4NV0 - JenaLib

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Title :   CRYSTAL STRUCTURE OF CYTOSOLIC 5'-NUCLEOTIDASE IIIB (CN-IIIB) BOUND TO 7-METHYLGUANOSINE

Authors :   T. Monecke, P. Neumann, R. Ficner

Date :   04 Dec 13 (Deposition) - 19 Mar 14 (Release) - 19 Mar 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.65

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)

Keywords :   Rossmannoid Fold, Hydrolase, 5'-Nucleotidase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. Monecke, J. Buschmann, P. Neumann, E. Wahle, R. Ficner
Crystal Structures Of The Novel Cytosolic 5'-Nucleotidase Iiib Explain Its Preference For M7Gmp
Plos One V. 9 90915 2014
PubMed-ID: 24603684 | Reference-DOI: 10.1371/JOURNAL.PONE.0090915

Molecule 1 - 7-METHYLGUANOSINE PHOSPHATE-SPECIFIC 5'-NUCLEOTIDASE
	Chains	:	A, B
	EC Number	:	3.1.3.5
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET24D
	Expression System Strain	:	ROSETTA2(DE2)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	CG3362
	Organism Common	:	FRUIT FLY
	Organism Scientific	:	DROSOPHILA MELANOGASTER
	Organism Taxid	:	7227
	Synonym	:	CYTOSOLIC 5'-NUCLEOTIDASE IIIB, 5'-NUCLEOTIDASE CG3362

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 7)

No.	Name	Count	Type	Full Name
2	MG	2	Ligand/Ion	MAGNESIUM ION
1	MG7	2	Ligand/Ion	7-METHYLGUANOSINE
3	MGF	2	Ligand/Ion	TRIFLUOROMAGNESATE
4	PGE	1	Ligand/Ion	TRIETHYLENE GLYCOL

Biological Unit 1 (3, 3)

No.	Name	Count	Type	Full Name
2	MG	-1	Ligand/Ion	MAGNESIUM ION
1	MG7	1	Ligand/Ion	7-METHYLGUANOSINE
3	MGF	1	Ligand/Ion	TRIFLUOROMAGNESATE
4	PGE	1	Ligand/Ion	TRIETHYLENE GLYCOL

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
2	MG	-1	Ligand/Ion	MAGNESIUM ION
1	MG7	1	Ligand/Ion	7-METHYLGUANOSINE
3	MGF	1	Ligand/Ion	TRIFLUOROMAGNESATE
4	PGE	-1	Ligand/Ion	TRIETHYLENE GLYCOL

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:13 , ALA A:33 , GLU A:36 , ARG A:37 , ASN A:40 , ILE A:44 , HOH A:723 , HOH A:768 , GLU B:155 , HOH B:695	BINDING SITE FOR RESIDUE PGE A 401
2	AC2	SOFTWARE	ASP A:55 , ASP A:57 , ASP A:245 , MGF A:404 , HOH A:626 , HOH A:627	BINDING SITE FOR RESIDUE MG A 402
3	AC3	SOFTWARE	ASP A:57 , PHE A:75 , ARG A:100 , GLU A:103 , TRP A:120 , TRP A:121 , SER A:124 , GLY A:173 , HOH A:515 , HOH A:540 , HOH A:579 , HOH A:586 , HOH A:605 , HOH A:662 , HOH A:776	BINDING SITE FOR RESIDUE MG7 A 403
4	AC4	SOFTWARE	ASP A:55 , PHE A:56 , ASP A:57 , SER A:171 , ALA A:172 , LYS A:219 , MG A:402 , HOH A:523 , HOH A:540 , HOH A:626 , HOH A:627	BINDING SITE FOR RESIDUE MGF A 404
5	AC5	SOFTWARE	ASP B:55 , ASP B:57 , ASP B:245 , MGF B:403 , HOH B:644 , HOH B:645	BINDING SITE FOR RESIDUE MG B 401
6	AC6	SOFTWARE	SER B:73 , PHE B:75 , ASN B:79 , TYR B:96 , GLU B:103 , TRP B:120 , TRP B:121 , SER B:124 , HOH B:502 , HOH B:521 , HOH B:554 , HOH B:574 , HOH B:639 , HOH B:663 , HOH B:693 , HOH B:719	BINDING SITE FOR RESIDUE MG7 B 402
7	AC7	SOFTWARE	ASP B:55 , PHE B:56 , ASP B:57 , SER B:171 , ALA B:172 , LYS B:219 , MG B:401 , HOH B:502 , HOH B:506 , HOH B:644 , HOH B:645	BINDING SITE FOR RESIDUE MGF B 403

(no "SS Bond" information available for 4NV0)

Asymmetric Unit

No.	Residues
1	Gln A:211	-	Pro A:212
2	Gln B:211	-	Pro B:212

(no "SAP(SNP)/Variant" information available for 4NV0)

(no "PROSITE Motif" information available for 4NV0)

(no "Exon" information available for 4NV0)

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
	(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:299
                                                                                                                                                                                                                                                                                                                                           
               SCOP domains d4nv0a_ A: automated matches                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhh..ee..hhhhhhhhhhhhhhhh...eeeee..................hhhhhhhh......hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh..hhhhhhhhhhhhh..eeeeeeeehhhhhhhhhhh......eeeeee.eeee..eeeee....................hhhhhh...eeeeee.hhhhh..........eeeeeeee..hhhhhhhhhhhhh.eeee....hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nv0 A  13 RLRLQDIPALTQDHCRMRDPAEVERIINEFVIGGPERMQIVSDFDYTITKQRTEDGGAVPSSFGIFNACQSLPENFKAETDKLYHKYRPIEIDPHMPIAEKVQYMIEWWTKSGELTSGFPFDQSEIDQIASKYTHALRDRTHEFFADLQRLGIPTLVFSAGLGNSVVSVLRQANVLHPNVKVVSNFLQFRDGLLDGFQQPMIHTFNKNETVLNETSEYYDLVHTRDHIIVMGDSIGDADMASGVPASSHIMKIGFLFDHVEANMKKYMDTFDIVLVDDQTMDVPRTLLSLIEKQHKLNL 311
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302

Chain B from PDB  Type:PROTEIN  Length:300
                                                                                                                                                                                                                                                                                                                                            
               SCOP domains d4nv0b_ B: automated matches                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhh..ee..hhhhhhhhhhhhhhhh...eeeee..................hhhhhhhh....hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh..hhhhhhhhhhhhh..eeeeeeeehhhhhhhhhhh......eeeeee.eeee..eeeee....................hhhhhh...eeeeee.hhhhhhh........eeeeeeee..hhhhhhhhhhhhh.eeee....hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4nv0 B  13 RLRLQDIPALTQDHCRMRDPAEVERIINEFVIGGPERMQIVSDFDYTITKQRTEDGGAVPSSFGIFNACQSLPENFKAETDKLYHKYRPIEIDPHMPIAEKVQYMIEWWTKSGELTSGFPFDQSEIDQIASKYTHALRDRTHEFFADLQRLGIPTLVFSAGLGNSVVSVLRQANVLHPNVKVVSNFLQFRDGLLDGFQQPMIHTFNKNETVLNETSEYYDLVHTRDHIIVMGDSIGDADMASGVPASSHIMKIGFLFDHVEANMKKYMDTFDIVLVDDQTMDVPRTLLSLIEKQHKLNLE 312
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312

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(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

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Class: Alpha and beta proteins (a/b) (23833)

Fold: HAD-like (349)

Superfamily: HAD-like (349)

Family: automated matches (99)

Protein domain: automated matches (99)

Fruit fly (Drosophila melanogaster) [TaxId: 7227] (2)

1a	d4nv0a_	A:
1b	d4nv0b_	B:

(no "CATH Domain" information available for 4NV0)

(no "Pfam Domain" information available for 4NV0)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Cis Peptide Bonds
		Gln A:211 - Pro A:212	[ RasMol ]
		Gln B:211 - Pro B:212	[ RasMol ]

Biological Units
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		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 7)

Sites (7, 7)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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Gene Ontology (12, 12)

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