAND4	zinc finger AN1-type containing 4	ANUBL1	FLJ40185	10q11.22
HGNC:13008	ZFAND5	zinc finger AN1-type containing 5	ZNF216,ZA20D2	ZFAND5A	9q21.13
HGNC:30164	ZFAND6	zinc finger AN1-type containing 6	ZA20D3	ZFAND5B,AWP1	15q25.1
HGNC:5542	IGHMBP2	immunoglobulin mu DNA binding protein 2		ZFAND7,SMUBP2,CATF1,SMARD1,HCSA,HMN6,CMT2S	11q13.3

ZFHX sinkkisormi ja homeobox-proteiineista luettelo , Esimerkkinä ZEB1

.. ZF class homeoboxes and pseudogenes

HGNC ID (gene)	Approved symbol	Approved name	Previous symbols	Synonyms	Chromosome
HGNC:15766	ADNP	activity dependent neuroprotector homeobox		KIAA0784,ADNP1	20q13.13
HGNC:23803	ADNP2	ADNP homeobox 2	ZNF508	KIAA0863	18q23
HGNC:20164	HOMEZ	homeobox and leucine zipper encoding	KIAA1443		14q11.2
HGNC:10669	TSHZ1	teashirt zinc finger homeobox 1	SDCCAG33	NY-CO-33,TSH1	18q22.3
HGNC:13010	TSHZ2	teashirt zinc finger homeobox 2	C20orf17,ZNF218	ZABC2,OVC10-2,TSH2	20q13.2
HGNC:30700	TSHZ3	teashirt zinc finger homeobox 3	ZNF537	KIAA1474,TSH3	19q12
HGNC:11642	ZEB1	zinc finger E-box binding homeobox 1	TCF8,PPCD3	BZP,ZEB,AREB6,NIL-2-A,Zfhep,Zfhx1a,FECD6	10p11.22
HGNC:14881	ZEB2	zinc finger E-box binding homeobox 2	ZFHX1B	KIAA0569,SIP-1,SIP1	2q22.3
HGNC:33346	ZEB2P1	zinc finger E-box binding homeobox 2 pseudogene 1	ZEB1P1		4p15.32
HGNC:20152	ZFHX2	zinc finger homeobox 2	ZNF409	KIAA1762,KIAA1056,ZFH-5	14q11.2
HGNC:777	ZFHX3	zinc finger homeobox 3	ATBF1,C16orf47	ZNF927,FLJ26184	16q22.2-q22.3
HGNC:30939	ZFHX4	zinc finger homeobox 4		ZFH4,FLJ20980	8q21.13
HGNC:12871	ZHX1	zinc fingers and homeoboxes 1			8q24.13
HGNC:18513	ZHX2	zinc fingers and homeoboxes 2		KIAA0854	8q24.13
HGNC:15935	ZHX3	zinc fingers and homeoboxes 3	TIX1	KIAA0395	20q12