9A8N | pdb_00009a8n

Modeling of Yeast NPC basket

Integrative structure models are generated using different types of input information, including varied experimental data, physical principles, statistical preferences, and other prior information.

• PDB DOI: https://doi.org/10.2210/pdb9A8N/pdbIHM Entry Collection: PDBDEV_G_1000004

• Organism(s): Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
• Mutation(s): No 


• Deposited: 2024-07-07 Released: 2024-08-21 
• Deposition Author(s): Singh, D., Soni, N., Hutchings, J., Echeverria, I., Shaikh, F., Duquette, M., Suslov, S., Li, Z., van Eeuwen, T., Molloy, K., Shi, Y., Wang, J., Guo, Q., Chait, B.T., Fernandez-Martinez, J., Rout, M.P., Sali, A., Villa, E.

---

Integrative Structure Snapshot

• Multi-Scale: Yes 
• Multi-State: No 
• Ordered-State: No 
• Deposited Models: 1 
• Representative Model: 1 

Literature

The molecular architecture of the nuclear basket

Singh, D., Soni, N., Hutchings, J., Echeverria, I., Shaikh, F., Duquette, M., Suslov, S., Li, Z., van Eeuwen, T., Molloy, K., Shi, Y., Wang, J., Guo, Q., Chait, B.T., Fernandez-Martinez, J., Rout, M.P., Sali, A., Villa, E.

(2024) Cell 

• DOI: https://doi.org/10.1016/j.cell.2024.07.020

Assembly  

Macromolecule Content 

• Total Structure Weight: 17,377.81 kDa 
• Modeled Residue Count: 139,104 
• Deposited Residue Count: 139,104 
• Unique protein chains: 11

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Unknown MLP Protein	A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	1,875	N/A	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoporin NUP1	Q, R, S, T, U, V, W, X	1,076	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	Mutation(s): 0  Gene Names: NUP1
UniProt
Find proteins for P20676 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P20676  Go to UniProtKB:  P20676

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoporin NUP2	AA, AB, AC, AD, AE, AF, AG, AH, AI, AJ, AK, AL, AM, AN, Y, Z	720	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	Mutation(s): 0  Gene Names: NUP2
UniProt
Find proteins for P32499 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P32499  Go to UniProtKB:  P32499

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoporin NUP60	AO, AP, AQ, AR, AS, AT, AU, AV, AW, AX, AY, AZ, BA, BB, BC, BD	539	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	Mutation(s): 0  Gene Names: NUP60
UniProt
Find proteins for P39705 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P39705  Go to UniProtKB:  P39705

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoporin NUP120	BE, BF, BG, BH, BI, BJ, BK, BL, BM, BN, BO, BP, BQ, BR, BS, BT	1,037	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	Mutation(s): 0  Gene Names: NUP120
UniProt
Find proteins for P35729 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P35729  Go to UniProtKB:  P35729

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoporin NUP85	BU, BV, BW, BX, BY, BZ, CA, CB, CC, CD, CE, CF, CG, CH, CI, CJ	744	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	Mutation(s): 0  Gene Names: NUP85
UniProt
Find proteins for P46673 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P46673  Go to UniProtKB:  P46673

Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoporin NUP145C	CK, CL, CM, CN, CO, CP, CQ, CR, CS, CT, CU, CV, CW, CX, CY, CZ	712	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	Mutation(s): 0  Gene Names: NUP145 EC: 3.4.21
UniProt
Find proteins for P49687 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P49687  Go to UniProtKB:  P49687

Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein transport protein SEC13	DA, DB, DC, DD, DE, DF, DG, DH, DI, DJ, DK, DL, DM, DN, DO, DP	297	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	Mutation(s): 0  Gene Names: SEC13
UniProt
Find proteins for Q04491 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q04491  Go to UniProtKB:  Q04491

Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoporin SEH1	DQ, DR, DS, DT, DU, DV, DW, DX, DY, DZ, EA, EB, EC, ED, EE, EF	349	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	Mutation(s): 0  Gene Names: SEH1
UniProt
Find proteins for P53011 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P53011  Go to UniProtKB:  P53011

Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoporin NUP84	EG, EH, EI, EJ, EK, EL, EM, EN, EO, EP, EQ, ER, ES, ET, EU, EV	726	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	Mutation(s): 0  Gene Names: NUP84
UniProt
Find proteins for P52891 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P52891  Go to UniProtKB:  P52891

Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoporin NUP133	EW, EX, EY, EZ, FA, FB, FC, FD, FE, FF, FG, FH, FI, FJ, FK, FL	1,157	Saccharomyces cerevisiae (strain ATCC 204508 / S288c)	Mutation(s): 0  Gene Names: NUP133
UniProt
Find proteins for P36161 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P36161  Go to UniProtKB:  P36161

Experimental Data & Validation

Integrative Structure Snapshot

• Multi-Scale: Yes 
• Multi-State: No 
• Ordered-State: No 
• Deposited Models: 1 
• Representative Model: 1 

Structure Validation

View Full Validation Report

View Summary Validation Report

Entry History 

Deposition Data

• Released Date: 2024-08-21 
Deposition Author(s): Singh, D., Soni, N., Hutchings, J., Echeverria, I., Shaikh, F., Duquette, M., Suslov, S., Li, Z., van Eeuwen, T., Molloy, K., Shi, Y., Wang, J., Guo, Q., Chait, B.T., Fernandez-Martinez, J., Rout, M.P., Sali, A., Villa, E.

Revision History  

• Version 1.0: 2024-08-21
  Type: Initial release