NPIDB: 4PJO structure

General information

PDB ID

4PJO

Title

MINIMAL U1 SNRNP

PDB header

SPLICING

Date

2014-05-12

Experimental method

X-RAY DIFFRACTION

Resolution (A)

3.3

Kind

rna

Organism

HOMO SAPIENS


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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:

pdb4pjo.pdb	ABCDEFGKLabcdefgklOPQRSTUNMopqrstunm		1X2x3Y4y	0

Biounits:

4pjo.pdb1.pdb	ABCDEFGKL		1X	1
4pjo.pdb2.pdb	abcdefgkl		2x	1
4pjo.pdb3.pdb	OPQRSTUNM		3Y	1
4pjo.pdb4.pdb	opqrstunm		4y	1

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

LSM	Domain	P62318_8-73	2.6e-16	1	CL0527	a	8	73	2
LSM	Domain	P62318_8-73	2.7e-16	1	CL0527	A	8	73	1
LSM	Domain	P14678_7-82	1.7e-21	1	CL0527	b	7	82	2
LSM	Domain	P14678_7-82	3.1e-21	1	CL0527	B	7	82	1
LSM	Domain	P62314_5-70	2.1e-19	1	CL0527	C	5	70	1
LSM	Domain	P62314_5-70	2.1e-19	1	CL0527	C	5	70	1
LSM	Domain	P62314_5-70	2.2e-19	1	CL0527	c	5	70	2
LSM	Domain	P62314_5-70	2.2e-19	1	CL0527	c	5	70	2
LSM	Domain	P62316_33-111	1.1e-19	1	CL0527	d	33	111	2
LSM	Domain	P62316_33-111	3.1e-19	1	CL0527	D	33	111	1
LSM	Domain	P62304_23-89	4.9e-18	1	CL0527	E	23	89	1
LSM	Domain	P62304_23-89	4.9e-18	1	CL0527	E	23	89	1
LSM	Domain	P62304_23-89	4.9e-18	1	CL0527	e	23	89	2
LSM	Domain	P62304_23-89	4.9e-18	1	CL0527	e	23	89	2
LSM	Domain	P62306_9-74	1e-21	1	CL0527	F	9	74	1
LSM	Domain	P62306_9-74	1.1e-21	1	CL0527	f	9	74	2
LSM	Domain	P62308_7-72	6e-23	1	CL0527	g	7	72	2
LSM	Domain	P62308_7-72	6.3e-23	1	CL0527	G	7	72	1
zf-U1	Domain	P09234_4-38	1.1e-22	1	CL0361	L	2	38	1X
zf-U1	Domain	P09234_4-38	1.1e-22	1	CL0361	L	2	38	1X
zf-U1	Domain	P09234_4-38	1.1e-22	1	CL0361	l	2	38	2x
zf-U1	Domain	P09234_4-38	1.1e-22	1	CL0361	l	2	38	2x
zf-U1	Domain	P09234_4-38	9.1e-23	1	CL0361	m	2	38	4y
zf-U1	Domain	P09234_4-38	9.1e-23	1	CL0361	m	2	38	4y
zf-U1	Domain	P09234_4-38	1.1e-22	1	CL0361	M	2	38	3Y
zf-U1	Domain	P09234_4-38	1.1e-22	1	CL0361	M	2	38	3Y
LSM	Domain	P62318_8-73	2.4e-16	1	CL0527	o	8	73	4
LSM	Domain	P62318_8-73	2.5e-16	1	CL0527	O	8	73	3
LSM	Domain	P14678_7-82	3.1e-21	1	CL0527	P	7	82	3
LSM	Domain	P14678_7-82	3.1e-21	1	CL0527	P	7	82	3
LSM	Domain	P14678_7-82	3.5e-21	1	CL0527	p	7	82	4
LSM	Domain	P14678_7-82	3.5e-21	1	CL0527	p	7	82	4
LSM	Domain	P62314_5-70	2.1e-19	1	CL0527	Q	5	70	3
LSM	Domain	P62314_5-70	2.2e-19	1	CL0527	q	5	70	4
LSM	Domain	P62316_33-111	1.2e-19	1	CL0527	r	33	111	4
LSM	Domain	P62316_33-111	2.6e-19	1	CL0527	R	33	111	3
LSM	Domain	P62304_23-89	4.9e-18	1	CL0527	S	23	89	3
LSM	Domain	P62304_23-89	4.9e-18	1	CL0527	S	23	89	3
LSM	Domain	P62304_23-89	4.9e-18	1	CL0527	s	23	89	4
LSM	Domain	P62304_23-89	4.9e-18	1	CL0527	s	23	89	4
LSM	Domain	P62306_9-74	1.1e-21	1	CL0527	T	9	74	3
LSM	Domain	P62306_9-74	1.1e-21	1	CL0527	T	9	74	3
LSM	Domain	P62306_9-74	1.1e-21	1	CL0527	t	9	74	4
LSM	Domain	P62306_9-74	1.1e-21	1	CL0527	t	9	74	4
LSM	Domain	P62308_7-72	6e-23	1	CL0527	u	7	72	4
LSM	Domain	P62308_7-72	1.3e-21	1	CL0527	U	7	72	3
U1snRNP70_N	Family	P08621_3-59	3.2e-16	1	CL0221	k	3	59	2
U1snRNP70_N	Family	P08621_3-59	3.4e-16	1	CL0221	K	3	59	1
U1snRNP70_N	Family	P08621_3-59	3.4e-16	1	CL0221	n	3	59	4
U1snRNP70_N	Family	P08621_3-59	1.1e-14	1	CL0221	N	6	58	3

SCOP domains
No SCOP domains

GO terms
Protein chains:	GO type:	GO description:
A/O/a/o=1-126	C	catalytic step 2 spliceosome
A/O/a/o=1-126	C	commitment complex
A/O/a/o=1-126	C	cytosol
A/O/a/o=1-126	C	methylosome
A/O/a/o=1-126	C	nuclear body
A/O/a/o=1-126	C	nucleoplasm
A/O/a/o=1-126	C	nucleus
A/O/a/o=1-126	C	pICln-Sm protein complex
A/O/a/o=1-126	C	precatalytic spliceosome
A/O/a/o=1-126	C	small nuclear ribonucleoprotein complex
A/O/a/o=1-126	C	SMN-Sm protein complex
A/O/a/o=1-126	C	spliceosomal complex
A/O/a/o=1-126	C	spliceosomal tri-snRNP complex
A/O/a/o=1-126	C	telomerase holoenzyme complex
A/O/a/o=1-126	C	U1 snRNP
A/O/a/o=1-126	C	U12-type spliceosomal complex
A/O/a/o=1-126	C	U2 snRNP
A/O/a/o=1-126	C	U2-type catalytic step 2 spliceosome
A/O/a/o=1-126	C	U2-type precatalytic spliceosome
A/O/a/o=1-126	C	U4 snRNP
A/O/a/o=1-126	C	U4/U6 x U5 tri-snRNP complex
A/O/a/o=1-126	C	U5 snRNP
A/O/a/o=1-126	C	U7 snRNP
A/O/a/o=1-126	F	enzyme binding
A/O/a/o=1-126	F	histone pre-mRNA DCP binding
A/O/a/o=1-126	F	RNA binding
A/O/a/o=1-126	F	telomerase RNA binding
A/O/a/o=1-126	F	U7 snRNA binding
A/O/a/o=1-126	P	histone mRNA metabolic process
A/O/a/o=1-126	P	import into nucleus
A/O/a/o=1-126	P	mRNA splicing, via spliceosome
A/O/a/o=1-126	P	protein methylation
A/O/a/o=1-126	P	RNA splicing
A/O/a/o=1-126	P	spliceosomal snRNP assembly
A/O/a/o=1-126	P	termination of RNA polymerase II transcription
B/P/b/p=1-95	C	catalytic step 2 spliceosome
B/P/b/p=1-95	C	cytoplasm
B/P/b/p=1-95	C	cytosol
B/P/b/p=1-95	C	methylosome
B/P/b/p=1-95	C	nucleoplasm
B/P/b/p=1-95	C	nucleus
B/P/b/p=1-95	C	small nuclear ribonucleoprotein complex
B/P/b/p=1-95	C	SMN-Sm protein complex
B/P/b/p=1-95	C	spliceosomal complex
B/P/b/p=1-95	C	telomerase holoenzyme complex
B/P/b/p=1-95	C	U1 snRNP
B/P/b/p=1-95	C	U12-type spliceosomal complex
B/P/b/p=1-95	C	U2 snRNP
B/P/b/p=1-95	C	U2-type catalytic step 2 spliceosome
B/P/b/p=1-95	C	U2-type precatalytic spliceosome
B/P/b/p=1-95	C	U2-type prespliceosome
B/P/b/p=1-95	C	U4 snRNP
B/P/b/p=1-95	C	U4/U6 x U5 tri-snRNP complex
B/P/b/p=1-95	C	U5 snRNP
B/P/b/p=1-95	C	U7 snRNP
B/P/b/p=1-95	F	RNA binding
B/P/b/p=1-95	F	telomerase RNA binding
B/P/b/p=1-95	P	histone mRNA metabolic process
B/P/b/p=1-95	P	import into nucleus
B/P/b/p=1-95	P	mRNA splicing, via spliceosome
B/P/b/p=1-95	P	protein methylation
B/P/b/p=1-95	P	RNA splicing
B/P/b/p=1-95	P	spliceosomal snRNP assembly
B/P/b/p=1-95	P	termination of RNA polymerase II transcription
C/Q/c/q=2-85	C	catalytic step 2 spliceosome
C/Q/c/q=2-85	C	commitment complex
C/Q/c/q=2-85	C	cytosol
C/Q/c/q=2-85	C	methylosome
C/Q/c/q=2-85	C	nucleoplasm
C/Q/c/q=2-85	C	nucleus
C/Q/c/q=2-85	C	pICln-Sm protein complex
C/Q/c/q=2-85	C	precatalytic spliceosome
C/Q/c/q=2-85	C	small nuclear ribonucleoprotein complex
C/Q/c/q=2-85	C	SMN-Sm protein complex
C/Q/c/q=2-85	C	spliceosomal tri-snRNP complex
C/Q/c/q=2-85	C	U1 snRNP
C/Q/c/q=2-85	C	U12-type spliceosomal complex
C/Q/c/q=2-85	C	U2 snRNP
C/Q/c/q=2-85	C	U2-type catalytic step 2 spliceosome
C/Q/c/q=2-85	C	U2-type precatalytic spliceosome
C/Q/c/q=2-85	C	U4 snRNP
C/Q/c/q=2-85	C	U4/U6 x U5 tri-snRNP complex
C/Q/c/q=2-85	C	U5 snRNP
C/Q/c/q=2-85	F	RNA binding
C/Q/c/q=2-85	F	U1 snRNP binding
C/Q/c/q=2-85	P	import into nucleus
C/Q/c/q=2-85	P	mRNA splicing, via spliceosome
C/Q/c/q=2-85	P	RNA splicing
C/Q/c/q=2-85	P	spliceosomal complex assembly
C/Q/c/q=2-85	P	spliceosomal snRNP assembly
D/R/d/r=1-118	C	catalytic step 2 spliceosome
D/R/d/r=1-118	C	cytosol
D/R/d/r=1-118	C	extracellular exosome
D/R/d/r=1-118	C	methylosome
D/R/d/r=1-118	C	nucleoplasm
D/R/d/r=1-118	C	nucleus
D/R/d/r=1-118	C	pICln-Sm protein complex
D/R/d/r=1-118	C	precatalytic spliceosome
D/R/d/r=1-118	C	small nuclear ribonucleoprotein complex
D/R/d/r=1-118	C	SMN-Sm protein complex
D/R/d/r=1-118	C	spliceosomal complex
D/R/d/r=1-118	C	U1 snRNP
D/R/d/r=1-118	C	U12-type spliceosomal complex
D/R/d/r=1-118	C	U2 snRNP
D/R/d/r=1-118	C	U2-type catalytic step 2 spliceosome
D/R/d/r=1-118	C	U2-type precatalytic spliceosome
D/R/d/r=1-118	C	U4 snRNP
D/R/d/r=1-118	C	U4/U6 x U5 tri-snRNP complex
D/R/d/r=1-118	C	U5 snRNP
D/R/d/r=1-118	F	RNA binding
D/R/d/r=1-118	P	import into nucleus
D/R/d/r=1-118	P	mRNA splicing, via spliceosome
D/R/d/r=1-118	P	RNA splicing
D/R/d/r=1-118	P	spliceosomal complex assembly
D/R/d/r=1-118	P	spliceosomal snRNP assembly
E/S/e/s=1-92	C	catalytic step 2 spliceosome
E/S/e/s=1-92	C	cytosol
E/S/e/s=1-92	C	methylosome
E/S/e/s=1-92	C	nucleoplasm
E/S/e/s=1-92	C	nucleus
E/S/e/s=1-92	C	pICln-Sm protein complex
E/S/e/s=1-92	C	precatalytic spliceosome
E/S/e/s=1-92	C	small nuclear ribonucleoprotein complex
E/S/e/s=1-92	C	SMN-Sm protein complex
E/S/e/s=1-92	C	spliceosomal complex
E/S/e/s=1-92	C	telomerase holoenzyme complex
E/S/e/s=1-92	C	U1 snRNP
E/S/e/s=1-92	C	U12-type spliceosomal complex
E/S/e/s=1-92	C	U2 snRNP
E/S/e/s=1-92	C	U2-type catalytic step 2 spliceosome
E/S/e/s=1-92	C	U2-type precatalytic spliceosome
E/S/e/s=1-92	C	U4 snRNP
E/S/e/s=1-92	C	U4/U6 x U5 tri-snRNP complex
E/S/e/s=1-92	C	U5 snRNP
E/S/e/s=1-92	C	U7 snRNP
E/S/e/s=1-92	F	RNA binding
E/S/e/s=1-92	P	hair cycle
E/S/e/s=1-92	P	histone mRNA metabolic process
E/S/e/s=1-92	P	import into nucleus
E/S/e/s=1-92	P	mRNA splicing, via spliceosome
E/S/e/s=1-92	P	spliceosomal complex assembly
E/S/e/s=1-92	P	spliceosomal snRNP assembly
E/S/e/s=1-92	P	termination of RNA polymerase II transcription
F/T/f/t=1-75	C	catalytic step 2 spliceosome
F/T/f/t=1-75	C	cytosol
F/T/f/t=1-75	C	methylosome
F/T/f/t=1-75	C	nucleoplasm
F/T/f/t=1-75	C	nucleus
F/T/f/t=1-75	C	pICln-Sm protein complex
F/T/f/t=1-75	C	small nuclear ribonucleoprotein complex
F/T/f/t=1-75	C	small nucleolar ribonucleoprotein complex
F/T/f/t=1-75	C	SMN-Sm protein complex
F/T/f/t=1-75	C	spliceosomal complex
F/T/f/t=1-75	C	U1 snRNP
F/T/f/t=1-75	C	U12-type spliceosomal complex
F/T/f/t=1-75	C	U2-type catalytic step 2 spliceosome
F/T/f/t=1-75	C	U2-type precatalytic spliceosome
F/T/f/t=1-75	C	U4 snRNP
F/T/f/t=1-75	C	U4/U6 x U5 tri-snRNP complex
F/T/f/t=1-75	C	U7 snRNP
F/T/f/t=1-75	F	RNA binding
F/T/f/t=1-75	P	histone mRNA metabolic process
F/T/f/t=1-75	P	import into nucleus
F/T/f/t=1-75	P	mRNA splicing, via spliceosome
F/T/f/t=1-75	P	RNA splicing
F/T/f/t=1-75	P	spliceosomal snRNP assembly
F/T/f/t=1-75	P	termination of RNA polymerase II transcription
G/U/g/u=1-76	C	catalytic step 2 spliceosome
G/U/g/u=1-76	C	cytosol
G/U/g/u=1-76	C	methylosome
G/U/g/u=1-76	C	nucleoplasm
G/U/g/u=1-76	C	nucleus
G/U/g/u=1-76	C	P granule
G/U/g/u=1-76	C	precatalytic spliceosome
G/U/g/u=1-76	C	ribonucleoprotein complex
G/U/g/u=1-76	C	small nuclear ribonucleoprotein complex
G/U/g/u=1-76	C	SMN-Sm protein complex
G/U/g/u=1-76	C	spliceosomal complex
G/U/g/u=1-76	C	spliceosomal tri-snRNP complex
G/U/g/u=1-76	C	U1 snRNP
G/U/g/u=1-76	C	U12-type spliceosomal complex
G/U/g/u=1-76	C	U2 snRNP
G/U/g/u=1-76	C	U2-type catalytic step 2 spliceosome
G/U/g/u=1-76	C	U2-type precatalytic spliceosome
G/U/g/u=1-76	C	U2-type prespliceosome
G/U/g/u=1-76	C	U4 snRNP
G/U/g/u=1-76	C	U4/U6 x U5 tri-snRNP complex
G/U/g/u=1-76	C	U5 snRNP
G/U/g/u=1-76	C	U7 snRNP
G/U/g/u=1-76	F	RNA binding
G/U/g/u=1-76	P	histone mRNA metabolic process
G/U/g/u=1-76	P	import into nucleus
G/U/g/u=1-76	P	mRNA splicing, via spliceosome
G/U/g/u=1-76	P	RNA splicing
G/U/g/u=1-76	P	spliceosomal complex assembly
G/U/g/u=1-76	P	spliceosomal snRNP assembly
G/U/g/u=1-76	P	termination of RNA polymerase II transcription
K/N/k/n=2-60	C	nuclear speck
K/N/k/n=2-60	C	nucleoplasm
K/N/k/n=2-60	C	nucleus
K/N/k/n=2-60	C	spliceosomal complex
K/N/k/n=2-60	C	U1 snRNP
K/N/k/n=2-60	C	U2-type prespliceosome
K/N/k/n=2-60	F	mRNA binding
K/N/k/n=2-60	F	RNA binding
K/N/k/n=2-60	F	snRNA binding
K/N/k/n=2-60	F	U1 snRNA binding
K/N/k/n=2-60	P	mRNA splicing, via spliceosome
K/N/k/n=2-60	P	negative regulation of chaperone-mediated autophagy
K/N/k/n=2-60	P	negative regulation of protein refolding
K/N/k/n=2-60	P	positive regulation of mRNA splicing, via spliceosome
K/N/k/n=2-60	P	regulation of ATPase activity
K/N/k/n=2-60	P	regulation of RNA splicing
L/M/l/m=1-61	C	Cajal body
L/M/l/m=1-61	C	commitment complex
L/M/l/m=1-61	C	nucleoplasm
L/M/l/m=1-61	C	U1 snRNP
L/M/l/m=1-61	C	U2-type prespliceosome
L/M/l/m=1-61	F	mRNA binding
L/M/l/m=1-61	F	pre-mRNA 5'-splice site binding
L/M/l/m=1-61	F	protein homodimerization activity
L/M/l/m=1-61	F	RNA binding
L/M/l/m=1-61	F	single-stranded RNA binding
L/M/l/m=1-61	F	U1 snRNP binding
L/M/l/m=1-61	F	zinc ion binding
L/M/l/m=1-61	P	mRNA 5'-splice site recognition
L/M/l/m=1-61	P	mRNA splicing, via spliceosome
L/M/l/m=1-61	P	spliceosomal snRNP assembly

Sequences

Download file with secondary structure created by Stride

4pjo.pdb1.pdb: [ download sequences in FASTA format ]

A (protein):