NPIDB: 6DZP structure

General information

PDB ID

6DZP

Title

CRYO-EM STRUCTURE OF MYCOBACTERIUM SMEGMATIS C(MINUS) 50S RIBOSOMAL SUBUNIT

PDB header

RIBOSOME

Date

2018-07-05

Experimental method

ELECTRON MICROSCOPY

Resolution (A)

3.42

Kind

rna

Organism

MYCOBACTERIUM SMEGMATIS STR. MC2 155


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PDB	PDBe	MMDB	Jena	OCA
CATH	PDBsum	HSSP	PDBePISA	UniProt
ProteopediA	BIPA
	PRIDB

Composition of PDB entry and biounits
File:	Protein chains:	DNA chains:	RNA chains:	No. of models:	Action:

PDB entry:

pdb6dzp.pdb	CDEFGHIJKLMNOPQRSTUVWXZabcdefgy3		AB	0

Biounits:

6dzp.pdb1.pdb	CDEFGHIJKLMNOPQRSTUVWXZabcdefgy3		AB	1

Pfam domains
Name:	Type:	Domain:	E-value:	Significance:	Clan:	Prot. chain:	Start res.:	End res.:	Nuc. chains:	Int. mode:	Action:

Ribosomal_L30	Domain	A0QSG7_4-54	1.4e-18	1	No_clan	a	4	54	AB
Ribosomal_L2_C	Domain	A0QSD4_126-251	5e-55	1	CL0107	C	126	251	A
Ribosomal_L2	Domain	A0QSD4_42-119	7.3e-34	1	CL0021	C	42	119	A
Ribosomal_L5_C	Domain	A0QSG1_91-184	9.7e-39	1	No_clan	F	91	184	AB
Ribosomal_L5	Domain	A0QSG1_31-87	1e-25	1	CL0652	F	31	87	AB
Ribosomal_L36	Domain	A0QSL4_1-37	2e-18	1	No_clan	f	1	37	AB
Ribosomal_L6	Domain	A0QSG4_91-166	8.8e-21	1	No_clan	G	91	166	A
Ribosomal_L6	Domain	A0QSG4_11-83	3.3e-18	1	No_clan	G	11	83	A
Ribosomal_L9_C	Domain	A0R7F6_63-150	3.8e-26	1	No_clan	H	63	150	A
Ribosomal_L9_N	Domain	A0R7F6_1-47	2.6e-19	1	No_clan	H	1	47	A
Ribosomal_L11_N	Domain	A0QS45_10-68	3.1e-29	1	No_clan	J	11	68	A
Ribosomal_L11	Domain	A0QS45_73-141	5.8e-27	1	No_clan	J	73	141	A
Ribosomal_L14	Domain	A0QSF9_1-122	3.2e-55	1	No_clan	L	1	122	A
Ribosomal_L22	Domain	A0QSD6_12-115	9.1e-37	1	No_clan	T	12	115	A
Ribosomal_L25p	Domain	A0R3D2_11-97	2.6e-24	1	No_clan	W	11	97	AB
Ribosomal_TL5_C	Domain	A0R3D2_105-185	2e-17	1	No_clan	W	105	185	A
Ribosomal_L32p	Family	A0R3I9_2-50	3e-14	1	CL0167	b	2	50	A
Ribosomal_L33	Family	A0R551_8-52	3.8e-16	1	CL0167	c	7	53	A
Ribosomal_L34	Family	A0R7K0_4-47	6e-19	1	No_clan	d	4	47	A
Ribosomal_L3	Family	A0QSD1_80-191	2.1e-18	1	CL0575	D	79	191	A
Ribosomal_L4	Family	A0QSD2_18-206	1.3e-65	1	No_clan	E	18	206	A
Ribosomal_L35p	Family	A0QYU7_2-62	1.1e-24	1	No_clan	e	2	62	A
Ribosomal_L31	Family	A0R554_1-64	1.4e-20	1	No_clan	g	1	64	AB
Ribosomal_L10	Family	A0QS62_1-98	5.1e-27	1	No_clan	I	1	98	A
DUF3182	Family	A0QS62_21-91	0.00018	0	No_clan	I	3	120	A
Ribosomal_L13	Family	A0QSP8_13-131	1.9e-54	1	No_clan	K	14	138	A
Ribosomal_L27A	Family	A0QSG8_29-146	8.9e-32	1	CL0588	M	29	146	A
Ribosomal_L16	Family	A0QSD8_4-132	2.8e-47	1	No_clan	N	4	132	AB
Ribosomal_L17	Family	A0QSL9_20-116	5.6e-38	1	No_clan	O	20	116	A
Ribosomal_L18p	Family	I7FGD9_12-127	5.8e-45	1	CL0267	P	12	127	AB
Ribosomal_L19	Family	A0QV42_2-112	8.7e-51	1	CL0107	Q	2	112	A
Ribosomal_L20	Family	A0QYU6_3-109	1.3e-41	1	No_clan	R	3	109	A
Ribosomal_L21p	Family	A0R151_3-102	7.5e-34	1	No_clan	S	3	102	A
Ribosomal_L23	Family	A0QSD3_9-95	1e-31	1	No_clan	U	9	95	A
ribosomal_L24	Family	A0QSG0_38-105	1.1e-22	1	No_clan	V	38	105	A
KOW	Family	A0QSG0_5-36	2.4e-08	1	CL0107	V	5	36	A
Ribosomal_L27	Family	A0R150_8-80	3.4e-33	1	No_clan	X	8	80	AB
Ribosomal_L28	Family	A0R552_3-62	1.2e-24	1	No_clan	y	2	61	A
Ribosomal_L29	Family	A0QSD9_8-64	3.3e-25	1	CL0346	Z	8	64	A

SCOP domains
No SCOP domains

GO terms
Protein chains:	GO type:	GO description:
a=1-61	C	large ribosomal subunit
a=1-61	F	structural constituent of ribosome
a=1-61	P	translation
b=1-57	C	large ribosomal subunit
b=1-57	F	structural constituent of ribosome
b=1-57	P	translation
C=1-278	C	large ribosomal subunit
C=1-278	F	rRNA binding
C=1-278	F	structural constituent of ribosome
C=1-278	F	transferase activity
C=1-278	P	translation
c=1-54	C	ribosome
c=1-54	F	structural constituent of ribosome
c=1-54	P	translation
D=1-217	C	ribosome
D=1-217	F	rRNA binding
D=1-217	F	structural constituent of ribosome
D=1-217	P	translation
d=1-47	C	ribosome
d=1-47	F	structural constituent of ribosome
d=1-47	P	translation
e=1-64	C	ribosome
e=1-64	F	structural constituent of ribosome
e=1-64	P	translation
E=2-215	C	ribosome
E=2-215	F	rRNA binding
E=2-215	F	structural constituent of ribosome
E=2-215	P	translation
f=1-37	C	ribosome
f=1-37	F	structural constituent of ribosome
f=1-37	P	translation
F=2-187	C	ribosome
F=2-187	F	rRNA binding
F=2-187	F	structural constituent of ribosome
F=2-187	F	tRNA binding
F=2-187	P	translation
G=1-179	C	ribosome
G=1-179	F	rRNA binding
G=1-179	F	structural constituent of ribosome
G=1-179	P	translation
H=1-151	C	ribosome
H=1-151	F	rRNA binding
H=1-151	F	structural constituent of ribosome
H=1-151	P	translation
I=1-175	C	large ribosomal subunit
I=1-175	F	large ribosomal subunit rRNA binding
I=1-175	F	structural constituent of ribosome
I=1-175	P	ribosome biogenesis
I=1-175	P	translation
J=1-142	C	ribosome
J=1-142	F	large ribosomal subunit rRNA binding
J=1-142	F	structural constituent of ribosome
J=1-142	P	translation
K=2-147	C	ribosome
K=2-147	F	structural constituent of ribosome
K=2-147	P	translation
L=1-122	C	large ribosomal subunit
L=1-122	F	rRNA binding
L=1-122	F	structural constituent of ribosome
L=1-122	P	translation
N=1-138	C	ribosome
N=1-138	F	rRNA binding
N=1-138	F	structural constituent of ribosome
N=1-138	F	tRNA binding
N=1-138	P	translation
O=1-199	C	ribosome
O=1-199	F	structural constituent of ribosome
O=1-199	P	translation
Q=1-113	C	ribosome
Q=1-113	F	structural constituent of ribosome
Q=1-113	P	translation
R=1-129	C	ribosome
R=1-129	F	rRNA binding
R=1-129	F	structural constituent of ribosome
R=1-129	P	ribosomal large subunit assembly
R=1-129	P	translation
S=2-103	C	ribosome
S=2-103	F	rRNA binding
S=2-103	F	structural constituent of ribosome
S=2-103	P	translation
T=2-153	C	large ribosomal subunit
T=2-153	F	rRNA binding
T=2-153	F	structural constituent of ribosome
T=2-153	P	translation
U=2-100	C	ribosome
U=2-100	F	rRNA binding
U=2-100	F	structural constituent of ribosome
U=2-100	P	translation
V=1-105	C	ribosome
V=1-105	F	rRNA binding
V=1-105	F	structural constituent of ribosome
V=1-105	P	translation
X=1-88	C	ribosome
X=1-88	F	structural constituent of ribosome
X=1-88	P	translation
Z=1-77	C	ribosome
Z=1-77	F	structural constituent of ribosome
Z=1-77	P	translation

Sequences

Download file with secondary structure created by Stride

6dzp.pdb1.pdb: [ download sequences in FASTA format ]

3 (protein):