2WWB

CRYO-EM STRUCTURE OF THE MAMMALIAN SEC61 COMPLEX BOUND TO THE ACTIVELY TRANSLATING WHEAT GERM 80S RIBOSOME

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005048	molecular_function	signal sequence binding
A	0005784	cellular_component	Sec61 translocon complex
A	0005789	cellular_component	endoplasmic reticulum membrane
A	0006613	biological_process	cotranslational protein targeting to membrane
A	0006616	biological_process	SRP-dependent cotranslational protein targeting to membrane, translocation
A	0008320	molecular_function	protein transmembrane transporter activity
A	0015031	biological_process	protein transport
A	0016020	cellular_component	membrane
A	0031204	biological_process	post-translational protein targeting to membrane, translocation
A	0039019	biological_process	pronephric nephron development
A	0043022	molecular_function	ribosome binding
A	0045047	biological_process	protein targeting to ER
A	0045048	biological_process	protein insertion into ER membrane
B	0005543	molecular_function	phospholipid binding
B	0005789	cellular_component	endoplasmic reticulum membrane
B	0006605	biological_process	protein targeting
B	0006886	biological_process	intracellular protein transport
B	0008320	molecular_function	protein transmembrane transporter activity
B	0015031	biological_process	protein transport
B	0016020	cellular_component	membrane
B	0022406	biological_process	membrane docking
B	0031204	biological_process	post-translational protein targeting to membrane, translocation
B	0043022	molecular_function	ribosome binding
B	0045047	biological_process	protein targeting to ER
B	0071261	cellular_component	Ssh1 translocon complex
C	0005085	molecular_function	guanyl-nucleotide exchange factor activity
C	0005783	cellular_component	endoplasmic reticulum
C	0005784	cellular_component	Sec61 translocon complex
C	0005789	cellular_component	endoplasmic reticulum membrane
C	0006616	biological_process	SRP-dependent cotranslational protein targeting to membrane, translocation
C	0006886	biological_process	intracellular protein transport
C	0015031	biological_process	protein transport
C	0015450	molecular_function	protein-transporting ATPase activity
C	0016020	cellular_component	membrane
C	0031204	biological_process	post-translational protein targeting to membrane, translocation
C	0031205	cellular_component	endoplasmic reticulum Sec complex
C	0043022	molecular_function	ribosome binding
H	0002181	biological_process	cytoplasmic translation
H	0003723	molecular_function	RNA binding
H	0003735	molecular_function	structural constituent of ribosome
H	0005634	cellular_component	nucleus
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0005840	cellular_component	ribosome
H	0006412	biological_process	translation
H	0022625	cellular_component	cytosolic large ribosomal subunit
H	1990904	cellular_component	ribonucleoprotein complex
I	0000448	biological_process	cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
I	0002181	biological_process	cytoplasmic translation
I	0003735	molecular_function	structural constituent of ribosome
I	0005737	cellular_component	cytoplasm
I	0005829	cellular_component	cytosol
I	0005840	cellular_component	ribosome
I	0006412	biological_process	translation
I	0015934	cellular_component	large ribosomal subunit
I	0022625	cellular_component	cytosolic large ribosomal subunit
I	0030687	cellular_component	preribosome, large subunit precursor
I	1990904	cellular_component	ribonucleoprotein complex
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	0022625	cellular_component	cytosolic large ribosomal subunit
K	0000027	biological_process	ribosomal large subunit assembly
K	0002181	biological_process	cytoplasmic translation
K	0003723	molecular_function	RNA binding
K	0003735	molecular_function	structural constituent of ribosome
K	0005515	molecular_function	protein binding
K	0005737	cellular_component	cytoplasm
K	0005829	cellular_component	cytosol
K	0005840	cellular_component	ribosome
K	0006412	biological_process	translation
K	0019843	molecular_function	rRNA binding
K	0022625	cellular_component	cytosolic large ribosomal subunit
K	0030687	cellular_component	preribosome, large subunit precursor
K	1990904	cellular_component	ribonucleoprotein complex
L	0002181	biological_process	cytoplasmic translation
L	0003723	molecular_function	RNA binding
L	0003735	molecular_function	structural constituent of ribosome
L	0005737	cellular_component	cytoplasm
L	0005829	cellular_component	cytosol
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	0032991	cellular_component	protein-containing complex
L	0042273	biological_process	ribosomal large subunit biogenesis
L	1990904	cellular_component	ribonucleoprotein complex
M	0002181	biological_process	cytoplasmic translation
M	0003735	molecular_function	structural constituent of ribosome
M	0005737	cellular_component	cytoplasm
M	0005829	cellular_component	cytosol
M	0005840	cellular_component	ribosome
M	0006412	biological_process	translation
M	0006450	biological_process	regulation of translational fidelity
M	0022625	cellular_component	cytosolic large ribosomal subunit
M	1990904	cellular_component	ribonucleoprotein complex
N	0000463	biological_process	maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
N	0002181	biological_process	cytoplasmic translation
N	0003729	molecular_function	mRNA binding
N	0003735	molecular_function	structural constituent of ribosome
N	0005737	cellular_component	cytoplasm
N	0005829	cellular_component	cytosol
N	0005840	cellular_component	ribosome
N	0006412	biological_process	translation
N	0022625	cellular_component	cytosolic large ribosomal subunit
N	0030687	cellular_component	preribosome, large subunit precursor
N	1990904	cellular_component	ribonucleoprotein complex
O	0002181	biological_process	cytoplasmic translation
O	0003735	molecular_function	structural constituent of ribosome
O	0005515	molecular_function	protein binding
O	0005737	cellular_component	cytoplasm
O	0005829	cellular_component	cytosol
O	0005840	cellular_component	ribosome
O	0006412	biological_process	translation
O	0022625	cellular_component	cytosolic large ribosomal subunit
O	1990904	cellular_component	ribonucleoprotein complex

Functional Information from PROSITE/UniProt

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

Chain	Residue	Details
K	LYS120-ILE135

---

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

Chain	Residue	Details
O	ARG30-ARG46

---

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

Chain	Residue	Details
I	ARG126-VAL150

---

site_id	PS00526
Number of Residues	20
Details	RIBOSOMAL_L19E Ribosomal protein L19e signature. QKRLaAsvvgVGkrkVWLDP

Chain	Residue	Details
J	GLN7-PRO26

---

site_id	PS00579
Number of Residues	15
Details	RIBOSOMAL_L29 Ribosomal protein L29 signature. SLPKIKtVRKSIACV

Chain	Residue	Details
N	SER40-VAL54

---

site_id	PS00755
Number of Residues	20
Details	SECY_1 Protein secY signature 1. TLMeLGIsPIVtSGLIMQLL

Chain	Residue	Details
A	THR75-LEU94

---

site_id	PS00756
Number of Residues	19
Details	SECY_2 Protein secY signature 2. LLdElLQkgyGLGSGiSLF

Chain	Residue	Details
A	LEU164-PHE182

---

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

Chain	Residue	Details
H	ASN114-HIS140

---

site_id	PS01067
Number of Residues	29
Details	SECE_SEC61G Protein secE/sec61-gamma signature. FvKDsIrlVkRctKPdrkEfqkiaMATAI

Chain	Residue	Details
B	PHE14-ILE42

---

site_id	PS01108
Number of Residues	18
Details	RIBOSOMAL_L24 Ribosomal protein L24 signature. DDeVlVVrGskKGqe.GkI

Chain	Residue	Details
L	ASP53-ILE70

---

site_id	PS01144
Number of Residues	15
Details	RIBOSOMAL_L31E Ribosomal protein L31e signature. VRLApeLNqAiWkRG

Chain	Residue	Details
M	VAL49-GLY63

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	162
Details	Topological domain: {"description":"Cytoplasmic","evidences":[{"source":"PubMed","id":"36261528","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"7TM3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7TUT","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	223
Details	Transmembrane: {"description":"Helical","evidences":[{"source":"PubMed","id":"36261528","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"7TM3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7TUT","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	151
Details	Topological domain: {"description":"Lumenal","evidences":[{"source":"PubMed","id":"36261528","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"7TM3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7TUT","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	6
Details	Topological domain: {"description":"Extracellular","evidences":[{"source":"PubMed","id":"36261528","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"7TM3","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7TUT","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	1
Details	Modified residue: {"description":"N-acetylmethionine","evidences":[{"source":"UniProtKB","id":"P60059","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"P60059","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	1
Details	Modified residue: {"description":"N-acetylserine","evidences":[{"source":"PubMed","id":"1544921","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	1
Details	Modified residue: {"description":"Omega-N-methylarginine","evidences":[{"source":"PubMed","id":"26046779","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI9
Number of Residues	1
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"17287358","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI10
Number of Residues	2
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"22106047","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI11
Number of Residues	2
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO)","evidences":[{"source":"PubMed","id":"15542864","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI12
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"19779198","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI13
Number of Residues	21
Details	Region: {"description":"Disordered","evidences":[{"source":"SAM","id":"MobiDB-lite","evidenceCode":"ECO:0000256"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI14
Number of Residues	13
Details	Compositional bias: {"description":"Basic residues","evidences":[{"source":"SAM","id":"MobiDB-lite","evidenceCode":"ECO:0000256"}]}

Chain

Residue

Details

---