6SW9

IC2A model of cryo-EM structure of a full archaeal ribosomal translation initiation complex devoid of aIF1 in P. abyssi

Functional Information from GO Data

Chain	GOid	namespace	contents
0	0005840	cellular_component	ribosome
0	1990904	cellular_component	ribonucleoprotein complex
3	0001682	biological_process	tRNA 5'-leader removal
3	0003723	molecular_function	RNA binding
3	0003735	molecular_function	structural constituent of ribosome
3	0004526	molecular_function	ribonuclease P activity
3	0005737	cellular_component	cytoplasm
3	0005840	cellular_component	ribosome
3	0006412	biological_process	translation
3	0008033	biological_process	tRNA processing
3	0019843	molecular_function	rRNA binding
3	0022627	cellular_component	cytosolic small ribosomal subunit
3	0042254	biological_process	ribosome biogenesis
3	1990904	cellular_component	ribonucleoprotein complex
6	0003723	molecular_function	RNA binding
6	0003743	molecular_function	translation initiation factor activity
6	0005737	cellular_component	cytoplasm
6	0006412	biological_process	translation
6	0006413	biological_process	translational initiation
7	0000049	molecular_function	tRNA binding
7	0001731	biological_process	formation of translation preinitiation complex
7	0003743	molecular_function	translation initiation factor activity
7	0003746	molecular_function	translation elongation factor activity
7	0003924	molecular_function	GTPase activity
7	0005515	molecular_function	protein binding
7	0005525	molecular_function	GTP binding
7	0006412	biological_process	translation
7	0006413	biological_process	translational initiation
7	0006414	biological_process	translational elongation
7	0016787	molecular_function	hydrolase activity
7	0046872	molecular_function	metal ion binding
8	0003743	molecular_function	translation initiation factor activity
8	0006412	biological_process	translation
8	0006413	biological_process	translational initiation
9	0003676	molecular_function	nucleic acid binding
9	0003723	molecular_function	RNA binding
9	0003743	molecular_function	translation initiation factor activity
9	0005515	molecular_function	protein binding
9	0006412	biological_process	translation
9	0006413	biological_process	translational initiation
9	0043022	molecular_function	ribosome binding
A	0003735	molecular_function	structural constituent of ribosome
A	0005829	cellular_component	cytosol
A	0005840	cellular_component	ribosome
A	0006412	biological_process	translation
A	1990904	cellular_component	ribonucleoprotein complex
B	0000028	biological_process	ribosomal small subunit assembly
B	0002181	biological_process	cytoplasmic translation
B	0003735	molecular_function	structural constituent of ribosome
B	0005840	cellular_component	ribosome
B	0006412	biological_process	translation
B	0015935	cellular_component	small ribosomal subunit
B	0022627	cellular_component	cytosolic small ribosomal subunit
B	1990904	cellular_component	ribonucleoprotein complex
D	0003723	molecular_function	RNA binding
D	0003735	molecular_function	structural constituent of ribosome
D	0005840	cellular_component	ribosome
D	0006412	biological_process	translation
D	0015935	cellular_component	small ribosomal subunit
D	0019843	molecular_function	rRNA binding
D	0022627	cellular_component	cytosolic small ribosomal subunit
D	0042274	biological_process	ribosomal small subunit biogenesis
D	1990904	cellular_component	ribonucleoprotein complex
E	0003723	molecular_function	RNA binding
E	0003735	molecular_function	structural constituent of ribosome
E	0005840	cellular_component	ribosome
E	0006412	biological_process	translation
E	0019843	molecular_function	rRNA binding
E	0022627	cellular_component	cytosolic small ribosomal subunit
E	1990904	cellular_component	ribonucleoprotein complex
F	0003723	molecular_function	RNA binding
F	0003735	molecular_function	structural constituent of ribosome
F	0005737	cellular_component	cytoplasm
F	0005840	cellular_component	ribosome
F	0006412	biological_process	translation
F	0015935	cellular_component	small ribosomal subunit
F	0019843	molecular_function	rRNA binding
F	0043229	cellular_component	intracellular organelle
F	1990904	cellular_component	ribonucleoprotein complex
G	0003735	molecular_function	structural constituent of ribosome
G	0005840	cellular_component	ribosome
G	0006412	biological_process	translation
G	1990904	cellular_component	ribonucleoprotein complex
H	0000028	biological_process	ribosomal small subunit assembly
H	0003729	molecular_function	mRNA binding
H	0003735	molecular_function	structural constituent of ribosome
H	0005840	cellular_component	ribosome
H	0006412	biological_process	translation
H	0015935	cellular_component	small ribosomal subunit
H	0019843	molecular_function	rRNA binding
H	0022627	cellular_component	cytosolic small ribosomal subunit
H	1990904	cellular_component	ribonucleoprotein complex
I	0003735	molecular_function	structural constituent of ribosome
I	0005840	cellular_component	ribosome
I	0006412	biological_process	translation
I	0019843	molecular_function	rRNA binding
I	0022627	cellular_component	cytosolic small ribosomal subunit
I	1990904	cellular_component	ribonucleoprotein complex
J	0000462	biological_process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
J	0003735	molecular_function	structural constituent of ribosome
J	0005840	cellular_component	ribosome
J	0006412	biological_process	translation
J	0022627	cellular_component	cytosolic small ribosomal subunit
J	1990904	cellular_component	ribonucleoprotein complex
K	0000462	biological_process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
K	0003723	molecular_function	RNA binding
K	0003735	molecular_function	structural constituent of ribosome
K	0005840	cellular_component	ribosome
K	0006412	biological_process	translation
K	0022627	cellular_component	cytosolic small ribosomal subunit
K	1990904	cellular_component	ribonucleoprotein complex
L	0000049	molecular_function	tRNA binding
L	0003723	molecular_function	RNA binding
L	0003735	molecular_function	structural constituent of ribosome
L	0005840	cellular_component	ribosome
L	0006412	biological_process	translation
L	0015935	cellular_component	small ribosomal subunit
L	0022627	cellular_component	cytosolic small ribosomal subunit
L	1990904	cellular_component	ribonucleoprotein complex
M	0000028	biological_process	ribosomal small subunit assembly
M	0003735	molecular_function	structural constituent of ribosome
M	0005840	cellular_component	ribosome
M	0006412	biological_process	translation
M	0019843	molecular_function	rRNA binding
M	0022627	cellular_component	cytosolic small ribosomal subunit
M	1990904	cellular_component	ribonucleoprotein complex
N	0003735	molecular_function	structural constituent of ribosome
N	0005840	cellular_component	ribosome
N	0006412	biological_process	translation
N	0015935	cellular_component	small ribosomal subunit
N	0019843	molecular_function	rRNA binding
N	0022627	cellular_component	cytosolic small ribosomal subunit
N	1990904	cellular_component	ribonucleoprotein complex
O	0003676	molecular_function	nucleic acid binding
O	0003723	molecular_function	RNA binding
O	0003735	molecular_function	structural constituent of ribosome
O	0005829	cellular_component	cytosol
O	0005840	cellular_component	ribosome
O	0006412	biological_process	translation
O	0015935	cellular_component	small ribosomal subunit
O	0019843	molecular_function	rRNA binding
O	1990904	cellular_component	ribonucleoprotein complex
P	0003723	molecular_function	RNA binding
P	0003735	molecular_function	structural constituent of ribosome
P	0005840	cellular_component	ribosome
P	0006412	biological_process	translation
P	0008270	molecular_function	zinc ion binding
P	0015935	cellular_component	small ribosomal subunit
P	0019843	molecular_function	rRNA binding
P	0022627	cellular_component	cytosolic small ribosomal subunit
P	0046872	molecular_function	metal ion binding
P	1990904	cellular_component	ribonucleoprotein complex
Q	0003735	molecular_function	structural constituent of ribosome
Q	0005840	cellular_component	ribosome
Q	0006412	biological_process	translation
Q	0022627	cellular_component	cytosolic small ribosomal subunit
Q	0070181	molecular_function	small ribosomal subunit rRNA binding
Q	1990904	cellular_component	ribonucleoprotein complex
R	0003735	molecular_function	structural constituent of ribosome
R	0005840	cellular_component	ribosome
R	0006412	biological_process	translation
R	0019843	molecular_function	rRNA binding
R	0022627	cellular_component	cytosolic small ribosomal subunit
R	1990904	cellular_component	ribonucleoprotein complex
S	0003735	molecular_function	structural constituent of ribosome
S	0005840	cellular_component	ribosome
S	0006412	biological_process	translation
S	1990904	cellular_component	ribonucleoprotein complex
T	0000028	biological_process	ribosomal small subunit assembly
T	0003723	molecular_function	RNA binding
T	0003735	molecular_function	structural constituent of ribosome
T	0005840	cellular_component	ribosome
T	0006412	biological_process	translation
T	0015935	cellular_component	small ribosomal subunit
T	0019843	molecular_function	rRNA binding
T	0022627	cellular_component	cytosolic small ribosomal subunit
T	1990904	cellular_component	ribonucleoprotein complex
U	0000028	biological_process	ribosomal small subunit assembly
U	0003723	molecular_function	RNA binding
U	0003735	molecular_function	structural constituent of ribosome
U	0005840	cellular_component	ribosome
U	0006412	biological_process	translation
U	0022627	cellular_component	cytosolic small ribosomal subunit
U	1990904	cellular_component	ribonucleoprotein complex
V	0003735	molecular_function	structural constituent of ribosome
V	0005840	cellular_component	ribosome
V	0006412	biological_process	translation
V	1990904	cellular_component	ribonucleoprotein complex
W	0000028	biological_process	ribosomal small subunit assembly
W	0003723	molecular_function	RNA binding
W	0003735	molecular_function	structural constituent of ribosome
W	0005840	cellular_component	ribosome
W	0006412	biological_process	translation
W	0008270	molecular_function	zinc ion binding
W	0022627	cellular_component	cytosolic small ribosomal subunit
W	0046872	molecular_function	metal ion binding
W	1990904	cellular_component	ribonucleoprotein complex
X	0000028	biological_process	ribosomal small subunit assembly
X	0003735	molecular_function	structural constituent of ribosome
X	0005840	cellular_component	ribosome
X	0006412	biological_process	translation
X	0022627	cellular_component	cytosolic small ribosomal subunit
X	0030490	biological_process	maturation of SSU-rRNA
X	1990904	cellular_component	ribonucleoprotein complex
Y	0003735	molecular_function	structural constituent of ribosome
Y	0005840	cellular_component	ribosome
Y	0006412	biological_process	translation
Y	0008270	molecular_function	zinc ion binding
Y	0046872	molecular_function	metal ion binding
Y	1990904	cellular_component	ribonucleoprotein complex
Z	0003676	molecular_function	nucleic acid binding
Z	0003723	molecular_function	RNA binding
Z	0003735	molecular_function	structural constituent of ribosome
Z	0005840	cellular_component	ribosome
Z	0006412	biological_process	translation
Z	0015935	cellular_component	small ribosomal subunit
Z	0019843	molecular_function	rRNA binding
Z	0022627	cellular_component	cytosolic small ribosomal subunit
Z	1990904	cellular_component	ribonucleoprotein complex
Z	2001235	biological_process	positive regulation of apoptotic signaling pathway

Functional Information from PDB Data

site_id	AC1
Number of Residues	1
Details	binding site for residue MG 2 1601

Chain	Residue
2	G28

---

site_id	AC2
Number of Residues	2
Details	binding site for residue MG 2 1602

Chain	Residue
2	A539
2	A540

---

site_id	AC3
Number of Residues	2
Details	binding site for residue MG 2 1603

Chain	Residue
2	C39
2	U40

---

site_id	AC4
Number of Residues	1
Details	binding site for residue MG 2 1604

Chain	Residue
2	A1370

---

site_id	AC5
Number of Residues	2
Details	binding site for residue MG 2 1605

Chain	Residue
2	A574
2	A575

---

site_id	AC6
Number of Residues	2
Details	binding site for residue MG 2 1606

Chain	Residue
2	A587
2	C586

---

site_id	AC7
Number of Residues	2
Details	binding site for residue MG 2 1607

Chain	Residue
2	4AC590
2	G591

---

site_id	AC8
Number of Residues	3
Details	binding site for residue MG 2 1608

Chain	Residue
2	G725
2	A726
2	G727

---

site_id	AC9
Number of Residues	4
Details	binding site for residue MG 2 1609

Chain	Residue
2	6MZ1469
2	G1474
2	A1476
2	G1477

---

site_id	AD1
Number of Residues	1
Details	binding site for residue MG 2 1610

Chain	Residue
2	C106

---

site_id	AD2
Number of Residues	3
Details	binding site for residue MG 2 1611

Chain	Residue
2	U147
2	A148
2	C150

---

site_id	AD3
Number of Residues	3
Details	binding site for residue MG 2 1612

Chain	Residue
2	C584
2	U585
2	C586

---

site_id	AD4
Number of Residues	4
Details	binding site for residue MG 2 1616

Chain	Residue
2	A1468
2	6MZ1469
2	G1473
2	G1474

---

site_id	AD5
Number of Residues	2
Details	binding site for residue MG 2 1619

Chain	Residue
2	A474
2	A475

---

site_id	AD6
Number of Residues	3
Details	binding site for residue MG 2 1621

Chain	Residue
2	G553
2	G554
2	G555

---

site_id	AD7
Number of Residues	4
Details	binding site for residue MG 2 1622

Chain	Residue
2	C111
2	A112
2	G113
2	C298

---

site_id	AD8
Number of Residues	3
Details	binding site for residue MG 2 1626

Chain	Residue
2	C1019
2	G1171
2	G1172

---

site_id	AD9
Number of Residues	5
Details	binding site for residue MG 2 1627

Chain	Residue
2	C951
2	C952
2	U953
2	G1196
2	C1197

---

site_id	AE1
Number of Residues	2
Details	binding site for residue MG 2 1628

Chain	Residue
2	G1018
2	C1019

---

site_id	AE2
Number of Residues	2
Details	binding site for residue MG 2 1629

Chain	Residue
2	C1197
2	U1198

---

site_id	AE3
Number of Residues	2
Details	binding site for residue MG 2 1630

Chain	Residue
2	C1277
2	G1278

---

site_id	AE4
Number of Residues	4
Details	binding site for residue MG 2 1631

Chain	Residue
2	C1294
2	U1295
2	C1296
2	G1297

---

site_id	AE5
Number of Residues	4
Details	binding site for residue ZN C 101

Chain	Residue
C	CYS32
C	CYS35
C	CYS55
C	CYS58

---

site_id	AE6
Number of Residues	6
Details	binding site for residue ZN C 102

Chain	Residue
C	CYS14
C	SER16
C	CYS17
C	GLY18
C	CYS43
C	CYS46

---

site_id	AE7
Number of Residues	5
Details	binding site for residue ZN F 301

Chain	Residue
F	CYS128
F	CYS133
F	CYS135
F	ARG137
F	HIS139

---

site_id	AE8
Number of Residues	4
Details	binding site for residue ZN P 101

Chain	Residue
P	CYS21
P	CYS24
P	CYS39
P	CYS42

---

site_id	AE9
Number of Residues	6
Details	binding site for residue ZN R 201

Chain	Residue
R	LYS15
R	CYS16
R	ASP17
R	CYS21
R	HIS24
R	CYS77

---

site_id	AF1
Number of Residues	5
Details	binding site for residue ZN W 101

Chain	Residue
W	CYS20
W	ASP22
W	CYS23
W	CYS39
W	CYS42

---

site_id	AF2
Number of Residues	2
Details	binding site for residue MG 5 901

Chain	Residue
5	U816
5	A817

---

site_id	AF3
Number of Residues	1
Details	binding site for residue MG 4 101

Chain	Residue
4	A37

---

site_id	AF4
Number of Residues	6
Details	binding site for residue MET 7 501

Chain	Residue
4	A76
7	ARG219
7	VAL237
7	GLY282
7	LEU294
7	ALA296

---

site_id	AF5
Number of Residues	14
Details	binding site for residue GNP 7 502

Chain	Residue
7	HIS20
7	GLY21
7	LYS22
7	THR23
7	THR46
7	LYS150
7	SER184
7	ALA185
7	LEU186
7	HIS187
7	MG503
7	HIS17
7	VAL18
7	ASP19

---

site_id	AF6
Number of Residues	3
Details	binding site for residue MG 7 503

Chain	Residue
7	THR23
7	THR46
7	GNP502

---

site_id	AF7
Number of Residues	4
Details	binding site for residues B8H 2 938 and 5MC 2 939

Chain	Residue
2	U937
2	A940
2	A941
K	SER133

---

site_id	AF8
Number of Residues	9
Details	binding site for residues MA6 2 1487 and MA6 2 1488

Chain	Residue
0	MET14
0	ARG22
2	5HM1378
2	G1379
2	U1380
2	G1466
2	G1485
2	G1486
2	C1489

---

site_id	AF9
Number of Residues	6
Details	binding site for residues 5MU 4 54 and PSU 4 55

Chain	Residue
4	G18
4	G53
4	C56
4	A57
4	A58
4	C61

---

Functional Information from PROSITE/UniProt

site_id	PS00053
Number of Residues	18
Details	RIBOSOMAL_S8 Ribosomal protein S8 signature. GilIVSTSqGVMshkeAR

Chain	Residue	Details
I	GLY100-ARG117

---

site_id	PS00054
Number of Residues	23
Details	RIBOSOMAL_S11 Ribosomal protein S11 signature. IrALarA.GLkIgrveDvTPiPHD

Chain	Residue	Details
M	ILE102-ASP124

---

site_id	PS00056
Number of Residues	13
Details	RIBOSOMAL_S17 Ribosomal protein S17 signature. GDrVlIaEtRPLS

Chain	Residue	Details
R	GLY83-SER95

---

site_id	PS00323
Number of Residues	25
Details	RIBOSOMAL_S19 Ribosomal protein S19 signature. NGKefvpveIkpemIGhyLGEFapT

Chain	Residue	Details
T	ASN85-THR109

---

site_id	PS00360
Number of Residues	19
Details	RIBOSOMAL_S9 Ribosomal protein S9 signature. GGGfmGQaeAariAiARAL

Chain	Residue	Details
K	GLY68-LEU86

---

site_id	PS00361
Number of Residues	16
Details	RIBOSOMAL_S10 Ribosomal protein S10 signature. AertGVrmsGPIpLPT

Chain	Residue	Details
L	ALA27-THR42

---

site_id	PS00362
Number of Residues	31
Details	RIBOSOMAL_S15 Ribosomal protein S15 signature. LrkHLeqhPkDlhSmrgLqlIeskirrLvkY

Chain	Residue	Details
Q	LEU105-TYR135

---

site_id	PS00527
Number of Residues	22
Details	RIBOSOMAL_S14 Ribosomal protein S14 signature. R.Cgqygpiirihg.LMLCRhCFR

Chain	Residue	Details
P	ARG23-ARG44

---

site_id	PS00528
Number of Residues	15
Details	RIBOSOMAL_S4E Ribosomal protein S4e signature. HlKRLAaPtsWyIeR

Chain	Residue	Details
E	HIS9-ARG23

---

site_id	PS00529
Number of Residues	23
Details	RIBOSOMAL_S24E Ribosomal protein S24e signature. FGsyKSkGYAkYYYDkdrmlyiE

Chain	Residue	Details
V	PHE60-GLU82

---

site_id	PS00578
Number of Residues	12
Details	RIBOSOMAL_S6E Ribosomal protein S6e signature. IRGGtDkdGfPM

Chain	Residue	Details
G	ILE63-MET74

---

site_id	PS00585
Number of Residues	33
Details	RIBOSOMAL_S5 Ribosomal protein S5 signature. GRrvrFrVlaAVGNrd.GyVGlGighgr.EVgi.AI

Chain	Residue	Details
F	GLY78-ILE110

---

site_id	PS00628
Number of Residues	20
Details	RIBOSOMAL_S19E Ribosomal protein S19e signature. PerfykaGgsIiRkALQqLE

Chain	Residue	Details
U	PRO87-GLU106

---

site_id	PS00632
Number of Residues	25
Details	RIBOSOMAL_S4 Ribosomal protein S4 signature. LErRLqtiVYKkglArTmrqARqLI

Chain	Residue	Details
D	LEU101-ILE125

---

site_id	PS00646
Number of Residues	14
Details	RIBOSOMAL_S13_1 Ribosomal protein S13 signature. RGiRHelGlpVRGQ

Chain	Residue	Details
O	ARG116-GLN129

---

site_id	PS00712
Number of Residues	16
Details	RIBOSOMAL_S17E Ribosomal protein S17e signature. VtSKkIRNrIAGYiTK

Chain	Residue	Details
S	VAL41-LYS56

---

site_id	PS00961
Number of Residues	9
Details	RIBOSOMAL_S28E Ribosomal protein S28e signature. ETEREAReI

Chain	Residue	Details
X	GLU59-ILE67

---

site_id	PS00962
Number of Residues	12
Details	RIBOSOMAL_S2_1 Ribosomal protein S2 signature 1. LdQYLAAGVHIG

Chain	Residue	Details
B	LEU9-GLY20

---

site_id	PS00963
Number of Residues	25
Details	RIBOSOMAL_S2_2 Ribosomal protein S2 signature 2. PdvIIItDpraDhqaMkEaieiGIP

Chain	Residue	Details
B	PRO112-PRO136

---

site_id	PS01082
Number of Residues	18
Details	RIBOSOMAL_L7AE Ribosomal protein L7Ae signature. CeekeIPYiyVpSKkeLG

Chain	Residue	Details
3	CYS70-GLY87

---

site_id	PS01168
Number of Residues	33
Details	RIBOSOMAL_S27E Ribosomal protein S27e signature. KCidCgneqivFShPatrvrCnvCGatLvePtG

Chain	Residue	Details
W	LYS19-GLY51

---

site_id	PS01191
Number of Residues	13
Details	RIBOSOMAL_S3AE Ribosomal protein S3Ae signature. VlNRVvEvTLkDI

Chain	Residue	Details
A	VAL44-ILE56

---

site_id	PS01193
Number of Residues	20
Details	RIBOSOMAL_S8E Ribosomal protein S8e signature. RkpSGGrivla.RkKrKrELG

Chain	Residue	Details
J	ARG10-GLY29

---

site_id	PS01262
Number of Residues	23
Details	IF1A Eukaryotic initiation factor 1A signature. AlGaGWmdvrCeDGkiRrcRIpG

Chain	Residue	Details
6	ALA31-GLY53

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	2
Details	BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00119, ECO:0000269|PubMed:25690901, ECO:0007744|PDB:4RD1

Chain	Residue	Details
7	ASP19
7	GLY44
P	CYS39
P	CYS42

---

site_id	SWS_FT_FI2
Number of Residues	2
Details	BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00119, ECO:0000269|PubMed:16407071, ECO:0000269|PubMed:25690901, ECO:0007744|PDB:2AHO

Chain	Residue	Details
7	THR23
7	THR46
Y	CYS40
Y	CYS43

---

site_id	SWS_FT_FI3
Number of Residues	4
Details	BINDING: BINDING => ECO:0000250|UniProtKB:Q8U082, ECO:0000255|HAMAP-Rule:MF_00119

Chain	Residue	Details
7	CYS59
7	CYS62
7	CYS74
7	CYS77

---

site_id	SWS_FT_FI4
Number of Residues	2
Details	BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00119, ECO:0000269|PubMed:25690901, ECO:0007744|PDB:4RCY, ECO:0007744|PDB:4RD1

Chain	Residue	Details
7	ASN149
7	SER184

---