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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

8APO

Structure of the mitochondrial ribosome from Polytomella magna with tRNAs bound to the A and P sites

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A
(A1)		mtLSU-1polymer10935302.21GenBank (485474616)Polytomella magna
2B
(A2)		mtLSU-2polymer8126056.61GenBank (485474616)Polytomella magna
3C
(A3)		mtLSU-3polymer20766621.51Polytomella magna
4D
(A4)		mtLSU-4polymer7323661.31Polytomella magna
5E
(A5)		mtLSU-5polymer13643735.01Polytomella magna
6F
(A6)		mtLSU-6polymer10935225.01Polytomella magna
7G
(A7)		mtLSU-7polymer534171975.01Polytomella magna
8H
(A8)		mtLSU-8polymer350112621.31Polytomella magna
9I
(A9)		mt-5Spolymer6922130.11Polytomella magna
10J
(Aa)		uL2mpolymer30633873.21Polytomella magna
11K
(Ab)		uL3mpolymer30634287.71Polytomella magna
12L
(Ac)		uL4mpolymer30333741.51Polytomella magna
13M
(Ad)		uL5mpolymer19321894.41Polytomella magna
14N
(Ae)		uL6mpolymer24227446.11Polytomella magna
15O
(Af)		uL9mpolymer566163.11Polytomella magna
16P
(Ah)		uL13mpolymer18621549.11Polytomella magna
17Q
(Ai)		uL14mpolymer12113522.11Polytomella magna
18R
(Aj)		uL15mpolymer20622826.41Polytomella magna
19S
(Ak)		uL16mpolymer16619334.21Polytomella magna
20T
(Al)		bL17mpolymer17320047.51Polytomella magna
21U
(Am)		uL18mpolymer11412928.11Polytomella magna
22V
(An)		bL19mpolymer17019849.01Polytomella magna
23W
(Ao)		bL20mpolymer11713695.71Polytomella magna
24X
(Ap)		bL21mpolymer20022296.11Polytomella magna
25Y
(Aq)		uL22mpolymer18821768.01Polytomella magna
26Z
(Ar)		uL23mpolymer15518235.21Polytomella magna
27AA
(As)		bL24mpolymer11513088.21Polytomella magna
28BA
(At)		bL25mpolymer25328550.21Polytomella magna
29CA
(Au)		bL27mpolymer14216266.61Polytomella magna
30DA
(Av)		bL28mpolymer12915075.41Polytomella magna
31EA
(Aw)		uL29mpolymer12314509.61Polytomella magna
32FA
(Ax)		uL30mpolymer17620863.31Polytomella magna
33GA
(Ay)		bL31mpolymer728388.81Polytomella magna
34HA
(Az)		bL32mpolymer596690.01Polytomella magna
35IA
(AA)		bL33mpolymer505921.21Polytomella magna
36JA
(AB)		bL34mpolymer506149.41Polytomella magna
37KA
(AC)		bL35mpolymer13916673.61Polytomella magna
38LA
(AD)		bL36mpolymer475495.71Polytomella magna
39MA
(AE)		mL40polymer9210895.41Polytomella magna
40NA
(AF)		mL41polymer9310819.61Polytomella magna
41OA
(AG)		mL43polymer12114180.31Polytomella magna
42PA
(AH)		mL46polymer17620078.21Polytomella magna
43QA
(AI)		mL63polymer647181.41Polytomella magna
44RA
(AJ)		mL64polymer12214227.71Polytomella magna
45SA
(AK)		mL87polymer13916437.81Polytomella magna
46TA, UA, VA
(AL, AM, AN)		mL116polymer42046617.43Polytomella magna
47WA
(AO)		mL118polymer37740870.81Polytomella magna
48XA
(Xa)		mL120polymer19922283.51Polytomella magna
49YA
(Xb)		mL121polymer24427805.81Polytomella magna
50ZA
(Xc)		mL122polymer577019.01Polytomella magna
51AB
(Xd)		mL123polymer41345953.61Polytomella magna
52BB
(Xe)		mL124polymer48352212.21Polytomella magna
53CB
(Xf)		mL125polymer20122855.11Polytomella magna
54DB
(Xg)		mL126polymer41044063.21Polytomella magna
55EB
(Xh)		mL127polymer14316291.11Polytomella magna
56FB
(Xi)		mL128polymer242949.51Polytomella magna
57GB
(Xj)		mL129polymer718260.21Polytomella magna
58HB
(B1)		mtSSU-1polymer10232708.31GenBank (485474616)Polytomella magna
59IB
(B2)		mtSSU-2polymer21067696.31Polytomella magna
60JB
(B3)		mtSSU-3polymer379122239.41GenBank (485474616)Polytomella magna
61KB
(B4)		mtSSU-4polymer337108517.21Polytomella magna
62LB
(Ba)		bS1mpolymer24227632.01Polytomella magna
63MB
(Bb)		uS2mpolymer23626625.81Polytomella magna
64NB
(Bc)		uS3mpolymer27931442.01Polytomella magna
65OB
(Bd)		uS4mpolymer22125534.61Polytomella magna
66PB
(Be)		uS5mpolymer22825956.71Polytomella magna
67QB
(Bf)		uS6mpolymer11913776.01Polytomella magna
68RB
(Bg)		uS7mpolymer11212740.01Polytomella magna
69SB
(Bh)		uS8mpolymer37443012.61Polytomella magna
70TB
(Bi)		uS9mpolymer28232274.01Polytomella magna
71UB
(Bj)		uS10mpolymer40145092.21Polytomella magna
72VB
(Bk)		uS11mpolymer11612426.51Polytomella magna
73WB
(Bl)		uS12mpolymer12313729.31Polytomella magna
74XB
(Bm)		uS13mpolymer11312807.91Polytomella magna
75YB
(Bn)		uS14mpolymer11813921.21Polytomella magna
76ZB
(Bo)		uS15mpolymer16718048.51Polytomella magna
77AC
(Bp)		bS16mpolymer12314298.41Polytomella magna
78BC
(Bq)		uS17mpolymer13015002.31Polytomella magna
79CC
(Br)		bS18mpolymer9010606.41Polytomella magna
80DC
(Bs)		bS19mpolymer9210384.81Polytomella magna
81EC
(Bt)		bS21mpolymer758829.31Polytomella magna
82FC
(Bu)		mS23polymer16719393.31Polytomella magna
83GC
(Bv)		mS26polymer16419292.01Polytomella magna
84HC
(Bw)		mS29polymer35139282.11Polytomella magna
85IC
(Bx)		mS31polymer62166912.01Polytomella magna
86JC
(By)		mS33polymer789022.31Polytomella magna
87KC
(Bz)		mS34polymer11914053.01Polytomella magna
88LC
(BA)		mS35polymer17619588.91Polytomella magna
89MC
(BB)		mS37polymer849493.01Polytomella magna
90NC
(BC)		mS38polymer314004.11Polytomella magna
91OC
(BD)		mS45polymer27030779.91Polytomella magna
92PC
(BE)		mS106polymer17118552.01Polytomella magna
93QC
(BF)		mS107polymer37042316.91Polytomella magna
94RC
(Ya)		uS4m-2polymer18020395.11Polytomella magna
95SC
(Yb)		mS108polymer505864.71Polytomella magna
96TC
(Yc)		mS109polymer15918395.01Polytomella magna
97UC
(Yd)		mS110polymer9511168.01Polytomella magna
98VC
(Ye)		uS3m-2polymer10612220.11Polytomella magna
99WC
(Yf)		mS111polymer15017507.81Polytomella magna
100XC
(Yg)		mS112polymer677917.31Polytomella magna
101YC
(Yh)		mS113polymer657505.61Polytomella magna
102ZC
(Yi)		mS114polymer13215271.01Polytomella magna
103AD
(Yj)		mS115polymer38640611.51Polytomella magna
104BD
(Yk)		mS116polymer9210018.41Polytomella magna
105CD
(Yl)		uS7m-2polymer849622.21Polytomella magna
106DD
(C1)		P-site tRNA anticodon looppolymer237324.41Polytomella magna
107ED
(C2)		A-site tRNA anticodon looppolymer216689.01Polytomella magna
108FD
(C3)		mRNApolymer82551.61Polytomella magna
109GD
(Ub)		mL105polymer13115669.81Polytomella magna
110HD
(Ua)		Unknownpolymer322813.51Polytomella magna
111ID
(Ud)		Unknownpolymer443762.61Polytomella magna
112JD
(Ue)		Unknownpolymer474017.91Polytomella magna
113KD
(Uf)		Unknownpolymer736230.71Polytomella magna
114LD
(Ug)		Unknownpolymer635379.61Polytomella magna
115MD
(Uh)		Unknownpolymer484103.01Polytomella magna
116ND
(Ui)		Unknownpolymer262230.71Polytomella magna
117OD
(Uj)		Unknownpolymer9784.01Polytomella magna
118PD
(Uk)		Unknownpolymer231975.41Polytomella magna
119QD
(Ul)		Unknownpolymer161379.71Polytomella magna
120RD
(Um)		Unknownpolymer11954.21Polytomella magna
121AE, AF, AI, BE, BF...
(A3, A6, B3, A7, B1...)		MAGNESIUM IONnon-polymer24.3112Chemie (MG)
122AG, AH, AJ, BG, BH...
(A7, Ah, B4, AC, B3...)		POTASSIUM IONnon-polymer39.130Chemie (K)
123CH
(AD)		ZINC IONnon-polymer65.41Chemie (ZN)
124FJ
(Bw)		ADENOSINE-5'-TRIPHOSPHATEnon-polymer507.21Chemie (ATP)
125AK, BK, CK, DK, EK...
(Be, Bi, Bl, Bm, Bp...)		waterwater18.0504Chemie (HOH)
Sequence modifications
Xg: 25 - 456 (PDB: 8APO)
Xg: 461 - 492 (PDB: 8APO)
Bo: 1 - 114 (PDB: 8APO)
Bo: 115 - 167 (PDB: 8APO)
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains122
Total formula weight2863048.2
Non-Polymers*Number of molecules144
Total formula weight4467.7
All*Total formula weight2867515.9
*Water molecules are not included.

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PDB entries from 2025-07-16

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