4WVG: PDB entry 4WVG

Crystal structure of the Type-I signal peptidase from Staphylococcus aureus (SpsB). Determined by X-ray diffraction at 2.05 Å resolution. Released 23 Sept 2015.

Method: X-ray diffraction
Resolution: 2.05 Å
Organisms: Escherichia coli K-12, Staphylococcus aureus subsp. aureus str. Newman
Chains: 1
Atoms: 4,356
Mol. weight: 60.64 kDa
Released: 23 Sept 2015

Explore 4WVG in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4WVG contains 31 α-helices and 37 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 31 helices, 37 β-strands

Element	Residues	Length	Sheet
β-strand	13-16	4	1
α-helix	23-37	15
β-strand	41-44	4	1
α-helix	49-59	11
β-strand	65-69	5	1
α-helix	70-72	3
α-helix	73-78	6
β-strand	82	1	2
α-helix	83-85	3
α-helix	89-92	4
β-strand	95	1	3
α-helix	97-102	6
β-strand	104-105	2	4
β-strand	108-109	2	4
β-strand	112-117	6	1
β-strand	120-124	5	5
β-strand	134	1	6
α-helix	135-137	3
α-helix	138-147	10
β-strand	151-153	3	5
α-helix	160-167	8
β-strand	173-178	6	7
β-strand	181-188	8	7
α-helix	192-206	15
α-helix	216-224	9
β-strand	228-233	6	5
α-helix	235-237	3
α-helix	238-244	7
β-strand	248-251	4	5
α-helix	252-254	3
β-strand	255-256	2	6
β-strand	259-260	2	6
α-helix	261	1
β-strand	264-265	2	8
β-strand	266-272	7	1
β-strand	273	1	2
α-helix	279-284	6
α-helix	285-290	6
α-helix	293-302	10
β-strand	307-308	2	1
β-strand	310	1	3
α-helix	311-317	7
α-helix	321-331	11
β-strand	334-335	2	8
α-helix	336-337	2
α-helix	342-357	16
α-helix	363-375	13
β-strand	378-382	5	9
β-strand	397-402	6	9
α-helix	403-404	2
β-strand	415-420	6	9
β-strand	424-432	9	9
β-strand	437	1	10
β-strand	438-441	4	11
β-strand	444-447	4	11
β-strand	450-452	3	11
α-helix	455-457	3
α-helix	458-462	5
β-strand	473-474	2	11
α-helix	475-477	3
β-strand	487	1	10
α-helix	488-489	2
β-strand	492-493	2	12
β-strand	494-496	3	9
α-helix	506-509	4
β-strand	512-513	2	12
α-helix	514-516	3
β-strand	517-522	6	9

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Maltose-binding periplasmic protein,Signal peptidase IB	A	protein	542	Escherichia coli K-12, Staphylococcus aureus subsp. aureus str. Newman	P0AEY0 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>4WVG_1 Maltose-binding periplasmic protein,Signal peptidase IB (chains A)
MSYYHHHHHHHMLVIWINGDKGYNGLAQVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATG
DGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALS
LIYNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENG
KYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSN
IDTSKVNYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVN
KDKPLGAVALKSYEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGR
QTVDEALKDAQTNAGAIVTPYTIKGEAMDPTLKDGERVAVNIVGYKTGGLEKGNVVVFHA
NKNDDYVKRVIGVPGDKVEYKNDTLYVNGKKQDEPYLNYNLKHKQGDYITGTFQVKDLPN
ANPKSNVIPKGKYLVLGDNREVSKDSRAFGLIDEDQIVGKVSFRFWPFSEFKHNFNPENT
KN

Primary citation

Peptide binding to a bacterial signal peptidase visualized by peptide tethering and carrier-driven crystallization. Ting, Y.T., Harris, P.W., Batot, G. et al. IUCrJ (2016) 3:10-19. DOI 10.1107/S2052252515019971 · PubMed

Other PDB entries of the same protein (UniProt P0AEY0 (AlphaFold model), which also has an AlphaFold model), best resolution first:

9PQP 1.07 Å, Crystal structure of maltose binding protein (Apo), mutant Trp340 to 4-Fluorotryptophan
9PQL 1.37 Å, Crystal structure of maltose binding protein (Apo), mutant Trp62 to 4-Fluorotryptophan
9PQN 1.37 Å, Crystal structure of maltose binding protein (Apo), mutant Trp340 to 4-Cyanotryptophan
9TY2 1.75 Å, Crystal structure of a Picomolar Nanobody in complex with Maltose Binding Protein, MBP,…
4WGI 1.85 Å, A Single Diastereomer of a Macrolactam Core Binds Specifically to Myeloid Cell Leukemia…
9PQK 1.87 Å, Crystal structure of maltose binding protein (Apo), mutant Trp10 to 4-Fluorotryptophan
4WVI 1.9 Å, Crystal structure of the Type-I signal peptidase from Staphylococcus aureus (SpsB) in…
4WVJ 1.95 Å, Crystal structure of the Type-I signal peptidase from Staphylococcus aureus (SpsB) in…
4YS9 2.0 Å, Ataxin-3 Carboxy-Terminal Region - Crystal C1 (tetragonal)
5II4 2.0 Å, Crystal structure of red abalone VERL repeat 1 with linker at 2.0 A resolution
5JON 2.04 Å, Crystal structure of the unliganded form of HCN2 CNBD
3VD8 2.07 Å, Crystal structure of human AIM2 PYD domain with MBP fusion

Browse structure collections

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