4GW0 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF ARGININE KINASE IN COMPLEX WITH IMINO-L-ORNITHINE, MGADP, AND NITRATE.

Authors :   S. A. Clark, O. Davulcu, M. S. Chapman

Date :   31 Aug 12 (Deposition) - 03 Oct 12 (Release) - 31 Oct 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.45

Chains :   Asym./Biol. Unit : A

Keywords :   Arginine Kinase, Phosphagen Kinase, Transferase, Transition State Analog, Kinase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. A. Clark, O. Davulcu, M. S. Chapman
Crystal Structures Of Arginine Kinase In Complex With Adp, Nitrate, And Various Phosphagen Analogs.
Biochem. Biophys. Res. Commun. V. 427 212 2012
PubMed-ID: 22995310 | Reference-DOI: 10.1016/J.BBRC.2012.09.053

Molecule 1 - ARGININE KINASE
	Chains	:	A
	EC Number	:	2.7.3.3
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET22B
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Common	:	ATLANTIC HORSESHOE CRAB
	Organism Scientific	:	LIMULUS POLYPHEMUS
	Organism Taxid	:	6850
	Synonym	:	AK

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (4, 4)

No.	Name	Count	Type	Full Name
1	ADP	1	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	ILO	1	Ligand/Ion	N5-IMINOETHYL-L-ORNITHINE
3	MG	1	Ligand/Ion	MAGNESIUM ION
4	NO3	1	Ligand/Ion	NITRATE ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:122 , ARG A:124 , ARG A:126 , HIS A:185 , TRP A:221 , ARG A:229 , ARG A:280 , SER A:282 , VAL A:283 , HIS A:284 , ARG A:309 , THR A:311 , ARG A:312 , GLY A:313 , GLU A:314 , ASP A:324 , MG A:402 , NO3 A:404 , HOH A:504 , HOH A:506 , HOH A:507 , HOH A:526 , HOH A:528 , HOH A:556	BINDING SITE FOR RESIDUE ADP A 401
2	AC2	SOFTWARE	ADP A:401 , NO3 A:404 , HOH A:504 , HOH A:507 , HOH A:618	BINDING SITE FOR RESIDUE MG A 402
3	AC3	SOFTWARE	SER A:63 , GLY A:64 , VAL A:65 , GLY A:66 , TYR A:68 , GLU A:225 , CYS A:271 , THR A:273 , GLU A:314 , HIS A:315 , NO3 A:404 , HOH A:529 , HOH A:536 , HOH A:646	BINDING SITE FOR RESIDUE ILO A 403
4	AC4	SOFTWARE	ARG A:126 , GLU A:225 , ARG A:229 , ASN A:274 , ARG A:309 , ADP A:401 , MG A:402 , ILO A:403 , HOH A:504	BINDING SITE FOR RESIDUE NO3 A 404

(no "SS Bond" information available for 4GW0)

Asymmetric/Biological Unit

No.	Residues
1	Trp A:204	-	Pro A:205

(no "SAP(SNP)/Variant" information available for 4GW0)

(no "PROSITE Motif" information available for 4GW0)

(no "Exon" information available for 4GW0)

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:356
                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains d4gw0a1 A:2-95 Arginine kinase, N-domain                                                      d4gw0a2 A:96-357 Arginine kinase, C-terminal domain                                                                                                                                                                                                                    SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh........hhhhhhhhhhhh............hhhhhhhhhhhhhhhhhh...............hhhhh.........eeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeee....hhhhhhhhhhh.......hhhhhhh..........eeee.....eeeee.....eeeeeeee..hhhhhhhhhhhhhhhhhh.....ee...ee...hhhhh....eeeeeee......hhhhhhhhhhh..eeee............eeeeee......hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gw0 A   2 VDQATLDKLEAGFKKLQEASDCKSLLKKHLTKDVFDSIKNKKTGMGATLLDVIQSGVENLDSGVGIYAPDAESYRTFGPLFDPIIDDYHGGFKLTDKHPPKQWGDINTLVGLDPAGQFIISTRVRCGRSLQGYPFNPCLTAEQYKEMEEKVSSTLSSMEDELKGTYYPLTGMSKATQQQLIDDHFLFKEGDRFLQTANACRYWPTGRGIFHNDAKTFLVWVNEEDHLRIISMQKGGDLKTVYKRLVTAVDNIESKLPFSHDDRFGFLTFCPTNLGTTMRASVHIQLPKLAKDRKVLEDIASKFNLQVRGTRGEHTESEGGVYDISNKRRLGLTEYQAVREMQDGILEMIKMEKAAA 357
                                    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

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 "CATH Domain" information available for 4GW0)

(no "Pfam Domain" information available for 4GW0)

Asymmetric/Biological Unit(hide GO term definitions)

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
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		ILO	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		NO3	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

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		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Trp A:204 - Pro A:205	[ RasMol ]

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	4gw0
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	2.7.3.3
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	KARG_LIMPO \| P51541	:	1bg0 1m15 1p50 1p52 1rl9 1sd0 3m10 4gvy 4gvz 4gw2 5j99 5j9a

1m15	SAME PROTEIN BOUND TO L-ARGININE, MGADP, AND NITRATE.
3m10	SAME PROTEIN IN AN UNLIGANDED FORM.
4gvy	SAME PROTEIN BOUND TO L-CITRULLINE AND MGADP.
4gvz	SAME PROTEIN BOUND TO D-ARGININE, MGADP, AND NITRATE.
4gw2	THE SAME PROTEIN BOUND TO L-ORNITHINE, MGADP, AND NITRATE.

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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SCOP Domains (2, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (9, 9)

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