P23940 (T2BA_BACAM) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Type-2 restriction enzyme BamHI
Short name=R.BamHI
EC=3.1.21.4

Alternative name(s):
Endonuclease BamHI
Type II restriction enzyme BamHI

Gene names

Name:

bamHIR

Encoded on

Plasmid

Organism

Bacillus amyloliquefaciens (Bacillus velezensis)

Taxonomic identifier

1390 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Firmicutes › Bacilli › Bacillales › Bacillaceae › Bacillus › Bacillus subtilis group

Protein attributes

Sequence length	213 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Recognizes the double-stranded sequence GGATCC and cleaves after G-1.
Catalytic activity	Endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates.
Cofactor	Binds 2 magnesium ions per subunit.
Subunit structure	Homodimer.

Ontologies

Keywords
Biological process	Restriction system
Ligand	Magnesium Metal-binding
Molecular function	Endonuclease Hydrolase Nuclease
Technical term	3D-structure Direct protein sequencing Plasmid
Gene Ontology (GO)
Biological_process	DNA restriction-modification system Inferred from electronic annotation. Source: UniProtKB-KW nucleic acid phosphodiester bond hydrolysis Inferred from electronic annotation. Source: GOC
Molecular_function	DNA binding Inferred from electronic annotation. Source: InterPro Type II site-specific deoxyribonuclease activity Inferred from electronic annotation. Source: EC magnesium ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 213

213

Type-2 restriction enzyme BamHI

PRO_0000077281

Sites

Active site

94

1

Active site

111

1

Active site

113

1

Metal binding

77

1

Magnesium 2

Metal binding

94

1

Magnesium 1

Metal binding

94

1

Magnesium 2

Metal binding

112

1

Magnesium 1; via carbonyl oxygen

Secondary structure

1

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213

Helix Strand Turn

Details...

Beta strand

2 – 8

7

Helix

10 – 18

9

Helix

20 – 34

15

Beta strand

43 – 48

6

Helix

58 – 61

4

Helix

62 – 70

9

Beta strand

75 – 78

4

Helix

81 – 84

4

Beta strand

87 – 89

3

Beta strand

93 – 101

9

Beta strand

104 – 112

9

Helix

117 – 132

16

Beta strand

137 – 144

8

Helix

146 – 149

4

Helix

159 – 162

4

Helix

163 – 169

7

Beta strand

174 – 180

7

Beta strand

182 – 185

4

Helix

200 – 205

6

Sequences

	Sequence		Length	Mass (Da)
	P23940 [UniParc]. Last modified March 1, 1992. Version 1. Checksum: FFE57F518F37D8D6	FASTA	213	24,570
	10 20 30 40 50 60 MEVEKEFITD EAKELLSKDK LIQQAYNEVK TSICSPIWPA TSKTFTINNT EKNCNGVVPI 70 80 90 100 110 120 KELCYTLLED TYNWYREKPL DILKLEKKKG GPIDVYKEFI ENSELKRVGM EFETGNISSA 130 140 150 160 170 180 HRSMNKLLLG LKHGEIDLAI ILMPIKQLAY YLTDRVTNFE ELEPYFELTE GQPFIFIGFN 190 200 210 AEAYNSNVPL IPKGSDGMSK RSIKKWKDKV ENK

References

[1]	"Characterization of the cloned BamHI restriction modification system: its nucleotide sequence, properties of the methylase, and expression in heterologous hosts." Brooks J.E., Nathan P.D., Landry D., Sznyter L.A., White-Rees P., Ives C.L., Moran L.S., Slatko B.E., Benner J.S. Nucleic Acids Res. 19:841-850(1991) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 1-8 AND 11-14. Strain: 168.
[2]	"Structure of restriction endonuclease BamHI and its relationship to EcoRI." Newman M., Strzelecka T., Dorner L.F., Schildkraut I., Aggarwal A.K. Nature 368:660-664(1994) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.95 ANGSTROMS).
[3]	"The role of metals in catalysis by the restriction endonuclease BamHI." Viadiu H., Aggarwal A.K. Nat. Struct. Biol. 5:910-916(1998) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS).
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X55285 Genomic DNA. Translation: CAA38999.1.

PIR

A38693.
S26844.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1BAM	X-ray	1.95	A	1-213	[»]
1BHM	X-ray	2.20	A/B	1-213	[»]
1ESG	X-ray	1.90	A/B	1-213	[»]
2BAM	X-ray	2.00	A/B	1-213	[»]
3BAM	X-ray	1.80	A/B	1-213	[»]

ProteinModelPortal

P23940.

SMR

P23940. Positions 1-212.

ModBase

Search...

Protein family/group databases

REBASE

185. BamHI.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Family and domain databases

Gene3D

3.40.91.20. 1 hit.

InterPro

IPR011338. BamHI/BglII/BstY.
IPR011335. Restrct_endonuc-II-like.
IPR004194. Restrct_endonuc_II_BamHI.
[Graphical view]

Pfam

PF02923. BamHI. 1 hit.
[Graphical view]

PIRSF

PIRSF009309. Restrict_endonuc_II_BamHI. 1 hit.

SUPFAM

SSF52980. Restrict_endonuc_II-like_core. 1 hit.

ProtoNet

Search...

Other

BindingDB

P23940.

ChEMBL

CHEMBL5928.

EvolutionaryTrace

P23940.

Entry information

Entry name

T2BA_BACAM

Accession

Primary (citable) accession number: P23940

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 1, 1992
Last sequence update:	March 1, 1992
Last modified:	April 3, 2013
This is version 87 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program