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8PNN

80S yeast ribosome in complex with Bromolissoclimide

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A, FD
(3, AS)
5S ribosomal RNApolymer12138951.12GenBank (1329886537)Saccharomyces cerevisiae (brewer's yeast)
2B, MD
(AB, DC)
60S ribosomal protein L28polymer14916761.72UniProt (P02406)
Pfam (PF00828)
Saccharomyces cerevisiae (brewer's yeast)L27a,L29,Large ribosomal subunit protein uL15,RP44,RP62,YL24
3C, WA
(CJ, p)
60S ribosomal protein L8-Apolymer25628175.82UniProt (P17076)
Pfam (PF01248)
Saccharomyces cerevisiae (brewer's yeast)L4,L4-2,L7a-1,Large ribosomal subunit protein eL8-A,Maintenance of killer protein 7,RP6,YL5
4D, RA
(DJ, AI)
60S ribosomal protein L35-Apolymer12013942.62UniProt (P0CX84)
Pfam (PF00831)
Saccharomyces cerevisiae (brewer's yeast)Large ribosomal subunit protein uL29-A
5BB, E
(Q, c5)
40S ribosomal protein S15polymer14216031.92UniProt (Q01855)
Pfam (PF00203)
Saccharomyces cerevisiae (brewer's yeast)RIG protein,RP52,S21,Small ribosomal subunit protein uS19,YS21
6F, HD
(s6, H)
40S ribosomal protein S6-Apolymer23627054.52UniProt (P0CX37)
Pfam (PF01092)
Saccharomyces cerevisiae (brewer's yeast)RP9,S10,Small ribosomal subunit protein eS6-A,YS4
7G, LD
(4, AT)
5.8S ribosomal RNApolymer15850682.92GenBank (1331532632)Saccharomyces cerevisiae (brewer's yeast)
8H, SD
(AC, DD)
60S ribosomal protein L29polymer596691.92UniProt (P05747)
Pfam (PF01779)
Saccharomyces cerevisiae (brewer's yeast)Large ribosomal subunit protein eL29,YL43
9CB, I
(CK, q)
60S ribosomal protein L9-Apolymer19121605.12UniProt (P05738)
Pfam (PF00347)
Saccharomyces cerevisiae (brewer's yeast)L8,Large ribosomal subunit protein uL6-A,RP24,YL11
10J, XA
(DK, AJ)
60S ribosomal protein L36-Apolymer10011151.32UniProt (P05745)
Pfam (PF01158)
Saccharomyces cerevisiae (brewer's yeast)L39,Large ribosomal subunit protein eL36-A,YL39
11HB, K
(R, c6)
40S ribosomal protein S16-Apolymer14315877.52UniProt (P0CX51)
Pfam (PF00380)
Saccharomyces cerevisiae (brewer's yeast)RP61R,Small ribosomal subunit protein uS9-A
12L, ND
(s7, I)
40S ribosomal protein S7-Apolymer19021658.22UniProt (P26786)
Pfam (PF01251)
Saccharomyces cerevisiae (brewer's yeast)RP30,RP40,Small ribosomal subunit protein eS7-A
13M, RD
(j, CD)
60S ribosomal protein L2-Apolymer25427463.62UniProt (P0CX45)
Pfam (PF00181)
Pfam (PF03947)
Saccharomyces cerevisiae (brewer's yeast)L5,Large ribosomal subunit protein uL2-A,RP8,YL6
14N, YD
(AD, DE)
60S ribosomal protein L30polymer10511430.42UniProt (P14120)
Pfam (PF01248)
Saccharomyces cerevisiae (brewer's yeast)L32,Large ribosomal subunit protein eL30,RP73,YL38
15IB, O
(CL, r)
60S ribosomal protein L10polymer22125410.52UniProt (P41805)
Pfam (PF00252)
Saccharomyces cerevisiae (brewer's yeast)L9,Large ribosomal subunit protein uL16,Ubiquinol-cytochrome C reductase complex subunit VI-requiring protein
16DB, P
(DL, AK)
60S ribosomal protein L37-Apolymer889877.42UniProt (P49166)
Pfam (PF01907)
Saccharomyces cerevisiae (brewer's yeast)L43,Large ribosomal subunit protein eL37-A,YL35,YP55
17NB, Q
(S, c7)
40S ribosomal protein S17-Apolymer13615820.42UniProt (P02407)
Pfam (PF00833)
Saccharomyces cerevisiae (brewer's yeast)RP51A,Small ribosomal subunit protein eS17-A
18R, TD
(s8, J)
40S ribosomal protein S8-Apolymer20022537.82UniProt (P0CX39)
Pfam (PF01201)
Saccharomyces cerevisiae (brewer's yeast)RP19,S14,Small ribosomal subunit protein eS8-A,YS9
19S, XD
(k, CE)
60S ribosomal protein L3polymer38743850.82UniProt (P14126)
Pfam (PF00297)
Saccharomyces cerevisiae (brewer's yeast)Large ribosomal subunit protein uL3,Maintenance of killer protein 8,RP1,Trichodermin resistance protein,YL1
20EE, T
(AE, DF)
60S ribosomal protein L31-Apolymer11312980.22UniProt (P0C2H8)
Pfam (PF01198)
Saccharomyces cerevisiae (brewer's yeast)L34,Large ribosomal subunit protein eL31-A,YL28
21OB, U
(CM, s)
Large ribosomal subunit protein uL5Bpolymer17419785.72UniProt (Q3E757)
Pfam (PF00281)
Pfam (PF00673)
Saccharomyces cerevisiae (brewer's yeast)60S ribosomal protein L11-B,L16,RP39,YL22
22JB, V
(DM, AL)
60S ribosomal protein L38polymer788845.62UniProt (P49167)
Pfam (PF01781)
Saccharomyces cerevisiae (brewer's yeast)Large ribosomal subunit protein eL38
23TB, W
(T, c8)
40S ribosomal protein S18-Apolymer14617071.62UniProt (P0CX55)
Pfam (PF00416)
Saccharomyces cerevisiae (brewer's yeast)Small ribosomal subunit protein uS13-A
24X, ZD
(s9, K)
40S ribosomal protein S9-Apolymer19722487.92UniProt (O13516)
Pfam (PF00163)
Pfam (PF01479)
Saccharomyces cerevisiae (brewer's yeast)RP21,S13,Small ribosomal subunit protein uS4-A,YP28,YS11
25DE, Y
(l, CF)
60S ribosomal protein L4-Apolymer36239159.12UniProt (P10664)
Pfam (PF00573)
Pfam (PF14374)
Saccharomyces cerevisiae (brewer's yeast)L2,Large ribosomal subunit protein uL4-A,RP2,YL2
26KE, Z
(AF, DG)
60S ribosomal protein L32polymer13014809.42UniProt (P38061)
Pfam (PF01655)
Saccharomyces cerevisiae (brewer's yeast)Large ribosomal subunit protein eL32
27AA, UB
(CN, t)
60S ribosomal protein L13-Apolymer19922604.22UniProt (Q12690)
Pfam (PF01294)
Saccharomyces cerevisiae (brewer's yeast)Large ribosomal subunit protein eL13-A
28BA, PB
(DN, AM)
60S ribosomal protein L39polymer516358.62UniProt (P04650)
Pfam (PF00832)
Saccharomyces cerevisiae (brewer's yeast)L46,Large ribosomal subunit protein eL39,YL40
29CA, ZB
(U, c9)
40S ribosomal protein S19-Apolymer14415942.12UniProt (P07280)
Pfam (PF01090)
Saccharomyces cerevisiae (brewer's yeast)RP55A,S16a,Small ribosomal subunit protein eS19-A,YP45,YS16A
30DA, FE
(c0, L)
40S ribosomal protein S10-Apolymer10512757.42UniProt (Q08745)
Pfam (PF03501)
Saccharomyces cerevisiae (brewer's yeast)Small ribosomal subunit protein eS10-A
31EA, JE
(m, CG)
60S ribosomal protein L5polymer29733764.82UniProt (P26321)
Pfam (PF17144)
Pfam (PF14204)
Saccharomyces cerevisiae (brewer's yeast)L1,L1a,Large ribosomal subunit protein uL18,Ribosomal 5S RNA-binding protein,YL3
32FA, QE
(AG, DH)
60S ribosomal protein L33-Apolymer10712177.12UniProt (P05744)
Pfam (PF01247)
Saccharomyces cerevisiae (brewer's yeast)L37,Large ribosomal subunit protein eL33-A,RP47,YL37
33AC, GA
(CO, u)
60S ribosomal protein L14-Apolymer13815195.12UniProt (P36105)
Pfam (PF00467)
Pfam (PF01929)
Saccharomyces cerevisiae (brewer's yeast)Large ribosomal subunit protein eL14-A
34HA, VB
(DO, AN)
Ubiquitin-60S ribosomal protein L40polymer12814583.12UniProt (P0CH08)
Pfam (PF00240)
Pfam (PF01020)
Saccharomyces cerevisiae (brewer's yeast)
35FC, IA
(V, d0)
Small ribosomal subunit protein uS10polymer12113929.02UniProt (P38701)
Pfam (PF00338)
Saccharomyces cerevisiae (brewer's yeast)40S ribosomal protein S20
36JA, LE
(c1, M)
40S ribosomal protein S11-Apolymer15617785.92UniProt (P0CX47)
Pfam (PF16205)
Pfam (PF00366)
Saccharomyces cerevisiae (brewer's yeast)RP41,S18,Small ribosomal subunit protein uS17-A,YS12
37KA, PE
(n, CH)
60S ribosomal protein L6-Apolymer17620000.62UniProt (Q02326)
Pfam (PF01159)
Saccharomyces cerevisiae (brewer's yeast)L17,Large ribosomal subunit protein eL6-A,RP18,YL16
38LA, WE
(AH, DI)
60S ribosomal protein L34-Apolymer12113673.22UniProt (P87262)
Pfam (PF01199)
Saccharomyces cerevisiae (brewer's yeast)Large ribosomal subunit protein eL34-A
39MA, TE
(CP, v)
60S ribosomal protein L15-Apolymer20424482.42UniProt (P05748)
Pfam (PF00827)
Saccharomyces cerevisiae (brewer's yeast)L13,Large ribosomal subunit protein eL15-A,RP15R,YL10,YP18
40BC, NA
(DP, AO)
Large ribosomal subunit protein eL41Bpolymer253354.22UniProt (P0CX87)
Pfam (PF05162)
Saccharomyces cerevisiae (brewer's yeast)60S ribosomal protein L41-B,L47,YL41
41LC, OA
(W, d1)
40S ribosomal protein S21-Apolymer879758.82UniProt (P0C0V8)
Pfam (PF01249)
Saccharomyces cerevisiae (brewer's yeast)S26,Small ribosomal subunit protein eS21-A,YS25
42PA, RE
(c3, O)
40S ribosomal protein S13polymer15117059.92UniProt (P05756)
Pfam (PF08069)
Pfam (PF00312)
Saccharomyces cerevisiae (brewer's yeast)S27a,Small ribosomal subunit protein uS15,YS15
43QA, VE
(o, CI)
60S ribosomal protein L7-Apolymer24427686.32UniProt (P05737)
Pfam (PF08079)
Pfam (PF00327)
Saccharomyces cerevisiae (brewer's yeast)L6,Large ribosomal subunit protein uL30-A,RP11,YL8
44GC, SA
(CQ, w)
60S ribosomal protein L16-Apolymer19922247.22UniProt (P26784)
Pfam (PF00572)
Saccharomyces cerevisiae (brewer's yeast)L13a,L21,Large ribosomal subunit protein uL13-A,RP22,YL15
45HC, TA
(DQ, AP)
60S ribosomal protein L42-Apolymer10612246.72UniProt (P0CX27)
Pfam (PF00935)
Saccharomyces cerevisiae (brewer's yeast)L41,Large ribosomal subunit protein eL42-A,YL27,YP44
46RC, UA
(X, d2)
40S ribosomal protein S22-Apolymer13014650.12UniProt (P0C0W1)
Pfam (PF00410)
Saccharomyces cerevisiae (brewer's yeast)RP50,S24,Small ribosomal subunit protein uS8-A,YP58,YS22
47VA, XE
(c4, P)
40S ribosomal protein S14-Bpolymer13814675.82UniProt (P39516)
Pfam (PF00411)
Saccharomyces cerevisiae (brewer's yeast)RP59B,Small ribosomal subunit protein uS11-B
48MC, YA
(CR, x)
60S ribosomal protein L17-Apolymer18420589.52UniProt (P05740)
Pfam (PF00237)
Saccharomyces cerevisiae (brewer's yeast)L20A,Large ribosomal subunit protein uL22-A,YL17
49NC, ZA
(DR, AQ)
60S ribosomal protein L43-Apolymer9210113.02UniProt (P0CX25)
Pfam (PF01780)
Saccharomyces cerevisiae (brewer's yeast)L37a,Large ribosomal subunit protein eL43-A,YL35
50AB, XC
(Y, d3)
40S ribosomal protein S23-Apolymer14516073.92UniProt (P0CX29)
Pfam (PF00164)
Saccharomyces cerevisiae (brewer's yeast)RP37,S28,Small ribosomal subunit protein uS12-A,YS14
51EB, SC
(CS, y)
60S ribosomal protein L18-Apolymer18620609.32UniProt (P0CX49)
Pfam (PF17135)
Saccharomyces cerevisiae (brewer's yeast)Large ribosomal subunit protein eL18-A,RP28
52FB
(p0)
Large ribosomal subunit protein uL10polymer31133770.21UniProt (P05317)
Pfam (PF00466)
Pfam (PF17777)
Pfam (PF00428)
Saccharomyces cerevisiae (brewer's yeast)60S acidic ribosomal protein P0,A0,L10e
53DD, GB
(Z, d4)
40S ribosomal protein S24-Apolymer13515362.82UniProt (P0CX31)
Pfam (PF01282)
Saccharomyces cerevisiae (brewer's yeast)RP50,Small ribosomal subunit protein eS24-A
54KB, YC
(CT, z)
60S ribosomal protein L19-Apolymer18921762.32UniProt (P0CX82)
Pfam (PF01280)
Saccharomyces cerevisiae (brewer's yeast)L23,Large ribosomal subunit protein eL19-A,RP15L,RP33,YL14
55LB, TC
(sM, i)
Suppressor protein STM1polymer27330048.02UniProt (P39015)
Pfam (PF09598)
Saccharomyces cerevisiae (brewer's yeast)3BP1,GU4 nucleic-binding protein 2,G4p2 protein,POP2 multicopy suppressor protein 4,Ribosomal subunits association factor,AF,TOM1 suppressor protein 1,Triplex-binding protein 1
56JD, MB
(a, d5)
40S ribosomal protein S25-Apolymer10812067.32UniProt (Q3E792)
Pfam (PF03297)
Saccharomyces cerevisiae (brewer's yeast)RP45,S31,Small ribosomal subunit protein eS25-A,YS23
57ED, QB
(CU, 0)
60S ribosomal protein L20-Apolymer17220478.92UniProt (P0CX23)
Pfam (PF01775)
Saccharomyces cerevisiae (brewer's yeast)L18a,Large ribosomal subunit protein eL20-A
58ID, RB
(A, sR)
16S ribosomal RNApolymer1800579761.92GenBank (874346701)Saccharomyces cerevisiae (brewer's yeast)
59PD, SB
(b, d6)
Small ribosomal subunit protein eS26Bpolymer11913480.92UniProt (P39939)
Pfam (PF01283)
Saccharomyces cerevisiae (brewer's yeast)40S ribosomal protein S26-B
60KD, WB
(CV, 2)
60S ribosomal protein L21-Apolymer16018279.32UniProt (Q02753)
Pfam (PF01157)
Saccharomyces cerevisiae (brewer's yeast)Large ribosomal subunit protein eL21-A
61UD, XB
(B, s0)
40S ribosomal protein S0-Apolymer25228051.32UniProt (P32905)
Pfam (PF00318)
Saccharomyces cerevisiae (brewer's yeast)Nucleic acid-binding protein NAB1A,Small ribosomal subunit protein uS2-A
62VD, YB
(c, d7)
40S ribosomal protein S27-Apolymer828893.42UniProt (P35997)
Pfam (PF01667)
Saccharomyces cerevisiae (brewer's yeast)RP61,Small ribosomal subunit protein eS27-A,YS20
63CC, QD
(CW, 5)
60S ribosomal protein L22-Apolymer12113711.42UniProt (P05749)
Pfam (PF01776)
Saccharomyces cerevisiae (brewer's yeast)L1c,Large ribosomal subunit protein eL22-A,RP4,YL31
64AE, DC
(C, s1)
40S ribosomal protein S1-Apolymer25528798.52UniProt (P33442)
Pfam (PF01015)
Saccharomyces cerevisiae (brewer's yeast)RP10A,Small ribosomal subunit protein eS1-A
65BE, EC
(d, d8)
40S ribosomal protein S28-Apolymer677605.82UniProt (Q3E7X9)
Pfam (PF01200)
Saccharomyces cerevisiae (brewer's yeast)S33,Small ribosomal subunit protein eS28-A,YS27
66IC, WD
(CX, 6)
60S ribosomal protein L23-Apolymer13714494.02UniProt (P0CX41)
Pfam (PF00238)
Saccharomyces cerevisiae (brewer's yeast)L17a,Large ribosomal subunit protein uL14-A,YL32
67GE, JC
(D, s2)
40S ribosomal protein S2polymer25427490.82UniProt (P25443)
Pfam (PF00333)
Pfam (PF03719)
Saccharomyces cerevisiae (brewer's yeast)Omnipotent suppressor protein SUP44,RP12,S4,Small ribosomal subunit protein uS5,YS5
68HE, KC
(e, d9)
Small ribosomal subunit protein uS14Apolymer566675.72UniProt (P41057)
Pfam (PF00253)
Saccharomyces cerevisiae (brewer's yeast)40S ribosomal protein S29-A,S36,YS29
69CE, OC
(CY, 7)
60S ribosomal protein L24-Apolymer15517661.72UniProt (P04449)
Pfam (PF01246)
Saccharomyces cerevisiae (brewer's yeast)L30,Large ribosomal subunit protein eL24-A,RP29,YL21
70ME, PC
(E, s3)
Small ribosomal subunit protein uS3polymer24026542.82UniProt (P05750)
Pfam (PF07650)
Pfam (PF00189)
Saccharomyces cerevisiae (brewer's yeast)40S ribosomal protein S3,RP13,YS3
71NE, QC
(f, e0)
40S ribosomal protein S30-Apolymer637137.52UniProt (P0CX33)
Pfam (PF04758)
Saccharomyces cerevisiae (brewer's yeast)Small ribosomal subunit protein eS30-A
72IE, UC
(CZ, 8)
60S ribosomal protein L25polymer14215787.62UniProt (P04456)
Pfam (PF03939)
Pfam (PF00276)
Saccharomyces cerevisiae (brewer's yeast)Large ribosomal subunit protein uL23,RP16L,YL25,YP42'
73SE, VC
(F, s4)
40S ribosomal protein S4-Apolymer26129469.32UniProt (P0CX35)
Pfam (PF08071)
Pfam (PF01479)
Pfam (PF00900)
Pfam (PF00467)
Pfam (PF16121)
Saccharomyces cerevisiae (brewer's yeast)RP5,S7,Small ribosomal subunit protein eS4-A,YS6
74WC
(g)
Ubiquitinpolymer15217254.21UniProt (P05759)
Pfam (PF01599)
Pfam (PF00240)
Saccharomyces cerevisiae (brewer's yeast)
75ZC, ZE
(AR, 1)
25S ribosomal RNApolymer33961097493.92Saccharomyces cerevisiae
76AD, OE
(DA, 9)
60S ribosomal protein L26-Apolymer12714265.82UniProt (P05743)
Pfam (PF16906)
Pfam (PF00467)
Saccharomyces cerevisiae (brewer's yeast)L33,Large ribosomal subunit protein uL24-A,YL33
77BD, YE
(G, s5)
40S ribosomal protein S5polymer22525072.62UniProt (P26783)
Pfam (PF00177)
Saccharomyces cerevisiae (brewer's yeast)RP14,S2,Small ribosomal subunit protein uS7,YS8
78CD, OD
(h, Rb)
Guanine nucleotide-binding protein subunit beta-like proteinpolymer31934841.22UniProt (P38011)
Pfam (PF00400)
Saccharomyces cerevisiae (brewer's yeast)Receptor for activated C kinase,Receptor of activated protein kinase C 1,RACK1,Small ribosomal subunit protein RACK1
79GD, UE
(DB, AA)
60S ribosomal protein L27-Apolymer13615568.42UniProt (P0C2H6)
Pfam (PF01777)
Saccharomyces cerevisiae (brewer's yeast)Large ribosomal subunit protein eL27-A
80AAA, AAC, ADB, AF, AFA...
(AR, 1, sR, 3, AK...)
osmium (III) hexamminenon-polymer286.4935Chemie (OHX)
81AAB, ABA, ABB, ABC, ACA...
(AR, 1, AS, sR, AB...)
MAGNESIUM IONnon-polymer24.31490Chemie (MG)
82BV, FV, HQB, KPB, LJ...
(AP, e, d9, d6, DQ...)
ZINC IONnon-polymer65.415Chemie (ZN)
83LAB, MW, RX, ZSB
(AR, 1)
POTASSIUM IONnon-polymer39.14Chemie (K)
84GMA, ZXB
(AR, 1)
(3~{R})-3-[(1~{S})-2-[(1~{R},3~{S},4~{a}~{S},7~{S},8~{a}~{S})-7-bromanyl-5,5,8~{a}-trimethyl-2-methylidene-3-oxidanyl-3,4,4~{a},6,7,8-hexahydro-1~{H}-naphthalen-1-yl]-1-oxidanyl-ethyl]pyrrolidine-2,5-dionenon-polymer428.42Chemie (ZWB)
85DUB, GZA, MNA, SOA
(1, AR)
SPERMIDINEnon-polymer145.24Chemie (SPD)
86AWC, GVC, HVC, IVC, JVC...
(1, 3, CK, R, s8...)
waterwater18.0412Chemie (HOH)
Sequence modifications
p0: 1 - 312 (UniProt: P05317)
PDBExternal DatabaseDetails
Gly 111Arg 110conflict
Leu 112Ala 111conflict
Thr 113Gly 112conflict
Val 114Ala 113conflict
Gln 116Ala 115conflict
Val 117Pro 116conflict
Tyr 118Glu 117conflict
-Val 124deletion
Gly 126Thr 126conflict
Gln 127Gly 127conflict
Val 128Met 128conflict
Phe 129Glu 129conflict
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains156
Total formula weight6257496.6
Non-Polymers*Number of molecules2450
Total formula weight306541.0
All*Total formula weight6564037.6
*Water molecules are not included.

246031

PDB entries from 2025-12-10

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