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Title :   HIGH RESOLUTION STRUCTURE OF A PII MUTANT (I86N) PROTEIN IN COMPLEX WITH ATP, MG AND FLC

Authors :   K. Zeth, O. Fokina, V. R. Chellamuthu, K. Forchhammer

Date :   19 Jan 12 (Deposition) - 01 Feb 12 (Release) - 15 Aug 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.05

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

Keywords :   Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. Zeth, O. Fokina, K. Forchhammer
An Engineered Pii Protein Variant That Senses A Novel Ligand: Atomic Resolution Structure Of The Complex With Citrate.
Acta Crystallogr. , Sect. D V. 68 901 2012
PubMed-ID: 22868755 | Reference-DOI: 10.1107/S0907444912016447

Molecule 1 - NITROGEN REGULATORY PROTEIN P-II
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	IBA
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Scientific	:	SYNECHOCOCCUS ELONGATUS
	Organism Taxid	:	32046
	Synonym	:	PII SIGNAL TRANSDUCING PROTEIN

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 3)

No.	Name	Count	Type	Full Name
1	ATP	1	Ligand/Ion	ADENOSINE-5'-TRIPHOSPHATE
2	FLC	1	Ligand/Ion	CITRATE ANION
3	MG	1	Ligand/Ion	MAGNESIUM ION

Biological Unit 1 (2, 6)

No.	Name	Count	Type	Full Name
1	ATP	3	Ligand/Ion	ADENOSINE-5'-TRIPHOSPHATE
2	FLC	3	Ligand/Ion	CITRATE ANION
3	MG	-1	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ILE A:7 , GLY A:27 , MET A:28 , THR A:29 , GLY A:35 , PHE A:36 , GLY A:37 , ARG A:38 , GLU A:62 , VAL A:64 , ASN A:86 , GLY A:87 , ASP A:88 , GLY A:89 , LYS A:90 , ARG A:101 , ARG A:103 , MG A:1118 , FLC A:1119 , HOH A:2061 , HOH A:2104 , HOH A:2114 , HOH A:2130	BINDING SITE FOR RESIDUE ATP A1117
2	AC2	SOFTWARE	ATP A:1117 , FLC A:1119	BINDING SITE FOR RESIDUE MG A1118
3	AC3	SOFTWARE	PHE A:36 , GLY A:37 , ARG A:38 , GLN A:39 , LYS A:40 , LEU A:56 , ASN A:86 , GLY A:87 , ASN A:108 , ATP A:1117 , MG A:1118 , HOH A:2061 , HOH A:2062 , HOH A:2065 , HOH A:2073 , HOH A:2102 , HOH A:2121	BINDING SITE FOR RESIDUE FLC A1119

(no "SS Bond" information available for 4AFF)

(no "Cis Peptide Bond" information available for 4AFF)

(no "SAP(SNP)/Variant" information available for 4AFF)

Asymmetric Unit (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PII_GLNB_DOM	PS51343	P-II protein family profile.	GLNB_SYNE7	1-112	1	A:1-112
1	PII_GLNB_DOM	PS51343	P-II protein family profile.	GLNB_SYNP6	1-112	1	A:1-112
2	PII_GLNB_UMP	PS00496	P-II protein uridylation site.	GLNB_SYNE7	46-51	1	A:47-51
2	PII_GLNB_UMP	PS00496	P-II protein uridylation site.	GLNB_SYNP6	46-51	1	A:47-51
3	PII_GLNB_CTER	PS00638	P-II protein C-terminal region signature.	GLNB_SYNE7	83-96	1	A:83-96
3	PII_GLNB_CTER	PS00638	P-II protein C-terminal region signature.	GLNB_SYNP6	83-96	1	A:83-96

Biological Unit 1 (3, 18)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PII_GLNB_DOM	PS51343	P-II protein family profile.	GLNB_SYNE7	1-112	3	A:1-112
1	PII_GLNB_DOM	PS51343	P-II protein family profile.	GLNB_SYNP6	1-112	3	A:1-112
2	PII_GLNB_UMP	PS00496	P-II protein uridylation site.	GLNB_SYNE7	46-51	3	A:47-51
2	PII_GLNB_UMP	PS00496	P-II protein uridylation site.	GLNB_SYNP6	46-51	3	A:47-51
3	PII_GLNB_CTER	PS00638	P-II protein C-terminal region signature.	GLNB_SYNE7	83-96	3	A:83-96
3	PII_GLNB_CTER	PS00638	P-II protein C-terminal region signature.	GLNB_SYNP6	83-96	3	A:83-96

(no "Exon" information available for 4AFF)

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:110
 aligned with GLNB_SYNE7 | P0A3F4 from UniProtKB/Swiss-Prot  Length:112

    Alignment length:116
                                                                                                                                         112    
                                    10        20        30        40        50        60        70        80        90       100       110 |    
           GLNB_SYNE7     1 MKKIEAIIRPFKLDEVKIALVNAGIVGMTVSEVRGFGRQKGQTERYRGSEYTVEFLQKLKLEIVVEDAQVDTVIDKIVAAARTGEIGDGKIFVSPVDQTIRIRTGEKNADAI----   -
               SCOP domains d4affa_ A: automated matches                                                                                         SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhh.....eeeeeee.....------.........eeeeeeeeeehhhhhhhhhhhhhhhhh......eeeeeee............hhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) PII_GLNB_DOM  PDB: A:1-112 UniProt: 1-112                                                                       ---- PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ----------------------------------------------------------------------------------PII_GLNB_CTER -------------------- PROSITE (3)
                PROSITE (4) ---------------------------------------------PII_GL----------------------------------------------------------------- PROSITE (4)
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 4aff A   1 MKKIEAIIRPFKLDEVKIALVNAGIVGMTVSEVRGFGRQK------RGSEYTVEFLQKLKLEIVVEDAQVDTVIDKIVAAARTGENGDGKIFVSPVDQTIRIRTGEKNADAISAWS 116
                                    10        20        30        40      | 50        60        70        80        90       100       110      
                                                                  40     47

Chain A from PDB  Type:PROTEIN  Length:110
 aligned with GLNB_SYNP6 | P0A3F5 from UniProtKB/Swiss-Prot  Length:112

    Alignment length:116
                                                                                                                                         112    
                                    10        20        30        40        50        60        70        80        90       100       110 |    
           GLNB_SYNP6     1 MKKIEAIIRPFKLDEVKIALVNAGIVGMTVSEVRGFGRQKGQTERYRGSEYTVEFLQKLKLEIVVEDAQVDTVIDKIVAAARTGEIGDGKIFVSPVDQTIRIRTGEKNADAI----   -
               SCOP domains d4affa_ A: automated matches                                                                                         SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhh.....eeeeeee.....------.........eeeeeeeeeehhhhhhhhhhhhhhhhh......eeeeeee............hhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) PII_GLNB_DOM  PDB: A:1-112 UniProt: 1-112                                                                       ---- PROSITE (2)
                PROSITE (3) ---------------------------------------------PII_GL----------------------------------------------------------------- PROSITE (3)
                PROSITE (4) ----------------------------------------------------------------------------------PII_GLNB_CTER -------------------- PROSITE (4)
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 4aff A   1 MKKIEAIIRPFKLDEVKIALVNAGIVGMTVSEVRGFGRQK------RGSEYTVEFLQKLKLEIVVEDAQVDTVIDKIVAAARTGENGDGKIFVSPVDQTIRIRTGEKNADAISAWS 116
                                    10        20        30        40      | 50        60        70        80        90       100       110      
                                                                  40     47

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: Alpha and beta proteins (a+b) (23004)

Fold: Ferredoxin-like (1795)

Superfamily: GlnB-like (79)

Family: Prokaryotic signal transducing protein (31)

Protein domain: automated matches (9)

Synechococcus elongatus [TaxId: 32046] (1)

d4affa_

(no "CATH Domain" information available for 4AFF)

(no "Pfam Domain" information available for 4AFF)

Asymmetric Unit(hide GO term definitions)

Chain A (GLNB_SYNP6 | P0A3F5)

molecular function
	GO:0030234	enzyme regulator activity	Binds to and modulates the activity of an enzyme.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
	GO:0050790	regulation of catalytic activity	Any process that modulates the activity of an enzyme.
	GO:0006808	regulation of nitrogen utilization	Any process that modulates the frequency, rate or extent of nitrogen utilization.
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.

Chain A (GLNB_SYNE7 | P0A3F4)

molecular function
	GO:0030234	enzyme regulator activity	Binds to and modulates the activity of an enzyme.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	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).
biological process
	GO:0050790	regulation of catalytic activity	Any process that modulates the activity of an enzyme.
	GO:0006808	regulation of nitrogen utilization	Any process that modulates the frequency, rate or extent of nitrogen utilization.
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.

Asymmetric Unit
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Biological Unit
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