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BMRB: 5244

2END

Backbone Assignment of Endonuclease V from Bacteriophage T4 with deuterium labeling

Authors

Ahn, H., Lee, S., Lee, B.

Assembly

endonuclease V

Entity

1. endonuclease V (polymer, Thiol state: all free), 138 monomers, 16078.36 Da Detail

MTRINLTLVS ELADQHLMAE YRELPRVFGA VRKHVANGKR VRDFKISPTF ILGAGHVTFF YDKLEFLRKR QIELIAECLK RGFNIKDTTV QDISDIPQEF RGDYIPHEAS IAISQARLDE KIAQRPTWYK YYGKAIYA

Formula weight

16078.36 Da

Source organism

Escherichia virus T4

Exptl. method

NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 99.3 %, Completeness: 49.2 %, Completeness (bb): 95.2 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	49.2 % (831 of 1690)	33.0 % (291 of 883)	61.7 % (410 of 664)	90.9 % (130 of 143)
Backbone	95.2 % (779 of 818)	91.4 % (254 of 278)	97.1 % (395 of 407)	97.7 % (130 of 133)
Sidechain	17.9 % (180 of 1003)	6.1 % (37 of 605)	36.9 % (143 of 388)	0.0 % (0 of 10)
Aromatic	4.9 % (8 of 164)	6.1 % (5 of 82)	3.7 % (3 of 81)	0.0 % (0 of 1)
Methyl	14.2 % (23 of 162)	7.4 % (6 of 81)	21.0 % (17 of 81)

1. endonuclease V

MTRINLTLVS ELADQHLMAE YRELPRVFGA VRKHVANGKR VRDFKISPTF ILGAGHVTFF YDKLEFLRKR QIELIAECLK RGFNIKDTTV QDISDIPQEF RGDYIPHEAS IAISQARLDE KIAQRPTWYK YYGKAIYA

Show sample condition

Sample

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	endonuclease V	[U-15N]-Ala, Asp, Arg, Gly, Lys, Ser, Thr, Tyr, Val		1.0 mM

LACS Plot; CA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹H	DSS	methyl protons	null	indirect	1.0
¹⁵N	DSS	methyl protons	null	indirect	0.1013291
¹³C	DSS	methyl protons	null	indirect	0.2514495

Referencing offset: 1.3 ppm, Outliers: 1 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹H	DSS	methyl protons	null	indirect	1.0
¹⁵N	DSS	methyl protons	null	indirect	0.1013291
¹³C	DSS	methyl protons	null	indirect	0.2514495

Referencing offset: 1.3 ppm, Outliers: 1 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹H	DSS	methyl protons	null	indirect	1.0
¹⁵N	DSS	methyl protons	null	indirect	0.1013291
¹³C	DSS	methyl protons	null	indirect	0.2514495

Referencing offset: 0.1 ppm, Outliers: 1 Detail

LACS Plot; CO

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹H	DSS	methyl protons	null	indirect	1.0
¹⁵N	DSS	methyl protons	null	indirect	0.1013291
¹³C	DSS	methyl protons	null	indirect	0.2514495

Referencing offset: -0.11 ppm, Outliers: 1 Detail

Release date

2002-08-21

Citation

Backbone assignments for endonuclease V from bacteriophage T4 with deuterium labeling
Ahn, H., Lee, S., Lee, B.
J. Biomol. NMR (2002), 22, 383-384, PubMed 12018491 , Abstract

Related entities 1. endonuclease V, : 1 : 1 : 3 : 1 : 1 entities Detail

Experiments performed 9 experiments Detail

1 2D 1H-15N HSQC

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Bruker DRX (600 MHz)

Sample #1

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	endonuclease V	[U-15N]-Ala, Asp, Arg, Gly, Lys, Ser, Thr, Tyr, Val		1.0 mM

Sample #2

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
2	endonuclease V	[U-15N]		2.0 mM

Sample #3

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
3	endonuclease V	[U-70% 2H ; U-15N]		1.5 mM

Sample #4

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
4	endonuclease V	[U-90% 2H; U-13C; U-15N]		1.5 mM

2 3D 1H-15N NOESY

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Bruker DRX (600 MHz)

Sample #1

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	endonuclease V	[U-15N]-Ala, Asp, Arg, Gly, Lys, Ser, Thr, Tyr, Val		1.0 mM

Sample #2

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
2	endonuclease V	[U-15N]		2.0 mM

Sample #3

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
3	endonuclease V	[U-70% 2H ; U-15N]		1.5 mM

Sample #4

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
4	endonuclease V	[U-90% 2H; U-13C; U-15N]		1.5 mM

3 3D 1H-15N TOCSY

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Bruker DRX (600 MHz)

Sample #1

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	endonuclease V	[U-15N]-Ala, Asp, Arg, Gly, Lys, Ser, Thr, Tyr, Val		1.0 mM

Sample #2

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
2	endonuclease V	[U-15N]		2.0 mM

Sample #3

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
3	endonuclease V	[U-70% 2H ; U-15N]		1.5 mM

Sample #4

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
4	endonuclease V	[U-90% 2H; U-13C; U-15N]		1.5 mM

4 3D HNHA

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Bruker DRX (600 MHz)

Sample #1

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	endonuclease V	[U-15N]-Ala, Asp, Arg, Gly, Lys, Ser, Thr, Tyr, Val		1.0 mM

Sample #2

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
2	endonuclease V	[U-15N]		2.0 mM

Sample #3

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
3	endonuclease V	[U-70% 2H ; U-15N]		1.5 mM

Sample #4

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
4	endonuclease V	[U-90% 2H; U-13C; U-15N]		1.5 mM

5 3D HNCA

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Bruker DRX (600 MHz)

Sample #1

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	endonuclease V	[U-15N]-Ala, Asp, Arg, Gly, Lys, Ser, Thr, Tyr, Val		1.0 mM

Sample #2

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
2	endonuclease V	[U-15N]		2.0 mM

Sample #3

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
3	endonuclease V	[U-70% 2H ; U-15N]		1.5 mM

Sample #4

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
4	endonuclease V	[U-90% 2H; U-13C; U-15N]		1.5 mM

6 3D HN(CO)CA

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Bruker DRX (600 MHz)

Sample #1

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	endonuclease V	[U-15N]-Ala, Asp, Arg, Gly, Lys, Ser, Thr, Tyr, Val		1.0 mM

Sample #2

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
2	endonuclease V	[U-15N]		2.0 mM

Sample #3

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
3	endonuclease V	[U-70% 2H ; U-15N]		1.5 mM

Sample #4

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
4	endonuclease V	[U-90% 2H; U-13C; U-15N]		1.5 mM

7 3D HNCACB

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Bruker DRX (600 MHz)

Sample #1

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	endonuclease V	[U-15N]-Ala, Asp, Arg, Gly, Lys, Ser, Thr, Tyr, Val		1.0 mM

Sample #2

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
2	endonuclease V	[U-15N]		2.0 mM

Sample #3

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
3	endonuclease V	[U-70% 2H ; U-15N]		1.5 mM

Sample #4

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
4	endonuclease V	[U-90% 2H; U-13C; U-15N]		1.5 mM

8 3D HN(CO)CACB

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Bruker DRX (600 MHz)

Sample #1

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	endonuclease V	[U-15N]-Ala, Asp, Arg, Gly, Lys, Ser, Thr, Tyr, Val		1.0 mM

Sample #2

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
2	endonuclease V	[U-15N]		2.0 mM

Sample #3

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
3	endonuclease V	[U-70% 2H ; U-15N]		1.5 mM

Sample #4

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
4	endonuclease V	[U-90% 2H; U-13C; U-15N]		1.5 mM

9 3D HNCO

Instrument

#1 Model Bruker DRX (500 MHz)

#2 Model Bruker DRX (600 MHz)

Sample #1

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
1	endonuclease V	[U-15N]-Ala, Asp, Arg, Gly, Lys, Ser, Thr, Tyr, Val		1.0 mM

Sample #2

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
2	endonuclease V	[U-15N]		2.0 mM

Sample #3

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
3	endonuclease V	[U-70% 2H ; U-15N]		1.5 mM

Sample #4

Temperature 293 (±1) K, pH 6.5 (±0.1)

#	Name	Isotope labeling	Type	Concentration
4	endonuclease V	[U-90% 2H; U-13C; U-15N]		1.5 mM

Chemical shift validation 3 contents Detail

Properties

Input source #1: Assigned chemical shifts - Assigned chemical shifts	bmr5244_3.str
Diamagnetism of the molecular assembly	True (excluding Oxygen atoms)
Whether the assembly has a disulfide bond	None
Whether the assembly has a other bond	None
Whether the assembly contains a cyclic polymer	None
Overall data processing status	Warning

Disulfide bonds

None

Other bonds (neither disulfide, covalent nor hydrogen bonds, e.g. Zinc–sulphur bond)

None

Non-standard residues

None

Content subtype: bmr5244_3.str

#	Content subtype	Saveframe	Status	# of rows	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	shift_set_1	Warning	779		99.3 (chain: 1, length: 138)
1	Chemical shift references	chemical_shift_reference	OK	3		No information

Assigned chemical shifts

Saveframe: shift_set_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: 1, Chain length: 138, Sequence coverage: 99.3%
- Total number of assignments
  - ¹³C chemical shifts: 395
  - ¹⁵N chemical shifts: 131
  - ¹H chemical shifts: 253
- Completeness of assignments
  - Entity_assemble_ID: 1
- Redox state of CYS
- Peptide bond of PRO
- Histogram of normalized assigned chemical shifts
- Random coil index and derived parameters (S² and NMR RMSD)
  - Chain_ID: 1

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	664	395	59.5
¹⁵N chemical shifts	155	131	84.5
¹H chemical shifts	883	253	28.7

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	276	268	97.1
¹⁵N chemical shifts	133	131	98.5
¹H chemical shifts	278	253	91.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	388	127	32.7
¹⁵N chemical shifts	22	0	0.0
¹H chemical shifts	605	0	0.0

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Found 1 Document (2.299 seconds)

BMRB: 5244

Sample

Chemical shift reference

Chemical shift reference

Chemical shift reference

Chemical shift reference

Related entities 1. endonuclease V, : 1 : 1 : 3 : 1 : 1 entities Detail

Experiments performed 9 experiments Detail

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Chemical shift validation 3 contents Detail