BacMap

Definition	Rhodospirillum rubrum ATCC 11170 chromosome, complete genome.
Accession	NC_007643
Length	4,352,825

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The map label for this gene is nikD

Identifier: 83593609

GI number: 83593609

Start: 2632950

End: 2633735

Strand: Reverse

Name: nikD

Synonym: Rru_A2274

Alternate gene names: 83593609

Gene position: 2633735-2632950 (Counterclockwise)

Preceding gene: 83593610

Following gene: 83593608

Centisome position: 60.51

GC content: 68.32

Gene sequence:

>786_bases
TTGAGAAACGATGGTCTGAGGATCGAGGGTCTGACGATCGCCACCCTCGGCGCCCATCCCCTGATGCTGGTGGAGGGGGT
CGGCCTCGAGGTGCGGCGCGGTCGGATCCTCGCCCTGGTCGGGGCCAGCGGCTCGGGCAAATCGCTGACCTGCGCCGGGG
CGCTCGACGTGTTGCCGGCCGGTGTGCGCCGCCTGTCGGGCAGGGTGCTGCTTGATGGCGAGGAGCAGGCTTTGGCCGGC
CTCAAGGGCCGCCATGTGGCCTCGATCATGCAAAACCCGCGCAGCGCCTTCAATCCGGTGCGGACCATGCGCGCTCACGG
CGTTGAAACCCTGAAGGCGCTGGGACGCCATGACCGGCGCTCCGAGGCGGTTCTTCTTCAAGCGCTTGAGGGGGTTGGCC
TGGAAGATCCCGGGCGGGTTCTTGGGCTGCACGCCTTCGAGATGAGCGGCGGCATGCTTCAGCGCATGATGATCGCCCTG
GCTTTGCTGACCGAGGCGCCGTTTCTGTTCGCCGACGAGCCGACCACCGATCTTGATCTGGTCGTGCAGGCCCGGGTGCT
GTCCTTGCTCGAAGGGGTGGTCGCCGAGCGCGGCCTTGGCCTGCTGATCGTCACCCACGACATGGGCGTCGTCGCCCGGC
TGGCCGATGATGTGGCGGTGATGGCCCAGGGACGCATCGTCGAGAGCGGGCCGGTCGGCGAGATCTTCCACCGGCCCCGT
CACGACGCCACCCGGGCCCTGGTCGCGGCCCATCTGTCGCTTTATGGCCTGGAGGGCGTAGCGTGA

Upstream 100 bases:

>100_bases
GGCCCGGAGTGGCGCTTTTCGTCAGCGTCATGACCTTCAACCTGCTTGGGGACGCCCTGCGCGATCGTCTTGATCCGCAC
CTCTGCGCGGAGCATGGACA

Downstream 100 bases:

>100_bases
GTCCTTTGTTGACGGCCAGGGCGGCCAGCAAAAGCTATCGGACGGTCTCGTTGGTTGGTCGATCGCCGGCGAAGACGGTG
CTGAGCGAGGCGACGGTAAC

Product: nickel transporter ATP-binding protein NikD

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 261; Mature: 261

Protein sequence:

>261_residues
MRNDGLRIEGLTIATLGAHPLMLVEGVGLEVRRGRILALVGASGSGKSLTCAGALDVLPAGVRRLSGRVLLDGEEQALAG
LKGRHVASIMQNPRSAFNPVRTMRAHGVETLKALGRHDRRSEAVLLQALEGVGLEDPGRVLGLHAFEMSGGMLQRMMIAL
ALLTEAPFLFADEPTTDLDLVVQARVLSLLEGVVAERGLGLLIVTHDMGVVARLADDVAVMAQGRIVESGPVGEIFHRPR
HDATRALVAAHLSLYGLEGVA

Sequences:

>Translated_261_residues
MRNDGLRIEGLTIATLGAHPLMLVEGVGLEVRRGRILALVGASGSGKSLTCAGALDVLPAGVRRLSGRVLLDGEEQALAG
LKGRHVASIMQNPRSAFNPVRTMRAHGVETLKALGRHDRRSEAVLLQALEGVGLEDPGRVLGLHAFEMSGGMLQRMMIAL
ALLTEAPFLFADEPTTDLDLVVQARVLSLLEGVVAERGLGLLIVTHDMGVVARLADDVAVMAQGRIVESGPVGEIFHRPR
HDATRALVAAHLSLYGLEGVA
>Mature_261_residues
MRNDGLRIEGLTIATLGAHPLMLVEGVGLEVRRGRILALVGASGSGKSLTCAGALDVLPAGVRRLSGRVLLDGEEQALAG
LKGRHVASIMQNPRSAFNPVRTMRAHGVETLKALGRHDRRSEAVLLQALEGVGLEDPGRVLGLHAFEMSGGMLQRMMIAL
ALLTEAPFLFADEPTTDLDLVVQARVLSLLEGVVAERGLGLLIVTHDMGVVARLADDVAVMAQGRIVESGPVGEIFHRPR
HDATRALVAAHLSLYGLEGVA

Specific function: Part of the ABC transporter complex NikABCDE involved in nickel import. Responsible for energy coupling to the transport system

COG id: COG0444

COG function: function code EP; ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component

Gene ontology:

Cell location: Cell inner membrane; Peripheral membrane protein

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Contains 1 ABC transporter domain

Homologues:

Organism=Homo sapiens, GI27436953, Length=199, Percent_Identity=27.6381909547739, Blast_Score=68, Evalue=9e-12,
Organism=Escherichia coli, GI1789890, Length=252, Percent_Identity=59.5238095238095, Blast_Score=294, Evalue=3e-81,
Organism=Escherichia coli, GI1788506, Length=240, Percent_Identity=40, Blast_Score=155, Evalue=3e-39,
Organism=Escherichia coli, GI1787759, Length=231, Percent_Identity=39.8268398268398, Blast_Score=154, Evalue=6e-39,
Organism=Escherichia coli, GI145693107, Length=270, Percent_Identity=37.037037037037, Blast_Score=154, Evalue=6e-39,
Organism=Escherichia coli, GI1789963, Length=258, Percent_Identity=33.7209302325581, Blast_Score=145, Evalue=4e-36,
Organism=Escherichia coli, GI48994883, Length=236, Percent_Identity=35.1694915254237, Blast_Score=134, Evalue=6e-33,
Organism=Escherichia coli, GI1789962, Length=232, Percent_Identity=35.3448275862069, Blast_Score=121, Evalue=4e-29,
Organism=Escherichia coli, GI1787500, Length=243, Percent_Identity=37.037037037037, Blast_Score=112, Evalue=3e-26,
Organism=Escherichia coli, GI1787548, Length=258, Percent_Identity=29.0697674418605, Blast_Score=107, Evalue=7e-25,
Organism=Escherichia coli, GI48994997, Length=229, Percent_Identity=37.117903930131, Blast_Score=102, Evalue=4e-23,
Organism=Escherichia coli, GI1787758, Length=228, Percent_Identity=32.4561403508772, Blast_Score=99, Evalue=4e-22,
Organism=Escherichia coli, GI1789891, Length=224, Percent_Identity=36.1607142857143, Blast_Score=93, Evalue=2e-20,
Organism=Escherichia coli, GI1786398, Length=245, Percent_Identity=29.7959183673469, Blast_Score=91, Evalue=6e-20,
Organism=Escherichia coli, GI1786703, Length=216, Percent_Identity=35.6481481481481, Blast_Score=87, Evalue=1e-18,
Organism=Escherichia coli, GI1787547, Length=235, Percent_Identity=27.2340425531915, Blast_Score=86, Evalue=3e-18,
Organism=Escherichia coli, GI1790162, Length=236, Percent_Identity=26.6949152542373, Blast_Score=83, Evalue=2e-17,
Organism=Escherichia coli, GI1789672, Length=247, Percent_Identity=29.1497975708502, Blast_Score=82, Evalue=4e-17,
Organism=Escherichia coli, GI1787712, Length=218, Percent_Identity=31.1926605504587, Blast_Score=81, Evalue=8e-17,
Organism=Escherichia coli, GI1789032, Length=235, Percent_Identity=30.6382978723404, Blast_Score=80, Evalue=1e-16,
Organism=Escherichia coli, GI1788225, Length=244, Percent_Identity=30.7377049180328, Blast_Score=80, Evalue=1e-16,
Organism=Escherichia coli, GI1787105, Length=222, Percent_Identity=31.981981981982, Blast_Score=78, Evalue=5e-16,
Organism=Escherichia coli, GI1786803, Length=225, Percent_Identity=29.7777777777778, Blast_Score=75, Evalue=4e-15,
Organism=Escherichia coli, GI1786345, Length=239, Percent_Identity=31.3807531380753, Blast_Score=74, Evalue=8e-15,
Organism=Escherichia coli, GI1786872, Length=212, Percent_Identity=29.2452830188679, Blast_Score=74, Evalue=1e-14,
Organism=Escherichia coli, GI1787029, Length=216, Percent_Identity=27.3148148148148, Blast_Score=73, Evalue=2e-14,
Organism=Escherichia coli, GI1787370, Length=225, Percent_Identity=27.5555555555556, Blast_Score=72, Evalue=4e-14,
Organism=Escherichia coli, GI1787089, Length=239, Percent_Identity=29.2887029288703, Blast_Score=72, Evalue=5e-14,
Organism=Escherichia coli, GI87081709, Length=221, Percent_Identity=26.6968325791855, Blast_Score=69, Evalue=3e-13,
Organism=Escherichia coli, GI87081791, Length=237, Percent_Identity=29.535864978903, Blast_Score=69, Evalue=4e-13,
Organism=Escherichia coli, GI1790739, Length=245, Percent_Identity=29.3877551020408, Blast_Score=68, Evalue=7e-13,
Organism=Escherichia coli, GI1786319, Length=214, Percent_Identity=28.0373831775701, Blast_Score=67, Evalue=9e-13,
Organism=Escherichia coli, GI1788644, Length=127, Percent_Identity=34.6456692913386, Blast_Score=67, Evalue=1e-12,
Organism=Escherichia coli, GI1787112, Length=224, Percent_Identity=30.3571428571429, Blast_Score=67, Evalue=2e-12,
Organism=Escherichia coli, GI1787143, Length=223, Percent_Identity=29.1479820627803, Blast_Score=65, Evalue=4e-12,
Organism=Escherichia coli, GI1786253, Length=220, Percent_Identity=26.8181818181818, Blast_Score=64, Evalue=7e-12,
Organism=Escherichia coli, GI1788761, Length=228, Percent_Identity=27.1929824561404, Blast_Score=62, Evalue=3e-11,
Organism=Escherichia coli, GI1788450, Length=232, Percent_Identity=28.448275862069, Blast_Score=62, Evalue=4e-11,
Organism=Escherichia coli, GI1789991, Length=239, Percent_Identity=25.5230125523013, Blast_Score=61, Evalue=6e-11,
Organism=Escherichia coli, GI48995001, Length=219, Percent_Identity=27.3972602739726, Blast_Score=61, Evalue=7e-11,
Organism=Caenorhabditis elegans, GI115534520, Length=236, Percent_Identity=27.5423728813559, Blast_Score=75, Evalue=3e-14,
Organism=Caenorhabditis elegans, GI17565938, Length=208, Percent_Identity=30.7692307692308, Blast_Score=66, Evalue=2e-11,
Organism=Caenorhabditis elegans, GI71983523, Length=211, Percent_Identity=27.4881516587678, Blast_Score=65, Evalue=3e-11,
Organism=Caenorhabditis elegans, GI71983516, Length=211, Percent_Identity=27.4881516587678, Blast_Score=65, Evalue=3e-11,
Organism=Caenorhabditis elegans, GI71983510, Length=211, Percent_Identity=27.4881516587678, Blast_Score=65, Evalue=3e-11,
Organism=Caenorhabditis elegans, GI193202349, Length=226, Percent_Identity=28.3185840707965, Blast_Score=65, Evalue=3e-11,
Organism=Caenorhabditis elegans, GI17558664, Length=219, Percent_Identity=29.2237442922374, Blast_Score=65, Evalue=3e-11,
Organism=Caenorhabditis elegans, GI71984940, Length=219, Percent_Identity=29.6803652968037, Blast_Score=64, Evalue=6e-11,
Organism=Drosophila melanogaster, GI24641565, Length=239, Percent_Identity=30.9623430962343, Blast_Score=69, Evalue=4e-12,
Organism=Drosophila melanogaster, GI161076682, Length=217, Percent_Identity=30.8755760368664, Blast_Score=65, Evalue=3e-11,
Organism=Drosophila melanogaster, GI161076684, Length=217, Percent_Identity=30.8755760368664, Blast_Score=65, Evalue=3e-11,
Organism=Drosophila melanogaster, GI24581617, Length=217, Percent_Identity=30.8755760368664, Blast_Score=65, Evalue=3e-11,
Organism=Drosophila melanogaster, GI24581615, Length=217, Percent_Identity=30.8755760368664, Blast_Score=65, Evalue=3e-11,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NIKD_RHORT (Q2RS21)

Other databases:

- EMBL:   CP000230
- RefSeq:   YP_427361.1
- ProteinModelPortal:   Q2RS21
- SMR:   Q2RS21
- STRING:   Q2RS21
- GeneID:   3835702
- GenomeReviews:   CP000230_GR
- KEGG:   rru:Rru_A2274
- NMPDR:   fig|1085.1.peg.3751
- eggNOG:   COG0444
- HOGENOM:   HBG758042
- OMA:   AVYPCAL
- PhylomeDB:   Q2RS21
- ProtClustDB:   PRK10418
- BioCyc:   RRUB269796:RRU_A2274-MONOMER
- HAMAP:   MF_01711
- InterPro:   IPR003439
- InterPro:   IPR017871
- InterPro:   IPR015857
- InterPro:   IPR003593
- SMART:   SM00382

Pfam domain/function: PF00005 ABC_tran

EC number: =3.6.3.24

Molecular weight: Translated: 27594; Mature: 27594

Theoretical pI: Translated: 7.04; Mature: 7.04

Prosite motif: PS00211 ABC_TRANSPORTER_1; PS50893 ABC_TRANSPORTER_2; PS51247 NIKD

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.4 %Cys     (Translated Protein)
3.8 %Met     (Translated Protein)
4.2 %Cys+Met (Translated Protein)
0.4 %Cys     (Mature Protein)
3.8 %Met     (Mature Protein)
4.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MRNDGLRIEGLTIATLGAHPLMLVEGVGLEVRRGRILALVGASGSGKSLTCAGALDVLPA
CCCCCEEEEEEEEEECCCCCEEEEECCCCEEECCEEEEEEECCCCCCEEEECCHHHHHHH
GVRRLSGRVLLDGEEQALAGLKGRHVASIMQNPRSAFNPVRTMRAHGVETLKALGRHDRR
HHHHHCCEEEECCCHHHHHCCCCHHHHHHHHCCHHHHHHHHHHHHCCHHHHHHHHCCCCH
SEAVLLQALEGVGLEDPGRVLGLHAFEMSGGMLQRMMIALALLTEAPFLFADEPTTDLDL
HHHHHHHHHHCCCCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHCCCEEEECCCCCCHHH
VVQARVLSLLEGVVAERGLGLLIVTHDMGVVARLADDVAVMAQGRIVESGPVGEIFHRPR
HHHHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHHCCEEECCCCCHHHHHCCC
HDATRALVAAHLSLYGLEGVA
HHHHHHHHHHHHHHHCCCCCC
>Mature Secondary Structure
MRNDGLRIEGLTIATLGAHPLMLVEGVGLEVRRGRILALVGASGSGKSLTCAGALDVLPA
CCCCCEEEEEEEEEECCCCCEEEEECCCCEEECCEEEEEEECCCCCCEEEECCHHHHHHH
GVRRLSGRVLLDGEEQALAGLKGRHVASIMQNPRSAFNPVRTMRAHGVETLKALGRHDRR
HHHHHCCEEEECCCHHHHHCCCCHHHHHHHHCCHHHHHHHHHHHHCCHHHHHHHHCCCCH
SEAVLLQALEGVGLEDPGRVLGLHAFEMSGGMLQRMMIALALLTEAPFLFADEPTTDLDL
HHHHHHHHHHCCCCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHCCCEEEECCCCCCHHH
VVQARVLSLLEGVVAERGLGLLIVTHDMGVVARLADDVAVMAQGRIVESGPVGEIFHRPR
HHHHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHHCCEEECCCCCHHHHHCCC
HDATRALVAAHLSLYGLEGVA
HHHHHHHHHHHHHHHCCCCCC

PDB accession: NA

Resolution: NA

Structure class: Alpha Beta

Cofactors: NA

Metal ions: NA

Kcat value (1/min): NA

Specific activity: NA

Km value (mM): NA

Substrates: NA

Specific reaction: NA

General reaction: NA

Inhibitor: NA

Structure determination priority: 7.0

TargetDB status: NA

Availability: NA

References: NA