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6FYY

Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C2)

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A
(1)
tRNAipolymer7624799.11Saccharomyces cerevisiae
2B
(2)
18S ribosomal RNApolymer1798579454.91GenBank (49642208)Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)
3C
(3)
mRNA (31-MER)polymer4915345.01Saccharomyces cerevisiae
4D
(A)
40S ribosomal protein S0polymer25428264.51UniProt (Q6CN12)
Pfam (PF00318)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
5E
(B)
40S ribosomal protein S1polymer25529013.71UniProt (Q6CWD0)
Pfam (PF01015)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
6F
(C)
KLLA0F09812ppolymer25927650.01UniProt (Q6CKL3)
Pfam (PF00333)
Pfam (PF03719)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
7G
(D)
KLLA0D08305ppolymer23726300.51UniProt (Q6CRK7)
Pfam (PF07650)
Pfam (PF00189)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
8H
(E)
40S ribosomal protein S4polymer26129617.51UniProt (Q6CWJ2)
Pfam (PF00900)
Pfam (PF00467)
Pfam (PF16121)
Pfam (PF08071)
Pfam (PF01479)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
9I
(F)
KLLA0D10659ppolymer22725386.01UniProt (Q6CRA3)
Pfam (PF00177)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
10J
(G)
40S ribosomal protein S6polymer23626970.41UniProt (Q6CM04)
Pfam (PF01092)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
11K
(H)
40S ribosomal protein S7polymer19021735.31UniProt (Q6CTD6)
Pfam (PF01251)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
12L
(I)
40S ribosomal protein S8polymer20122642.71UniProt (Q6CMG3)
Pfam (PF01201)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
13M
(J)
KLLA0E23673ppolymer18821587.01UniProt (Q6CM18)
Pfam (PF00163)
Pfam (PF01479)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
14N
(K)
KLLA0B08173ppolymer10612584.41UniProt (Q6CVZ5)
Pfam (PF03501)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
15O
(L)
KLLA0A10483ppolymer15617843.91UniProt (Q6CX80)
Pfam (PF16205)
Pfam (PF00366)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
16P
(M)
40S ribosomal protein S12polymer13414466.41UniProt (Q6CLU4)
Pfam (PF01248)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
17Q
(N)
KLLA0F18040ppolymer15116989.91UniProt (Q6CJK0)
Pfam (PF08069)
Pfam (PF00312)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
18R
(O)
40S ribosomal protein S14polymer13714530.71UniProt (P27069)
Pfam (PF00411)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)RP59
19S
(P)
KLLA0F07843ppolymer14215986.81UniProt (Q6CKV4)
Pfam (PF00203)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
20T
(Q)
40S ribosomal protein S16polymer14315874.51UniProt (Q875N2)
Pfam (PF00380)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
21U
(R)
KLLA0B01474ppolymer13615722.21UniProt (Q6CWU3)
Pfam (PF00833)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
22V
(S)
KLLA0B01562ppolymer14617084.61UniProt (Q6CWT9)
Pfam (PF00416)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
23W
(T)
KLLA0A07194ppolymer14415879.01UniProt (Q6CXM0)
Pfam (PF01090)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
24X
(U)
KLLA0F25542ppolymer11713337.61UniProt (Q6CIM1)
Pfam (PF00338)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
25Y
(V)
40S ribosomal protein S21polymer879797.91UniProt (Q6CXT6)
Pfam (PF01249)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
26Z
(W)
40S ribosomal protein S22polymer13014645.01UniProt (Q6CW21)
Pfam (PF00410)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
27AA
(X)
KLLA0B11231ppolymer14516047.91UniProt (F2Z602)
Pfam (PF00164)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
28BA
(Y)
40S ribosomal protein S24polymer13515194.51UniProt (Q6CU44)
Pfam (PF01282)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
29CA
(Z)
KLLA0B06182ppolymer10812002.11UniProt (Q6CW78)
Pfam (PF03297)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
30DA
(a)
40S ribosomal protein S26polymer11913540.01UniProt (Q6CS01)
Pfam (PF01283)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
31EA
(b)
40S ribosomal protein S27polymer828884.41UniProt (Q6CNL2)
Pfam (PF01667)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
32FA
(c)
40S ribosomal protein S28polymer677549.81UniProt (P33285)
Pfam (PF01200)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)S33
33GA
(d)
40S ribosomal protein S29polymer566662.61UniProt (Q6CPG3)
Pfam (PF00253)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
34HA
(e)
40S ribosomal protein S30polymer637141.41UniProt (Q6CUH5)
Pfam (PF04758)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
35IA
(f)
Ubiquitin-40S ribosomal protein S27apolymer15017111.01UniProt (P69061)
Pfam (PF00240)
Pfam (PF01599)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
36JA
(g)
KLLA0E12277ppolymer32635830.91UniProt (Q6CNI7)
Pfam (PF00400)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)
37KA
(h)
60S ribosomal protein L41-Apolymer253354.21UniProt (P0CX86)
Pfam (PF05162)
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (Yeast)L47,Large ribosomal subunit protein eL41-A,YL41
38LA
(i)
Eukaryotic translation initiation factor 1Apolymer15317462.21UniProt (P38912)
Pfam (PF01176)
Saccharomyces cerevisiae (Baker's yeast)eIF-1A,Eukaryotic translation initiation factor 4C,eIF-4C
39MA
(j)
Eukaryotic translation initiation factor 2 subunit alphapolymer30434763.71UniProt (P20459)
Pfam (PF00575)
Pfam (PF07541)
Saccharomyces cerevisiae (Baker's yeast)eIF-2-alpha
40NA
(k)
Eukaryotic translation initiation factor 2 subunit gammapolymer52757942.71UniProt (P32481)
Pfam (PF00009)
Pfam (PF03144)
Pfam (PF09173)
Saccharomyces cerevisiae (Baker's yeast)eIF-2-gamma
41OA
(l)
Eukaryotic translation initiation factor 2 subunit betapolymer28531631.31UniProt (P09064)
Pfam (PF01873)
Saccharomyces cerevisiae (Baker's yeast)eIF-2-beta
42PA
(m)
Eukaryotic translation initiation factor 5polymer40545322.01UniProt (P38431)
Pfam (PF01873)
Pfam (PF02020)
Saccharomyces cerevisiae (Baker's yeast)eIF-5
43QA
(o)
Eukaryotic translation initiation factor 3 subunit Apolymer964110517.61UniProt (P38249)
Pfam (PF22591)
Saccharomyces cerevisiae (Baker's yeast)eIF3a,Eukaryotic translation initiation factor 3 110 kDa subunit homolog,eIF3 p110,Translation initiation factor eIF3,p110 subunit homolog
44RA
(p)
Eukaryotic translation initiation factor 3 subunit Bpolymer76388241.81UniProt (P06103)
Pfam (PF00076)
Pfam (PF08662)
Saccharomyces cerevisiae (Baker's yeast)eIF3b,Cell cycle regulation and translation initiation protein,Eukaryotic translation initiation factor 3 90 kDa subunit,eIF3 p90,Translation initiation factor eIF3 p90 subunit
45SA
(q)
eIF3c,Eukaryotic translation initiation factor 3 subunit Cpolymer81286539.51UniProt (P32497)
Pfam (PF05470)
Pfam (PF01399)
Saccharomyces cerevisiae (Baker's yeast)eIF3c,Eukaryotic translation initiation factor 3 93 kDa subunit,eIF3 p93,Nuclear transport protein NIP1,Translation initiation factor eIF3,p93 subunit
46TA
(r)
Eukaryotic translation initiation factor 3 subunit Gpolymer27430520.51UniProt (A6ZZ25)
Pfam (PF12353)
Pfam (PF00076)
Saccharomyces cerevisiae (Baker's yeast)eIF3g,Eukaryotic translation initiation factor 3 RNA-binding subunit,eIF-3 RNA-binding subunit,Translation initiation factor eIF3 p33 subunit homolog,eIF3 p33 homolog
47UA
(s)
Eukaryotic translation initiation factor 3 subunit Ipolymer34738803.41UniProt (A6ZMK5)
Pfam (PF00400)
Saccharomyces cerevisiae (Baker's yeast)eIF3i,Eukaryotic translation initiation factor 3 39 kDa subunit homolog,eIF-3 39 kDa subunit homolog
48AB, AC, AD, AE, AF...
(2, k)
MAGNESIUM IONnon-polymer24.3117Chemie (MG)
49HF, IF, JF, NF, OF
(a, b, f, l, m)
ZINC IONnon-polymer65.45Chemie (ZN)
50KF
(k)
METHIONINEnon-polymer149.21Chemie (MET)
51MF
(k)
PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTERnon-polymer521.21Chemie (GCP)
Sequence modifications
2: 1 - 1798 (GenBank: 49642208)
PDBExternal DatabaseDetails
G 676U 1506854conflict
U 678G 1506852conflict
C4j 1190U 1506340conflict
q: -57 - 214 (PDB: 6FYY)
q: 251 - 812 (UniProt: P32497)
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains47
Total formula weight1758573.1
Non-Polymers*Number of molecules124
Total formula weight3841.1
All*Total formula weight1762414.2
*Water molecules are not included.

238268

PDB entries from 2025-07-02

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