8ZZC | pdb_00008zzc

Integrative structure and functional anatomy of eight spokes of a nuclear pore complex


Integrative Structure Snapshot

  • Multi-Scale: Yes 
  • Multi-State: No 
  • Ordered-State: No 
  • Deposited Models: 2 
  • Representative Model: 1 

This is version 1.0 of the entry. See complete history


Literature

Integrative structure and functional anatomy of a nuclear pore complex.

Kim, S.J.Fernandez-Martinez, J.Nudelman, I.Shi, Y.Zhang, W.Raveh, B.Herricks, T.Slaughter, B.D.Hogan, J.A.Upla, P.Chemmama, I.E.Pellarin, R.Echeverria, I.Shivaraju, M.Chaudhury, A.S.Wang, J.Williams, R.Unruh, J.R.Greenberg, C.H.Jacobs, E.Y.Yu, Z.de la Cruz, M.J.Mironska, R.Stokes, D.L.Aitchison, J.D.Jarrold, M.F.Gerton, J.L.Ludtke, S.J.Akey, C.W.Chait, B.T.Sali, A.Rout, M.P.

(2018) Nature 555: 475-482

  • DOI: https://doi.org/10.1038/nature26003
  • Primary Citation of Related Structures:  
    8ZZA, 8ZZB, 8ZZC

  • PubMed Abstract: 

    Nuclear pore complexes play central roles as gatekeepers of RNA and protein transport between the cytoplasm and nucleoplasm. However, their large size and dynamic nature have impeded a full structural and functional elucidation. Here we determined the structure of the entire 552-protein nuclear pore complex of the yeast Saccharomyces cerevisiae at sub-nanometre precision by satisfying a wide range of data relating to the molecular arrangement of its constituents. The nuclear pore complex incorporates sturdy diagonal columns and connector cables attached to these columns, imbuing the structure with strength and flexibility. These cables also tie together all other elements of the nuclear pore complex, including membrane-interacting regions, outer rings and RNA-processing platforms. Inwardly directed anchors create a high density of transport factor-docking Phe-Gly repeats in the central channel, organized into distinct functional units. This integrative structure enables us to rationalize the architecture, transport mechanism and evolutionary origins of the nuclear pore complex.


  • Organizational Affiliation
    • Department of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, and California Institute for Quantitative Biosciences, University of California, San Francisco, San Francisco, California 94158, USA.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Nup84
A, BR, BY, CF, CM
A, BR, BY, CF, CM, CT, DA, DH, DO, DV, EC, EJ, EQ, EX, FE, H
726Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP84
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup85
B, BS, BZ, CG, CN
B, BS, BZ, CG, CN, CU, DB, DI, DP, DW, ED, EK, ER, EY, FF, I
744Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP85
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup120
BT, C, CA, CH, CO
BT, C, CA, CH, CO, CV, DC, DJ, DQ, DX, EE, EL, ES, EZ, FG, J
1,037Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP120
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup133
BU, CB, CI, CP, CW
BU, CB, CI, CP, CW, D, DD, DK, DR, DY, EF, EM, ET, FA, FH, K
1,157Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP133
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Find proteins for P36161 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup145c
BV, CC, CJ, CQ, CX
BV, CC, CJ, CQ, CX, DE, DL, DS, DZ, E, EG, EN, EU, FB, FI, L
712Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP145
EC: 3.4.21
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MoleculeChains Sequence LengthOrganismDetailsImage
Seh1
BW, CD, CK, CR, CY
BW, CD, CK, CR, CY, DF, DM, DT, EA, EH, EO, EV, F, FC, FJ, M
349Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: SEH1
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MoleculeChains Sequence LengthOrganismDetailsImage
Sec13
BX, CE, CL, CS, CZ
BX, CE, CL, CS, CZ, DG, DN, DU, EB, EI, EP, EW, FD, FK, G, N
297Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: SEC13
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MoleculeChains Sequence LengthOrganismDetailsImage
Dyn2
FL, FM, FT, FU, GB
FL, FM, FT, FU, GB, GC, GJ, GK, GR, GS, GZ, HA, HH, HI, O, P
92Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: DYN2
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup82
FN, FO, FV, FW, GD
FN, FO, FV, FW, GD, GE, GL, GM, GT, GU, HB, HC, HJ, HK, Q, R
713Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP82
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup159
FP, FQ, FX, FY, GF
FP, FQ, FX, FY, GF, GG, GN, GO, GV, GW, HD, HE, HL, HM, S, T
1,460Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP159
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MoleculeChains Sequence LengthOrganismDetailsImage
Nsp1
AB, AF, AJ, FR, FS
AB, AF, AJ, FR, FS, FZ, GA, GH, GI, GP, GQ, GX, GY, HF, HG, HN, HO, HR, HS, HZ, IA, IH, II, IP, IQ, IX, IY, JF, JG, JN, JO, JV, JW, KD, KE, KL, KM, KT, KU, LB, LC, LJ, LK, LR, LS, U, V, X
823Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NSP1
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MoleculeChains Sequence LengthOrganismDetailsImage
Nic96
AA, AE, AI, HP, HQ
AA, AE, AI, HP, HQ, HX, HY, IF, IG, IN, IO, IV, IW, JD, JE, JL, JM, JT, JU, KB, KC, KJ, KK, KR, KS, KZ, LA, LH, LI, LP, LQ, W
839Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NIC96
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup49
AC, AG, AK, HT, HU
AC, AG, AK, HT, HU, IB, IC, IJ, IK, IR, IS, IZ, JA, JH, JI, JP, JQ, JX, JY, KF, KG, KN, KO, KV, KW, LD, LE, LL, LM, LT, LU, Y
472Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP49
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup57
AD, AH, AL, HV, HW
AD, AH, AL, HV, HW, ID, IE, IL, IM, IT, IU, JB, JC, JJ, JK, JR, JS, JZ, KA, KH, KI, KP, KQ, KX, KY, LF, LG, LN, LO, LV, LW, Z
541Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP57
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup157
AM, AQ, LX, MB, MF
AM, AQ, LX, MB, MF, MJ, MN, MR, MV, MZ, ND, NH, NL, NP, NT, NX
1,391Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP157
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup170
AN, AR, LY, MC, MG
AN, AR, LY, MC, MG, MK, MO, MS, MW, NA, NE, NI, NM, NQ, NU, NY
1,502Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP170
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup188
AO, AS, LZ, MD, MH
AO, AS, LZ, MD, MH, ML, MP, MT, MX, NB, NF, NJ, NN, NR, NV, NZ
1,655Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP188
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup192
AP, AT, MA, ME, MI
AP, AT, MA, ME, MI, MM, MQ, MU, MY, NC, NG, NK, NO, NS, NW, OA
1,683Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP192
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup53
AU, AZ, OB, OG, OL
AU, AZ, OB, OG, OL, OQ, OV, PA, PF, PK, PP, PU, PZ, QE, QJ, QO
475Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP53
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup59
AV, BA, OC, OH, OM
AV, BA, OC, OH, OM, OR, OW, PB, PG, PL, PQ, PV, QA, QF, QK, QP
528Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: ASM4
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MoleculeChains Sequence LengthOrganismDetailsImage
Ndc1
AW, BB, OD, OI, ON
AW, BB, OD, OI, ON, OS, OX, PC, PH, PM, PR, PW, QB, QG, QL, QQ
655Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NDC1
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MoleculeChains Sequence LengthOrganismDetailsImage
Pom34
AX, BC, OE, OJ, OO
AX, BC, OE, OJ, OO, OT, OY, PD, PI, PN, PS, PX, QC, QH, QM, QR
299Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: POM34
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MoleculeChains Sequence LengthOrganismDetailsImage
Pom152
AY, BD, OF, OK, OP
AY, BD, OF, OK, OP, OU, OZ, PE, PJ, PO, PT, PY, QD, QI, QN, QS
1,337Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: POM152
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup100
BE, BF, QT, QU, QZ
BE, BF, QT, QU, QZ, RA, RF, RG, RL, RM, RR, RS, RX, RY, SD, SE
959Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP100
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup116
BG, BH, QV, QW, RB
BG, BH, QV, QW, RB, RC, RH, RI, RN, RO, RT, RU, RZ, SA, SF, SG
1,113Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP116
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MoleculeChains Sequence LengthOrganismDetailsImage
Gle1
BJ, QY, RE, RK, RQ
BJ, QY, RE, RK, RQ, RW, SC, SI
538Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: GLE1
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup145
BK, BL, SJ, SK, SO
BK, BL, SJ, SK, SO, SP, ST, SU, SY, SZ, TD, TE, TI, TJ, TN, TO
1,317Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP145
EC: 3.4.21
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup1
BM, SN, SS, SX, TC
BM, SN, SS, SX, TC, TH, TM, TR
1,076Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP1
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MoleculeChains Sequence LengthOrganismDetailsImage
Nup60
BN, BO, SL, SM, SQ
BN, BO, SL, SM, SQ, SR, SV, SW, TA, TB, TF, TG, TK, TL, TP, TQ
539Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: NUP60
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MoleculeChains Sequence LengthOrganismDetailsImage
Mlp1
BP, TS, TU, TW, TY
BP, TS, TU, TW, TY, UA, UC, UE
1,875Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: MLP1
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MoleculeChains Sequence LengthOrganismDetailsImage
Mlp2
BQ, TT, TV, TX, TZ
BQ, TT, TV, TX, TZ, UB, UD, UF
1,679Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Mutation(s): 0 
Gene Names: MLP2
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Experimental Data & Validation

Integrative Structure Snapshot

  • Multi-Scale: Yes 
  • Multi-State: No 
  • Ordered-State: No 
  • Deposited Models: 2 
  • Representative Model: 1 

Structure Validation

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Entry History