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7NRD

Structure of the yeast Gcn1 bound to a colliding stalled 80S ribosome with MBF1, A/P-tRNA and P/E-tRNA

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A
(S2)
TPA_inf: Saccharomyces cerevisiae S288C chromosome XII, complete sequencepolymer1800579761.91Saccharomyces cerevisiae S288C
2B
(SA)
40S ribosomal protein S3polymer22324702.81UniProt (P05750)
Pfam (PF07650)
Pfam (PF00189)
Saccharomyces cerevisiae S288c (Baker's yeast)RP13,Small ribosomal subunit protein uS3,YS3
3C
(SB)
40S ribosomal protein S5polymer20622908.31UniProt (P26783)
Pfam (PF00177)
Saccharomyces cerevisiae S288c (Baker's yeast)RP14,S2,Small ribosomal subunit protein uS7,YS8
4D
(SC)
40S ribosomal protein S10-Apolymer9211042.61UniProt (Q08745)
Pfam (PF03501)
Saccharomyces cerevisiae S288c (Baker's yeast)Small ribosomal subunit protein eS10-A
5E
(SD)
40S ribosomal protein S12polymer12413327.31UniProt (P48589)
Pfam (PF01248)
Saccharomyces cerevisiae S288c (Baker's yeast)Small ribosomal subunit protein eS12
6F
(SE)
40S ribosomal protein S15polymer11913421.71UniProt (Q01855)
Pfam (PF00203)
Saccharomyces cerevisiae S288c (Baker's yeast)RIG protein,RP52,S21,Small ribosomal subunit protein uS19,YS21
7G
(SF)
40S ribosomal protein S16-Apolymer14115659.21UniProt (P0CX51)
Pfam (PF00380)
Saccharomyces cerevisiae S288c (Baker's yeast)RP61R,Small ribosomal subunit protein uS9-A
8H
(SG)
40S ribosomal protein S17-Bpolymer12514268.51UniProt (P14127)
Pfam (PF00833)
Saccharomyces cerevisiae S288c (Baker's yeast)RP51B,Small ribosomal subunit protein eS17-B
9I
(SH)
40S ribosomal protein S18-Apolymer14516940.41UniProt (P0CX55)
Pfam (PF00416)
Saccharomyces cerevisiae S288c (Baker's yeast)Small ribosomal subunit protein uS13-A
10J
(SI)
40S ribosomal protein S19-Apolymer14315810.91UniProt (P07280)
Pfam (PF01090)
Saccharomyces cerevisiae S288c (Baker's yeast)RP55A,S16a,Small ribosomal subunit protein eS19-A,YP45,YS16A
11K
(SJ)
40S ribosomal protein S20polymer10111476.51UniProt (P38701)
Pfam (PF00338)
Saccharomyces cerevisiae S288c (Baker's yeast)Small ribosomal subunit protein uS10
12L
(SK)
40S ribosomal protein S25-Apolymer697930.31UniProt (Q3E792)
Pfam (PF03297)
Saccharomyces cerevisiae S288c (Baker's yeast)RP45,S31,Small ribosomal subunit protein eS25-A,YS23
13M
(SL)
40S ribosomal protein S28-Apolymer637116.31UniProt (Q3E7X9)
Pfam (PF01200)
Saccharomyces cerevisiae S288c (Baker's yeast)S33,Small ribosomal subunit protein eS28-A,YS27
14N
(SM)
40S ribosomal protein S29-Apolymer536335.31UniProt (P41057)
Pfam (PF00253)
Saccharomyces cerevisiae S288c (Baker's yeast)S36,Small ribosomal subunit protein uS14-A,YS29
15O
(SN)
Ubiquitin-40S ribosomal protein S31polymer738329.91UniProt (P05759)
Pfam (PF01599)
Saccharomyces cerevisiae S288c (Baker's yeast)
16P
(SO)
Guanine nucleotide-binding protein subunit beta-like proteinpolymer31334151.41UniProt (P38011)
Pfam (PF00400)
Saccharomyces cerevisiae S288c (Baker's yeast)Receptor for activated C kinase,Receptor of activated protein kinase C 1,RACK1,Small ribosomal subunit protein RACK1
17Q
(SP)
40S ribosomal protein S0-Apolymer20622811.11UniProt (P32905)
Pfam (PF00318)
Saccharomyces cerevisiae S288c (Baker's yeast)Nucleic acid-binding protein NAB1A,Small ribosomal subunit protein uS2-A
18R
(SQ)
40S ribosomal protein S1-Apolymer21624498.41UniProt (P33442)
Pfam (PF01015)
Saccharomyces cerevisiae S288c (Baker's yeast)RP10A,Small ribosomal subunit protein eS1-A
19S
(SR)
40S ribosomal protein S2polymer21723213.01UniProt (P25443)
Pfam (PF03719)
Pfam (PF00333)
Saccharomyces cerevisiae S288c (Baker's yeast)Omnipotent suppressor protein SUP44,RP12,S4,Small ribosomal subunit protein uS5,YS5
20T
(SS)
40S ribosomal protein S4-Apolymer26029338.11UniProt (P0CX35)
Pfam (PF08071)
Pfam (PF01479)
Pfam (PF00900)
Pfam (PF00467)
Pfam (PF16121)
Saccharomyces cerevisiae S288c (Baker's yeast)RP5,S7,Small ribosomal subunit protein eS4-A,YS6
21U
(ST)
40S ribosomal protein S6-Apolymer21824966.01UniProt (P0CX37)
Pfam (PF01092)
Saccharomyces cerevisiae S288c (Baker's yeast)RP9,S10,Small ribosomal subunit protein eS6-A,YS4
22V
(SU)
40S ribosomal protein S7-Apolymer18521071.61UniProt (P26786)
Pfam (PF01251)
Saccharomyces cerevisiae S288c (Baker's yeast)RP30,RP40,Small ribosomal subunit protein eS7-A
23W
(SV)
40S ribosomal protein S8-Apolymer18821147.21UniProt (P0CX39)
Pfam (PF01201)
Saccharomyces cerevisiae S288c (Baker's yeast)RP19,S14,Small ribosomal subunit protein eS8-A,YS9
24X
(SW)
40S ribosomal protein S9-Apolymer18521210.71UniProt (O13516)
Pfam (PF00163)
Pfam (PF01479)
Saccharomyces cerevisiae S288c (Baker's yeast)RP21,S13,Small ribosomal subunit protein uS4-A,YP28,YS11
25Y
(SX)
40S ribosomal protein S11-Apolymer14616588.51UniProt (P0CX47)
Pfam (PF16205)
Pfam (PF00366)
Saccharomyces cerevisiae S288c (Baker's yeast)RP41,S18,Small ribosomal subunit protein uS17-A,YS12
26Z
(SY)
40S ribosomal protein S13polymer15016928.71UniProt (P05756)
Pfam (PF08069)
Pfam (PF00312)
Saccharomyces cerevisiae S288c (Baker's yeast)S27a,Small ribosomal subunit protein uS15,YS15
27AA
(SZ)
40S ribosomal protein S14-Bpolymer12813560.51UniProt (P39516)
Pfam (PF00411)
Saccharomyces cerevisiae S288c (Baker's yeast)RP59B,Small ribosomal subunit protein uS11-B
28BA
(Sa)
40S ribosomal protein S21-Apolymer879758.81UniProt (P0C0V8)
Pfam (PF01249)
Saccharomyces cerevisiae S288c (Baker's yeast)S26,Small ribosomal subunit protein eS21-A,YS25
29CA
(Sb)
40S ribosomal protein S22-Apolymer12914518.91UniProt (P0C0W1)
Pfam (PF00410)
Saccharomyces cerevisiae S288c (Baker's yeast)RP50,S24,Small ribosomal subunit protein uS8-A,YP58,YS22
30DA
(Sc)
40S ribosomal protein S23-Apolymer14415942.71UniProt (P0CX29)
Pfam (PF00164)
Saccharomyces cerevisiae S288c (Baker's yeast)RP37,S28,Small ribosomal subunit protein uS12-A,YS14
31EA
(Sd)
40S ribosomal protein S24-Apolymer13415231.61UniProt (P0CX31)
Pfam (PF01282)
Saccharomyces cerevisiae S288c (Baker's yeast)RP50,Small ribosomal subunit protein eS24-A
32FA
(Se)
40S ribosomal protein S26-Bpolymer9711023.01UniProt (P39939)
Pfam (PF01283)
Saccharomyces cerevisiae S288c (Baker's yeast)Small ribosomal subunit protein eS26-B
33GA
(Sf)
40S ribosomal protein S27-Apolymer818762.21UniProt (P35997)
Pfam (PF01667)
Saccharomyces cerevisiae S288c (Baker's yeast)RP61,Small ribosomal subunit protein eS27-A,YS20
34HA
(Sg)
40S ribosomal protein S30-Apolymer445054.11UniProt (P0CX33)
Pfam (PF04758)
Saccharomyces cerevisiae S288c (Baker's yeast)Small ribosomal subunit protein eS30-A
35IA
(Sh)
Multiprotein-bridging factor 1polymer12013247.11UniProt (O14467)
Pfam (PF08523)
Pfam (PF01381)
Saccharomyces cerevisiae S288c (Baker's yeast)Suppressor of frameshift mutations protein 13
36JA
(S3)
mRNA (32-MER)polymer329885.71Saccharomyces cerevisiae S288c
37KA
(Sn)
tRNA (75-MER)polymer7524222.51GenBank (176433)Saccharomyces cerevisiae S288C (Baker's yeast)
38LA
(Sm)
tRNA (77-MER)polymer7724802.81Saccharomyces cerevisiae S288c
39MA
(LA)
25S rRNA (3184-MER)polymer33941096842.41GenBank (831416132)Saccharomyces cerevisiae S288C
40NA
(LB)
5S rRNA (121-MER)polymer12138951.11GenBank (834774822)Saccharomyces cerevisiae S288c
41OA
(LC)
5.8S rRNA (158-MER)polymer15850682.91GenBank (940534893)Saccharomyces cerevisiae S288c
42PA
(LD)
60S ribosomal protein L2-Apolymer25127089.21UniProt (P0CX45)
Pfam (PF00181)
Pfam (PF03947)
Saccharomyces cerevisiae S288c (Baker's yeast)L5,Large ribosomal subunit protein uL2-A,RP8,YL6
43QA
(LE)
60S ribosomal protein L3polymer38643719.61UniProt (P14126)
Pfam (PF00297)
Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein uL3,Maintenance of killer protein 8,RP1,Trichodermin resistance protein,YL1
44RA
(LF)
60S ribosomal protein L4-Apolymer36139027.91UniProt (P10664)
Pfam (PF00573)
Pfam (PF14374)
Saccharomyces cerevisiae S288c (Baker's yeast)L2,Large ribosomal subunit protein uL4-A,RP2,YL2
45SA
(LG)
60S ribosomal protein L5polymer29433415.41UniProt (P26321)
Pfam (PF17144)
Pfam (PF14204)
Saccharomyces cerevisiae S288c (Baker's yeast)L1,L1a,Large ribosomal subunit protein uL18,Ribosomal 5S RNA-binding protein,YL3
46TA
(LH)
60S ribosomal protein L6-Bpolymer16718935.31UniProt (P05739)
Pfam (PF01159)
Saccharomyces cerevisiae S288c (Baker's yeast)L17,Large ribosomal subunit protein eL6-B,RP18,YL16
47UA
(LI)
60S ribosomal protein L7-Apolymer22225240.41UniProt (P05737)
Pfam (PF00327)
Pfam (PF08079)
Saccharomyces cerevisiae S288c (Baker's yeast)L6,Large ribosomal subunit protein uL30-A,RP11,YL8
48VA
(LJ)
60S ribosomal protein L8-Apolymer23325815.01UniProt (P17076)
Pfam (PF01248)
Saccharomyces cerevisiae S288c (Baker's yeast)L4,L4-2,L7a-1,Large ribosomal subunit protein eL8-A,Maintenance of killer protein 7,RP6,YL5
49WA
(LK)
60S ribosomal protein L9-Apolymer19121605.11UniProt (P05738)
Pfam (PF00347)
Saccharomyces cerevisiae S288c (Baker's yeast)L8,Large ribosomal subunit protein uL6-A,RP24,YL11
50XA
(LL)
60S ribosomal protein L10polymer21825080.11UniProt (P41805)
Pfam (PF00252)
Saccharomyces cerevisiae S288c (Baker's yeast)L9,Large ribosomal subunit protein uL16,Ubiquinol-cytochrome C reductase complex subunit VI-requiring protein
51YA
(LM)
60S ribosomal protein L11-Bpolymer16919266.11UniProt (Q3E757)
Pfam (PF00281)
Pfam (PF00673)
Saccharomyces cerevisiae S288c (Baker's yeast)L16,Large ribosomal subunit protein uL5-B,RP39,YL22
52ZA
(LN)
60S ribosomal protein L13-Apolymer19321885.21UniProt (Q12690)
Pfam (PF01294)
Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein eL13-A
53AB
(LO)
60S ribosomal protein L14-Apolymer13614976.81UniProt (P36105)
Pfam (PF00467)
Pfam (PF01929)
Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein eL14-A
54BB
(LP)
60S ribosomal protein L15-Apolymer20324351.21UniProt (P05748)
Pfam (PF00827)
Saccharomyces cerevisiae S288c (Baker's yeast)L13,Large ribosomal subunit protein eL15-A,RP15R,YL10,YP18
55CB
(LQ)
60S ribosomal protein L16-Apolymer19722029.01UniProt (P26784)
Pfam (PF00572)
Saccharomyces cerevisiae S288c (Baker's yeast)L13a,L21,Large ribosomal subunit protein uL13-A,RP22,YL15
56DB
(LR)
60S ribosomal protein L17-Apolymer18320458.31UniProt (P05740)
Pfam (PF00237)
Saccharomyces cerevisiae S288c (Baker's yeast)L20A,Large ribosomal subunit protein uL22-A,YL17
57EB
(LS)
60S ribosomal protein L18-Apolymer18520478.11UniProt (P0CX49)
Pfam (PF17135)
Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein eL18-A,RP28
58FB
(LT)
60S ribosomal protein L19-Apolymer18821631.11UniProt (P0CX82)
Pfam (PF01280)
Saccharomyces cerevisiae S288c (Baker's yeast)L23,Large ribosomal subunit protein eL19-A,RP15L,RP33,YL14
59GB
(LU)
60S ribosomal protein L20-Apolymer17120347.71UniProt (P0CX23)
Pfam (PF01775)
Saccharomyces cerevisiae S288c (Baker's yeast)L18a,Large ribosomal subunit protein eL20-A
60HB
(LV)
60S ribosomal protein L21-Apolymer15918148.11UniProt (Q02753)
Pfam (PF01157)
Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein eL21-A
61IB
(LW)
60S ribosomal protein L22-Apolymer10011263.91UniProt (P05749)
Pfam (PF01776)
Saccharomyces cerevisiae S288c (Baker's yeast)L1c,Large ribosomal subunit protein eL22-A,RP4,YL31
62JB
(LX)
60S ribosomal protein L23-Apolymer13614362.81UniProt (P0CX41)
Pfam (PF00238)
Saccharomyces cerevisiae S288c (Baker's yeast)L17a,Large ribosomal subunit protein uL14-A,YL32
63KB
(LY)
60S ribosomal protein L24-Apolymer617214.51UniProt (P04449)
Pfam (PF01246)
Saccharomyces cerevisiae S288c (Baker's yeast)L30,Large ribosomal subunit protein eL24-A,RP29,YL21
64LB
(LZ)
60S ribosomal protein L25polymer12113771.21UniProt (P04456)
Pfam (PF03939)
Pfam (PF00276)
Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein uL23,RP16L,YL25,YP42'
65MB
(La)
60S ribosomal protein L26-Apolymer12514005.51UniProt (P05743)
Pfam (PF16906)
Pfam (PF00467)
Saccharomyces cerevisiae S288c (Baker's yeast)L33,Large ribosomal subunit protein uL24-A,YL33
66NB
(Lb)
60S ribosomal protein L27-Apolymer13515437.21UniProt (P0C2H6)
Pfam (PF01777)
Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein eL27-A
67OB
(Lc)
60S ribosomal protein L28polymer14816630.51UniProt (P02406)
Pfam (PF00828)
Saccharomyces cerevisiae S288c (Baker's yeast)L27a,L29,Large ribosomal subunit protein uL15,RP44,RP62,YL24
68PB
(Ld)
60S ribosomal protein L29polymer586560.71UniProt (P05747)
Pfam (PF01779)
Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein eL29,YL43
69QB
(Le)
60S ribosomal protein L30polymer9610487.31UniProt (P14120)
Pfam (PF01248)
Saccharomyces cerevisiae S288c (Baker's yeast)L32,Large ribosomal subunit protein eL30,RP73,YL38
70RB
(Lf)
60S ribosomal protein L31-Apolymer10912649.81UniProt (P0C2H8)
Pfam (PF01198)
Saccharomyces cerevisiae S288c (Baker's yeast)L34,Large ribosomal subunit protein eL31-A,YL28
71SB
(Lg)
60S ribosomal protein L32polymer12714478.11UniProt (P38061)
Pfam (PF01655)
Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein eL32
72TB
(Lh)
60S ribosomal protein L33-Apolymer10612045.91UniProt (P05744)
Pfam (PF01247)
Saccharomyces cerevisiae S288c (Baker's yeast)L37,Large ribosomal subunit protein eL33-A,RP47,YL37
73UB
(Li)
60S ribosomal protein L34-Apolymer11212608.81UniProt (P87262)
Pfam (PF01199)
Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein eL34-A
74VB
(Lj)
60S ribosomal protein L35-Apolymer11913811.41UniProt (P0CX84)
Pfam (PF00831)
Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein uL29-A
75WB
(Lk)
60S ribosomal protein L36-Apolymer9911020.11UniProt (P05745)
Pfam (PF01158)
Saccharomyces cerevisiae S288c (Baker's yeast)L39,Large ribosomal subunit protein eL36-A,YL39
76XB
(Ll)
60S ribosomal protein L37-Apolymer819229.61UniProt (P49166)
Pfam (PF01907)
Saccharomyces cerevisiae S288c (Baker's yeast)L43,Large ribosomal subunit protein eL37-A,YL35,YP55
77YB
(Lm)
60S ribosomal protein L38polymer778714.41UniProt (P49167)
Pfam (PF01781)
Saccharomyces cerevisiae S288c (Baker's yeast)Large ribosomal subunit protein eL38
78ZB
(Ln)
60S ribosomal protein L39polymer506227.41UniProt (P04650)
Pfam (PF00832)
Saccharomyces cerevisiae S288c (Baker's yeast)L46,Large ribosomal subunit protein eL39,YL40
79AC
(Lo)
Ubiquitin-60S ribosomal protein L40polymer526032.31UniProt (P0CH08)
Pfam (PF01020)
Saccharomyces cerevisiae S288c (Baker's yeast)
80BC
(Lp)
60S ribosomal protein L41-Bpolymer253354.21UniProt (P0CX87)
Pfam (PF05162)
Saccharomyces cerevisiae S288c (Baker's yeast)L47,Large ribosomal subunit protein eL41-B,YL41
81CC
(Lq)
60S ribosomal protein L42-Apolymer10311840.21UniProt (P0CX27)
Pfam (PF00935)
Saccharomyces cerevisiae S288c (Baker's yeast)L41,Large ribosomal subunit protein eL42-A,YL27,YP44
82DC
(Lr)
60S ribosomal protein L43-Apolymer919981.81UniProt (P0CX25)
Pfam (PF01780)
Saccharomyces cerevisiae S288c (Baker's yeast)L37a,Large ribosomal subunit protein eL43-A,YL35
Sequence modifications
SN: 80 - 152 (UniProt: P05759)
PDBExternal DatabaseDetails
Ala 97Lys 97conflict
SO: 7 - 319 (UniProt: P38011)
PDBExternal DatabaseDetails
Ala 161Lys 161conflict
SV: 2 - 200 (UniProt: P0CX39)
PDBExternal DatabaseDetails
-Lys 124deletion
-Lys 125deletion
-Asn 126deletion
-Val 127deletion
-Lys 128deletion
-Glu 129deletion
-Glu 130deletion
-Glu 131deletion
-Thr 132deletion
-Val 133deletion
-Ala 134deletion
Sn: 1 - 76 (GenBank: 176433)
PDBExternal DatabaseDetails
A 10G 10conflict
LH: 2 - 176 (UniProt: P05739)
PDBExternal DatabaseDetails
-Asn 120deletion
-Leu 121deletion
-Phe 122deletion
-Pro 123deletion
-Glu 124deletion
-Gln 125deletion
-Gln 126deletion
-Thr 127deletion
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains82
Total formula weight3082669.7
All*Total formula weight3082669.7
*Water molecules are not included.

237735

PDB entries from 2025-06-18

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