2GIF - Revision history

Karsten at 17:22, 24 March 2020

2020-03-24T17:22:47Z

← Older revision		Revision as of 19:22, 24 March 2020
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	== Structural asymmetry of AcrB trimer suggests a peristaltic pump mechanism ==		== Structural asymmetry of AcrB trimer suggests a peristaltic pump mechanism ==

	The structure of AcrB in spacegroup C2 was solved by molecular replacement (using the symmetric structure as a model), followed by many cycles of refinement and model building. The raw data are available at ~~ftp~~://{{SERVERNAME}}/pub/datasets/ .		The structure of AcrB in spacegroup C2 was solved by molecular replacement (using the symmetric structure as a model), followed by many cycles of refinement and model building. The raw data are available at https://{{SERVERNAME}}/pub/datasets/ .

	Reference: Seeger, M.A., Schiefner, A., Eicher, T., Verrey, F., Diederichs, K., Pos, K.M. (2006) Structural Asymmetry of AcrB Trimer Suggests a Peristaltic Pump Mechanism. ''Science'' '''313''': 1295-1298		Reference: Seeger, M.A., Schiefner, A., Eicher, T., Verrey, F., Diederichs, K., Pos, K.M. (2006) Structural Asymmetry of AcrB Trimer Suggests a Peristaltic Pump Mechanism. ''Science'' '''313''': 1295-1298

Karsten at 16:22, 19 December 2019

2019-12-19T16:22:49Z

← Older revision		Revision as of 18:22, 19 December 2019
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	== Structural asymmetry of AcrB trimer suggests a peristaltic pump mechanism ==		== Structural asymmetry of AcrB trimer suggests a peristaltic pump mechanism ==

	The structure of AcrB in spacegroup C2 was solved by molecular replacement (using the symmetric structure as a model), followed by many cycles of refinement and model building. The raw data are available at ftp://~~turn5.biologie.uni-konstanz.de~~/pub/datasets/ .		The structure of AcrB in spacegroup C2 was solved by molecular replacement (using the symmetric structure as a model), followed by many cycles of refinement and model building. The raw data are available at ftp://{{SERVERNAME}}/pub/datasets/ .

	Reference: Seeger, M.A., Schiefner, A., Eicher, T., Verrey, F., Diederichs, K., Pos, K.M. (2006) Structural Asymmetry of AcrB Trimer Suggests a Peristaltic Pump Mechanism. ''Science'' '''313''': 1295-1298		Reference: Seeger, M.A., Schiefner, A., Eicher, T., Verrey, F., Diederichs, K., Pos, K.M. (2006) Structural Asymmetry of AcrB Trimer Suggests a Peristaltic Pump Mechanism. ''Science'' '''313''': 1295-1298

Kay: /* Structural asymmetry of AcrB trimer suggests a peristaltic pump mechanism */

2008-10-31T09:34:47Z

Structural asymmetry of AcrB trimer suggests a peristaltic pump mechanism

← Older revision		Revision as of 11:34, 31 October 2008
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	INCLUDE_RESOLUTION_RANGE=50.0 2.6 !Angstroem; used by DEFPIX,INTEGRATE,CORRECT		INCLUDE_RESOLUTION_RANGE=50.0 2.6 !Angstroem; used by DEFPIX,INTEGRATE,CORRECT

	The statistics of ~~the merged dataset (comprising~~ ms424_2~~, ms424_3 and ms424_4)~~ may be found in table S1 of [http://strucbio.biologie.uni-konstanz.de/strucbio/files/Seeger_Science_313_1295_SOM.pdf].		The statistics of ms424_2 may be found in table S1 of [http://strucbio.biologie.uni-konstanz.de/strucbio/files/Seeger_Science_313_1295_SOM.pdf].

Kay at 18:13, 30 October 2008

2008-10-30T18:13:58Z

← Older revision		Revision as of 20:13, 30 October 2008
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	VALUE_RANGE_FOR_TRUSTED_DETECTOR_PIXELS= 6000 30000 !Used by DEFPIX		VALUE_RANGE_FOR_TRUSTED_DETECTOR_PIXELS= 6000 30000 !Used by DEFPIX
	INCLUDE_RESOLUTION_RANGE=50.0 2.6 !Angstroem; used by DEFPIX,INTEGRATE,CORRECT		INCLUDE_RESOLUTION_RANGE=50.0 2.6 !Angstroem; used by DEFPIX,INTEGRATE,CORRECT

			The statistics of the merged dataset (comprising ms424_2, ms424_3 and ms424_4) may be found in table S1 of [http://strucbio.biologie.uni-konstanz.de/strucbio/files/Seeger_Science_313_1295_SOM.pdf].

Kay at 18:06, 30 October 2008

2008-10-30T18:06:34Z

← Older revision		Revision as of 20:06, 30 October 2008
Line 7:		Line 7:
	The goal of this XDSwiki project is to run different versions of XDS (and other data reduction programs if anybody would contribute the data reductions!), and to compare internal R-factor statistics against R-factors of the refined model.		The goal of this XDSwiki project is to run different versions of XDS (and other data reduction programs if anybody would contribute the data reductions!), and to compare internal R-factor statistics against R-factors of the refined model.

	~~More to come~~!		A suitable XDS.INP should be:
			JOB= XYCORR INIT COLSPOT IDXREF DEFPIX INTEGRATE CORRECT
			MINIMUM_ZETA=0.05
			ORGX=1546 ORGY=1526
			DETECTOR_DISTANCE= 300
			OSCILLATION_RANGE=1.0 !degrees (>0)
			X-RAY_WAVELENGTH=1.0 !Angstroem
			MAXIMUM_NUMBER_OF_PROCESSORS=16
			NAME_TEMPLATE_OF_DATA_FRAMES=frms/ms424_2_???.img DIRECT TIFF
			DATA_RANGE=1 200
			SPOT_RANGE=1 200
			BACKGROUND_RANGE=1 10
			SPACE_GROUP_NUMBER=5 !0 for unknown crystals; cell constants are ignored.
			UNIT_CELL_CONSTANTS= 223.3 134.3 161.2 90.0 98.2 90.0
			REFINE(IDXREF)=BEAM AXIS ORIENTATION CELL DISTANCE
			REFINE(INTEGRATE)=DISTANCE BEAM ORIENTATION CELL !AXIS
			REFINE(CORRECT)=DISTANCE BEAM ORIENTATION CELL AXIS
			NX=3072 NY=3072 QX=0.0732 QY=0.0732 !MARCCD 225mm version
			ROTATION_AXIS= 1.0 0.0 0.0
			INCIDENT_BEAM_DIRECTION=0.0 0.0 1.0
			FRACTION_OF_POLARIZATION=0.99 ! SLS X06SA
			POLARIZATION_PLANE_NORMAL= 0.0 1.0 0.0
			DETECTOR=CCDCHESS MINIMUM_VALID_PIXEL_VALUE=0 OVERLOAD=65000
			DIRECTION_OF_DETECTOR_X-AXIS= 1.0 0.0 0.0
			DIRECTION_OF_DETECTOR_Y-AXIS= 0.0 1.0 0.0
			TRUSTED_REGION=0.0 1.35 !Relative radius limiting trusted region on detector
			VALUE_RANGE_FOR_TRUSTED_DETECTOR_PIXELS= 6000 30000 !Used by DEFPIX
			INCLUDE_RESOLUTION_RANGE=50.0 2.6 !Angstroem; used by DEFPIX,INTEGRATE,CORRECT

Kay: /* Structural asymmetry of AcrB trimer suggests a peristaltic pump mechanism */

2008-06-06T16:45:05Z

Structural asymmetry of AcrB trimer suggests a peristaltic pump mechanism

← Older revision		Revision as of 18:45, 6 June 2008
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	== Structural asymmetry of AcrB trimer suggests a peristaltic pump mechanism ==		== Structural asymmetry of AcrB trimer suggests a peristaltic pump mechanism ==

	The structure of AcrB was solved by molecular replacement, followed by many cycles of refinement and model building. The raw data are available at ftp://turn5.biologie.uni-konstanz.de/pub/datasets/ .		The structure of AcrB in spacegroup C2 was solved by molecular replacement (using the symmetric structure as a model), followed by many cycles of refinement and model building. The raw data are available at ftp://turn5.biologie.uni-konstanz.de/pub/datasets/ .

	Reference: Seeger, M.A., Schiefner, A., Eicher, T., Verrey, F., Diederichs, K., Pos, K.M. (2006) Structural Asymmetry of AcrB Trimer Suggests a Peristaltic Pump Mechanism. ''Science'' '''313''': 1295-1298		Reference: Seeger, M.A., Schiefner, A., Eicher, T., Verrey, F., Diederichs, K., Pos, K.M. (2006) Structural Asymmetry of AcrB Trimer Suggests a Peristaltic Pump Mechanism. ''Science'' '''313''': 1295-1298
Line 7:		Line 7:
	The goal of this XDSwiki project is to run different versions of XDS (and other data reduction programs if anybody would contribute the data reductions!), and to compare internal R-factor statistics against R-factors of the refined model.		The goal of this XDSwiki project is to run different versions of XDS (and other data reduction programs if anybody would contribute the data reductions!), and to compare internal R-factor statistics against R-factors of the refined model.

	More to come ~~soon~~!		More to come!

Kay at 17:31, 15 March 2008

2008-03-15T17:31:11Z

← Older revision		Revision as of 19:31, 15 March 2008
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	== AcrB ~~(PDB code 2GIF)~~ ==		== Structural asymmetry of AcrB trimer suggests a peristaltic pump mechanism ==

	The structure of AcrB was solved by molecular replacement, followed by many cycles of refinement and model building. The raw data are available at ftp://turn5.biologie.uni-konstanz.de/pub/datasets/ .		The structure of AcrB was solved by molecular replacement, followed by many cycles of refinement and model building. The raw data are available at ftp://turn5.biologie.uni-konstanz.de/pub/datasets/ .

Kay at 17:30, 15 March 2008

2008-03-15T17:30:03Z

← Older revision		Revision as of 19:30, 15 March 2008
Line 4:		Line 4:

	Reference: Seeger, M.A., Schiefner, A., Eicher, T., Verrey, F., Diederichs, K., Pos, K.M. (2006) Structural Asymmetry of AcrB Trimer Suggests a Peristaltic Pump Mechanism. ''Science'' '''313''': 1295-1298		Reference: Seeger, M.A., Schiefner, A., Eicher, T., Verrey, F., Diederichs, K., Pos, K.M. (2006) Structural Asymmetry of AcrB Trimer Suggests a Peristaltic Pump Mechanism. ''Science'' '''313''': 1295-1298

			The goal of this XDSwiki project is to run different versions of XDS (and other data reduction programs if anybody would contribute the data reductions!), and to compare internal R-factor statistics against R-factors of the refined model.

	More to come soon!		More to come soon!

Kay: New page: == AcrB (PDB code 2GIF) == The structure of AcrB was solved by molecular replacement, followed by many cycles of refinement and model building. The raw data are available at ftp://turn5.b...

2008-03-15T17:23:04Z

New page: == AcrB (PDB code 2GIF) == The structure of AcrB was solved by molecular replacement, followed by many cycles of refinement and model building. The raw data are available at ftp://turn5.b...

New page

== AcrB (PDB code 2GIF) ==

The structure of AcrB was solved by molecular replacement, followed by many cycles of refinement and model building. The raw data are available at ftp://turn5.biologie.uni-konstanz.de/pub/datasets/ .

Reference: Seeger, M.A., Schiefner, A., Eicher, T., Verrey, F., Diederichs, K., Pos, K.M. (2006) Structural Asymmetry of AcrB Trimer Suggests a Peristaltic Pump Mechanism. ''Science'' '''313''': 1295-1298

More to come soon!