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lördag 23 maj 2020

SARS-2 CoV N proteiinin interaktioproteiineja.

Esimerkkejä
(1)  DDX21 (10q22.1) Nucleolaarinen  RNA helikaasi..  Antivirussensori.   Kiinnittyy dsRNA- muotoon.
https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:2744
 Previous names: DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 21
DEAD-box helicase 21
Alias symbols: RH-II/GU, GURDB
Alias names:  nucleolar RNA helicase 2
Gene groups

(2) PABPC1 eli PABP1, (8q22.3), poly(A) sitova,  sytoplasminen proteiini 1 . Isäntäsolun mikroRNA:ta koodaavan geeniperheen jäsen.
 https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:8554
 Previous symbols: PAB1, PABPC2
Previous names: poly(A)-binding protein, cytoplasmic 2
Alias symbols: PABP1 , PABPL1
Gene groups

(3)  SNIP1 (1p34.3) SMAD nukleaarinen interaktion tekevä proteiini 1
Smad nuclear interacting protein 1
https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:30587
Alias symbols  PML1
Alias names PML1 homolog (yeast)
Gene groups
HUOM: (Isäntäsolun) pri-miRNAprosessorin jäsen DROSHA, (RNIII) tekee interaktion SNIP1- proteiinin kanssa tumassa.

(4) RBM28, (7q32.1), RNA:ta sitovaa motiivin omaava  28.
RNA binding motif protein 28. 
https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:21863.
Alias symbols  FLJ10377
Gene groups


(5) LARP1, (5q33.2).  La -ribonukleopoteiini-domaanin omaavan perheen jäsen 1. Isäntäsolun mikroRNAproteiinia koodaava.
 La ribonucleoprotein 1, translational regulator
 https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:29531.
Previous names La ribonucleoprotein domain family, member 1
La ribonucleoprotein domain family member 1
Alias symbols LARP,  KIAA0731,  MGC19556,  Lar1,  Lhp1
Gene groups

(6)  RRP9,  (3p21.2),Ribosomaalista  RNA:ta prosessoiva 9,
ribosomal RNA processing 9, U3 small nucleolar RNA binding proteinhttps://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:16829 .
Previous symbols  RNU3IP2
Previous names  RNA, U3 small nucleolar interacting protein 2
ribosomal RNA processing 9, small subunit (SSU) processome component, homolog (yeast)
Alias symbols  U3-55K
Chromosomal location
Gene groups

(7) CSNK2A2, (16q21), Kaseiinikinaasi 2, alfa 2.
 casein kinase 2 alpha 2
 https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:2459 .
 Previous names  casein kinase 2, alpha prime polypeptide
Alias symbols  CSNK2A1, CK2alpha'
Alias names casein kinase 2 alpha'.

(8) CSNK2B, (6p21.33), Kaseiinikinaasi 2 beta polypeptidi.
casein kinase 2 beta
https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:2460
Previous names  casein kinase 2, beta polypeptide
Alias symbols Ckb1, Ckb2.

 (9) G3BP1,(5q33.1),  DNA helikaasi. RAS-GTPaasia aktivoivaan proteiiniin sitoutuva proteiini 1. 
 G3BP stress granule assembly factor 1.
https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:30292.
Previous names GTPase activating protein (SH3 domain) binding protein 1
Alias symbols HDH-VIII , G3BP
Alias names Ras-GTPase-activating protein SH3-domain-binding protein
DNA helicase VIII
Gene groups

 (10) G3BP2, (4q21.1), Ras-GTPaasin aktivoivan proteiinin SH-domeenin sitoutuva proteiini 2
 G3BP stress granule assembly factor 2.
 https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:30291
Previous names GTPase activating protein (SH3 domain) binding protein 2
Alias symbols KIAA0660
Alias names Ras-GTPase activating protein SH3 domain-binding protein 2
Gene groups
"PKCα binds G3BP2 and regulates stress granule formation following cellular stress".
" Identification of a mouse orthologue of the human ras-GAP-SH3-domain binding protein and structural confirmation that these proteins contain an RNA recognition motif".

(11) PABPC4,  (1p34.3). Indusoituva poly(A) ta sitova proteiini,  Aktivoituneen trombosyytin proteiini 1. 
 poly(A) binding protein cytoplasmic 4.
https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:8557 .
Previous names
poly(A)-binding protein, cytoplasmic 4 (inducible form)
poly(A) binding protein, cytoplasmic 4 (inducible form)
Alias symbols iPABP, APP-1
Alias names  Activated-platelet protein 1, Inducible poly(A)-binding protein
Gene groups

(12) FAM98A, (2p22.3)Tämä proteiiniperhe on uusia. Kuuluu tRNA:ta pleissaavien ligaasien kompleksiin.
family with sequence similarity 98 member A
https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:24520 .
Previous names, family with sequence similarity 98, member A
Alias symbols DKFZP564F0522
Gene groups
A divergent calponin homology (NN-CH) domain defines a novel family: implications for evolution of ciliary IFT complex B proteins.  Schou KB et al. Bioinformatics 2014 Apr;30(7)899-902.
(13) UPF1, RENT ,(19p13.11), UPF1:n kaltainen helikaasi. Kuuluu SURF kompleksin geeniryhmään. 
 UPF1 RNA helicase and ATPase
Previous names: regulator of nonsense transcripts 1, RENT1.
UPF1 regulator of nonsense transcripts homolog (yeast)
UPF1, RNA helicase and ATPase.
Alias symbols:   HUPF1, KIAA0221, NORF1, pNORF1, smg-2.
Alias names: UP Frameshift 1; smg-2 homolog, nonsense mediated mRNA decay factor (C. elegans)
Gene groups
(14) MOV10,  (1p13.3),  Funktionaalinen spliseomiin (RNP)  assosioitunut proteiini 113. RNA:n pleissaukseen  liittyvä, RNA:n posttrasnlationaalista  leikkaus- liimaus-koneistoa, intronien poistoa ja  jäljelle jäävien exonien liimaus. yhtenäiseksi juosteeksi.
 Mov10 RISC complex RNA helicase.
Previous names:  Mov10  (Moloney leukemia virus 10, mouse) homolog
Alias symbols: gb110, MGC2948, fSAP113
Alias names: functional spliceosome-associated protein 113.  
Gene groups UPF1 like RNA helicases   
(15) RPL36,19p13.3), L-ribosomaalinen proteiini
 60S ribosomal protein L36.
 
23.5. 2020.  Lista interaktioproteiineja Swiss Model -nettikohdan kautta alla .(Listassa on useampia  proteiineja mitä aiemmassa listassani on. Otan aiemmasta listasta nuo  15  N- interaktioproteiinia   esiin yllä. Ne sisältyvät alempaan listaan. Myöhemmin pitää katsoa mitä uutta on löytynyt interaktioproteiinien joukkiossa.

1
g3bp2_human
protein
2
 logo
EBI-1044298
human (9606)
EBI-1044298
Ras GTPase-activating protein-binding protein 2

2
g3bp1_human
protein
2
 logo
EBI-1047359
human (9606)
EBI-1047359
Ras GTPase-activating protein-binding protein 1

3
ru17_human
protein
1
 logo
EBI-1049228
human (9606)
EBI-1049228
U1 small nuclear ribonucleoprotein 70 kDa

4
larp1_human
protein
1
 logo
EBI-1052114
human (9606)
EBI-1052114
La-related protein 1

5
mov10_human
protein
1
 logo
EBI-1055820
human (9606)
EBI-1055820
Helicase MOV-10

6
rl36_human
protein
1
 logo
EBI-1057689
human (9606)
EBI-1057689
60S ribosomal protein L36

7
fa98a_human
protein
1
 logo
EBI-1210765
human (9606)
EBI-1210765
Protein FAM98A

8
u3ip2_human
protein
1
 logo
EBI-2115327
human (9606)
EBI-2115327
U3 small nucleolar RNA-interacting protein 2

9
vemp_sars2
protein
1
 logo
EBI-25475850
SARS-CoV-2 (2697049)
EBI-25475850
Envelope small membrane protein

10
ncap_sars2
protein
 logo
EBI-25475856
SARS-CoV-2 (2697049)
EBI-25475856
Nucleoprotein

11
p0dtd1-pro_0000449622
protein
1
 logo
EBI-25475862
SARS-CoV-2 (2697049)
EBI-25475862
Non-structural protein 4

12
rbm28_human
protein
1
 logo
EBI-2878099
human (9606)
EBI-2878099
RNA-binding protein 28

13
csk22_human
protein
1
 logo
EBI-347451
human (9606)
EBI-347451
Casein kinase II subunit alpha'

14
csk2b_human
protein
1
 logo
EBI-348169
human (9606)
EBI-348169
Casein kinase II subunit beta

15
myo6_human
protein
1
 logo
EBI-350606
human (9606)
EBI-350606
Unconventional myosin-VI

16
dldh_human
protein
1
 logo
EBI-353366
human (9606)
EBI-353366
Dihydrolipoyl dehydrogenase, mitochondrial

17
ddx21_human
protein
1
 logo
EBI-357942
human (9606)
EBI-357942
Nucleolar RNA helicase 2

18
pabp4_human
protein
1
 logo
EBI-372844
human (9606)
EBI-372844
Polyadenylate-binding protein 4

19
rent1_human
protein
1
 logo
EBI-373471
human (9606)
EBI-373471
Regulator of nonsense transcripts 1

20
roa0_human
protein
1
 logo
EBI-724092
human (9606)
EBI-724092
Heterogeneous nuclear ribonucleoprotein A0


pp12pp

21 rbmx_human protein 1  logo
EBI-743526
human (9606) EBI-743526 RNA-binding motif protein, X chromosome

22 snip1_human protein 1  logo
EBI-749336
human (9606) EBI-749336 Smad nuclear-interacting protein 1

23 pabp1_human protein 1  logo
EBI-81531
human (9606) EBI-81531 Polyadenylate-binding protein 1

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