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Title :   THE 1.3 A RESOLUTION STRUCTURE OF NITROSOMONAS EUROPAEA RH50 AND MECHANISTIC IMPLICATIONS FOR NH3 TRANSPORT BY RHESUS FAMILY PROTEINS

Authors :   D. Lupo, F. K. Winkler

Date :   07 Nov 07 (Deposition) - 20 Nov 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.30

Chains :   Asym. Unit : A
Biol. Unit 1: A  (3x)

Keywords :   Membrane Protein, Ammonia Transport, Rhesus Protein, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. Lupo, X. D. Li, A. Durand, T. Tomizaki, B. Cherif-Zahar, G. Matassi, M. Merrick, F. K. Winkler
The 1. 3-A Resolution Structure Of Nitrosomonas Europaea Rh5 And Mechanistic Implications For Nh3 Transport By Rhesus Family Proteins.
Proc. Natl. Acad. Sci. Usa V. 104 19303 2007
PubMed-ID: 18032606 | Reference-DOI: 10.1073/PNAS.0706563104

Molecule 1 - AMMONIUM TRANSPORTER FAMILY
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PAD7
	Expression System Strain	:	GT1000
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 25-425
	Gene	:	RH50
	Organism Scientific	:	NITROSOMONAS EUROPAEA
	Organism Taxid	:	915
	Synonym	:	RHESUS PROTEIN, RH-LIKE PROTEIN

		1
Asymmetric Unit	:	A
Biological Unit 1 (3x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 2)

No.	Name	Count	Type	Full Name
1	BOG	1	Ligand/Ion	B-OCTYLGLUCOSIDE
2	GOL	1	Ligand/Ion	GLYCEROL

Biological Unit 1 (2, 6)

No.	Name	Count	Type	Full Name
1	BOG	3	Ligand/Ion	B-OCTYLGLUCOSIDE
2	GOL	3	Ligand/Ion	GLYCEROL

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ALA A:65 , ASN A:66 , HOH A:680	BINDING SITE FOR RESIDUE BOG A 408
2	AC2	SOFTWARE	ARG A:103 , GLY A:232 , LYS A:351 , HIS A:358 , GLU A:359 , HOH A:572 , HOH A:780	BINDING SITE FOR RESIDUE GOL A 409

(no "SS Bond" information available for 3B9W)

(no "Cis Peptide Bond" information available for 3B9W)

(no "SAP(SNP)/Variant" information available for 3B9W)

(no "PROSITE Motif" information available for 3B9W)

(no "Exon" information available for 3B9W)

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
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Chain A from PDB  Type:PROTEIN  Length:362
 aligned with Q82X47_NITEU | Q82X47 from UniProtKB/TrEMBL  Length:425

    Alignment length:362
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391  
         Q82X47_NITEU    32 INEARLVAQYNYSINILAMLLVGFGFLMVFVRRYGFSATTGTYLVVATGLPLYILLRANGIFGHALTPHSVDAVIYAEFAVATGLIAMGAVLGRLRVFQYALLALFIVPVYLLNEWLVLDNASGLTEGFQDSAGSIAIHAFGAYFGLGVSIALTTAAQRAQPIESDATSDRFSMLGSMVLWLFWPSFATAIVPFEQMPQTIVNTLLALCGATLATYFLSALFHKGKASIVDMANAALAGGVAIGSVCNIVGPVGAFVIGLLGGAISVVGFVFIQPMLESKAKTIDTCGVHNLHGLPGLLGGFSAILIVPGIAVAQLTGIGITLALALIGGVIAGALIKLTGTTKQAYEDSHEFIHLAGPEDE 393
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3b9wA00 A:8-369 Ammonium transporter AmtB like domains                                                                                                                                                                                                                                                                                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh..................hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhh.....hhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3b9w A   8 INEARLVAQYNYSINILAMLLVGFGFLMVFVRRYGFSATTGTYLVVATGLPLYILLRANGIFGHALTPHSVDAVIYAEFAVATGLIAMGAVLGRLRVFQYALLALFIVPVYLLNEWLVLDNASGLTEGFQDSAGSIAIHAFGAYFGLGVSIALTTAAQRAQPIESDATSDRFSMLGSMVLWLFWPSFATAIVPFEQMPQTIVNTLLALCGATLATYFLSALFHKGKASIVDMANAALAGGVAIGSVCNIVGPVGAFVIGLLGGAISVVGFVFIQPMLESKAKTIDTCGVHNLHGLPGLLGGFSAILIVPGIAVAQLTGIGITLALALIGGVIAGALIKLTGTTKQAYEDSHEFIHLAGPEDE 369
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367

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 '\|'

(no "SCOP Domain" information available for 3B9W)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Ammonium transporter fold (31)

Homologous Superfamily: Ammonium transporter AmtB like domains (31)

Nitrosomonas europaea. Organism_taxid: 915. (1)

3b9wA00

A:8-369

(no "Pfam Domain" information available for 3B9W)

Asymmetric Unit(hide GO term definitions)

Chain A (Q82X47_NITEU | Q82X47)

molecular function
	GO:0008519	ammonium transmembrane transporter activity	Enables the transfer of ammonium from one side of a membrane to the other. Ammonium is the cation NH4+ which is formed from N2 by root-nodule bacteria in leguminous plants and is an excretory product in ammonotelic animals.
biological process
	GO:0072488	ammonium transmembrane transport	The directed movement of ammonium across a membrane by means of some agent such as a transporter or pore. Ammonium is the cation NH4+.
	GO:0015696	ammonium transport	The directed movement of ammonium into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Ammonium is the cation NH4+ which is formed from N2 by root-nodule bacteria in leguminous plants and is an excretory product in ammonotelic animals.
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:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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	3b9w
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UniProtKB/TrEMBL
	Q82X47_NITEU \| Q82X47	:	3b9y 3b9z 3bhs

1u7g	TRIPLE MUTANT OF THE AMMONIUM TRANSPORTER AMTB FROM ESCHERICHIA COLI
1xqf	WILD-TYPE AMMONIUM TRANSPORTER AMTB FROM ESCHERICHIA COLI
2b2f	WILD-TYPE AMMONIUM TRANSPORTER AMT1 FROM ARCHAEOGLOBUS FULGIDUS

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