2L6A - JenaLib

NMR Structure - model 1 (Jmol Viewer)

NMR Structure - all models (Jmol Viewer)

Title :   THREE-DIMENSIONAL STRUCTURE OF THE N-TERMINAL EFFECTOR PYRIN DOMAIN OF NLRP12

Authors :   A. S. Pinheiro, W. Peti

Date :   17 Nov 10 (Deposition) - 02 Nov 11 (Release) - 28 Dec 11 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A  (20x)
NMR Structure *: A  (1x)

Keywords :   Nlrp12, Pyrin, Death Domain, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. S. Pinheiro, C. Eibl, Z. Ekman-Vural, R. Schwarzenbacher, W. Peti
The Nlrp12 Pyrin Domain: Structure, Dynamics, And Functiona Insights.
J. Mol. Biol. V. 413 790 2011
PubMed-ID: 21978668 | Reference-DOI: 10.1016/J.JMB.2011.09.024

Molecule 1 - NACHT, LRR AND PYD DOMAINS-CONTAINING PROTEIN 12
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21 (DE3)-RIL
	Expression System Taxid	:	469008
	Expression System Vector	:	PHIS PARALLEL STOP
	Fragment	:	UNP RESIDUES 1-98
	Gene	:	NLRP12, NALP12, PYPAF7, RNO
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	MONARCH-1, PYRIN-CONTAINING APAF1-LIKE PROTEIN 7, REGULATED BY NITRIC OXIDE

		1
NMR Structure (20x)	:	A
NMR Structure * (1x)	:	A

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 2L6A)

(no "Site" information available for 2L6A)

(no "SS Bond" information available for 2L6A)

(no "Cis Peptide Bond" information available for 2L6A)

NMR Structure (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_053620	G	39	V	NAL12_HUMAN	Polymorphism	34436714	A	G	41	V

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

NMR Structure * (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_053620	G	39	V	NAL12_HUMAN	Polymorphism	34436714	A	G	41	V

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

NMR Structure (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DAPIN	PS50824	DAPIN domain profile.	NAL12_HUMAN	1-95	1	A:3-97

NMR Structure * (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DAPIN	PS50824	DAPIN domain profile.	NAL12_HUMAN	1-95	1	A:3-97

(no "Exon" information available for 2L6A)

NMR Structure

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:102
 aligned with NAL12_HUMAN | P59046 from UniProtKB/Swiss-Prot  Length:1061

    Alignment length:117
                              1                                                                                                                  
                              |      8        18        28        38        48        58        68        78        88        98       108       
          NAL12_HUMAN     - --MLRTAGRDGLCRLSTYLEELEAVELKKFKLYLGTATELGEGKIPWGSMEKAGPLEMAQLLITHFGPEEAWRLALSTFERINRKDLWERGQREDLVRDTPPGGPSSLGNQSTCLLE 115
               SCOP domains d2l6aa_ A: automated matches                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhh..hhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........---------------.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------V---------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --DAPIN  PDB: A:3-97 UniProt: 1-95                                                               -------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 2l6a A   1 GHMLRTAGRDGLCRLSTYLEELEAVELKKFKLYLGTATELGEGKIPWGSMEKAGPLEMAQLLITHFGPEEAWRLALSTFERINRKDLWERGQREDLVRDT---------------VE 102
                                    10        20        30        40        50        60        70        80        90       100         -     | 
                                                                                                                             100             101

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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	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 '\|'

NMR Structure

Classes(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

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Organisms( (-)

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Class: All alpha proteins (14657)

Fold: DEATH domain (37)

Superfamily: DEATH domain (37)

Family: automated matches (2)

Protein domain: automated matches (2)

Human (Homo sapiens) [TaxId: 9606] (1)

d2l6aa_

(no "CATH Domain" information available for 2L6A)

(no "Pfam Domain" information available for 2L6A)

NMR Structure(hide GO term definitions)

Chain A (NAL12_HUMAN | P59046)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0008656	cysteine-type endopeptidase activator activity involved in apoptotic process	Increases the rate of proteolysis catalyzed by a cysteine-type endopeptidase involved in the apoptotic process.
	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:0006919	activation of cysteine-type endopeptidase activity involved in apoptotic process	Any process that initiates the activity of the inactive enzyme cysteine-type endopeptidase in the context of an apoptotic process.
	GO:0071345	cellular response to cytokine stimulus	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cytokine stimulus.
	GO:0036336	dendritic cell migration	The movement of a dendritic cell within or between different tissues and organs of the body.
	GO:0070373	negative regulation of ERK1 and ERK2 cascade	Any process that stops, prevents, or reduces the frequency, rate or extent of signal transduction mediated by the ERK1 and ERK2 cascade.
	GO:0043124	negative regulation of I-kappaB kinase/NF-kappaB signaling	Any process that stops, prevents, or reduces the frequency, rate or extent of -kappaB kinase/NF-kappaB signaling.
	GO:0032088	negative regulation of NF-kappaB transcription factor activity	Any process that stops, prevents, or reduces the frequency, rate or extent of the activity of the transcription factor NF-kappaB.
	GO:1901223	negative regulation of NIK/NF-kappaB signaling	Any process that stops, prevents or reduces the frequency, rate or extent of NIK/NF-kappaB signaling.
	GO:0045751	negative regulation of Toll signaling pathway	Any process that stops, prevents, or reduces the frequency, rate or extent of the Tl signaling pathway.
	GO:0050710	negative regulation of cytokine secretion	Any process that stops, prevents, or reduces the frequency, rate or extent of the regulated release of cytokines from a cell.
	GO:0050728	negative regulation of inflammatory response	Any process that stops, prevents, or reduces the frequency, rate or extent of the inflammatory response.
	GO:0050711	negative regulation of interleukin-1 secretion	Any process that stops, prevents, or reduces the frequency, rate or extent of the regulated release of interleukin-1 from a cell.
	GO:0045409	negative regulation of interleukin-6 biosynthetic process	Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of interleukin-6.
	GO:0031953	negative regulation of protein autophosphorylation	Any process that stops, prevents or decreases the rate of the phosphorylation by a protein of one or more of its own residues.
	GO:0009968	negative regulation of signal transduction	Any process that stops, prevents, or reduces the frequency, rate or extent of signal transduction.
	GO:0045345	positive regulation of MHC class I biosynthetic process	Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of MHC class I.
	GO:0050729	positive regulation of inflammatory response	Any process that activates or increases the frequency, rate or extent of the inflammatory response.
	GO:0050718	positive regulation of interleukin-1 beta secretion	Any process that activates or increases the frequency, rate or extent of the regulated release of interleukin-1 beta from a cell.
	GO:0043122	regulation of I-kappaB kinase/NF-kappaB signaling	Any process that modulates I-kappaB kinase/NF-kappaB signaling.
	GO:0043281	regulation of cysteine-type endopeptidase activity involved in apoptotic process	Any process that modulates the activity of a cysteine-type endopeptidase involved in apoptosis.
	GO:0045381	regulation of interleukin-18 biosynthetic process	Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of interleukin-18.
	GO:0008588	release of cytoplasmic sequestered NF-kappaB	The release of NF-kappaB from specific molecules in the cytoplasm to which it was bound, thereby allowing its translocation into the nucleus.
	GO:0007165	signal transduction	The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

NMR Structure
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	2l6a
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	NAL12_HUMAN \| P59046
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	NAL12_HUMAN \| P59046	:	4xhs 5h7n

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