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Asym./Biol. Unit (Jmol Viewer)

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Title :   CRYSTAL STRUCTURE OF THE PUTATIVE PEPTIDYL-ARGININE DEIMINASE FROM CHLOROBIUM TEPIDUM, NESG TARGET CTR21

Authors :   F. Forouhar, A. R. Befeler, S. M. Vorobiev, M. Hussain, M. Ciano, T. B. Ac G. T. Montelione, J. F. Hunt, L. Tong, Northeast Structural Genomic Consortium (Nesg)

Date :   29 Sep 04 (Deposition) - 16 Nov 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

Chains :   Asym./Biol. Unit : A

Keywords :   Alpha-Beta Protein, Nesg, Structural Genomics, Protein Structure Initiative, Psi, Northeast Structural Genomics Consortium (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   F. Forouhar, A. R. Befeler, S. M. Vorobiev, M. Hussain, M. Ciano, T. B. Acton, G. T. Montelione, J. F. Hunt, L. Tong
Crystal Structure Of The Putative Peptidyl-Arginine Deiminase From Chlorobium Tepidum, Nesg Target Ctr21
To Be Published
PubMed: search

Molecule 1 - PUTATIVE PEPTIDYL-ARGININE DEIMINASE
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	BL21
	Expression System Strain	:	BL21(DE3)+MAGIC
	Expression System Taxid	:	562
	Expression System Vector	:	PET21
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	CHLOROBIUM TEPIDUM
	Organism Taxid	:	194439
	Strain	:	TLS

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 11)

No.	Name	Count	Type	Full Name
1	CL	1	Ligand/Ion	CHLORIDE ION
2	MSE	9	Mod. Amino Acid	SELENOMETHIONINE
3	NA	1	Ligand/Ion	SODIUM ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:117 , TRP A:118 , ASN A:134 , HOH A:828 , HOH A:863	BINDING SITE FOR RESIDUE NA A 700
2	AC2	SOFTWARE	PHE A:317 , LYS A:319 , ARG A:320	BINDING SITE FOR RESIDUE CL A 800

(no "SS Bond" information available for 1XKN)

Asymmetric/Biological Unit

No.	Residues
1	Glu A:128	-	Pro A:129

(no "SAP(SNP)/Variant" information available for 1XKN)

(no "PROSITE Motif" information available for 1XKN)

(no "Exon" information available for 1XKN)

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
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Chain A from PDB  Type:PROTEIN  Length:353
 aligned with Q8KCB6_CHLTE | Q8KCB6 from UniProtKB/TrEMBL  Length:347

    Alignment length:353
                                                                                                                                                                                                                                                                                                                                                                                   347       
                                    11        21        31        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     |   -   
         Q8KCB6_CHLTE     2 SEPTYFMPPEWAPHASTWLSWPHKLESWPGKFEPVPAVFAELAYQLSRSETVNINVLDDAMEAQARELLKERDPEGKYAERIVFHRIPTNDAWCRDHGPNYVIRTQDGRRDKVIMNWEYNAWGGKYEPYDDDNAVPERVAKAQGLPMVSTGMVLEGGAIDVNGAGLLLTTTACLLNPNRNPSLGKAEIEAQLRRYLGIEKVLWLGDGIAGDDTDGHVDDMARFVNENTVVIAVEEDPEDENYKPLRENYELLKTMTGLDGKPLNIVKLPMPEPVYYDGERLPASYANFYIANTVVLVPTYRCPRDQQAIDILQQCFPKREVVGIDCSDLIWGLGAIHCVTHEEPAM-------   -
               SCOP domains d1xkna_ A: Putative peptidyl-arginine deiminase                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains 1xknA00 A:2-354 L-arginine/glycine Amidinotransferase; Chain A                                                                                                                                                                                                                                                                                                    CATH domains
               Pfam domains ----PAD_porph-1xknA01 A:6-345                                                                                                                                                                                                                                                                                                                           --------- Pfam domains
         Sec.struct. author ...eee.......eeeeeee...hhhhh.....hhhhhhhhhhhhhhhhheeeeee.hhhhhhhhhhhhhhhh....hhh.eeeee......hhhhhh.eeeeeee..eeeeeeeeee.hhhhhh...hhhhhhhhhhhhhhhh..eeeeeee.hhh.eee....eeeeehhhhh........hhhhhhhhhhhhhh..eeeee...........hhhh.eeeee..eeeee........hhhhhhhhhhhhh..........eeeee......ee..ee........ee...eeeeee...hhhhhhhhhhhhhh...eeeeee..hhhhhh.......eeee......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xkn A   2 SEPTYFmPPEWAPHASTWLSWPHKLESWPGKFEPVPAVFAELAYQLSRSETVNINVLDDAmEAQARELLKERDPEGKYAERIVFHRIPTNDAWCRDHGPNYVIRTQDGRRDKVImNWEYNAWGGKYEPYDDDNAVPERVAKAQGLPmVSTGmVLEGGAIDVNGAGLLLTTTACLLNPNRNPSLGKAEIEAQLRRYLGIEKVLWLGDGIAGDDTDGHVDDmARFVNENTVVIAVEEDPEDENYKPLRENYELLKTmTGLDGKPLNIVKLPmPEPVYYDGERLPASYANFYIANTVVLVPTYRCPRDQQAIDILQQCFPKREVVGIDCSDLIWGLGAIHCVTHEEPAmLEHHHHH 354
                                  | 11        21        31        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   
                                  8-MSE                                                62-MSE                                               116-MSE                         148-MSE|                                                                 221-MSE                            256-MSE        271-MSE                                                                     347-MSE   
                                                                                                                                                                                 153-MSE

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: Pentein, beta/alpha-propeller (68)

Superfamily: Pentein (68)

Family: Porphyromonas-type peptidylarginine deiminase (10)

Protein domain: Putative peptidyl-arginine deiminase (4)

Chlorobium tepidum [TaxId: 1097] (1)

d1xkna_

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 5-stranded Propeller (36)

Topology: L-arginine/glycine Amidinotransferase; Chain A (36)

Homologous Superfamily: L-arginine/glycine Amidinotransferase; Chain A (33)

Chlorobium tepidum tls. Organism_taxid: 194439. Strain: tls. (1)

1xknA00

A:2-354

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: GME (20)

Family: PAD_porph (5)

Chlorobium tepidum (1)

PAD_porph-1xknA01

A:6-345

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (Q8KCB6_CHLTE | Q8KCB6)

molecular function
	GO:0004668	protein-arginine deiminase activity	Catalysis of the reaction: protein L-arginine + H2O = protein L-citrulline + NH3.
biological process
	GO:0009446	putrescine biosynthetic process	The chemical reactions and pathways resulting in the formation of putrescine, 1,4-diaminobutane; putrescine can be synthesized from arginine or ornithine and is the metabolic precursor of spermidine and spermine.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
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	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Glu A:128 - Pro A:129	[ RasMol ]

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 11)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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