PDB ID 2NYM     CHAIN A
Protein name Protein phosphatase 2
Uniprot Accession Q96DH3
The number of similar proteins 19
The number of binding states 8
The number of binding partners 7

Coloring

Unicolor (beige)

The number of binding partners

Group

Binding
state
Binding partners
2NYM (CHAIN: A)
1 P67775   Q13362  
2 Monomeric state
3 P67775  
4 Q9W9P1  
5 Q13033   Q13033  
6 P67775   Q9Y5P8  
7 P67775   P63151  
8 P67775   Q8BH58  

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Molecule viewer


Only interaction residues
#binding
partners
  5
  4
  3
  2
  1
  0

Sequence information

1   DSLYPIAVLI   DELRNEDVQL   RLNSIKKLST   IALALGVERT   RSELLPFLTD   50
51   TIYDEDEVLL   ALAEQLGTFT   TLVGGPEYVH   CLLPPLESLA   TVEETVVRDK   100
101   AVESLRAISH   EHSPSDLEAH   FVPLVKRLAG   GDWFTSRTSA   CGLFSVCYPR   150
151   VSSAVKAELR   QYFRNLCSDD   TPXVRRAAAS   KLGEFAKVLE   LDNVKSEIIP   200
201   XFSNLASDEQ   DSVRLLAVEA   CVNIAQLLPQ   EDLEALVXPT   LRQAAEDKSW   250
251   RVRYXVADKF   TELQKAVGPE   ITKTDLVPAF   QNLXKDCEAE   VRAAASHKVK   300
301   EFCENLSADC   RENVIXSQIL   PCIKELVSDA   NQHVKSALAS   VIXGLSPILG   350
351   KDNTIEHLLP   LFLAQLKDEC   PEVRLNIISN   LDCVNEVIGI   RQLSQSLLPA   400
401   IVELAEDAKW   RVRLAIIEYX   PLLAGQLGVE   FFDEKLNSLC   XAWLVDHVYA   450
451   IREAATSNLK   KLVEKFGKEW   AHATIIPKVL   AXSGDPNYLH   RXTTLFCINV   500
501   LSEVCGQDIT   TKHXLPTVLR   XAGDPVANVR   FNVAKSLQKI   GPILDNSTLQ   550
551   SEVKPILEKL   TQDQDVDVKY   FAQEALTVLS   LA     600

Variants

Residue AA Source dbSNP Clinical
Significance
Allele
Frequency
(> 0.0001)
Disease name
10_LEU VAL 8.3kJPN
chr19:52693377
rs1298006628
- 0.0001 -
26_GLN ARG 8.3kJPN
chr11:111636973
-
- 0.0001 -
32_ILE MET ClinVar
chr19:52705214
-
Likely pathogenic - Microcephaly-corpus callosum hypoplasia-intellectual disability-facial dysmorphism syndrome [MONDO:MONDO:0014605,MedGen:C4225352,OMIM:616362,Orphanet:457284]
59_ILE VAL gnomAD
chr11:111635624
rs372351210
- 0.000482245 -
66_LEU VAL 8.3kJPN
chr11:111635603
rs1555052522
- 0.0001 -
77_THR ALA 8.3kJPN
chr19:52709275
-
- 0.0001 -
78_GLY ASP ClinVar
chr11:111635566
rs1805076
Pathogenic - Lung carcinoma [MONDO:MONDO:0005138,MedGen:C0684249]
78_GLY ASP gnomAD
chr11:111635566
rs1805076
- 0.00651629 -
87_HIS TYR gnomAD
chr19:52709305
rs144146832
- 0.00193104 -
105_ARG CYS 8.3kJPN
chr11:111631733
rs782083920
- 0.0007 -
107_LYS ARG 8.3kJPN
chr19:52714562
-
- 0.0001 -
118_GLU ASP 8.3kJPN
chr11:111631692
-
- 0.0003 -
128_PHE LEU 8.3kJPN
chr19:52714624
-
- 0.0001 -
135_LEU SER 8.3kJPN
chr11:111631642
-
- 0.0001 -
139_ASP GLU gnomAD
chr11:111631629
rs545584093
- 0.000107381 -
145_THR LYS gnomAD
chr11:111631612
rs115633648
- 0.000998314 -
145_THR LYS 8.3kJPN
chr11:111631612
rs115633648
- 0.0027 -
149_GLY VAL 8.3kJPN
chr11:111631600
-
- 0.0001 -
162_VAL MET gnomAD
chr19:52714726
rs146859239
- 0.000116821 -
164_ALA VAL 8.3kJPN
chr19:52714733
rs749322788
- 0.0001 -
174_CYS TRP ClinVar
chr19:52715957
rs2122334423
Likely pathogenic - Neurodevelopmental disorder [MONDO:MONDO:0700092,MeSH:D065886,MedGen:C1535926]
178_THR ALA ClinVar
chr19:52715967
-
Likely pathogenic - Microcephaly-corpus callosum hypoplasia-intellectual disability-facial dysmorphism syndrome [MONDO:MONDO:0014605,MedGen:C4225352,OMIM:616362,Orphanet:457284]
179_PRO LEU ClinVar
chr19:52715971
rs786205228
Pathogenic - Microcephaly-corpus callosum hypoplasia-intellectual disability-facial dysmorphism syndrome|not provided|Malignant neoplasm of body of uterus|Uterine carcinosarcoma|PPP2R1A-related neurodevelopmental disorders|Inborn genetic diseases [MONDO:MONDO:0014605,MedGen:C4225352,OMIM:616362,Orphanet:457284|MedGen:C3661900|MedGen:C0153574|MONDO:MONDO:0006485,MedGen:C0280630||MeSH:D030342,MedGen:C0950123]
179_PRO ARG ClinVar
chr19:52715971
rs786205228
Likely pathogenic - Uterine carcinosarcoma|Malignant neoplasm of body of uterus [MONDO:MONDO:0006485,MedGen:C0280630|MedGen:C0153574]
179_PRO HIS ClinVar
chr19:52715971
rs786205228
Likely pathogenic - Microcephaly-corpus callosum hypoplasia-intellectual disability-facial dysmorphism syndrome [MONDO:MONDO:0014605,MedGen:C4225352,OMIM:616362,Orphanet:457284]
180_MET THR ClinVar
chr19:52715974
rs1600167941
Pathogenic - PPP2R1A-related disorder|Microcephaly-corpus callosum hypoplasia-intellectual disability-facial dysmorphism syndrome|not provided [|MONDO:MONDO:0014605,MedGen:C4225352,OMIM:616362,Orphanet:457284|MedGen:C3661900]
180_MET ARG ClinVar
chr19:52715974
rs1600167941
Likely pathogenic - See cases [-]
180_MET VAL ClinVar
chr19:52715973
rs2122334663
Pathogenic - not provided|Microcephaly-corpus callosum hypoplasia-intellectual disability-facial dysmorphism syndrome [MedGen:C3661900|MONDO:MONDO:0014605,MedGen:C4225352,OMIM:616362,Orphanet:457284]
182_ARG TRP ClinVar
chr19:52715979
rs786205227
Pathogenic/Likely pathogenic - Microcephaly-corpus callosum hypoplasia-intellectual disability-facial dysmorphism syndrome|not provided|Inborn genetic diseases [MONDO:MONDO:0014605,MedGen:C4225352,OMIM:616362,Orphanet:457284|MedGen:C3661900|MeSH:D030342,MedGen:C0950123]
182_ARG TER 8.3kJPN
chr11:111630635
rs781991718
- 0.0001 -
183_ARG TRP ClinVar
chr19:52715982
rs1057519946
Pathogenic/Likely pathogenic - Squamous cell carcinoma of the head and neck|Gastric adenocarcinoma|Uterine carcinosarcoma|Malignant neoplasm of body of uterus|Breast neoplasm|Ovarian serous cystadenocarcinoma|Lung adenocarcinoma|Neoplasm of the large intestine|Prostate adenocarcinoma|Microcephaly-corpus callosum hypoplasia-intellectual disability-facial dysmorphism syndrome|not provided [MONDO:MONDO:0010150,MeSH:D000077195,MedGen:C1168401,OMIM:275355,Orphanet:67037|Human Phenotype Ontology:HP:0033770,MONDO:MONDO:0005036,MedGen:C0278701|MONDO:MONDO:0006485,MedGen:C0280630|MedGen:C0153574|Human Phenotype Ontology:HP:0010623,Human Phenotype Ontology:HP:0100013,MONDO:MONDO:0021100,MeSH:D001943,MedGen:C1458155|MONDO:MONDO:0006046,MedGen:C0279663|Human Phenotype Ontology:HP:0030078,MONDO:MONDO:0005061,MeSH:D000077192,MedGen:C0152013|Human Phenotype Ontology:HP:0100834,MONDO:MONDO:0005335,MeSH:D015179,MedGen:C0009404|MONDO:MONDO:0005082,MedGen:C0007112|MONDO:MONDO:0014605,MedGen:C4225352,OMIM:616362,Orphanet:457284|MedGen:C3661900]
183_ARG GLY ClinVar
chr19:52715982
rs1057519946
Likely pathogenic - Prostate adenocarcinoma|Breast neoplasm|Squamous cell carcinoma of the head and neck|Ovarian serous cystadenocarcinoma|Uterine carcinosarcoma|Malignant neoplasm of body of uterus|Neoplasm of the large intestine|Gastric adenocarcinoma|Lung adenocarcinoma [MONDO:MONDO:0005082,MedGen:C0007112|Human Phenotype Ontology:HP:0010623,Human Phenotype Ontology:HP:0100013,MONDO:MONDO:0021100,MeSH:D001943,MedGen:C1458155|MONDO:MONDO:0010150,MeSH:D000077195,MedGen:C1168401,OMIM:275355,Orphanet:67037|MONDO:MONDO:0006046,MedGen:C0279663|MONDO:MONDO:0006485,MedGen:C0280630|MedGen:C0153574|Human Phenotype Ontology:HP:0100834,MONDO:MONDO:0005335,MeSH:D015179,MedGen:C0009404|Human Phenotype Ontology:HP:0033770,MONDO:MONDO:0005036,MedGen:C0278701|Human Phenotype Ontology:HP:0030078,MONDO:MONDO:0005061,MeSH:D000077192,MedGen:C0152013]
183_ARG PRO ClinVar
chr19:52715983
rs1057519947
Likely pathogenic - Inborn genetic diseases [MeSH:D030342,MedGen:C0950123]
219_SER LEU ClinVar
chr19:52716212
rs1555791268
Pathogenic/Likely pathogenic - Inborn genetic diseases|Microcephaly-corpus callosum hypoplasia-intellectual disability-facial dysmorphism syndrome|not provided|PPP2R1A-related condition [MeSH:D030342,MedGen:C0950123|MONDO:MONDO:0014605,MedGen:C4225352,OMIM:616362,Orphanet:457284|MedGen:C3661900|]
220_VAL MET ClinVar
chr19:52716214
rs2122337413
Pathogenic - not provided [MedGen:C3661900]
220_VAL LEU 8.3kJPN
chr11:111626168
rs116572596
- - -
221_ARG CYS gnomAD
chr11:111626165
rs376765814
- 0.00011318 -
241_GLU ASP 8.3kJPN
chr11:111626103
-
- 0.0001 -
249_ARG CYS 8.3kJPN
chr19:52716301
-
- 0.0001 -
258_ARG HIS ClinVar
chr19:52716329
rs863225094
Pathogenic/Likely pathogenic - Microcephaly-corpus callosum hypoplasia-intellectual disability-facial dysmorphism syndrome|not provided|9 conditions|See cases [MONDO:MONDO:0014605,MedGen:C4225352,OMIM:616362,Orphanet:457284|MedGen:C3661900|9 conditions|]
258_ARG CYS 8.3kJPN
chr11:111626054
rs1283934812
- 0.0003 -
282_ASP GLY 8.3kJPN
chr19:52719069
-
- 0.0003 -
292_LYS GLU gnomAD
chr11:111625752
rs562158440
- 0.000353925 -
295_GLU ASP 8.3kJPN
chr11:111625741
rs1347203213
- 0.0017 -
298_VAL LEU 8.3kJPN
chr19:52719116
-
- 0.0001 -
310_GLY ASP gnomAD
chr11:111625287
rs200276094
- 0.000112872 -
318_ARG GLY 8.3kJPN
chr11:111625264
rs782527776
- 0.0002 -
319_GLU TER 8.3kJPN
chr11:111625261
-
- 0.0001 -
342_LYS ARG gnomAD
chr11:111624270
rs115165302
- 0.00113841 -
342_LYS ARG 8.3kJPN
chr11:111624270
rs115165302
- 0.0002 -
362_ILE THR gnomAD
chr11:111624210
rs782060653
- 0.000135349 -
375_ASP GLU 8.3kJPN
chr19:52719913
-
- 0.0006 -
376_GLU ASP 8.3kJPN
chr11:111624167
-
- 0.0001 -
389_ASP GLY 8.3kJPN
chr11:111623019
-
- 0.0001 -
399_GLN HIS 8.3kJPN
chr11:111622988
rs1386768193
- 0.0001 -
428_PRO LEU 8.3kJPN
chr11:111622902
rs1555048136
- 0.0001 -
457_ALA THR gnomAD
chr11:111614249
rs144458207
- 0.000437593 -
478_ALA VAL 8.3kJPN
chr19:52724301
-
- 0.0001 -
491_GLY ARG 8.3kJPN
chr19:52724339
rs969720045
- 0.0002 -
498_ARG LEU ClinVar
chr19:52724361
-
Likely pathogenic - Microcephaly-corpus callosum hypoplasia-intellectual disability-facial dysmorphism syndrome [MONDO:MONDO:0014605,MedGen:C4225352,OMIM:616362,Orphanet:457284]
501_THR MET 8.3kJPN
chr19:52724370
-
- 0.0001 -
513_GLY ARG 8.3kJPN
chr19:52725370
rs770604606
- 0.0002 -
524_THR MET 8.3kJPN
chr19:52725404
rs747537922
- 0.0001 -
527_ARG CYS 8.3kJPN
chr19:52725412
rs770194852
- 0.0001 -
529_ALA THR 8.3kJPN
chr19:52725418
-
- 0.0001 -
537_ARG CYS gnomAD
chr11:111613299
rs566998075
- 0.000119403 -
558_SER ASN 8.3kJPN
chr19:52728981
rs1262874131
- 0.0001 -
574_ASP GLU 8.3kJPN
chr11:111612808
rs143440908
- 0.0007 -
575_VAL ILE 8.3kJPN
chr19:52729031
rs1158328586
- 0.0001 -
583_ILE VAL gnomAD
chr11:111612783
rs115287852
- 0.00102639 -
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Reference

PiSite: a database of protein interaction sites using multiple binding states in the PDB, Miho Higurashi, Takashi Ishida and Kengo Kinoshita, Nucleic Acids Research 2009 37(Database issue):D360-D364

COPYRIGHTc2008-2019 Miho Higurashi, Takashi Ishida and Kengo Kinoshita. All rights reserved.