ISDA: 8RXH

Deposition Date 2024-02-07

Release Date 2024-05-15

Last Version Date 2024-11-20

Entry Detail

PDB ID:

8RXH

Keywords:

RIBOSOME

Title:

CRYO-EM STRUCTURE OF LEISHMANIA MAJOR 80S RIBOSOME WITH A/P/E-site tRNA AND mRNA : PARENTAL STRAIN

Biological Source:

Source Organism:

Leishmania major strain Friedlin (Taxon ID: 347515)

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

2.93 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Polymer Type:polyribonucleotide
Molecule:LSUa_rRNA_chain_1
Chain IDs:A (auth: L1)
Chain Length:1782
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Polymer Type:polyribonucleotide
Molecule:LSUb_rRNA_chain_2
Chain IDs:B (auth: L2)
Chain Length:1526
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Polymer Type:polyribonucleotide
Molecule:SR1_chain_3
Chain IDs:C (auth: L3)
Chain Length:216
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Polymer Type:polyribonucleotide
Molecule:SR2_chain_4
Chain IDs:D (auth: L4)
Chain Length:184
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Polymer Type:polyribonucleotide
Molecule:SR4_chain_5
Chain IDs:E (auth: L5)
Chain Length:135
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Polymer Type:polyribonucleotide
Molecule:SR6_chain_6
Chain IDs:F (auth: L6)
Chain Length:73
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Polymer Type:polyribonucleotide
Molecule:5.8S_rRNA_chain_7
Chain IDs:G (auth: L7)
Chain Length:171
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Polymer Type:polyribonucleotide
Molecule:5S_rRNA_chain_8
Chain IDs:H (auth: L8)
Chain Length:124
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L2
Gene (Uniprot):LMJF_32_3900, LMJF_35_1430, LMJF_35_1440
Chain IDs:I (auth: LA)
Chain Length:127
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4FWX5 Pfam ID:PF00181, PF03947

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative ribosomal protein L3
Gene (Uniprot):LMJF_32_3130, LMJF_34_2870, LMJF_34_2880, LMJF_34_2890, LMJF_34_2900
Chain IDs:J (auth: LB)
Chain Length:419
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q2Q6 Pfam ID:PF00297

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative ribosomal protein L1a
Gene (Uniprot):LMJF_29_1070, LMJF_29_1090
Chain IDs:K (auth: LC)
Chain Length:373
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:E9ADW5 Pfam ID:PF00573, PF14374

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L11
Gene (Uniprot):RPL11
Chain IDs:L (auth: LD)
Chain Length:104
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:P48157 Pfam ID:PF00281, PF00673

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L9
Gene (Uniprot):LMJF_21_1050
Chain IDs:M (auth: LE)
Chain Length:190
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QC91 Pfam ID:PF00347

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L6
Gene (Uniprot):LMJF_33_0720
Chain IDs:N (auth: LF)
Chain Length:133
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q4D3 Pfam ID:PF01159

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L7a
Gene (Uniprot):LMJF_07_0500, LMJF_07_0510
Chain IDs:O (auth: LG)
Chain Length:264
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QIP1 Pfam ID:PF01248

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L13a
Gene (Uniprot):LMJF_15_0200
Chain IDs:P (auth: LH)
Chain Length:222
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QFG2 Pfam ID:PF00572

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L13
Gene (Uniprot):LMJF_29_2460
Chain IDs:Q (auth: LI)
Chain Length:105
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:E9AEA8 Pfam ID:PF01294

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L23
Gene (Uniprot):LMJF_35_3790, LMJF_35_3800
Chain IDs:R (auth: LJ)
Chain Length:139
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:E9AFK3 Pfam ID:PF00238

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein L14
Gene (Uniprot):LMJF_22_1520, LMJF_22_1560
Chain IDs:S (auth: LK)
Chain Length:83
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QBJ1 Pfam ID:PF00467, PF01929

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L27A/L29
Gene (Uniprot):LMJF_35_3760, LMJF_35_3780
Chain IDs:T (auth: LL)
Chain Length:51
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:E9AFK0 Pfam ID:PF00828

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L15
Gene (Uniprot):LMJF_30_3650
Chain IDs:U (auth: LM)
Chain Length:204
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q6S3 Pfam ID:PF00827

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L10
Gene (Uniprot):LMJF_04_0750, LMJF_04_0950
Chain IDs:V (auth: LN)
Chain Length:213
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:O97213 Pfam ID:PF00252

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L5
Gene (Uniprot):LMJF_35_1880, LMJF_35_1900
Chain IDs:W (auth: LO)
Chain Length:305
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:E9AF09 Pfam ID:PF17144, PF14204

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L18
Gene (Uniprot):RPL18-A, RPL18-B
Chain IDs:X (auth: LP)
Chain Length:106
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QG98 Pfam ID:PF17135

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L19
Gene (Uniprot):LMJF_06_0415
Chain IDs:Y (auth: LQ)
Chain Length:254
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QJ37 Pfam ID:PF01280

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L18a
Gene (Uniprot):LMJF_32_0880, LMJF_35_0600
Chain IDs:Z (auth: LR)
Chain Length:179
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q5J4 Pfam ID:PF01775

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L21
Gene (Uniprot):LMJF_16_0460
Chain IDs:AA (auth: LS)
Chain Length:159
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QEX4 Pfam ID:PF01157

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L17
Gene (Uniprot):LMJF_24_0040
Chain IDs:BA (auth: LT)
Chain Length:166
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QAX6 Pfam ID:PF00237

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L22
Gene (Uniprot):LMJF_36_3270, LMJF_36_4420
Chain IDs:CA (auth: LU)
Chain Length:129
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q0X2 Pfam ID:PF01776

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L23a
Gene (Uniprot):LMJF_06_0570, LMJF_06_0580
Chain IDs:DA (auth: LV)
Chain Length:145
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QJ20 Pfam ID:PF00276

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L26
Gene (Uniprot):LMJF_24_2050, LMJF_35_1670
Chain IDs:EA (auth: LW)
Chain Length:143
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QAC5 Pfam ID:PF16906, PF00467

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative ribosomal protein L24
Gene (Uniprot):LMJF_36_1070, LMJF_36_1100
Chain IDs:FA (auth: LX)
Chain Length:124
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q1W6 Pfam ID:PF01246

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L27
Gene (Uniprot):LMJF_32_2690, LMJF_32_2710
Chain IDs:GA (auth: LY)
Chain Length:134
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q504 Pfam ID:PF00467, PF01777

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L28
Gene (Uniprot):LMJF_11_1110, LMJF_11_1130
Chain IDs:HA (auth: LZ)
Chain Length:147
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QGW7 Pfam ID:PF01778

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L35
Gene (Uniprot):LMJF_26_2330, LMJF_26_2340
Chain IDs:IA (auth: La)
Chain Length:127
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q8V7 Pfam ID:PF00831

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L29
Gene (Uniprot):LMJF_36_3390, LMJF_36_3400
Chain IDs:JA (auth: Lb)
Chain Length:419
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q178 Pfam ID:PF01779

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L7
Gene (Uniprot):LMJF_26_0170, LMJF_26_0180
Chain IDs:KA (auth: Lc)
Chain Length:373
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q9H4 Pfam ID:PF08079, PF00327

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L30
Gene (Uniprot):LMJF_35_0240
Chain IDs:LA (auth: Ld)
Chain Length:104
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:E9AEK1 Pfam ID:PF01248

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal subunit protein L31
Gene (Uniprot):LMJF_35_3280, LMJF_35_3290
Chain IDs:MA (auth: Le)
Chain Length:190
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:E9AFF2 Pfam ID:PF01198

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L32
Gene (Uniprot):RPL32
Chain IDs:NA (auth: Lf)
Chain Length:133
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QC11 Pfam ID:PF01655

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative ribosomal protein l35a
Gene (Uniprot):LMJF_10_0070, LMJF_34_2470
Chain IDs:OA (auth: Lg)
Chain Length:264
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QHL3 Pfam ID:PF01247

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L34
Gene (Uniprot):LMJF_18_1400
Chain IDs:PA (auth: Lh)
Chain Length:222
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QDP9 Pfam ID:PF01199

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S Ribosomal protein L36
Gene (Uniprot):LMJF_21_0730
Chain IDs:QA (auth: Li)
Chain Length:105
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QCE1 Pfam ID:PF01158

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L37
Gene (Uniprot):LMJF_33_1955
Chain IDs:RA (auth: Lj)
Chain Length:139
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:E9AEH2 Pfam ID:PF01907

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative ribosomal protein L38
Gene (Uniprot):LMJF_03_0250, LMJF_26_2220
Chain IDs:SA (auth: Lk)
Chain Length:83
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q8X0 Pfam ID:PF01781

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L39
Gene (Uniprot):LMJF_16_1170, LMJF_29_2370
Chain IDs:TA (auth: Ll)
Chain Length:51
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QEQ0 Pfam ID:PF00832

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ubiquitin-60S ribosomal protein L40
Gene (Uniprot):UB-EP52, LmjF31.2030, LmjF_31_2030
Chain IDs:UA (auth: Lm)
Chain Length:204
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:P69201 Pfam ID:PF00240, PF01020

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L41
Chain IDs:VA (auth: Ln)
Chain Length:213
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:60S ribosomal protein L37a
Gene (Uniprot):LMJF_21_1820, LMJF_36_1925
Chain IDs:WA (auth: Lo)
Chain Length:305
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QC01 Pfam ID:PF01780

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 60S ribosomal protein L44
Gene (Uniprot):LMJF_13_1670, LMJF_33_3230
Chain IDs:XA (auth: Lp)
Chain Length:106
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q3L3 Pfam ID:PF00935

Polymer Type:polyribonucleotide
Molecule:SSU_rRNA_chain_S1
Chain IDs:YA (auth: S1)
Chain Length:2204
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Polymer Type:polyribonucleotide
Molecule:A-site_tRNA_chain_S2
Chain IDs:ZA (auth: S2)
Chain Length:76
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Polymer Type:polyribonucleotide
Molecule:P-site_tRNA_chain_S3
Chain IDs:AB (auth: S3)
Chain Length:77
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Polymer Type:polyribonucleotide
Molecule:E-site_tRNA_chain_S4
Chain IDs:BB (auth: S4)
Chain Length:76
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Polymer Type:polyribonucleotide
Molecule:mRNA_chain_S5
Chain IDs:CB (auth: S5)
Chain Length:13
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S3a
Gene (Uniprot):LmjF.35.0400, LmjF.35.0410, LmjF.35.0420
Chain IDs:DB (auth: SA)
Chain Length:264
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4FX73 Pfam ID:PF01015

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein SA
Gene (Uniprot):LmjF36.5010, LmjF_36_5010, LmjF36.5120, LmjF_36_5120
Chain IDs:EB (auth: SB)
Chain Length:246
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q0Q0 Pfam ID:PF00318

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein S3
Gene (Uniprot):LMJF_15_0950, LMJF_33_0920
Chain IDs:FB (auth: SC)
Chain Length:86
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q4A0 Pfam ID:PF07650, PF00189

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein S9
Gene (Uniprot):LMJF_07_0680
Chain IDs:GB (auth: SD)
Chain Length:87
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QIM3 Pfam ID:PF00163, PF01479

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S4
Gene (Uniprot):RS4
Chain IDs:HB (auth: SE)
Chain Length:66
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QG31 Pfam ID:PF08071, PF01479, PF00900, PF00467, PF16121

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S2
Gene (Uniprot):LMJF_19_0060
Chain IDs:IB (auth: SF)
Chain Length:265
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QDL5 Pfam ID:PF00333, PF03719

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S6
Gene (Uniprot):RPS6
Chain IDs:JB (auth: SG)
Chain Length:312
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q9NE83 Pfam ID:PF01092

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S5
Gene (Uniprot):LMJF_11_0960, LMJF_11_0970
Chain IDs:KB (auth: SH)
Chain Length:235
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q868B1 Pfam ID:PF00177

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S7
Gene (Uniprot):LMJF_01_0410, LMJF_01_0420
Chain IDs:LB (auth: SI)
Chain Length:200
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:E9AC32 Pfam ID:PF01251

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein S15A
Gene (Uniprot):LMJF_11_1190, LMJF_29_1800
Chain IDs:MB (auth: SJ)
Chain Length:130
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QGW3 Pfam ID:PF00410

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S8
Gene (Uniprot):RPS8A, RPS8B
Chain IDs:NB (auth: SK)
Chain Length:220
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:P25204 Pfam ID:PF01201

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein S16
Gene (Uniprot):LMJF_26_0880, LMJF_26_0890
Chain IDs:OB (auth: SL)
Chain Length:149
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q9A5 Pfam ID:PF00380

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative ribosomal protein S20
Gene (Uniprot):LMJF_28_1010, LMJF_28_1030
Chain IDs:PB (auth: SM)
Chain Length:116
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q8G4 Pfam ID:PF00338

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein S10
Gene (Uniprot):LMJF_36_0980, LMJF_36_0990
Chain IDs:QB (auth: SN)
Chain Length:168
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q1X7 Pfam ID:PF03501

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S14
Gene (Uniprot):LMJF_28_0960
Chain IDs:RB (auth: SO)
Chain Length:144
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q8H1 Pfam ID:PF00411

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein S23
Gene (Uniprot):LMJF_21_1060, LMJF_21_1070
Chain IDs:SB (auth: SP)
Chain Length:143
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QC89 Pfam ID:PF00164

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S12
Gene (Uniprot):LMJF_13_0570
Chain IDs:TB (auth: SQ)
Chain Length:141
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QG97 Pfam ID:PF01248

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein S18
Gene (Uniprot):LMJF_36_0930
Chain IDs:UB (auth: SR)
Chain Length:153
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q1Y3 Pfam ID:PF00416

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative ribosomal protein S29
Gene (Uniprot):LMJF_28_2205, LMJF_28_2460
Chain IDs:VB (auth: SS)
Chain Length:57
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q817 Pfam ID:PF00253

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein S13
Gene (Uniprot):LMJF_19_0390, LMJF_33_3150
Chain IDs:WB (auth: ST)
Chain Length:151
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q3M1 Pfam ID:PF08069, PF00312

Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S17 family protein
Chain IDs:XB (auth: SU)
Chain Length:173
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein S17
Gene (Uniprot):LMJF_28_2555, LMJF_28_2560
Chain IDs:YB (auth: SV)
Chain Length:143
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q806 Pfam ID:PF00833

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein S15
Gene (Uniprot):LMJF_22_0420, LMJF_22_0460
Chain IDs:ZB (auth: SW)
Chain Length:152
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QBV0 Pfam ID:PF00203

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S19-like protein
Gene (Uniprot):LMJF_29_2860
Chain IDs:AC (auth: SX)
Chain Length:161
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:E9AEE8 Pfam ID:PF01090

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein S21
Gene (Uniprot):LMJF_11_0760, LMJF_11_0780
Chain IDs:BC (auth: SY)
Chain Length:164
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QH01 Pfam ID:PF01249

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S24
Gene (Uniprot):S24E-2
Chain IDs:CC (auth: SZ)
Chain Length:137
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q1D2 Pfam ID:PF01282

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S25
Gene (Uniprot):LMJF_25_1190
Chain IDs:DC (auth: Sa)
Chain Length:264
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q9X4 Pfam ID:PF03297

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S26
Gene (Uniprot):LMJF_28_0540
Chain IDs:EC (auth: Sb)
Chain Length:246
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q8L6 Pfam ID:PF01283

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein S27-1
Gene (Uniprot):LMJF_36_3750
Chain IDs:FC (auth: Sc)
Chain Length:86
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q140 Pfam ID:PF01667

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative 40S ribosomal protein S33
Gene (Uniprot):S33-1
Chain IDs:GC (auth: Sd)
Chain Length:87
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q931 Pfam ID:PF01200

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S30
Gene (Uniprot):LMJF_30_0670, LMJF_30_0680, LMJF_30_0690
Chain IDs:HC (auth: Se)
Chain Length:66
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q7P0 Pfam ID:PF04758

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ubiquitin-60S ribosomal protein L40
Gene (Uniprot):LMJF_14_1270
Chain IDs:IC (auth: Sf)
Chain Length:265
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4QFK7 Pfam ID:PF00240, PF01599

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Guanine nucleotide-binding protein subunit beta-like protein
Gene (Uniprot):LACK2
Chain IDs:JC (auth: Sg)
Chain Length:312
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q7Y7 Pfam ID:PF00400

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Putative RNA binding protein
Gene (Uniprot):LMJF_32_0750
Chain IDs:KC (auth: Sh)
Chain Length:235
Number of Molecules:1
Biological Source:Leishmania major strain Friedlin

UniProt ID:Q4Q5K7 Pfam ID:PF00076

Modified Residue

Compound ID	Chain ID	Parent Comp ID	Details
A2M	G	A	modified residue
OMG	G	G	modified residue
OMU	C	U	modified residue
PSU	G	U	modified residue

Ligand Molecules

A1H4F

Primary Citation

Structural and mechanistic insights into the function of Leishmania ribosome lacking a single pseudouridine modification.

Rajan, K.S, Aryal, S, Hiregange, D.G, Bashan, A, Madmoni, H, Olami, M, Doniger, T, Cohen-Chalamish, S, Pescher, P, Taoka, M, Nobe, Y, Fedorenko, A, Bose, T, Zimermann, E, Prina, E, Aharon-Hefetz, N, Pilpel, Y, Isobe, T, Unger, R, Spath, G.F, Yonath, A, Michaeli, S.Show

Cell Rep 43 114203 114203 (2024)

PMID: 38722744 DOI: 10.1016/j.celrep.2024.114203

Abstact

Leishmania is the causative agent of cutaneous and visceral diseases affecting millions of individuals worldwide. Pseudouridine (Ψ), the most abundant modification on rRNA, changes during the parasite life cycle. Alterations in the level of a specific Ψ in helix 69 (H69) affected ribosome function. To decipher the molecular mechanism of this phenotype, we determine the structure of ribosomes lacking the single Ψ and its parental strain at ∼2.4-3 Å resolution using cryo-EM. Our findings demonstrate the significance of a single Ψ on H69 to its structure and the importance for its interactions with helix 44 and specific tRNAs. Our study suggests that rRNA modification affects translation of mRNAs carrying codon bias due to selective accommodation of tRNAs by the ribosome. Based on the high-resolution structures, we propose a mechanism explaining how the ribosome selects specific tRNAs.

Legend

Protein

Chemical

Disease

Primary Citation of related structures

Abstact

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