3H36 - JenaLib

Title :   STRUCTURE OF AN UNCHARACTERIZED DOMAIN IN POLYRIBONUCLEOTIDE NUCLEOTIDYLTRANSFERASE FROM STREPTOCOCCUS MUTANS UA159

Authors :   M. E. Cuff, C. Hatzos, R. Jedrzejczak, A. Joachimiak, Midwest Center Structural Genomics (Mcsg)

Date :   15 Apr 09 (Deposition) - 12 May 09 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

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

Keywords :   Streptococcus Mutans, Polyribonucleotide Nucleotidyltransferase, , Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Nucleotidyltransferase, Rna- Binding, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. E. Cuff, C. Hatzos, R. Jedrzejczak, A. Joachimiak
Structure Of An Uncharacterized Domain In Polyribonucleotid Nucleotidyltransferase From Streptococcus Mutans Ua159
To Be Published
PubMed: search

Compounds

Molecule 1 - POLYRIBONUCLEOTIDE NUCLEOTIDYLTRANSFERASE
	Chains	:	A
	EC Number	:	2.7.7.8
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMCSG19
	Expression System Strain	:	BL21
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 231-320
	Gene	:	PNP, PNPA, SMU_155
	Organism Scientific	:	STREPTOCOCCUS MUTANS
	Organism Taxid	:	1309
	Strain	:	UA159
	Synonym	:	POLYNUCLEOTIDE PHOSPHORYLASE, PNPASE, 1.10.10.400.HMM MEGA FAMILY DOMAIN

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 4)

Asymmetric Unit (3, 4)

No.	Name	Count	Type	Full Name
1	CA	1	Ligand/Ion	CALCIUM ION
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	2	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (2, 6)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	4	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (2, 6)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	4	Mod. Amino Acid	SELENOMETHIONINE

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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:78
 aligned with PNP_STRMU | Q8DWB2 from UniProtKB/Swiss-Prot  Length:730

    Alignment length:78
                                   244       254       264       274       284       294       304        
            PNP_STRMU   235 QVDADLQAEIVGKYNADLQKAVQIEEKKAREIATEAVKEHVTAEYEERYAEHEEHDRIMRDVAEILEQMEHAEVRRLI 312
               SCOP domains ------------------------------------------------------------------------------ SCOP domains
               CATH domains 3h36A00 A:235-312  [code=1.10.10.400, no name defined]                         CATH domains
               Pfam domains ------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------ Transcript
                 3h36 A 235 QVDADLQAEIVGKYNADLQKAVQIEEKKASEIATEAVKEHVTAEYEERYAEHEEHDRImRDVAEILEQmEHAEVRRLI 312
                                   244       254       264       274       284       294       304        
                                                                                    293-MSE   303-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 '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (12, 12)

Asymmetric Unit(hide GO term definitions)

Chain A (PNP_STRMU | Q8DWB2)

molecular function
	GO:0000175	3'-5'-exoribonuclease activity	Catalysis of the sequential cleavage of mononucleotides from a free 3' terminus of an RNA molecule.
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	GO:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0003676	nucleic acid binding	Interacting selectively and non-covalently with any nucleic acid.
	GO:0016779	nucleotidyltransferase activity	Catalysis of the transfer of a nucleotidyl group to a reactant.
	GO:0004654	polyribonucleotide nucleotidyltransferase activity	Catalysis of the reaction: RNA(n+1) + phosphate <=> RNA(n) + a nucleoside diphosphate.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0090503	RNA phosphodiester bond hydrolysis, exonucleolytic	The chemical reactions and pathways involving the hydrolysis of terminal 3',5'-phosphodiester bonds in one or two strands of ribonucleotides.
	GO:0006396	RNA processing	Any process involved in the conversion of one or more primary RNA transcripts into one or more mature RNA molecules.
	GO:0006402	mRNA catabolic process	The chemical reactions and pathways resulting in the breakdown of mRNA, messenger RNA, which is responsible for carrying the coded genetic 'message', transcribed from DNA, to sites of protein assembly at the ribosomes.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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	Cis Peptide Bonds
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