TheCellVision

NUP60

Standard name	NUP60 ORF YAR002W Aliases FG-nucleoporin NUP60
Human Ortholog
Description	FG-nucleoporin component of central core of the nuclear pore complex; contributes directly to nucleocytoplasmic transport and maintenance of the nuclear pore complex (NPC) permeability barrier and is involved in gene tethering at the nuclear periphery; relocalizes to the cytosol in response to hypoxia; both NUP1 and NUP60 are homologous to human NUP153

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Scale images

NUP60

Micrographs

Sub-cellular Localization

LOC-score
Cell count

	ensLOC																		DeepLoc
Localization	WT1	WT2	WT3	RAP60	RAP140	RAP220	RAP300	RAP380	RAP460	RAP540	RAP620	RAP700	HU80	HU120	HU160	rpd3Δ_1	rpd3Δ_2	rpd3Δ_3	WT1	WT2	WT3	AF100	AF140	AF180
Cortical Patches	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Bud	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Bud Neck	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Bud Site	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	–	–	–	–	–	–
Cell Periphery	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Cytoplasm	0	0	0	0	0.05	0	0	0	0	0	0	0	0	0	0.08	0	0	0	0	0	0	0	0	0
Endoplasmic Reticulum	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Endosome	0	0	0	0	0.05	0	0.05	0	0	0	0	0	0	0	0	0	0.05	0.06	0	0	0	0	0.05	0.06
Golgi	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Mitochondria	0.09	0.19	0.1	0.17	0.1	0.26	0.25	0.32	0.42	0.45	0.5	0.43	0	0	0	0.14	0.1	0.09	0	0	0	0.05	0.09	0.12
Nucleus	0	0	0	0	0	0	0.05	0.07	0	0.05	0.07	0.06	0.05	0.05	0.06	0.05	0.1	0	0	0	0	0	0	0
Nuclear Periphery	0.81	0.94	0.86	0.81	0.73	0.65	0.66	0.52	0.59	0.51	0.42	0.5	0.84	0.79	0.68	0.81	0.65	0.65	0.91	0.89	0.93	0.84	0.75	0.68
Nucleolus	0.28	0.06	0.3	0.22	0.21	0.26	0.24	0.3	0.35	0.4	0.34	0.34	0.08	0.09	0.07	0.05	0.17	0.24	0	0	0	0	0	0
Peroxisomes	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
SpindlePole	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Vac/Vac Membrane	0.23	0.19	0.15	0.11	0.14	0.1	0.1	0.06	0.05	0	0	0.07	0.22	0.24	0.33	0.38	0.35	0.35	0	0.07	0	0	0	0

	ensLOC																		DeepLoc
Localization	WT1	WT2	WT3	RAP60	RAP140	RAP220	RAP300	RAP380	RAP460	RAP540	RAP620	RAP700	HU80	HU120	HU160	rpd3Δ_1	rpd3Δ_2	rpd3Δ_3	WT1	WT2	WT3	AF100	AF140	AF180
Cortical Patches	0	0	0	1	0	0	0	1	1	0	0	0	2	1	4	0	0	0	0	0	1	1	3	3
Bud	0	0	0	0	1	1	1	3	3	6	3	0	1	1	1	0	0	0	0	0	2	1	5	9
Bud Neck	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0
Bud Site	0	0	0	0	0	4	0	0	1	5	5	2	0	7	4	0	0	0	–	–	–	–	–	–
Cell Periphery	0	0	0	1	0	0	2	1	0	0	0	0	2	0	2	0	0	0	0	0	0	0	0	0
Cytoplasm	0	0	6	15	25	16	22	22	15	12	10	5	17	44	97	0	4	1	0	0	0	0	0	0
Endoplasmic Reticulum	1	0	2	5	6	0	3	3	1	0	1	1	2	1	1	0	2	1	0	0	0	0	1	2
Endosome	4	0	14	10	23	9	26	20	7	7	4	6	14	23	19	0	5	2	0	0	2	11	32	45
Golgi	0	0	0	0	0	0	0	1	0	0	0	0	1	1	2	0	0	0	1	0	2	0	9	9
Mitochondria	13	3	34	72	48	101	128	212	157	263	169	142	11	6	2	3	10	3	1	0	6	19	63	88
Nucleus	5	0	7	19	18	14	24	50	16	27	24	21	55	54	76	1	10	1	2	1	0	2	6	5
Nuclear Periphery	121	15	287	352	362	253	337	351	220	300	144	167	878	924	832	17	68	22	144	37	323	316	514	488
Nucleolus	42	1	99	98	103	102	125	203	130	236	116	114	88	106	81	1	18	8	1	0	2	5	10	11
Peroxisomes	0	0	0	0	0	0	0	0	0	0	1	1	0	0	4	0	0	0	0	0	0	2	6	10
SpindlePole	0	0	0	0	1	0	2	3	4	4	4	2	2	15	40	0	0	0	0	0	1	2	4	5
Vac/Vac Membrane	34	3	50	50	69	40	51	43	20	22	13	25	231	282	404	8	37	12	3	2	3	11	18	32
Unique Cell Count	149	16	332	436	493	387	511	669	373	591	341	334	1048	1164	1229	21	105	34	159	42	349	376	682	719
Labelled Cell Count	220	22	499	623	656	540	721	913	575	882	494	486	1304	1465	1570	30	154	50	159	42	349	376	682	719

Yeast GFP Assignment

Nuclear Periphery

(Huh et al. Nature 2003 425:686)

Protein Abundance

Screen	WT1	WT2	WT3	RAP60	RAP140	RAP220	RAP300	RAP380	RAP460	RAP540	RAP620	RAP700	HU80	HU120	HU160	rpd3Δ_1	rpd3Δ_2	rpd3Δ_3	AF100	AF140	AF180
Mean Cell GFP Intensity (1e^-4)	8.8	7.9	9.6	9.3	9.1	7.4	7.3	7.1	7.0	6.4	6.4	6.7	10.1	10.0	10.2	7.6	8.0	10.5	11.2	11.8	12.4
Std Deviation (1e^-4)	1.9	1.7	2.5	2.7	2.9	2.3	2.0	2.4	2.0	1.8	1.9	1.8	1.8	2.0	2.4	1.4	2.0	2.0	2.1	2.3	2.3
Intensity Change (Log₂)	–	–	–	-0.05	-0.08	-0.38	-0.4	-0.44	-0.46	-0.57	-0.58	-0.51	0.07	0.06	0.09	-0.33	-0.27	0.13	0.23	0.3	0.37

Localization Change

Localization	RAP60	RAP140	RAP220	RAP300	RAP380	RAP460	RAP540	RAP620	RAP700	HU80	HU120	HU160	rpd3Δ_1	rpd3Δ_2	rpd3Δ_3
Cortical Patches	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Bud	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Bud Neck	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Bud Site	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Cell Periphery	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Cytoplasm	1.4	2.4	1.8	2.0	1.3	1.7	0.2	1.0	-0.3	-0.2	1.8	4.0	0	0	0
Endoplasmic Reticulum	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Endosome	-1.5	0.3	-1.4	0.6	-1.0	-1.8	-3.0	-2.4	-1.8	-3.2	-2.3	-3.0	0	0	0
Golgi	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
Mitochondria	2.5	-0.2	5.4	5.3	7.4	9.5	10.7	11.1	9.4	-8.2	-9.7	-10.9	0	-0.2	0
Nucleus	1.7	1.3	1.2	2.0	3.4	1.6	1.9	3.1	2.7	2.4	2.1	2.9	0	0	0
Nuclear Periphery	-2.1	-4.5	-6.5	-6.6	-10.5	-8.1	-10.8	-12.0	-10.1	-1.2	-2.9	-6.7	-0.7	-5.0	-3.3
Nucleolus	-2.3	-2.9	-1.0	-1.7	0.2	1.4	3.1	1.2	1.2	-9.9	-9.7	-11.8	-2.5	-2.6	-0.8
Peroxisomes	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
SpindlePole	0	0	0	0	0	0	0	0	0	0	0	3.3	0	0	0
Vacuole	-1.5	-0.4	-1.9	-2.2	-4.4	-4.3	-6.2	-5.0	-3.1	2.8	3.5	6.3	0	4.5	3.0

External localization resources

dHITS | Loqate | YeastGFP | YeastRGB | YeastRC

Images

Protein Concentration and Protein Localization Data

	R1						R2						R3
	G1 Pre-START	G1 Post-START	S/G2	Metaphase	Anaphase	Telophase	G1 Pre-START	G1 Post-START	S/G2	Metaphase	Anaphase	Telophase	G1 Pre-START	G1 Post-START	S/G2	Metaphase	Anaphase	Telophase
Concentration	7.8784	7.5092	7.2485	7.431	6.4145	7.1294	6.8866	7.4808	6.7502	6.3083	6.4548	6.4033	5.9172	6.9973	6.4466	6.6676	5.6473	6.2754
Actin	0.0093	0.0001	0.0111	0.0002	0.0003	0.0001	0.0197	0.0001	0.0011	0.0012	0.0022	0.0002	0.0045	0.0001	0.0006	0.0003	0.0002	0.0062
Bud	0.0001	0	0.0001	0	0	0	0.0006	0	0.0001	0	0.0001	0	0.0001	0	0.0001	0	0	0
Bud Neck	0.0002	0	0.0001	0	0	0	0.0009	0	0	0.0001	0.0001	0	0.0001	0	0	0	0	0.0001
Bud Periphery	0.0001	0.0001	0.0001	0	0.0001	0	0.0012	0	0.0001	0.0002	0.0003	0	0.0003	0	0.0001	0.0001	0.0001	0.0001
Bud Site	0.0005	0.0001	0.0005	0	0.0001	0	0.0053	0	0.0002	0	0.0001	0	0.0001	0	0.0001	0	0	0
Cell Periphery	0.0001	0	0	0	0.0001	0	0.0003	0	0.0001	0	0.0001	0	0.0001	0	0	0	0	0
Cytoplasm	0.0014	0.0001	0.0001	0	0.0001	0	0.0065	0.0001	0.0017	0.0002	0.0001	0.0002	0.0013	0	0.0007	0.0001	0.0001	0.0003
Cytoplasmic Foci	0.0004	0.0009	0.0001	0	0.0002	0	0.0031	0.0002	0.0041	0.003	0.0013	0.0048	0.0017	0	0.0004	0.0067	0.0125	0.0005
Eisosomes	0.0006	0	0.0001	0	0	0	0.0004	0	0	0	0.0001	0	0.0001	0	0	0	0	0.0001
Endoplasmic Reticulum	0.0009	0.0002	0.0002	0.0004	0.0006	0.0001	0.0046	0.0008	0.0012	0.0015	0.0004	0.0001	0.0028	0.0006	0.0008	0.001	0.0007	0.0007
Endosome	0.0009	0.0003	0.0001	0.0001	0.0008	0.0001	0.0071	0.0006	0.0026	0.0034	0.009	0.0015	0.0087	0.0002	0.0029	0.0044	0.002	0.0027
Golgi	0.0005	0.0003	0.0002	0.0001	0.0002	0	0.0021	0.0004	0.0016	0.0021	0.0183	0.0003	0.0014	0.0001	0.0003	0.0023	0.0015	0.0009
Lipid Particles	0.0005	0.0031	0.0012	0.0005	0.0029	0.0002	0.003	0.0071	0.0119	0.014	0.0519	0.006	0.0164	0.0005	0.0014	0.0782	0.0432	0.0013
Mitochondria	0.0008	0.0004	0.0004	0.0005	0.0014	0.0005	0.0051	0.0008	0.0018	0.0021	0.0433	0.0002	0.0032	0.0007	0.0016	0.0021	0.0024	0.0004
None	0.0084	0.0001	0.0001	0.0001	0.0002	0	0.0059	0.0001	0.0044	0.0005	0.0003	0.0003	0.0019	0.0003	0.001	0.0003	0.0004	0.0019
Nuclear Periphery	0.9411	0.9106	0.9196	0.9121	0.9419	0.9715	0.8726	0.9175	0.8942	0.8966	0.7911	0.9672	0.904	0.9535	0.9356	0.8497	0.8987	0.9667
Nucleolus	0.0003	0.0041	0.0003	0.0009	0.0117	0.0008	0.0011	0.0004	0.0016	0.001	0.0051	0.0002	0.002	0.0004	0.0007	0.0007	0.0012	0.0006
Nucleus	0.0134	0.0558	0.0401	0.0616	0.0171	0.016	0.008	0.0228	0.0132	0.0053	0.0398	0.0027	0.0089	0.0026	0.0056	0.0024	0.0022	0.0041
Peroxisomes	0.0001	0.0001	0.0001	0	0.0001	0	0.001	0	0.0007	0.0009	0.0011	0.001	0.0004	0	0.0001	0.0008	0.0012	0.0002
Punctate Nuclear	0.0005	0.0031	0.0005	0.0004	0.0027	0.0005	0.0029	0.0006	0.0186	0.0213	0.0017	0.0019	0.0063	0.0004	0.0012	0.0037	0.0066	0.0017
Vacuole	0.0003	0.0004	0.0002	0.0001	0.001	0.0002	0.0044	0.0006	0.0008	0.0006	0.0012	0.0001	0.0016	0.0004	0.0011	0.0005	0.0006	0.0003
Vacuole Periphery	0.0195	0.0203	0.0249	0.0228	0.0185	0.0098	0.0443	0.0478	0.0398	0.0458	0.0325	0.0134	0.034	0.0402	0.0455	0.0465	0.0263	0.0112

Sequencing Data

	R1					R2
	G1 Post-START	S/G2	Metaphase	Anaphase	Telophase	G1 Post-START	S/G2	Metaphase	Anaphase	Telophase
Gene Expression	29.6285	44.4478	25.7532	41.2129	33.5576	23.1451	29.8582	34.2796	30.7988	36.5373
Translational Efficiency	1.6764	1.2761	2.168	1.2251	1.5952	2.014	1.4814	1.4656	1.6473	1.5745

Hit Data

Dataset	Hit
Protein Concentration	✘
Protein Localization	✘
Gene Expression	✘
Translational Efficiency	✘

Proteome Dynamics

Micrographs

Cell Count

R1				R2				R1 & R2
WT	UBP2	UBP14	UBP2UBP14	WT	UBP2	UBP14	UBP2UBP14	WT	UBP2	UBP14	UBP2UBP14
31	171	1685	1195	393	1038	1317	944	424	1209	3002	2139

Protein Abundance

	R1				R2				R1 & R2
	WT	UBP2	UBP14	UBP2UBP14	WT	UBP2	UBP14	UBP2UBP14	WT	UBP2	UBP14	UBP2UBP14
Mean	1356.05	1032.43	1219.65	1395.27	971.82	1059.11	1279.75	1333.68	999.91	1055.34	1246.02	1368.09
Standard Deviation	199.09	193.21	225.81	229.77	164.96	173.59	229.43	237.17	195.26	176.75	229.35	235.06
Intensity Change Log ₂	—	-0.393366	-0.152943	0.041134	—	0.124091	0.397101	0.456652	—	-0.154445	0.102571	0.229335

Localization Score (DeepLoc)

	R1				R2				R1 & R2
	WT	UBP2	UBP14	UBP2UBP14	WT	UBP2	UBP14	UBP2UBP14	WT	UBP2	UBP14	UBP2UBP14
Actin	0.000843	0.000503	0.000690	0.000255	0.000228	0.000319	0.000373	0.000455	0.000273	0.000345	0.000551	0.000344
Bud Neck	0.003265	0.000613	0.001381	0.001661	0.000175	0.000351	0.000573	0.002830	0.000401	0.000388	0.001027	0.002177
Bud Site	0.000435	0.000173	0.000098	0.000215	0.000025	0.000330	0.000030	0.000672	0.000055	0.000308	0.000068	0.000417
Cell Periphery	0.000063	0.000068	0.000046	0.000028	0.000018	0.000035	0.000025	0.000042	0.000021	0.000039	0.000037	0.000034
Cytoplasm	0.000223	0.001002	0.000151	0.000272	0.000105	0.000359	0.000281	0.000731	0.000113	0.000450	0.000208	0.000475
Cytoplasmic Foci	0.010906	0.000592	0.000240	0.001591	0.000214	0.001041	0.000061	0.000894	0.000996	0.000978	0.000162	0.001283
Eisosomes	0.000028	0.000007	0.000019	0.000006	0.000003	0.000004	0.000003	0.000005	0.000005	0.000005	0.000012	0.000006
Endoplasmic Reticulum	0.005021	0.007349	0.002003	0.000780	0.003441	0.002755	0.000900	0.001209	0.003556	0.003405	0.001519	0.000970
Endosome	0.004687	0.001894	0.000445	0.000856	0.000522	0.001816	0.000175	0.001755	0.000826	0.001827	0.000326	0.001253
Golgi	0.004651	0.000320	0.000253	0.002183	0.000105	0.000693	0.000087	0.000819	0.000437	0.000641	0.000180	0.001581
Lipid Particles	0.011946	0.001267	0.000535	0.000518	0.002040	0.003156	0.000080	0.001129	0.002765	0.002889	0.000336	0.000787
Mitochondria	0.004047	0.006693	0.004060	0.002489	0.002543	0.005268	0.001893	0.005188	0.002653	0.005469	0.003109	0.003680
Mitotic Spindle	0.179626*	0.002267	0.002354	0.035071	0.005721	0.004277	0.002974	0.050387	0.018435	0.003993	0.002626	0.041831
None	0.000263	0.002061	0.000478	0.000324	0.000297	0.000483	0.000329	0.000348	0.000295	0.000706	0.000412	0.000334
Nuclear Periphery	0.351167*	0.497566*	0.610632*	0.645594*	0.536616*	0.593741*	0.741000*	0.587330*	0.523057*	0.580138*	0.667825*	0.619880*
Nuclear Periphery Foci	0.330849*	0.416326*	0.229060*	0.264414*	0.419066*	0.342152*	0.182406	0.296378*	0.412616*	0.352643*	0.208593*	0.278521*
Nucleolus	0.042965	0.021352	0.065147	0.016007	0.013071	0.014598	0.028983	0.017212	0.015257	0.015553	0.049282	0.016539
Nucleus	0.035197	0.034259	0.044953	0.012649	0.014017	0.017827	0.032684	0.018086	0.015566	0.020151	0.039571	0.015048
Peroxisomes	0.002071	0.000516	0.000905	0.000310	0.000351	0.000580	0.000369	0.000358	0.000476	0.000571	0.000670	0.000331
Vacuole	0.006124	0.001614	0.007848	0.003411	0.000451	0.002856	0.000983	0.004684	0.000866	0.002680	0.004836	0.003973
Vacuole Periphery	0.005622	0.003560	0.028703	0.011366	0.000991	0.007358	0.005790	0.009485	0.001329	0.006821	0.018651	0.010536

Localization Changes (T-score)

	R1					R2					R1 & R2
	UBP2_WT	UBP14_WT	UBP2UBP14_WT	UBP2UBP14_UBP2	UBP2UBP14_UBP14	UBP2_WT	UBP14_WT	UBP2UBP14_WT	UBP2UBP14_UBP2	UBP2UBP14_UBP14	UBP2_WT	UBP14_WT	UBP2UBP14_WT	UBP2UBP14_UBP2	UBP2UBP14_UBP14
Actin	1.11	0.57	2.10	1.63	8.59	-1.22	-2.45	-1.85	-1.19	-0.95	-0.99	-4.81	-1.17	-0.24	2.49
Bud Neck	2.63	1.91	1.48	-3.87	-1.66	-2.10	-5.91	-6.21	-5.79	-5.36	0.08	-5.58	-7.70	-7.87	-5.42
Bud Site	1.53	2.48	1.48	-0.39	-2.32	-1.76	-0.60	-3.30	-1.81	-3.28	-1.69	-0.89	-3.82	-1.11	-3.74
Cell Periphery	-0.15	0.86	1.67	1.78	2.73	-1.54	-1.00	-2.91	-0.94	-2.13	-1.79	-2.51	-2.35	0.28	-0.04
Cytoplasm	-1.05	1.08	-0.69	0.98	-2.39	-2.04	-2.21	-2.50	-1.65	-1.97	-2.24	-2.07	-2.98	-0.57	-2.38
Cytoplasmic Foci	1.30	1.35	1.18	-1.61	-2.38	-3.51	4.94	-4.13	0.46	-5.12	0.01	1.43	-0.44	-0.79	-3.48
Eisosomes	1.14	0.52	1.20	0.34	3.42	-0.94	0.22	-1.89	-1.27	-2.73	0.19	-3.08	-0.35	-0.68	2.78
Endoplasmic Reticulum	-0.88	2.04	2.87	3.03	6.83	1.14	4.47	3.80	5.43	-2.03	0.25	3.77	4.79	6.41	4.29
Endosome	0.74	1.18	1.06	1.27	-1.76	-2.28	1.94	-1.95	0.06	-2.57	-1.78	1.60	-1.02	1.01	-3.07
Golgi	1.25	1.27	0.69	-2.28	-2.40	-2.49	0.59	-3.99	-0.45	-4.17	-0.64	1.00	-2.19	-1.87	-3.09
Lipid Particles	1.37	1.46	1.46	2.87	0.15	-1.29	4.20	1.31	2.25	-2.09	-0.15	3.38	2.62	3.10	-1.97
Mitochondria	-0.62	-0.01	0.71	1.09	2.58	-1.58	0.58	-1.54	-0.01	-2.37	-1.73	-0.43	-0.90	1.21	-0.90
Mitotic Spindle	3.06	3.06	2.47	-8.48	-8.74	0.46	0.86	-7.59	-8.77	-9.02	2.59	2.87	-4.01	-11.71	-12.52
None	-1.87	-1.60	-0.35	1.81	0.99	-1.26	-0.23	-0.92	0.47	-0.75	-2.18	-1.06	-0.58	1.85	0.42
Nuclear Periphery	-2.46	-4.62	-5.19	-6.55	-3.49	-4.01	-15.12	-2.90	1.19	15.24	-4.05	-11.12	-6.92	-3.93	7.28
Nuclear Periphery Foci	-1.83	2.33	1.53	7.80	-5.38	5.91	19.70*	9.62	5.35	-14.54	4.75	17.94	11.56	10.29	-13.75
Nucleolus	1.43	-1.46	1.81	0.98	12.92	-0.49	-4.60	-1.63	-1.47	3.28	-0.08	-10.12	-0.72	-0.89	12.45
Nucleus	0.08	-0.50	1.28	2.56	9.66	-1.01	-4.68	-1.81	-0.89	3.14	-1.18	-6.68	-0.28	1.28	9.23
Peroxisomes	1.30	0.99	1.48	1.19	6.20	-1.01	-0.20	-0.25	0.90	-0.12	-0.45	-1.68	1.16	1.18	5.23
Vacuole	1.82	-0.68	1.08	-2.57	4.66	-3.68	-2.06	-4.81	-1.84	-4.18	-3.04	-7.81	-5.84	-1.88	1.09
Vacuole Periphery	1.15	-8.60	-2.73	-5.81	7.17	-4.40	-6.28	-6.73	-1.14	-2.58	-4.38	-13.87	-10.04	-2.46	5.35