6AZ3

Cryo-EM structure of of the large subunit of Leishmania ribosome bound to paromomycin

This is a non-PDB format compatible entry.

Functional Information from GO Data

Chain	GOid	namespace	contents
a	0000463	biological_process	maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
a	0003729	molecular_function	mRNA binding
a	0003735	molecular_function	structural constituent of ribosome
a	0005840	cellular_component	ribosome
a	0006412	biological_process	translation
a	0022625	cellular_component	cytosolic large ribosomal subunit
a	1990904	cellular_component	ribonucleoprotein complex
A	0003735	molecular_function	structural constituent of ribosome
A	0005840	cellular_component	ribosome
A	0006412	biological_process	translation
b	0003735	molecular_function	structural constituent of ribosome
b	0005840	cellular_component	ribosome
b	0006412	biological_process	translation
B	0003735	molecular_function	structural constituent of ribosome
B	0005840	cellular_component	ribosome
B	0006412	biological_process	translation
c	0003723	molecular_function	RNA binding
C	0003735	molecular_function	structural constituent of ribosome
C	0005840	cellular_component	ribosome
C	0006412	biological_process	translation
C	1990904	cellular_component	ribonucleoprotein complex
d	0003723	molecular_function	RNA binding
D	0003735	molecular_function	structural constituent of ribosome
D	0005840	cellular_component	ribosome
D	0006412	biological_process	translation
e	0003735	molecular_function	structural constituent of ribosome
e	0005840	cellular_component	ribosome
e	0006412	biological_process	translation
E	0002181	biological_process	cytoplasmic translation
E	0003735	molecular_function	structural constituent of ribosome
E	0005840	cellular_component	ribosome
E	0006412	biological_process	translation
E	0019843	molecular_function	rRNA binding
E	0022625	cellular_component	cytosolic large ribosomal subunit
E	1990904	cellular_component	ribonucleoprotein complex
f	0003735	molecular_function	structural constituent of ribosome
f	0005840	cellular_component	ribosome
f	0006412	biological_process	translation
f	0022625	cellular_component	cytosolic large ribosomal subunit
f	1990904	cellular_component	ribonucleoprotein complex
F	0003735	molecular_function	structural constituent of ribosome
F	0005840	cellular_component	ribosome
F	0006412	biological_process	translation
g	0003735	molecular_function	structural constituent of ribosome
g	0005840	cellular_component	ribosome
g	0006412	biological_process	translation
G	0003723	molecular_function	RNA binding
G	0005840	cellular_component	ribosome
G	0022625	cellular_component	cytosolic large ribosomal subunit
G	1990904	cellular_component	ribonucleoprotein complex
h	0003735	molecular_function	structural constituent of ribosome
h	0005840	cellular_component	ribosome
h	0006412	biological_process	translation
H	0003735	molecular_function	structural constituent of ribosome
H	0005840	cellular_component	ribosome
H	0006412	biological_process	translation
H	0015934	cellular_component	large ribosomal subunit
i	0003735	molecular_function	structural constituent of ribosome
i	0005840	cellular_component	ribosome
i	0006412	biological_process	translation
i	1990904	cellular_component	ribonucleoprotein complex
I	0003735	molecular_function	structural constituent of ribosome
I	0005840	cellular_component	ribosome
I	0006412	biological_process	translation
j	0003723	molecular_function	RNA binding
j	0003735	molecular_function	structural constituent of ribosome
j	0005840	cellular_component	ribosome
j	0006412	biological_process	translation
j	0008270	molecular_function	zinc ion binding
j	0019843	molecular_function	rRNA binding
j	0022625	cellular_component	cytosolic large ribosomal subunit
j	0046872	molecular_function	metal ion binding
j	1990904	cellular_component	ribonucleoprotein complex
J	0003735	molecular_function	structural constituent of ribosome
J	0005840	cellular_component	ribosome
J	0006412	biological_process	translation
J	0022625	cellular_component	cytosolic large ribosomal subunit
J	0070180	molecular_function	large ribosomal subunit rRNA binding
J	1990904	cellular_component	ribonucleoprotein complex
k	0003735	molecular_function	structural constituent of ribosome
k	0005840	cellular_component	ribosome
k	0006412	biological_process	translation
K	0003723	molecular_function	RNA binding
K	0003735	molecular_function	structural constituent of ribosome
K	0005840	cellular_component	ribosome
K	0006412	biological_process	translation
l	0003735	molecular_function	structural constituent of ribosome
l	0005840	cellular_component	ribosome
l	0006412	biological_process	translation
l	0022625	cellular_component	cytosolic large ribosomal subunit
l	1990904	cellular_component	ribonucleoprotein complex
L	0003735	molecular_function	structural constituent of ribosome
L	0005840	cellular_component	ribosome
L	0006412	biological_process	translation
L	0015934	cellular_component	large ribosomal subunit
L	0022625	cellular_component	cytosolic large ribosomal subunit
L	1990904	cellular_component	ribonucleoprotein complex
m	0003735	molecular_function	structural constituent of ribosome
m	0005840	cellular_component	ribosome
m	0006412	biological_process	translation
M	0002181	biological_process	cytoplasmic translation
M	0003723	molecular_function	RNA binding
M	0003735	molecular_function	structural constituent of ribosome
M	0005840	cellular_component	ribosome
M	0006412	biological_process	translation
M	0022625	cellular_component	cytosolic large ribosomal subunit
M	1990904	cellular_component	ribonucleoprotein complex
n	0003735	molecular_function	structural constituent of ribosome
n	0005840	cellular_component	ribosome
n	0006412	biological_process	translation
N	0003735	molecular_function	structural constituent of ribosome
N	0005840	cellular_component	ribosome
N	0006412	biological_process	translation
N	1990904	cellular_component	ribonucleoprotein complex
o	0003735	molecular_function	structural constituent of ribosome
o	0005840	cellular_component	ribosome
o	0006412	biological_process	translation
o	1990904	cellular_component	ribonucleoprotein complex
O	0000027	biological_process	ribosomal large subunit assembly
O	0003735	molecular_function	structural constituent of ribosome
O	0005737	cellular_component	cytoplasm
O	0005840	cellular_component	ribosome
O	0006412	biological_process	translation
O	0008097	molecular_function	5S rRNA binding
O	0022625	cellular_component	cytosolic large ribosomal subunit
O	0022626	cellular_component	cytosolic ribosome
O	1990904	cellular_component	ribonucleoprotein complex
p	0003735	molecular_function	structural constituent of ribosome
p	0005840	cellular_component	ribosome
p	0006412	biological_process	translation
p	1990904	cellular_component	ribonucleoprotein complex
P	0003723	molecular_function	RNA binding
P	0003735	molecular_function	structural constituent of ribosome
P	0005737	cellular_component	cytoplasm
P	0005840	cellular_component	ribosome
P	0006412	biological_process	translation
P	0022625	cellular_component	cytosolic large ribosomal subunit
P	1990904	cellular_component	ribonucleoprotein complex
Q	0003723	molecular_function	RNA binding
Q	0003735	molecular_function	structural constituent of ribosome
Q	0005840	cellular_component	ribosome
Q	0006412	biological_process	translation
Q	0022625	cellular_component	cytosolic large ribosomal subunit
R	0003735	molecular_function	structural constituent of ribosome
R	0005840	cellular_component	ribosome
R	0006412	biological_process	translation
R	1990904	cellular_component	ribonucleoprotein complex
S	0003735	molecular_function	structural constituent of ribosome
S	0005840	cellular_component	ribosome
S	0006412	biological_process	translation
S	1990904	cellular_component	ribonucleoprotein complex
T	0002181	biological_process	cytoplasmic translation
T	0003735	molecular_function	structural constituent of ribosome
T	0005840	cellular_component	ribosome
T	0006412	biological_process	translation
T	0015934	cellular_component	large ribosomal subunit
T	0022625	cellular_component	cytosolic large ribosomal subunit
T	1990904	cellular_component	ribonucleoprotein complex
U	0002181	biological_process	cytoplasmic translation
U	0003723	molecular_function	RNA binding
U	0003735	molecular_function	structural constituent of ribosome
U	0005840	cellular_component	ribosome
U	0006412	biological_process	translation
U	1990904	cellular_component	ribonucleoprotein complex
V	0003735	molecular_function	structural constituent of ribosome
V	0005840	cellular_component	ribosome
V	0006412	biological_process	translation
V	0019843	molecular_function	rRNA binding
W	0003723	molecular_function	RNA binding
W	0003735	molecular_function	structural constituent of ribosome
W	0006412	biological_process	translation
W	0015934	cellular_component	large ribosomal subunit
Y	0003735	molecular_function	structural constituent of ribosome
Y	0005840	cellular_component	ribosome
Y	0006412	biological_process	translation
Z	0003735	molecular_function	structural constituent of ribosome
Z	0005840	cellular_component	ribosome
Z	0006412	biological_process	translation
Z	1990904	cellular_component	ribonucleoprotein complex

Functional Information from PDB Data

site_id	AC1
Number of Residues	11
Details	binding site for residue PAR 1 1801

Chain	Residue
1	U771
P	ARG149
P	ARG157
1	G772
1	G773
1	C804
1	U833
1	U834
1	G835
1	A837
P	ARG66

---

site_id	AC2
Number of Residues	12
Details	binding site for residue PAR 1 1802

Chain	Residue
1	OMC695
1	A2M697
1	A698
1	C699
1	A700
1	G701
1	C843
1	C844
1	OMU845
1	HOH2008
C	ARG109
M	ARG204

---

site_id	AC3
Number of Residues	9
Details	binding site for residue PAR 1 1803

Chain	Residue
1	G1022
1	G1023
1	U1024
1	G1163
1	C1164
1	A1165
P	SER9
P	LYS10
P	SER12

---

site_id	AC4
Number of Residues	8
Details	binding site for residue PAR 1 1804

Chain	Residue
1	A470
1	G471
1	U472
1	A473
1	G656
1	G658
1	G659
g	GLY123

---

site_id	AC5
Number of Residues	6
Details	binding site for residue PAR 1 1805

Chain	Residue
1	G893
1	G894
1	G895
1	G896
1	C900
1	C901

---

site_id	AC6
Number of Residues	2
Details	binding site for residue MG 1 1806

Chain	Residue
1	G385
C	GLY98

---

site_id	AC7
Number of Residues	1
Details	binding site for residue MG 1 1808

Chain	Residue
1	A1460

---

site_id	AC8
Number of Residues	2
Details	binding site for residue MG 1 1811

Chain	Residue
1	A692
1	U1522

---

site_id	AC9
Number of Residues	2
Details	binding site for residue MG 1 1812

Chain	Residue
1	U914
1	A944

---

site_id	AD1
Number of Residues	1
Details	binding site for residue MG 1 1813

Chain	Residue
1	A60

---

site_id	AD2
Number of Residues	1
Details	binding site for residue MG 1 1814

Chain	Residue
1	A50

---

site_id	AD3
Number of Residues	1
Details	binding site for residue MG 1 1815

Chain	Residue
1	C1623

---

site_id	AD4
Number of Residues	2
Details	binding site for residue MG 1 1816

Chain	Residue
1	A61
1	U360

---

site_id	AD5
Number of Residues	3
Details	binding site for residue MG 1 1817

Chain	Residue
1	G1614
1	C1615
1	A1616

---

site_id	AD6
Number of Residues	3
Details	binding site for residue MG 1 1818

Chain	Residue
1	U1586
1	G1587
2	U54

---

site_id	AD7
Number of Residues	2
Details	binding site for residue MG 1 1819

Chain	Residue
1	U307
1	G309

---

site_id	AD8
Number of Residues	2
Details	binding site for residue MG 1 1820

Chain	Residue
1	U742
1	C744

---

site_id	AD9
Number of Residues	1
Details	binding site for residue MG 1 1821

Chain	Residue
1	G676

---

site_id	AE1
Number of Residues	1
Details	binding site for residue MG 1 1822

Chain	Residue
1	G249

---

site_id	AE2
Number of Residues	3
Details	binding site for residue MG 1 1823

Chain	Residue
1	C982
1	A984
C	MET59

---

site_id	AE3
Number of Residues	1
Details	binding site for residue MG 1 1826

Chain	Residue
1	G114

---

site_id	AE4
Number of Residues	2
Details	binding site for residue MG 2 1701

Chain	Residue
1	G967
2	G1396

---

site_id	AE5
Number of Residues	4
Details	binding site for residue C 2 1601

Chain	Residue
2	C1471
2	A1496
2	G1497
2	C1526

---

site_id	AE6
Number of Residues	11
Details	binding site for residue PAR 2 1702

Chain	Residue
2	G406
2	C410
2	C411
2	A413
2	G414
2	G416
2	U672
2	U1023
2	C1024
2	U1025
2	PAR1703

---

site_id	AE7
Number of Residues	14
Details	binding site for residue PAR 2 1703

Chain	Residue
2	C763
2	G764
2	A765
2	U1023
2	C1024
2	PAR1702
2	A404
2	G406
2	C407
2	U418
2	G419
2	U420
2	U422
2	A423

---

site_id	AE8
Number of Residues	7
Details	binding site for residue PAR 2 1704

Chain	Residue
2	G447
2	C481
2	G664
2	C668
2	U1032
2	G1033
2	HOH1968

---

site_id	AE9
Number of Residues	8
Details	binding site for residue PAR 2 1705

Chain	Residue
2	G519
2	U520
2	A521
2	G551
2	C552
2	G553
2	U556
2	G557

---

site_id	AF1
Number of Residues	1
Details	binding site for residue MG 2 1706

Chain	Residue
2	G380

---

site_id	AF2
Number of Residues	1
Details	binding site for residue MG 2 1708

Chain	Residue
2	C1193

---

site_id	AF3
Number of Residues	1
Details	binding site for residue MG 2 1709

Chain	Residue
2	A1226

---

site_id	AF4
Number of Residues	1
Details	binding site for residue MG 2 1711

Chain	Residue
2	G34

---

site_id	AF5
Number of Residues	1
Details	binding site for residue MG 5 201

Chain	Residue
5	A14

---

site_id	AF6
Number of Residues	12
Details	binding site for residue PAR 7 201

Chain	Residue
1	U439
1	A449
1	G450
1	U1488
1	U1489
1	U1507
4	G9
7	G9
7	C10
7	G11
7	A12
7	HOH301

---

site_id	AF7
Number of Residues	2
Details	binding site for residue MG 7 202

Chain	Residue
7	C105
7	A108

---

site_id	AF8
Number of Residues	1
Details	binding site for residue MG 7 203

Chain	Residue
1	A382

---

site_id	AF9
Number of Residues	10
Details	binding site for residues A2M 1 1541 and OMG 1 1542

Chain	Residue
1	U1540
1	C1543
1	HOH1995
2	U595
2	G599
2	C600
2	G601
2	A602
2	C1422
2	HOH1820

---

Functional Information from PROSITE/UniProt

site_id	PS01171
Number of Residues	26
Details	RIBOSOMAL_L21E Ribosomal protein L21e signature. GDyVdvvadsavre.GmpHkyYhGrTG

Chain	Residue	Details
S	GLY37-GLY62

---

site_id	PS00634
Number of Residues	33
Details	RIBOSOMAL_L30 Ribosomal protein L30 signature. ILqlLrLrQifNtVfvkmnkpmenMLraVepYI

Chain	Residue	Details
c	ILE112-ILE144

---

site_id	PS00467
Number of Residues	12
Details	RIBOSOMAL_L2 Ribosomal protein L2 signature. PkvRGVArNPvE

Chain	Residue	Details
A	PRO197-GLU208

---

site_id	PS00051
Number of Residues	17
Details	RIBOSOMAL_L39E Ribosomal protein L39e signature. RTgnrIkwNekrRHWRR

Chain	Residue	Details
l	ARG30-ARG46

---

site_id	PS01077
Number of Residues	20
Details	RIBOSOMAL_L37E Ribosomal protein L37e signature. GTtSmGqRhgrt.HilCrRCG

Chain	Residue	Details
j	GLY4-GLY23

---

site_id	PS00464
Number of Residues	25
Details	RIBOSOMAL_L22 Ribosomal protein L22 signature. RrrTyRAhGRitpymcspCHVQLfM

Chain	Residue	Details
T	ARG126-MET150

---

site_id	PS00700
Number of Residues	22
Details	RIBOSOMAL_L6_2 Ribosomal protein L6 signature 2. QmclVkkKdiRkFlDGIYVqtK

Chain	Residue	Details
E	GLN162-LYS183

---

site_id	PS00474
Number of Residues	24
Details	RIBOSOMAL_L3 Ribosomal protein L3 signature. FqqseacDvcSvTkGHGteGvvkR

Chain	Residue	Details
B	PHE214-ARG237

---

site_id	PS00050
Number of Residues	16
Details	RIBOSOMAL_L23 Ribosomal protein L23 signature. KKAYIRLSaahdaldT

Chain	Residue	Details
V	LYS123-THR138

---

site_id	PS00939
Number of Residues	27
Details	RIBOSOMAL_L1E Ribosomal protein L1e signature. NlhqKrfAVvSALaASSvpslvmsRGH

Chain	Residue	Details
C	ASN115-HIS141

---

site_id	PS00049
Number of Residues	27
Details	RIBOSOMAL_L14 Ribosomal protein L14 signature. AVIIrqrkswrrk.DGtviyFedNagVI

Chain	Residue	Details
J	ALA78-ILE104

---

site_id	PS01170
Number of Residues	19
Details	RIBOSOMAL_L6E Ribosomal protein L6e signature. NgvPIRRidsrYVIATSt.K

Chain	Residue	Details
F	ASN72-LYS90

---

site_id	PS01257
Number of Residues	22
Details	RIBOSOMAL_L10E Ribosomal protein L10e signature. ADRlqtGMRgAFGKPnGvcARV

Chain	Residue	Details
N	ALA108-VAL129

---

site_id	PS01172
Number of Residues	12
Details	RIBOSOMAL_L44E Ribosomal protein L44e signature. KtTKKivLKlqC

Chain	Residue	Details
p	LYS63-CYS74

---

site_id	PS00358
Number of Residues	17
Details	RIBOSOMAL_L5 Ribosomal protein L5 signature. LeqLCEQtpVlSrARlT

Chain	Residue	Details
D	LEU39-THR55

---

site_id	PS00709
Number of Residues	25
Details	RIBOSOMAL_L30E_1 Ribosomal protein L30e signature 1. SgkyvlGtQqaLTtlRqGrsKlIVI

Chain	Residue	Details
d	SER22-ILE46

---

site_id	PS00993
Number of Residues	21
Details	RIBOSOMAL_L30E_2 Ribosomal protein L30e signature 2. DLGTacGKhfrtcvLsVtNvG

Chain	Residue	Details
d	ASP78-GLY98

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI14
Number of Residues	18
Details	Zinc finger: {"description":"C4-type","evidences":[{"evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI15
Number of Residues	4
Details	Binding site: {"evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---