2O9D - JenaLib

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Title :   CRYSTAL STRUCTURE OF AQPZ MUTANT T183C.

Authors :   D. F. Savage, R. M. Stroud, Center For Structures Of Membrane Prot (Csmp)

Date :   13 Dec 06 (Deposition) - 13 Feb 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (4x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: B  (4x)

Keywords :   Aquaporin, Integral Membrane Protein, Structural Genomics, Psi-2, Protein Structure Initiative, Center For Structures Of Membrane Proteins, Csmp, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. F. Savage, R. M. Stroud
Structural Basis Of Aquaporin Inhibition By Mercury.
J. Mol. Biol. V. 368 607 2007
PubMed-ID: 17376483 | Reference-DOI: 10.1016/J.JMB.2007.02.070

Molecule 1 - AQUAPORIN Z
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	AQPZ, BNIP
	Mutation	:	YES
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	BACTERIAL NODULIN-LIKE INTRINSIC PROTEIN

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (4x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (4x)	:		B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 3)

No.	Name	Count	Type	Full Name
1	HSG	2	Ligand/Ion	OCTYL ALPHA-L-ALTROPYRANOSIDE
2	HSH	1	Ligand/Ion	OCTYL BETA-D-GALACTOPYRANOSIDE

Biological Unit 1 (2, 12)

No.	Name	Count	Type	Full Name
1	HSG	8	Ligand/Ion	OCTYL ALPHA-L-ALTROPYRANOSIDE
2	HSH	4	Ligand/Ion	OCTYL BETA-D-GALACTOPYRANOSIDE

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	HSG	-1	Ligand/Ion	OCTYL ALPHA-L-ALTROPYRANOSIDE
2	HSH	-1	Ligand/Ion	OCTYL BETA-D-GALACTOPYRANOSIDE

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	HSG	-1	Ligand/Ion	OCTYL ALPHA-L-ALTROPYRANOSIDE
2	HSH	-1	Ligand/Ion	OCTYL BETA-D-GALACTOPYRANOSIDE

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HSH A:233 , LYS B:229 , ASP B:231	BINDING SITE FOR RESIDUE HSG A 232
2	AC2	SOFTWARE	LEU A:202 , GLU A:203 , LEU A:205 , TRP A:206 , TRP A:209 , HSG A:232 , HSG A:234 , HIS B:0	BINDING SITE FOR RESIDUE HSH A 233
3	AC3	SOFTWARE	GLU A:203 , HSH A:233 , LYS B:79 , HOH B:245	BINDING SITE FOR RESIDUE HSG A 234

(no "SS Bond" information available for 2O9D)

Asymmetric Unit

No.	Residues
1	Lys B:229	-	Arg B:230

(no "SAP(SNP)/Variant" information available for 2O9D)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	MIP	PS00221	MIP family signature.	AQPZ_ECOLI	61-69	2	A:61-69 B:61-69

Biological Unit 1 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	MIP	PS00221	MIP family signature.	AQPZ_ECOLI	61-69	4	A:61-69 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	MIP	PS00221	MIP family signature.	AQPZ_ECOLI	61-69	1	- B:61-69

Biological Unit 3 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	MIP	PS00221	MIP family signature.	AQPZ_ECOLI	61-69	4	- B:61-69

(no "Exon" information available for 2O9D)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:231
 aligned with AQPZ_ECOLI | P60844 from UniProtKB/Swiss-Prot  Length:231

    Alignment length:231
                              1                                                                                                                                                                                                                                    
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228 
           AQPZ_ECOLI     - --MFRKLAAECFGTFWLVFGGCGSAVLAAGFPELGIGFAGVALAFGLTVLTMAFAVGHISGGHFNPAVTIGLWAGGRFPAKEVVGYVIAQVVGGIVAAALLYLIASGKTGFDAAASGFASNGYGEHSPGGYSMLSALVVELVLSAGFLLVIHGATDKFAPAGFAPIAIGLALTLIHLISIPVTNTSVNPARSTAVAIFQGGWALEQLWFFWVVPIVGGIIGGLIYRTLLEK 229
               SCOP domains d2o9da_ A: Aquaporin Z                                                                                                                                                                                                                  SCOP domains
               CATH domains 2o9dA00 A:-1-229 Glycerol uptake facilitator protein.                                                                                                                                                                                   CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhh.....hhhhh....hhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------MIP      ---------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2o9d A  -1 SHMFRKLAAESFGTFWLVFGGSGSAVLAAGFPELGIGFAGVALAFGLTVLTMAFAVGHISGGHFNPAVTIGLWAGGRFPAKEVVGYVIAQVVGGIVAAALLYLIASGKTGFDAAASGFASNGYGEHSPGGYSMLSALVVELVLSAGFLLVIHGATDKFAPAGFAPIAIGLALTLIHLISIPVTNCSVNPARSTAVAIFQGGWALEQLWFFWVVPIVGGIIGGLIYRTLLEK 229
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228

Chain B from PDB  Type:PROTEIN  Length:233
 aligned with AQPZ_ECOLI | P60844 from UniProtKB/Swiss-Prot  Length:231

    Alignment length:233
                              1                                                                                                                                                                                                                                      
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228   
           AQPZ_ECOLI     - --MFRKLAAECFGTFWLVFGGCGSAVLAAGFPELGIGFAGVALAFGLTVLTMAFAVGHISGGHFNPAVTIGLWAGGRFPAKEVVGYVIAQVVGGIVAAALLYLIASGKTGFDAAASGFASNGYGEHSPGGYSMLSALVVELVLSAGFLLVIHGATDKFAPAGFAPIAIGLALTLIHLISIPVTNTSVNPARSTAVAIFQGGWALEQLWFFWVVPIVGGIIGGLIYRTLLEKRD 231
               SCOP domains d2o9db_ B: Aquaporin Z                                                                                                                                                                                                                    SCOP domains
               CATH domains 2o9dB00 B:-1-231 Glycerol uptake facilitator protein.                                                                                                                                                                                     CATH domains
           Pfam domains (1) --MIP-2o9dB01 B:1-223                                                                                                                                                                                                            -------- Pfam domains (1)
           Pfam domains (2) --MIP-2o9dB02 B:1-223                                                                                                                                                                                                            -------- Pfam domains (2)
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh.........................hhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------MIP      ------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2o9d B  -1 SHMFRKLAAESFGTFWLVFGGSGSAVLAAGFPELGIGFAGVALAFGLTVLTMAFAVGHISGGHFNPAVTIGLWAGGRFPAKEVVGYVIAQVVGGIVAAALLYLIASGKTGFDAAASGFASNGYGEHSPGGYSMLSALVVELVLSAGFLLVIHGATDKFAPAGFAPIAIGLALTLIHLISIPVTNCSVNPARSTAVAIFQGGWALEQLWFFWVVPIVGGIIGGLIYRTLLEKRD 231
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Membrane and cell surface proteins and peptides (2046)

Fold: Aquaporin-like (34)

Superfamily: Aquaporin-like (34)

Family: Aquaporin-like (22)

Protein domain: Aquaporin Z (6)

Escherichia coli [TaxId: 562] (6)

1a	d2o9da_	A:
1b	d2o9db_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Up-down Bundle (3216)

Topology: Glycerol uptake facilitator protein (37)

Homologous Superfamily: Glycerol uptake facilitator protein. (37)

Escherichia coli. Organism_taxid: 562. (6)

1a	2o9dB00	B:-1-231
1b	2o9dA00	A:-1-229

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: MIP] (17)

Family: MIP (17)

Escherichia coli (strain K12) (11)

1a	MIP-2o9dB01	B:1-223
1b	MIP-2o9dB02	B:1-223

Asymmetric Unit(hide GO term definitions)

Chain A,B (AQPZ_ECOLI | P60844)

molecular function
	GO:0015254	glycerol channel activity	Enables the facilitated diffusion of glycerol (by an energy-independent process) involving passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0005215	transporter activity	Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells.
	GO:0015250	water channel activity	Transport systems of this type enable facilitated diffusion of water (by an energy-independent process) by passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism.
biological process
	GO:0009992	cellular water homeostasis	Any process involved in the maintenance of an internal steady state of water within a cell.
	GO:0015793	glycerol transport	The directed movement of glycerol into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Glycerol is 1,2,3-propanetriol, a sweet, hygroscopic, viscous liquid, widely distributed in nature as a constituent of many lipids.
	GO:0034220	ion transmembrane transport	A process in which an ion is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
	GO:0006970	response to osmotic stress	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating an increase or decrease in the concentration of solutes outside the organism or cell.
	GO:0055085	transmembrane transport	The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
	GO:0006833	water transport	The directed movement of water (H2O) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
cellular component
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0005887	integral component of plasma membrane	The component of the plasma membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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	2o9d
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	AQPZ_ECOLI \| P60844	:	1rc2 2abm 2o9e 2o9f 2o9g 3nk5 3nka 3nkc

Description

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SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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