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Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

3V7E

Crystal structure of YbxF bound to the SAM-I riboswitch aptamer

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003723	molecular_function	RNA binding
A	0005737	cellular_component	cytoplasm
A	0005840	cellular_component	ribosome
A	1990904	cellular_component	ribonucleoprotein complex
B	0003723	molecular_function	RNA binding
B	0005737	cellular_component	cytoplasm
B	0005840	cellular_component	ribosome
B	1990904	cellular_component	ribonucleoprotein complex

Functional Information from PDB Data

site_id	AC1
Number of Residues	7
Details	BINDING SITE FOR RESIDUE NCO C 901

Chain	Residue
C	U4
C	U5
C	A6
C	A119
C	U120
C	G121
C	A122

site_id	AC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE NCO C 902

Chain	Residue
C	U26
C	G27
C	G28
C	G23
C	C25

site_id	AC3
Number of Residues	6
Details	BINDING SITE FOR RESIDUE NCO C 903

Chain	Residue
C	C59
C	G60
C	U61
C	G73
C	A74
C	NCO909

site_id	AC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE NCO C 904

Chain	Residue
C	A45
C	A46
C	G87
C	G88

site_id	AC5
Number of Residues	6
Details	BINDING SITE FOR RESIDUE NCO C 905

Chain	Residue
C	A10
C	G11
C	A12
C	A94
C	U95
C	U96

site_id	AC6
Number of Residues	3
Details	BINDING SITE FOR RESIDUE NCO C 906

Chain	Residue
C	U113
C	G114
C	A115

site_id	AC7
Number of Residues	8
Details	BINDING SITE FOR RESIDUE NCO C 907

Chain	Residue
C	A24
C	C25
C	U96
C	C98
C	U99
C	G100
C	A116
C	A117

site_id	AC8
Number of Residues	3
Details	BINDING SITE FOR RESIDUE NCO C 908

Chain	Residue
C	C41
C	G42
C	G43

site_id	AC9
Number of Residues	2
Details	BINDING SITE FOR RESIDUE NCO C 909

Chain	Residue
C	C59
C	NCO903

site_id	BC1
Number of Residues	3
Details	BINDING SITE FOR RESIDUE NCO C 910

Chain	Residue
C	A46
C	A84
C	G85

site_id	BC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE NCO C 911

Chain	Residue
C	G53
C	U54
C	A79
C	G80
C	G81

site_id	BC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE NCO C 912

Chain	Residue
C	C62
C	A63
C	G64

site_id	BC4
Number of Residues	8
Details	BINDING SITE FOR RESIDUE SAM C 913

Chain	Residue
C	U7
C	G11
C	A45
C	C47
C	U89
C	G90
C	U120
C	G121

site_id	BC5
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG C 914

Chain	Residue
C	G13
C	G42
C	C92
C	HOH1007

site_id	BC6
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG C 917

Chain	Residue
C	A36

site_id	BC7
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG C 918

Chain	Residue
C	G100
C	C101
C	A102

site_id	BC8
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG C 919

Chain	Residue
C	G1
C	HOH1003
D	HOH501
D	HOH502

site_id	BC9
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG C 920

Chain	Residue
C	G19

site_id	CC1
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG C 921

Chain	Residue
C	U83
C	A84

site_id	CC2
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG C 922

Chain	Residue
C	C104
C	G105

site_id	CC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG C 923

Chain	Residue
C	HOH1001
C	HOH1004
C	HOH1005

site_id	CC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG C 924

Chain	Residue
C	G18
C	G19
C	G35
C	HOH1002

site_id	CC5
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG C 926

Chain	Residue
C	C3
C	HOH1006

site_id	CC6
Number of Residues	5
Details	BINDING SITE FOR RESIDUE NCO D 401

Chain	Residue
D	U204
D	U205
D	A319
D	U320
D	G321

site_id	CC7
Number of Residues	5
Details	BINDING SITE FOR RESIDUE NCO D 402

Chain	Residue
D	A210
D	G211
D	A294
D	U295
D	U296

site_id	CC8
Number of Residues	6
Details	BINDING SITE FOR RESIDUE NCO D 403

Chain	Residue
D	A245
D	A246
D	U286
D	G287
D	G288
D	U289

site_id	CC9
Number of Residues	7
Details	BINDING SITE FOR RESIDUE NCO D 404

Chain	Residue
D	G223
D	C225
D	U226
D	G227
D	G228
D	C229
D	HOH502

site_id	DC1
Number of Residues	3
Details	BINDING SITE FOR RESIDUE NCO D 405

Chain	Residue
D	U313
D	G314
D	A315

site_id	DC2
Number of Residues	4
Details	BINDING SITE FOR RESIDUE NCO D 406

Chain	Residue
D	C259
D	G260
D	U261
D	G273

site_id	DC3
Number of Residues	11
Details	BINDING SITE FOR RESIDUE SAM D 407

Chain	Residue
D	U207
D	C208
D	G211
D	A245
D	A246
D	C247
D	U289
D	G290
D	C291
D	U320
D	G321

site_id	DC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG D 408

Chain	Residue
D	U299
D	G300
D	HOH506
D	HOH507

site_id	DC5
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG D 409

Chain	Residue
D	G201

site_id	DC6
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG D 410

Chain	Residue
D	G300

site_id	DC7
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG D 412

Chain	Residue
D	G213
D	G242

site_id	DC8
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG D 413

Chain	Residue
D	C203
D	C324

site_id	DC9
Number of Residues	2
Details	BINDING SITE FOR RESIDUE MG D 414

Chain	Residue
D	HOH503
D	HOH504

site_id	EC1
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG D 415

Chain	Residue
D	U217
D	G218
D	HOH505

site_id	EC2
Number of Residues	1
Details	BINDING SITE FOR RESIDUE MG D 416

Chain	Residue
D	A316

Functional Information from PROSITE/UniProt

site_id	PS00709
Number of Residues	25
Details	RIBOSOMAL_L30E_1 Ribosomal protein L30e signature 1. AksiiiGtKqtVKalKrGsvKeVVV

Chain	Residue	Details
A	ALA509-VAL533

246031

PDB entries from 2025-12-10

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