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): 
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B (protein): 
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C (protein): 
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D (protein): 
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E (protein): 
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F (protein): 
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G (protein): 
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K (protein): 
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L (protein): 
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1 (rna): 
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X (rna): 
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4pjo.pdb2.pdb:   [ download sequences in FASTA format ]
a (protein): 
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b (protein): 
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c (protein): 
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d (protein): 
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e (protein): 
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f (protein): 
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g (protein): 
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k (protein): 
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l (protein): 
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2 (rna): 
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x (rna): 
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4pjo.pdb3.pdb:   [ download sequences in FASTA format ]
M (protein): 
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N (protein): 
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O (protein): 
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P (protein): 
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Q (protein): 
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R (protein): 
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S (protein): 
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T (protein): 
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U (protein): 
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3 (rna): 
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Y (rna): 
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4pjo.pdb4.pdb:   [ download sequences in FASTA format ]
m (protein): 
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n (protein): 
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o (protein): 
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p (protein): 
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q (protein): 
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r (protein): 
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s (protein): 
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t (protein): 
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u (protein): 
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4 (rna): 
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y (rna): 
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