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Found 1 Document (1.687 seconds)

BMRB: 4580

1DLF

Backbone 1H,13C,and 15N assignments of the anti-dansyl antibody Fv fragment

Authors

Shindo, K., Masuda, K., Takahashi, H., Arata, Y., Shimada, I.

Assembly

anti-dansyl Fv fragment

Entity

1. VH domain (polymer, Thiol state: all disulfide bound), 124 monomers, 14136.65 Da Detail

EVKLEESGGG LVQPGGSMKL SCATSGFTFS DAWMDWVRQS PEKGLEWVAE IRNKANNHAT YYAESVKGRF TISRDDSKRR VYLQMNTLRA EDTGIYYCTG IYYHYPWFAY WGQGTLVTVS AEPR

2. VL domain (polymer, Thiol state: all disulfide bound), 113 monomers, 12372.83 Da Detail

DVVMTQTPLS LPVSLGNQAS ISCRSSQSLV HSNGNTYLHW YLQKPGQSPK LLIYKVSNRF SGVPDRFSGS GSGTDFTLKI SRVEAEDLGV YFCSQSTHVP FTFGSGTKLE IKR

Total weight

26509.48 Da

Max. entity weight

14136.65 Da

Entity Connection

disulfide 2 Detail

ID	Type	Value order	Atom ID 1	Atom ID 2
1	disulfide	sing	1:CYS22:SG	1:CYS98:SG
2	disulfide	sing	2:CYS23:SG	2:CYS93:SG

Source organism

Mus musculus

Exptl. method

NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete1

Sequence coverage: 55.7 %, Completeness: 16.8 %, Completeness (bb): 28.7 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	16.8 % (459 of 2740)	12.7 % (180 of 1417)	14.1 % (151 of 1072)	51.0 % (128 of 251)
Backbone	28.7 % (403 of 1402)	29.2 % (142 of 486)	19.3 % (133 of 689)	56.4 % (128 of 227)
Sidechain	4.4 % (69 of 1553)	4.2 % (39 of 931)	5.0 % (30 of 598)	0.0 % (0 of 24)
Aromatic	2.7 % (8 of 296)	2.7 % (4 of 148)	2.8 % (4 of 142)	0.0 % (0 of 6)
Methyl	10.5 % (24 of 228)	10.5 % (12 of 114)	10.5 % (12 of 114)

1. VH domain

EVKLEESGGG LVQPGGSMKL SCATSGFTFS DAWMDWVRQS PEKGLEWVAE IRNKANNHAT YYAESVKGRF TISRDDSKRR VYLQMNTLRA EDTGIYYCTG IYYHYPWFAY WGQGTLVTVS AEPR

2. VL domain

DVVMTQTPLS LPVSLGNQAS ISCRSSQSLV HSNGNTYLHW YLQKPGQSPK LLIYKVSNRF SGVPDRFSGS GSGTDFTLKI SRVEAEDLGV YFCSQSTHVP FTFGSGTKLE IKR

Show sample condition

Sample

Temperature 310 (±1) K, pH 6.0 (±0.05)

#	Name	Isotope labeling	Type	Concentration
1	VH domain	[U-95% 13C; U-95% 15N(except Cys and Trp); [98% 15N]-Cys; [98% 15N]-Trp]		1.2 mM
2	VL domain	[U-95% 13C; U-95% 15N(except Cys and Trp); [98% 15N]-Cys; [98% 15N]-Trp]		1.2 mM

Chem. Shift Complete2

Sequence coverage: 51.5 %, Completeness: 17.5 %, Completeness (bb): 28.8 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	17.5 % (960 of 5480)	13.7 % (389 of 2834)	15.3 % (327 of 2144)	48.6 % (244 of 502)
Backbone	28.8 % (807 of 2804)	28.9 % (281 of 972)	20.5 % (283 of 1378)	53.5 % (243 of 454)
Sidechain	6.0 % (186 of 3106)	5.9 % (110 of 1862)	6.3 % (75 of 1196)	2.1 % (1 of 48)
Aromatic	2.7 % (16 of 592)	3.0 % (9 of 296)	2.5 % (7 of 284)	0.0 % (0 of 12)
Methyl	7.9 % (36 of 456)	7.9 % (18 of 228)	7.9 % (18 of 228)

1. VH domain

EVKLEESGGG LVQPGGSMKL SCATSGFTFS DAWMDWVRQS PEKGLEWVAE IRNKANNHAT YYAESVKGRF TISRDDSKRR VYLQMNTLRA EDTGIYYCTG IYYHYPWFAY WGQGTLVTVS AEPR

2. VL domain

DVVMTQTPLS LPVSLGNQAS ISCRSSQSLV HSNGNTYLHW YLQKPGQSPK LLIYKVSNRF SGVPDRFSGS GSGTDFTLKI SRVEAEDLGV YFCSQSTHVP FTFGSGTKLE IKR

Show sample condition

Sample

Temperature 310 (±1) K, pH 6.0 (±0.05)

#	Name	Isotope labeling	Type	Concentration
1	VH domain	[U-95% 13C; U-95% 15N(except Cys and Trp); [98% 15N]-Cys; [98% 15N]-Trp]		1.2 mM
2	VL domain	[U-95% 13C; U-95% 15N(except Cys and Trp); [98% 15N]-Cys; [98% 15N]-Trp]		1.2 mM

Release date

2000-09-24

Citation

Letter to the Editor: Backbone 1H, 13C, and 15N resonance assignments of the anti-dansyl antibody Fv fragment
Shindo, K., Masuda, K., Takahashi, H., Arata, Y., Shimada, I.
J. Biomol. NMR (2000), 17, 357-358

Related entities 1. VH domain, : 1 : 1 : 1 : 386 entities Detail

Related entities 2. VL domain, : 1 : 2 : 358 entities Detail

Interaction partners 1. VH domain, : 2 interactors Detail

More details for 2 interactors identified by 2 citations

Interaction partners 2. VL domain, : 4 interactors Detail

More details for 4 interactors identified by 4 citations

Experiments performed 5 experiments Detail

Chemical shift validation 5 contents Detail

Properties

Input source #1: Assigned chemical shifts - Assigned chemical shifts	bmr4580_3.str
Diamagnetism of the molecular assembly	True (excluding Oxygen atoms)
Whether the assembly has a disulfide bond	True (see coordinates for details)
Whether the assembly has a other bond	None
Whether the assembly contains a cyclic polymer	None
Overall data processing status	Warning

Disulfide bonds

Ptnr_site_1	Ptnr_site_2	Redox_state_prediction_1	Redox_state_prediction_2	Distance (Å)
1:22:CYS:SG	1:98:CYS:SG	unknown	unknown	n/a
2:23:CYS:SG	2:93:CYS:SG	unknown	unknown	n/a

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

None

Non-standard residues

None

Content subtype: bmr4580_3.str

#	Content subtype	Saveframe	Status	# of rows	Sequence coverage (%)
1	Assigned chemical shifts	shift_set_1	Warning	343	98.4 (chain: 1, length: 124)
2	Assigned chemical shifts	shift_set_2	Warning	321	99.1 (chain: 2, length: 113)
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: 124, Sequence coverage: 98.4%
- Total number of assignments
  - ¹³C chemical shifts: 108
  - ¹H chemical shifts: 117
  - ¹⁵N chemical shifts: 118
- Completeness of assignments
  - Entity_assemble_ID: 1
- Histogram of normalized assigned chemical shifts
- Random coil index and derived parameters (S² and NMR RMSD)
  - Chain_ID: 1
Saveframe: shift_set_2
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: 2, Chain length: 113, Sequence coverage: 99.1%
- Total number of assignments
  - ¹³C chemical shifts: 109
  - ¹H chemical shifts: 106
  - ¹⁵N chemical shifts: 106
- Completeness of assignments
  - Entity_assemble_ID: 2
- Histogram of normalized assigned chemical shifts
- Random coil index and derived parameters (S² and NMR RMSD)
  - Chain_ID: 2

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	564	108	19.1
¹H chemical shifts	745	117	15.7
¹⁵N chemical shifts	141	118	83.7

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	248	108	43.5
¹H chemical shifts	256	117	45.7
¹⁵N chemical shifts	120	118	98.3

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	316	0	0.0
¹H chemical shifts	489	0	0.0
¹⁵N chemical shifts	21	0	0.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	59	0	0.0
¹H chemical shifts	59	0	0.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	85	0	0.0
¹H chemical shifts	90	0	0.0
¹⁵N chemical shifts	5	0	0.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	508	109	21.5
¹H chemical shifts	672	106	15.8
¹⁵N chemical shifts	123	106	86.2

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	226	109	48.2
¹H chemical shifts	230	106	46.1
¹⁵N chemical shifts	107	106	99.1

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	282	0	0.0
¹H chemical shifts	442	0	0.0
¹⁵N chemical shifts	16	0	0.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	59	0	0.0
¹H chemical shifts	59	0	0.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	57	0	0.0
¹H chemical shifts	58	0	0.0
¹⁵N chemical shifts	1	0	0.0

Keywords anti-dansyl antibody, heteronuclear NMR, resonace assignments

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Found 1 Document (1.687 seconds)

BMRB: 4580

Sample

Sample

Related entities 1. VH domain, : 1 : 1 : 1 : 386 entities Detail

Related entities 2. VL domain, : 1 : 2 : 358 entities Detail

Interaction partners 1. VH domain, : 2 interactors Detail

Interaction partners 2. VL domain, : 4 interactors Detail

Experiments performed 5 experiments Detail

Instrument

Sample

Instrument

Sample

Instrument

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Chemical shift validation 5 contents Detail