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Interaction information
Interaction summary
Short label
Rho transcription termination factor-5'-R(*CP*UP*CP*UP*CP*UP*CP*U)-3'
Full name
Rho transcription termination factor interacts with 5'-R(*CP*UP*CP*UP*CP*UP*CP*U)-3'
Source database
RCSB PDB
ID
1XPO
Date modified
2011-03-25 18:12:00 JST
Protein information
Short label
Rho transcription termination factor
Full name
Chain A,B,C,D,E,F of model 1XPO: Rho transcription termination factor
Gene
mmoX (methane monooxygenase, A subunit, alpha chain)
GeneID
3104807
Official symbol
mmoX
Description
methane monooxygenase, A subunit, alpha chain
Ontologies
4 ontology(s)
Functions
1 function(s)
GO:0015049
[ISS] methane monooxygenase activity
Evidence
ISS
References
1 reference(s)
PubMed
WARD, Naomi, et al. , PLoS Biol. 2004 Oct;2(10):e303
PMID
15383840
Title
Genomic insights into methanotrophy: the complete genome sequence of Methylococcus capsulatus (Bath).
Authors
WARD, Naomi, et al.
WARD, Naomi
LARSEN, Øivind
SAKWA, James
BRUSETH, Live
KHOURI, Hoda
DURKIN, A Scott
DIMITROV, George
JIANG, Lingxia
SCANLAN, David
KANG, Katherine H
LEWIS, Matt
NELSON, Karen E
METHé, Barbara
WU, Martin
HEIDELBERG, John F
PAULSEN, Ian T
FOUTS, Derrick
RAVEL, Jacques
TETTELIN, Hervé
REN, Qinghu
READ, Tim
DEBOY, Robert T
SESHADRI, Rekha
SALZBERG, Steven L
JENSEN, Harald B
BIRKELAND, Nils Kåre
NELSON, William C
DODSON, Robert J
GRINDHAUG, Svenn H
HOLT, Ingeborg
EIDHAMMER, Ingvar
JONASEN, Inge
VANAKEN, Susan
UTTERBACK, Terry
FELDBLYUM, Tamara V
FRASER, Claire M
LILLEHAUG, Johan R
EISEN, Jonathan A
Citation
PLoS Biol. 2004 Oct;2(10):e303
Term ID
GO:0015049
Name
methane monooxygenase activity
Namespace
molecular_function
Definition
Catalysis of the reaction: methane + NAD(P)H + H+ + O2 = methanol + NAD(P)+ + H2O.
Synonyms
2 synonym(s)
methane hydroxylase activity (EC:1.14.13.25)
methane,NAD(P)H:oxygen oxidoreductase (hydroxylating) (EC:1.14.13.25)
Is-a
1 item(s)
GO:0016709
oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen
Processes
2 process(s)
GO:0015947
[ISS] methane metabolic process
Evidence
ISS
References
1 reference(s)
PubMed
WARD, Naomi, et al. , PLoS Biol. 2004 Oct;2(10):e303
PMID
15383840
Title
Genomic insights into methanotrophy: the complete genome sequence of Methylococcus capsulatus (Bath).
Authors
WARD, Naomi, et al.
WARD, Naomi
LARSEN, Øivind
SAKWA, James
BRUSETH, Live
KHOURI, Hoda
DURKIN, A Scott
DIMITROV, George
JIANG, Lingxia
SCANLAN, David
KANG, Katherine H
LEWIS, Matt
NELSON, Karen E
METHé, Barbara
WU, Martin
HEIDELBERG, John F
PAULSEN, Ian T
FOUTS, Derrick
RAVEL, Jacques
TETTELIN, Hervé
REN, Qinghu
READ, Tim
DEBOY, Robert T
SESHADRI, Rekha
SALZBERG, Steven L
JENSEN, Harald B
BIRKELAND, Nils Kåre
NELSON, William C
DODSON, Robert J
GRINDHAUG, Svenn H
HOLT, Ingeborg
EIDHAMMER, Ingvar
JONASEN, Inge
VANAKEN, Susan
UTTERBACK, Terry
FELDBLYUM, Tamara V
FRASER, Claire M
LILLEHAUG, Johan R
EISEN, Jonathan A
Citation
PLoS Biol. 2004 Oct;2(10):e303
Term ID
GO:0015947
Name
methane metabolic process
Namespace
biological_process
Definition
The chemical reactions and pathways involving methane, a colorless, odorless, flammable gas with the formula CH4. It is the simplest of the alkanes." [ISBN:0198506732 "Oxford Dictionary of Biochemistry and Molecular Biology
Synonyms
1 synonym(s)
Is-a
1 item(s)
GO:0043446
cellular alkane metabolic process
GO:0055114
[ISS] oxidation reduction
Evidence
ISS
References
1 reference(s)
PubMed
WARD, Naomi, et al. , PLoS Biol. 2004 Oct;2(10):e303
PMID
15383840
Title
Genomic insights into methanotrophy: the complete genome sequence of Methylococcus capsulatus (Bath).
Authors
WARD, Naomi, et al.
WARD, Naomi
LARSEN, Øivind
SAKWA, James
BRUSETH, Live
KHOURI, Hoda
DURKIN, A Scott
DIMITROV, George
JIANG, Lingxia
SCANLAN, David
KANG, Katherine H
LEWIS, Matt
NELSON, Karen E
METHé, Barbara
WU, Martin
HEIDELBERG, John F
PAULSEN, Ian T
FOUTS, Derrick
RAVEL, Jacques
TETTELIN, Hervé
REN, Qinghu
READ, Tim
DEBOY, Robert T
SESHADRI, Rekha
SALZBERG, Steven L
JENSEN, Harald B
BIRKELAND, Nils Kåre
NELSON, William C
DODSON, Robert J
GRINDHAUG, Svenn H
HOLT, Ingeborg
EIDHAMMER, Ingvar
JONASEN, Inge
VANAKEN, Susan
UTTERBACK, Terry
FELDBLYUM, Tamara V
FRASER, Claire M
LILLEHAUG, Johan R
EISEN, Jonathan A
Citation
PLoS Biol. 2004 Oct;2(10):e303
Term ID
GO:0055114
Name
oxidation reduction
Namespace
biological_process
Definition
The process of removal or addition of one or more electrons with or without the concomitant removal or addition of a proton or protons.
Synonyms
1 synonym(s)
Is-a
1 item(s)
GO:0008152
metabolic process
Components
1 component(s)
GO:0015050
[ISS] methane monooxygenase complex
Evidence
ISS
References
1 reference(s)
PubMed
WARD, Naomi, et al. , PLoS Biol. 2004 Oct;2(10):e303
PMID
15383840
Title
Genomic insights into methanotrophy: the complete genome sequence of Methylococcus capsulatus (Bath).
Authors
WARD, Naomi, et al.
WARD, Naomi
LARSEN, Øivind
SAKWA, James
BRUSETH, Live
KHOURI, Hoda
DURKIN, A Scott
DIMITROV, George
JIANG, Lingxia
SCANLAN, David
KANG, Katherine H
LEWIS, Matt
NELSON, Karen E
METHé, Barbara
WU, Martin
HEIDELBERG, John F
PAULSEN, Ian T
FOUTS, Derrick
RAVEL, Jacques
TETTELIN, Hervé
REN, Qinghu
READ, Tim
DEBOY, Robert T
SESHADRI, Rekha
SALZBERG, Steven L
JENSEN, Harald B
BIRKELAND, Nils Kåre
NELSON, William C
DODSON, Robert J
GRINDHAUG, Svenn H
HOLT, Ingeborg
EIDHAMMER, Ingvar
JONASEN, Inge
VANAKEN, Susan
UTTERBACK, Terry
FELDBLYUM, Tamara V
FRASER, Claire M
LILLEHAUG, Johan R
EISEN, Jonathan A
Citation
PLoS Biol. 2004 Oct;2(10):e303
Term ID
GO:0015050
Name
methane monooxygenase complex
Namespace
cellular_component
Definition
A protein complex that possesses methane monooxygenase activity; dimeric and trimeric complexes have been characterized.
Is-a
2 item(s)
GO:0043234
protein complex
GO:0044464
cell part
Origin
Escherichia coli
NCBI Taxonomy ID
562
Name
Escherichia coli
Synonyms
16 synonym(s).
"Bacillus coli" Migula 1895
"Bacterium coli commune" Escherich 1885
"Bacterium coli" (Migula 1895) Lehmann and Neumann 1896
Bacillus coli
Bacterium coli
Bacterium coli commune
Enterococcus coli
Escherchia coli
Escherichia coli (Migula 1895) Castellani and Chalmers 1919
Escherichia coli retron Ec107
Escherichia coli retron Ec67
Escherichia coli retron Ec79
Escherichia coli retron Ec86
Eschericia coli
bacterium 10a
bacterium E3
Cross references
1 item(s)
UniProt
P22869
Sequence
1XPOA:Rho transcription termination factor
RNA information
Short label
5'-R(*CP*UP*CP*UP*CP*UP*CP*U)-3'
Full name
Chain G,M,H,J,K,L of model 1XPO: 5'-R(*CP*UP*CP*UP*CP*UP*CP*U)-3'
Sequence
1XPOG:5'-R(*CP*UP*CP*UP*CP*UP*CP*U)-3'
Experiments (1)
Experiment 1
skordalakes-2005
Full name
X-ray diffraction
Detection method
x-ray crystallography (MI:0114)
Term ID
MI:0114
Name
x-ray crystallography
Definition
Analysis of a diffraction pattern generated by a single crystal. X-rays have a wavelength, typically around 1 Angstrom (the diameter of a hydrogen atom). If a narrow parallel beam of X-rays is directed at a sample of a pure protein, most of the X-rays will pass straight through it. A small fraction, however, will be scattered by the atoms in the sample. If the sample is a well-ordered crystal, the scattered waves will reinforce one another at certain points and will appear as diffraction spots when the X-rays are recorded by a suitable detector. The position and intensity of each spot in the X-ray diffraction pattern contain information about the position and nature of the atoms in the crystal. The three-dimensional structure of a large molecule can be deduced from the electron-density map of its crystal. In recent years X-ray diffraction analysis has become increasingly automated, and now the slowest step is likely to be the production of suitable macromolecule crystals. This requires high concentration of very pure macromolecule and empirical searching for the proper crystallisation conditions.
Synonyms
2 synonym(s)
X-ray (PSI-MI-alternate)
x-ray diffraction (PSI-MI-short)
Is-a
2 item(s)
MI:0013
biophysical
MI:0659
experimental feature detection
Host organisms
1 host organism(s)
Origin
Escherichia coli
NCBI Taxonomy ID
562
Name
Escherichia coli
Synonyms
16 synonym(s).
"Bacillus coli" Migula 1895
"Bacterium coli commune" Escherich 1885
"Bacterium coli" (Migula 1895) Lehmann and Neumann 1896
Bacillus coli
Bacterium coli
Bacterium coli commune
Enterococcus coli
Escherchia coli
Escherichia coli (Migula 1895) Castellani and Chalmers 1919
Escherichia coli retron Ec107
Escherichia coli retron Ec67
Escherichia coli retron Ec79
Escherichia coli retron Ec86
Eschericia coli
bacterium 10a
bacterium E3
Reference
SKORDALAKES, Emmanuel, et al. , Structure 2005 Jan;13(1):99-109
PMID
15642265
Title
Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic bicyclomycin.
Authors
SKORDALAKES, Emmanuel, et al.
SKORDALAKES, Emmanuel
BROGAN, Andrew P
PARK, Boon Saeng
KOHN, Harold
BERGER, James M
Citation
Structure 2005 Jan;13(1):99-109
References (1)
Reference 1
SKORDALAKES, Emmanuel, et al. , Structure 2005 Jan;13(1):99-109
PMID
15642265
Title
Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic bicyclomycin.
Authors
SKORDALAKES, Emmanuel, et al.
SKORDALAKES, Emmanuel
BROGAN, Andrew P
PARK, Boon Saeng
KOHN, Harold
BERGER, James M
Citation
Structure 2005 Jan;13(1):99-109
Related articles (1)
Article 1
SKORDALAKES, Emmanuel, et al. , Structure 2005 Jan;13(1):99-109
PMID
15642265
Title
Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic bicyclomycin.
Authors
SKORDALAKES, Emmanuel, et al.
SKORDALAKES, Emmanuel
BROGAN, Andrew P
PARK, Boon Saeng
KOHN, Harold
BERGER, James M
Citation
Structure 2005 Jan;13(1):99-109
Attributes (3)
Attributes
3 attribute(s)
3d-structure
Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic bicyclomycin
3d-resolution
3.15A
3d-r-factors
working 28.502%, free 30.594%