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Asym./Biol. Unit (Jmol Viewer)

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Title :   CRYSTAL STRUCTURE OF TRANSCRIPTION FACTOR NTCA FROM SYNECHOCOCCUS ELONGATUS (MERCURY DERIVATIVE)

Authors :   J. L. Llacer, M. A. Castells, V. Rubio

Date :   08 Jun 10 (Deposition) - 18 Aug 10 (Release) - 15 Sep 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.85

Chains :   Asym./Biol. Unit : A,B

Keywords :   Nitrogen Assimilation, Transcription, Crp/Fnr Superfamily, Cyanobacteria, 2-Oxoglutarate (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. L. Llacer, J. Espinosa, M. A. Castells, A. Contreras, K. Forchhammer, V. Rubio
Structural Basis For The Regulation Of Ntca- Dependent Transcription By Proteins Pipx And Pii.
Proc. Natl. Acad. Sci. Usa V. 107 15397 2010
PubMed-ID: 20716687 | Reference-DOI: 10.1073/PNAS.1007015107

Molecule 1 - GLOBAL NITROGEN REGULATOR
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15B
	Expression System Strain	:	ROSETTA
	Expression System Taxid	:	562
	Organism Scientific	:	SYNECHOCOCCUS ELONGATUS
	Organism Taxid	:	1140
	Other Details	:	AN HG ATOM BOUND TO EACH CYS 156 OF THE NTCA DIMER.
	Strain	:	PCC 7942
	Synonym	:	NTCA

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 5)

No.	Name	Count	Type	Full Name
1	AKG	2	Ligand/Ion	2-OXOGLUTARIC ACID
2	BTB	1	Ligand/Ion	2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
3	HG	2	Ligand/Ion	MERCURY (II) ION

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LEU A:53 , PHE A:74 , GLY A:75 , VAL A:76 , LEU A:77 , ARG A:87 , ARG A:128 , HOH A:2007 , ILE B:129 , GLU B:133	BINDING SITE FOR RESIDUE AKG A 519
2	AC2	SOFTWARE	CYS A:156 , ARG A:157	BINDING SITE FOR RESIDUE HG A 801
3	AC3	SOFTWARE	ILE A:129 , GLU A:133 , LEU B:53 , PHE B:74 , GLY B:75 , VAL B:76 , LEU B:77 , ARG B:87 , ARG B:128 , HOH B:2002	BINDING SITE FOR RESIDUE AKG B 519
4	AC4	SOFTWARE	CYS B:156 , ARG B:157	BINDING SITE FOR RESIDUE HG B 801
5	AC5	SOFTWARE	ILE A:33 , ASP A:38 , ARG A:191 , GLY A:194 , ASP A:195	BINDING SITE FOR RESIDUE BTB A1223

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

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

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

Asymmetric/Biological Unit (3, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CNMP_BINDING_3	PS50042	cAMP/cGMP binding motif profile.	NTCA_SYNE7	22-128	2	A:22-128 B:22-128
2	HTH_CRP_2	PS51063	Crp-type HTH domain profile.	NTCA_SYNE7	142-215	2	A:142-215 B:142-215
3	HTH_CRP_1	PS00042	Crp-type HTH domain signature.	NTCA_SYNE7	173-196	2	A:173-196 B:173-196

(no "Exon" information available for 2XGX)

Asymmetric/Biological 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:212
 aligned with NTCA_SYNE7 | P29283 from UniProtKB/Swiss-Prot  Length:222

    Alignment length:217
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       
           NTCA_SYNE7     6 NSLLTMFRELGSGKLPLQIEQFERGKTIFFPGDPAERVYLLVKGAVKLSRVYESGEEITVALLRENSVFGVLSLLTGQRSDRFYHAVAFTPVQLFSVPIEFMQKALIERPELANVMLQGLSSRILQTEMMIETLAHRDMGSRLVSFLLILCRDFGIPSPDGITIDLKLSHQAIAEAIGSTRVTVTRLLGDLRESKLIAIHKKRITVFNPVALSQQFS 222
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhh.-----....eee...eeee.......eeeeeee.eeeeeeee...eeeeeeee..eeee.hhhhhhh.......eeee...eeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhheeee..eeee....hhhhhhhhh..hhhhhhhhhhhhhhh..eeee..eeee.hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------CNMP_BINDING_3  PDB: A:22-128 UniProt: 22-128                                                              -------------HTH_CRP_2  PDB: A:142-215 UniProt: 142-215                                ------- PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------HTH_CRP_1  PDB: A:173-19-------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xgx A   6 NSLLTMFREL-----PLQIEQFERGKTIFFPGDPAERVYLLVKGAVKLSRVYESGEEITVALLRENSVFGVLSLLTGQRSDRFYHAVAFTPVQLFSVPIEFMQKALIERPELANVMLQGLSSRILQTEMMIETLAHRDMGSRLVSFLLILCRDFGIPSPDGITIDLKLSHQAIAEAIGSTRVTVTRLLGDLRESKLIAIHKKRITVFNPVALSQQFS 222
                                    15     |  25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       
                                    15    21

Chain B from PDB  Type:PROTEIN  Length:213
 aligned with NTCA_SYNE7 | P29283 from UniProtKB/Swiss-Prot  Length:222

    Alignment length:217
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       
           NTCA_SYNE7     6 NSLLTMFRELGSGKLPLQIEQFERGKTIFFPGDPAERVYLLVKGAVKLSRVYESGEEITVALLRENSVFGVLSLLTGQRSDRFYHAVAFTPVQLFSVPIEFMQKALIERPELANVMLQGLSSRILQTEMMIETLAHRDMGSRLVSFLLILCRDFGIPSPDGITIDLKLSHQAIAEAIGSTRVTVTRLLGDLRESKLIAIHKKRITVFNPVALSQQFS 222
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ------------------cNMP_binding-2xgxB03 B:24-116                                                                -----------------------------HTH_Crp_2-2xgxB01 B:146-220                                                -- Pfam domains (1)
           Pfam domains (2) ------------------cNMP_binding-2xgxB04 B:24-116                                                                -----------------------------HTH_Crp_2-2xgxB02 B:146-220                                                -- Pfam domains (2)
         Sec.struct. author .hhhhhhhh..----....eee...eeee.......eeeeeee.eeeeeeee...eeeeeeee..eeee.hhhhhh........eeee...eeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhheeee..eeee....hhhhhhh....hhhhhhhhhhhhhhh..eeee..eeee.hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----------------CNMP_BINDING_3  PDB: B:22-128 UniProt: 22-128                                                              -------------HTH_CRP_2  PDB: B:142-215 UniProt: 142-215                                ------- PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------HTH_CRP_1  PDB: B:173-19-------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xgx B   6 NSLLTMFRELG----PLQIEQFERGKTIFFPGDPAERVYLLVKGAVKLSRVYESGEEITVALLRENSVFGVLSLLTGQRSDRFYHAVAFTPVQLFSVPIEFMQKALIERPELANVMLQGLSSRILQTEMMIETLAHRDMGSRLVSFLLILCRDFGIPSPDGITIDLKLSHQAIAEAIGSTRVTVTRLLGDLRESKLIAIHKKRITVFNPVALSQQFS 222
                                    15|    |  25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       
                                     16   21

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 '\|'

(no "SCOP Domain" information available for 2XGX)

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (NTCA_SYNE7 | P29283)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0003700	transcription factor activity, sequence-specific DNA binding	Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
biological process
	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.
cellular component
	GO:0005622	intracellular	The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

Asymmetric/Biological Unit
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(no "Cis Peptide Bonds" information available for 2xgx)

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	NTCA_SYNE7 \| P29283	:	2xhk 2xko 2xkp

2xhk	CRYSTAL STRUCTURE OF TRANSCRIPTION FACTOR NTCA FROM SYNECHOCOCCUS ELONGATUS BOUND TO 2- OXOGLUTARATE
2xko	CRYSTAL STRUCTURE OF THE COMPLEX OF NTCA WITH ITS TRANSCRIPTIONAL CO-ACTIVATOR PIPX
2xkp	NTCA FROM SYNECHOCOCCUS ELONGATUS: ACTIVE AND INACTIVE

Description

Compounds

Structural Features

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Ligands, Modified Residues, Ions (3, 5)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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