5ZWN

Cryo-EM structure of the yeast pre-B complex at an average resolution of 3.3 angstrom (Part II: U1 snRNP region)

Functional Information from GO Data

Chain	GOid	namespace	contents
Q	0000243	cellular_component	commitment complex
Q	0000395	biological_process	mRNA 5'-splice site recognition
Q	0000398	biological_process	mRNA splicing, via spliceosome
Q	0003676	molecular_function	nucleic acid binding
Q	0003723	molecular_function	RNA binding
Q	0003729	molecular_function	mRNA binding
Q	0005515	molecular_function	protein binding
Q	0005634	cellular_component	nucleus
Q	0005681	cellular_component	spliceosomal complex
Q	0005685	cellular_component	U1 snRNP
Q	0006397	biological_process	mRNA processing
Q	0008380	biological_process	RNA splicing
Q	0030619	molecular_function	U1 snRNA binding
Q	0071004	cellular_component	U2-type prespliceosome
Q	1990904	cellular_component	ribonucleoprotein complex
R	0000243	cellular_component	commitment complex
R	0000387	biological_process	spliceosomal snRNP assembly
R	0000395	biological_process	mRNA 5'-splice site recognition
R	0000398	biological_process	mRNA splicing, via spliceosome
R	0003676	molecular_function	nucleic acid binding
R	0003723	molecular_function	RNA binding
R	0003729	molecular_function	mRNA binding
R	0005515	molecular_function	protein binding
R	0005634	cellular_component	nucleus
R	0005685	cellular_component	U1 snRNP
R	0008270	molecular_function	zinc ion binding
R	0030619	molecular_function	U1 snRNA binding
R	0030627	molecular_function	pre-mRNA 5'-splice site binding
R	0046872	molecular_function	metal ion binding
R	0071004	cellular_component	U2-type prespliceosome
R	1990904	cellular_component	ribonucleoprotein complex
S	0000395	biological_process	mRNA 5'-splice site recognition
S	0000398	biological_process	mRNA splicing, via spliceosome
S	0003676	molecular_function	nucleic acid binding
S	0003723	molecular_function	RNA binding
S	0005515	molecular_function	protein binding
S	0005634	cellular_component	nucleus
S	0005681	cellular_component	spliceosomal complex
S	0005685	cellular_component	U1 snRNP
S	0006397	biological_process	mRNA processing
S	0008380	biological_process	RNA splicing
S	0030619	molecular_function	U1 snRNA binding
S	0071004	cellular_component	U2-type prespliceosome
S	1990904	cellular_component	ribonucleoprotein complex
T	0000243	cellular_component	commitment complex
T	0000395	biological_process	mRNA 5'-splice site recognition
T	0000398	biological_process	mRNA splicing, via spliceosome
T	0003723	molecular_function	RNA binding
T	0005515	molecular_function	protein binding
T	0005634	cellular_component	nucleus
T	0005681	cellular_component	spliceosomal complex
T	0005685	cellular_component	U1 snRNP
T	0006396	biological_process	RNA processing
T	0006397	biological_process	mRNA processing
T	0008380	biological_process	RNA splicing
T	0030627	molecular_function	pre-mRNA 5'-splice site binding
T	0071004	cellular_component	U2-type prespliceosome
T	1990904	cellular_component	ribonucleoprotein complex
U	0000243	cellular_component	commitment complex
U	0000395	biological_process	mRNA 5'-splice site recognition
U	0000398	biological_process	mRNA splicing, via spliceosome
U	0005515	molecular_function	protein binding
U	0005634	cellular_component	nucleus
U	0005685	cellular_component	U1 snRNP
U	0006396	biological_process	RNA processing
U	0006397	biological_process	mRNA processing
U	0008380	biological_process	RNA splicing
U	0030627	molecular_function	pre-mRNA 5'-splice site binding
U	0071004	cellular_component	U2-type prespliceosome
V	0000243	cellular_component	commitment complex
V	0000395	biological_process	mRNA 5'-splice site recognition
V	0000398	biological_process	mRNA splicing, via spliceosome
V	0003676	molecular_function	nucleic acid binding
V	0003723	molecular_function	RNA binding
V	0003729	molecular_function	mRNA binding
V	0005515	molecular_function	protein binding
V	0005634	cellular_component	nucleus
V	0005681	cellular_component	spliceosomal complex
V	0005685	cellular_component	U1 snRNP
V	0005737	cellular_component	cytoplasm
V	0005829	cellular_component	cytosol
V	0006376	biological_process	mRNA splice site recognition
V	0006397	biological_process	mRNA processing
V	0008380	biological_process	RNA splicing
V	0048026	biological_process	positive regulation of mRNA splicing, via spliceosome
V	0071004	cellular_component	U2-type prespliceosome
W	0000243	cellular_component	commitment complex
W	0000395	biological_process	mRNA 5'-splice site recognition
W	0000398	biological_process	mRNA splicing, via spliceosome
W	0003723	molecular_function	RNA binding
W	0003729	molecular_function	mRNA binding
W	0005515	molecular_function	protein binding
W	0005634	cellular_component	nucleus
W	0005681	cellular_component	spliceosomal complex
W	0005685	cellular_component	U1 snRNP
W	0006397	biological_process	mRNA processing
W	0008380	biological_process	RNA splicing
W	0071004	cellular_component	U2-type prespliceosome
W	1990904	cellular_component	ribonucleoprotein complex
X	0000395	biological_process	mRNA 5'-splice site recognition
X	0000398	biological_process	mRNA splicing, via spliceosome
X	0003723	molecular_function	RNA binding
X	0005515	molecular_function	protein binding
X	0005634	cellular_component	nucleus
X	0005681	cellular_component	spliceosomal complex
X	0005685	cellular_component	U1 snRNP
X	0005737	cellular_component	cytoplasm
X	0006397	biological_process	mRNA processing
X	0008380	biological_process	RNA splicing
X	0071004	cellular_component	U2-type prespliceosome
X	1990904	cellular_component	ribonucleoprotein complex
Y	0000395	biological_process	mRNA 5'-splice site recognition
Y	0000398	biological_process	mRNA splicing, via spliceosome
Y	0003729	molecular_function	mRNA binding
Y	0005515	molecular_function	protein binding
Y	0005634	cellular_component	nucleus
Y	0005681	cellular_component	spliceosomal complex
Y	0005685	cellular_component	U1 snRNP
Y	0005829	cellular_component	cytosol
Y	0006376	biological_process	mRNA splice site recognition
Y	0006397	biological_process	mRNA processing
Y	0008270	molecular_function	zinc ion binding
Y	0008380	biological_process	RNA splicing
Y	0071004	cellular_component	U2-type prespliceosome
Y	1990904	cellular_component	ribonucleoprotein complex
a	0000245	biological_process	spliceosomal complex assembly
a	0000387	biological_process	spliceosomal snRNP assembly
a	0000395	biological_process	mRNA 5'-splice site recognition
a	0000398	biological_process	mRNA splicing, via spliceosome
a	0003674	molecular_function	molecular_function
a	0003723	molecular_function	RNA binding
a	0005515	molecular_function	protein binding
a	0005634	cellular_component	nucleus
a	0005682	cellular_component	U5 snRNP
a	0005685	cellular_component	U1 snRNP
a	0005686	cellular_component	U2 snRNP
a	0005687	cellular_component	U4 snRNP
a	0005737	cellular_component	cytoplasm
a	0006397	biological_process	mRNA processing
a	0008380	biological_process	RNA splicing
a	0032991	cellular_component	protein-containing complex
a	0036261	biological_process	7-methylguanosine cap hypermethylation
a	0046540	cellular_component	U4/U6 x U5 tri-snRNP complex
a	0070990	molecular_function	snRNP binding
a	0071004	cellular_component	U2-type prespliceosome
a	0071013	cellular_component	catalytic step 2 spliceosome
a	1903241	biological_process	U2-type prespliceosome assembly
a	1990904	cellular_component	ribonucleoprotein complex
b	0000243	cellular_component	commitment complex
b	0000245	biological_process	spliceosomal complex assembly
b	0000387	biological_process	spliceosomal snRNP assembly
b	0000395	biological_process	mRNA 5'-splice site recognition
b	0000398	biological_process	mRNA splicing, via spliceosome
b	0003723	molecular_function	RNA binding
b	0003729	molecular_function	mRNA binding
b	0005515	molecular_function	protein binding
b	0005634	cellular_component	nucleus
b	0005682	cellular_component	U5 snRNP
b	0005685	cellular_component	U1 snRNP
b	0005686	cellular_component	U2 snRNP
b	0005687	cellular_component	U4 snRNP
b	0005737	cellular_component	cytoplasm
b	0005829	cellular_component	cytosol
b	0006396	biological_process	RNA processing
b	0006397	biological_process	mRNA processing
b	0008380	biological_process	RNA splicing
b	0030532	cellular_component	small nuclear ribonucleoprotein complex
b	0034715	cellular_component	pICln-Sm protein complex
b	0034719	cellular_component	SMN-Sm protein complex
b	0036261	biological_process	7-methylguanosine cap hypermethylation
b	0046540	cellular_component	U4/U6 x U5 tri-snRNP complex
b	0071004	cellular_component	U2-type prespliceosome
b	0071011	cellular_component	precatalytic spliceosome
b	0071013	cellular_component	catalytic step 2 spliceosome
b	0097525	cellular_component	spliceosomal snRNP complex
b	0097526	cellular_component	spliceosomal tri-snRNP complex
b	1903241	biological_process	U2-type prespliceosome assembly
b	1990904	cellular_component	ribonucleoprotein complex
c	0000245	biological_process	spliceosomal complex assembly
c	0000387	biological_process	spliceosomal snRNP assembly
c	0000395	biological_process	mRNA 5'-splice site recognition
c	0000398	biological_process	mRNA splicing, via spliceosome
c	0000974	cellular_component	Prp19 complex
c	0003674	molecular_function	molecular_function
c	0003723	molecular_function	RNA binding
c	0005515	molecular_function	protein binding
c	0005634	cellular_component	nucleus
c	0005681	cellular_component	spliceosomal complex
c	0005682	cellular_component	U5 snRNP
c	0005685	cellular_component	U1 snRNP
c	0005686	cellular_component	U2 snRNP
c	0005737	cellular_component	cytoplasm
c	0005829	cellular_component	cytosol
c	0006397	biological_process	mRNA processing
c	0008150	biological_process	biological_process
c	0008380	biological_process	RNA splicing
c	0030532	cellular_component	small nuclear ribonucleoprotein complex
c	0034715	cellular_component	pICln-Sm protein complex
c	0036261	biological_process	7-methylguanosine cap hypermethylation
c	0046540	cellular_component	U4/U6 x U5 tri-snRNP complex
c	0071004	cellular_component	U2-type prespliceosome
c	0071011	cellular_component	precatalytic spliceosome
c	0071013	cellular_component	catalytic step 2 spliceosome
c	1903241	biological_process	U2-type prespliceosome assembly
c	1990904	cellular_component	ribonucleoprotein complex
d	0000243	cellular_component	commitment complex
d	0000245	biological_process	spliceosomal complex assembly
d	0000387	biological_process	spliceosomal snRNP assembly
d	0000395	biological_process	mRNA 5'-splice site recognition
d	0000398	biological_process	mRNA splicing, via spliceosome
d	0003723	molecular_function	RNA binding
d	0003729	molecular_function	mRNA binding
d	0005515	molecular_function	protein binding
d	0005634	cellular_component	nucleus
d	0005681	cellular_component	spliceosomal complex
d	0005682	cellular_component	U5 snRNP
d	0005685	cellular_component	U1 snRNP
d	0005686	cellular_component	U2 snRNP
d	0005687	cellular_component	U4 snRNP
d	0005737	cellular_component	cytoplasm
d	0005829	cellular_component	cytosol
d	0006396	biological_process	RNA processing
d	0006397	biological_process	mRNA processing
d	0008380	biological_process	RNA splicing
d	0034719	cellular_component	SMN-Sm protein complex
d	0036261	biological_process	7-methylguanosine cap hypermethylation
d	0046540	cellular_component	U4/U6 x U5 tri-snRNP complex
d	0071004	cellular_component	U2-type prespliceosome
d	0071011	cellular_component	precatalytic spliceosome
d	0071013	cellular_component	catalytic step 2 spliceosome
d	0097526	cellular_component	spliceosomal tri-snRNP complex
d	1903241	biological_process	U2-type prespliceosome assembly
d	1990904	cellular_component	ribonucleoprotein complex
e	0000245	biological_process	spliceosomal complex assembly
e	0000387	biological_process	spliceosomal snRNP assembly
e	0000395	biological_process	mRNA 5'-splice site recognition
e	0000398	biological_process	mRNA splicing, via spliceosome
e	0003723	molecular_function	RNA binding
e	0005515	molecular_function	protein binding
e	0005634	cellular_component	nucleus
e	0005681	cellular_component	spliceosomal complex
e	0005682	cellular_component	U5 snRNP
e	0005685	cellular_component	U1 snRNP
e	0005686	cellular_component	U2 snRNP
e	0005687	cellular_component	U4 snRNP
e	0005737	cellular_component	cytoplasm
e	0006397	biological_process	mRNA processing
e	0008380	biological_process	RNA splicing
e	0032991	cellular_component	protein-containing complex
e	0034715	cellular_component	pICln-Sm protein complex
e	0036261	biological_process	7-methylguanosine cap hypermethylation
e	0046540	cellular_component	U4/U6 x U5 tri-snRNP complex
e	0071004	cellular_component	U2-type prespliceosome
e	0071011	cellular_component	precatalytic spliceosome
e	1903241	biological_process	U2-type prespliceosome assembly
e	1990904	cellular_component	ribonucleoprotein complex
e	1990935	molecular_function	splicing factor binding
f	0000245	biological_process	spliceosomal complex assembly
f	0000387	biological_process	spliceosomal snRNP assembly
f	0000395	biological_process	mRNA 5'-splice site recognition
f	0000398	biological_process	mRNA splicing, via spliceosome
f	0003723	molecular_function	RNA binding
f	0005515	molecular_function	protein binding
f	0005634	cellular_component	nucleus
f	0005681	cellular_component	spliceosomal complex
f	0005682	cellular_component	U5 snRNP
f	0005685	cellular_component	U1 snRNP
f	0005686	cellular_component	U2 snRNP
f	0005737	cellular_component	cytoplasm
f	0006397	biological_process	mRNA processing
f	0008266	molecular_function	poly(U) RNA binding
f	0008380	biological_process	RNA splicing
f	0034715	cellular_component	pICln-Sm protein complex
f	0036261	biological_process	7-methylguanosine cap hypermethylation
f	0046540	cellular_component	U4/U6 x U5 tri-snRNP complex
f	0071013	cellular_component	catalytic step 2 spliceosome
f	0120114	cellular_component	Sm-like protein family complex
f	1903241	biological_process	U2-type prespliceosome assembly
f	1990904	cellular_component	ribonucleoprotein complex
f	1990935	molecular_function	splicing factor binding
g	0000245	biological_process	spliceosomal complex assembly
g	0000387	biological_process	spliceosomal snRNP assembly
g	0000395	biological_process	mRNA 5'-splice site recognition
g	0000398	biological_process	mRNA splicing, via spliceosome
g	0003674	molecular_function	molecular_function
g	0003723	molecular_function	RNA binding
g	0005515	molecular_function	protein binding
g	0005634	cellular_component	nucleus
g	0005681	cellular_component	spliceosomal complex
g	0005682	cellular_component	U5 snRNP
g	0005685	cellular_component	U1 snRNP
g	0005686	cellular_component	U2 snRNP
g	0005687	cellular_component	U4 snRNP
g	0005737	cellular_component	cytoplasm
g	0006397	biological_process	mRNA processing
g	0008150	biological_process	biological_process
g	0008380	biological_process	RNA splicing
g	0032991	cellular_component	protein-containing complex
g	0034719	cellular_component	SMN-Sm protein complex
g	0036261	biological_process	7-methylguanosine cap hypermethylation
g	0046540	cellular_component	U4/U6 x U5 tri-snRNP complex
g	0071004	cellular_component	U2-type prespliceosome
g	0071011	cellular_component	precatalytic spliceosome
g	0071013	cellular_component	catalytic step 2 spliceosome
g	0097526	cellular_component	spliceosomal tri-snRNP complex
g	1903241	biological_process	U2-type prespliceosome assembly
g	1990904	cellular_component	ribonucleoprotein complex
x	0016172	molecular_function	antifreeze activity
x	0050825	molecular_function	ice binding
y	0000166	molecular_function	nucleotide binding
y	0000384	molecular_function	first spliceosomal transesterification activity
y	0000395	biological_process	mRNA 5'-splice site recognition
y	0000398	biological_process	mRNA splicing, via spliceosome
y	0003676	molecular_function	nucleic acid binding
y	0003723	molecular_function	RNA binding
y	0003724	molecular_function	RNA helicase activity
y	0003729	molecular_function	mRNA binding
y	0004386	molecular_function	helicase activity
y	0005515	molecular_function	protein binding
y	0005524	molecular_function	ATP binding
y	0005634	cellular_component	nucleus
y	0005682	cellular_component	U5 snRNP
y	0005737	cellular_component	cytoplasm
y	0006397	biological_process	mRNA processing
y	0008380	biological_process	RNA splicing
y	0010467	biological_process	gene expression
y	0016787	molecular_function	hydrolase activity
y	0016887	molecular_function	ATP hydrolysis activity
y	0071013	cellular_component	catalytic step 2 spliceosome

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue ZN R 500

Chain	Residue
R	CYS6
R	CYS9
R	HIS24
R	HIS30

---

site_id	AC2
Number of Residues	4
Details	binding site for residue ZN Y 500

Chain	Residue
Y	CYS201
Y	CYS204
Y	HIS220
Y	HIS226

---

site_id	AC3
Number of Residues	4
Details	binding site for residue ZN Y 501

Chain	Residue
Y	CYS53
Y	CYS68
Y	HIS72
Y	CYS45

---

Functional Information from PROSITE/UniProt

site_id	PS00039
Number of Residues	9
Details	DEAD_ATP_HELICASE DEAD-box subfamily ATP-dependent helicases signature. VLDEADKmI

Chain	Residue	Details
y	VAL339-ILE347

---

site_id	PS00228
Number of Residues	4
Details	TUBULIN_B_AUTOREG Tubulin-beta mRNA autoregulation signal. MRDI

Chain	Residue	Details
X	MET1-ILE4

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	32
Details	Zinc finger: {"description":"Matrin-type","evidences":[{"source":"HAMAP-Rule","id":"MF_03153","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	22
Details	Region: {"description":"Disordered","evidences":[{"source":"SAM","id":"MobiDB-lite","evidenceCode":"ECO:0000256"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	12
Details	Compositional bias: {"description":"Basic residues","evidences":[{"source":"SAM","id":"MobiDB-lite","evidenceCode":"ECO:0000256"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	64
Details	Repeat: {"description":"HAT 1"}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	64
Details	Repeat: {"description":"HAT 2"}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	68
Details	Repeat: {"description":"HAT 3"}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	68
Details	Repeat: {"description":"HAT 4"}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	32
Details	Repeat: {"description":"HAT 5"}

Chain

Residue

Details

---

site_id	SWS_FT_FI9
Number of Residues	33
Details	Repeat: {"description":"HAT 6"}

Chain

Residue

Details

---

site_id	SWS_FT_FI10
Number of Residues	66
Details	Repeat: {"description":"HAT 7"}

Chain

Residue

Details

---

site_id	SWS_FT_FI11
Number of Residues	31
Details	Repeat: {"description":"HAT 8"}

Chain

Residue

Details

---

site_id	SWS_FT_FI12
Number of Residues	32
Details	Repeat: {"description":"HAT 9"}

Chain

Residue

Details

---

site_id	SWS_FT_FI13
Number of Residues	32
Details	Motif: {"description":"Nuclear localization signal","evidences":[{"evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI14
Number of Residues	72
Details	Domain: {"description":"RRM 3","evidences":[{"source":"PROSITE-ProRule","id":"PRU00176","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI15
Number of Residues	10
Details	Compositional bias: {"description":"Basic and acidic residues","evidences":[{"source":"SAM","id":"MobiDB-lite","evidenceCode":"ECO:0000256"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI16
Number of Residues	171
Details	Domain: {"description":"Sm","evidences":[{"source":"PROSITE-ProRule","id":"PRU01346","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI17
Number of Residues	191
Details	Domain: {"description":"Helicase ATP-binding","evidences":[{"source":"PROSITE-ProRule","id":"PRU00541","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI18
Number of Residues	3
Details	Motif: {"description":"DEAD box"}

Chain

Residue

Details

---

site_id	SWS_FT_FI19
Number of Residues	7
Details	Binding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00541","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---