Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

5LNH

Structure of full length Unliganded CodY from Bacillus subtilis

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000976	molecular_function	transcription cis-regulatory region binding
A	0001217	molecular_function	DNA-binding transcription repressor activity
A	0003677	molecular_function	DNA binding
A	0003700	molecular_function	DNA-binding transcription factor activity
A	0005515	molecular_function	protein binding
A	0005525	molecular_function	GTP binding
A	0005737	cellular_component	cytoplasm
A	0006355	biological_process	regulation of DNA-templated transcription
A	0032993	cellular_component	protein-DNA complex
A	0045892	biological_process	negative regulation of DNA-templated transcription
B	0000976	molecular_function	transcription cis-regulatory region binding
B	0001217	molecular_function	DNA-binding transcription repressor activity
B	0003677	molecular_function	DNA binding
B	0003700	molecular_function	DNA-binding transcription factor activity
B	0005515	molecular_function	protein binding
B	0005525	molecular_function	GTP binding
B	0005737	cellular_component	cytoplasm
B	0006355	biological_process	regulation of DNA-templated transcription
B	0032993	cellular_component	protein-DNA complex
B	0045892	biological_process	negative regulation of DNA-templated transcription
C	0000976	molecular_function	transcription cis-regulatory region binding
C	0001217	molecular_function	DNA-binding transcription repressor activity
C	0003677	molecular_function	DNA binding
C	0003700	molecular_function	DNA-binding transcription factor activity
C	0005515	molecular_function	protein binding
C	0005525	molecular_function	GTP binding
C	0005737	cellular_component	cytoplasm
C	0006355	biological_process	regulation of DNA-templated transcription
C	0032993	cellular_component	protein-DNA complex
C	0045892	biological_process	negative regulation of DNA-templated transcription
D	0000976	molecular_function	transcription cis-regulatory region binding
D	0001217	molecular_function	DNA-binding transcription repressor activity
D	0003677	molecular_function	DNA binding
D	0003700	molecular_function	DNA-binding transcription factor activity
D	0005515	molecular_function	protein binding
D	0005525	molecular_function	GTP binding
D	0005737	cellular_component	cytoplasm
D	0006355	biological_process	regulation of DNA-templated transcription
D	0032993	cellular_component	protein-DNA complex
D	0045892	biological_process	negative regulation of DNA-templated transcription
E	0000976	molecular_function	transcription cis-regulatory region binding
E	0001217	molecular_function	DNA-binding transcription repressor activity
E	0003677	molecular_function	DNA binding
E	0003700	molecular_function	DNA-binding transcription factor activity
E	0005515	molecular_function	protein binding
E	0005525	molecular_function	GTP binding
E	0005737	cellular_component	cytoplasm
E	0006355	biological_process	regulation of DNA-templated transcription
E	0032993	cellular_component	protein-DNA complex
E	0045892	biological_process	negative regulation of DNA-templated transcription
F	0000976	molecular_function	transcription cis-regulatory region binding
F	0001217	molecular_function	DNA-binding transcription repressor activity
F	0003677	molecular_function	DNA binding
F	0003700	molecular_function	DNA-binding transcription factor activity
F	0005515	molecular_function	protein binding
F	0005525	molecular_function	GTP binding
F	0005737	cellular_component	cytoplasm
F	0006355	biological_process	regulation of DNA-templated transcription
F	0032993	cellular_component	protein-DNA complex
F	0045892	biological_process	negative regulation of DNA-templated transcription
G	0000976	molecular_function	transcription cis-regulatory region binding
G	0001217	molecular_function	DNA-binding transcription repressor activity
G	0003677	molecular_function	DNA binding
G	0003700	molecular_function	DNA-binding transcription factor activity
G	0005515	molecular_function	protein binding
G	0005525	molecular_function	GTP binding
G	0005737	cellular_component	cytoplasm
G	0006355	biological_process	regulation of DNA-templated transcription
G	0032993	cellular_component	protein-DNA complex
G	0045892	biological_process	negative regulation of DNA-templated transcription
H	0000976	molecular_function	transcription cis-regulatory region binding
H	0001217	molecular_function	DNA-binding transcription repressor activity
H	0003677	molecular_function	DNA binding
H	0003700	molecular_function	DNA-binding transcription factor activity
H	0005515	molecular_function	protein binding
H	0005525	molecular_function	GTP binding
H	0005737	cellular_component	cytoplasm
H	0006355	biological_process	regulation of DNA-templated transcription
H	0032993	cellular_component	protein-DNA complex
H	0045892	biological_process	negative regulation of DNA-templated transcription
I	0000976	molecular_function	transcription cis-regulatory region binding
I	0001217	molecular_function	DNA-binding transcription repressor activity
I	0003677	molecular_function	DNA binding
I	0003700	molecular_function	DNA-binding transcription factor activity
I	0005515	molecular_function	protein binding
I	0005525	molecular_function	GTP binding
I	0005737	cellular_component	cytoplasm
I	0006355	biological_process	regulation of DNA-templated transcription
I	0032993	cellular_component	protein-DNA complex
I	0045892	biological_process	negative regulation of DNA-templated transcription
K	0000976	molecular_function	transcription cis-regulatory region binding
K	0001217	molecular_function	DNA-binding transcription repressor activity
K	0003677	molecular_function	DNA binding
K	0003700	molecular_function	DNA-binding transcription factor activity
K	0005515	molecular_function	protein binding
K	0005525	molecular_function	GTP binding
K	0005737	cellular_component	cytoplasm
K	0006355	biological_process	regulation of DNA-templated transcription
K	0032993	cellular_component	protein-DNA complex
K	0045892	biological_process	negative regulation of DNA-templated transcription

Functional Information from PDB Data

site_id	AC1
Number of Residues	3
Details	binding site for residue SO4 A 301

Chain	Residue
A	PRO115
A	ILE117
A	GLU144

site_id	AC2
Number of Residues	1
Details	binding site for residue SO4 A 302

Chain	Residue
A	ARG61

site_id	AC3
Number of Residues	4
Details	binding site for residue SO4 B 301

Chain	Residue
B	PRO115
B	ILE117
B	GLU144
G	GLN15

site_id	AC4
Number of Residues	3
Details	binding site for residue SO4 B 302

Chain	Residue
B	LYS64
B	PRO72
B	ARG61

site_id	AC5
Number of Residues	6
Details	binding site for residue SO4 C 301

Chain	Residue
C	PRO115
C	GLU144
C	ALA147
C	THR148
F	ASN11
F	GLN15

site_id	AC6
Number of Residues	4
Details	binding site for residue SO4 E 301

Chain	Residue
D	PRO115
D	THR148
E	ASN11
E	GLN15

site_id	AC7
Number of Residues	4
Details	binding site for residue SO4 E 302

Chain	Residue
D	ASN11
E	VAL114
E	PRO115
E	GLU144

site_id	AC8
Number of Residues	6
Details	binding site for residue SO4 F 301

Chain	Residue
F	VAL114
F	PRO115
F	ILE117
F	GLU144
F	ALA147
F	THR148

site_id	AC9
Number of Residues	8
Details	binding site for residue SO4 G 301

Chain	Residue
B	ASN11
G	THR85
G	VAL114
G	PRO115
G	ILE117
G	GLU144
G	ALA147
G	THR148

site_id	AD1
Number of Residues	5
Details	binding site for residue SO4 H 301

Chain	Residue
H	VAL114
H	PRO115
H	ILE117
H	GLU144
H	ALA147

site_id	AD2
Number of Residues	4
Details	binding site for residue SO4 I 301

Chain	Residue
I	VAL114
I	PRO115
I	ILE117
I	GLU144

site_id	AD3
Number of Residues	5
Details	binding site for residue SO4 K 301

Chain	Residue
K	VAL114
K	PRO115
K	ILE117
K	GLU144
K	THR148

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	190
Details	DNA_BIND: H-T-H motif => ECO:0000305\|PubMed:15937175

Chain	Residue	Details
A	ALA203-ARG222
K	ALA203-ARG222
B	ALA203-ARG222
C	ALA203-ARG222
D	ALA203-ARG222
E	ALA203-ARG222
F	ALA203-ARG222
G	ALA203-ARG222
H	ALA203-ARG222
I	ALA203-ARG222

site_id	SWS_FT_FI2
Number of Residues	20
Details	BINDING: BINDING => ECO:0000305\|PubMed:16488888, ECO:0007744\|PDB:2GX5

Chain	Residue	Details
A	TYR51
E	ARG69
F	TYR51
F	ARG69
G	TYR51
G	ARG69
H	TYR51
H	ARG69
I	TYR51
I	ARG69
K	TYR51
A	ARG69
K	ARG69
B	TYR51
B	ARG69
C	TYR51
C	ARG69
D	TYR51
D	ARG69
E	TYR51

site_id	SWS_FT_FI3
Number of Residues	30
Details	BINDING: BINDING => ECO:0000269\|PubMed:16488888, ECO:0007744\|PDB:2HGV

Chain	Residue	Details
A	ARG61
D	ARG61
D	PHE98
D	VAL100
E	ARG61
E	PHE98
E	VAL100
F	ARG61
F	PHE98
F	VAL100
G	ARG61
A	PHE98
G	PHE98
G	VAL100
H	ARG61
H	PHE98
H	VAL100
I	ARG61
I	PHE98
I	VAL100
K	ARG61
K	PHE98
A	VAL100
K	VAL100
B	ARG61
B	PHE98
B	VAL100
C	ARG61
C	PHE98
C	VAL100

site_id	SWS_FT_FI4
Number of Residues	10
Details	BINDING: BINDING => ECO:0000269\|PubMed:28011634, ECO:0007744\|PDB:5LOE

Chain	Residue	Details
A	THR96
K	THR96
B	THR96
C	THR96
D	THR96
E	THR96
F	THR96
G	THR96
H	THR96
I	THR96

site_id	SWS_FT_FI5
Number of Residues	10
Details	MOD_RES: Phosphoserine => ECO:0000269\|PubMed:17218307

Chain	Residue	Details
A	SER215
K	SER215
B	SER215
C	SER215
D	SER215
E	SER215
F	SER215
G	SER215
H	SER215
I	SER215

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)