1V76 - JenaLib

Title :   CRYSTAL STRUCTURE OF ARCHAEAL RIBONUCLEASE P PROTEIN PH1771P FROM PYROCOCCUS HORIKOSHII OT3

Authors :   T. Numata, Y. Kakuta, M. Kimura

Date :   12 Dec 03 (Deposition) - 05 Oct 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Rna Binding Protein, Archaeal Rnase P Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. Numata, I. Ishimatsu, Y. Kakuta, I. Tanaka, M. Kimura
Crystal Structure Of Archaeal Ribonuclease P Protein Ph1771P From Pyrococcus Horikoshii Ot3: An Archaeal Homolog Of Eukaryotic Ribonuclease P Protein Rpp29
Rna V. 10 1423 2004
PubMed-ID: 15317976 | Reference-DOI: 10.1261/RNA.7560904
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

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:92
 aligned with RNP1_PYRHO | O59425 from UniProtKB/Swiss-Prot  Length:127

    Alignment length:92
                                    45        55        65        75        85        95       105       115       125  
           RNP1_PYRHO    36 GRVTRRNIIWHELIGLRVRIVGSTHPAFVGIEGYVIDETRNMLVIAGDRIWKVPKDVCIFEFEADDGTKIKIPGERLVGRPEMRLKKRWKKW 127
               SCOP domains d1v76a_ A: Hypothetical protein PH1771                                                       SCOP domains
               CATH domains 1v76A00 A:36-127 RNase P subunit p29-like                                                    CATH domains
               Pfam domains -------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhh......eeeeeee.hhhhh..eeeeeee...eeeee...eeeee...eeeeee.....eeeee.hhhh.hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------- Transcript
                 1v76 A  36 GRVTRRNIIWHELIGLRVRIVGSTHPAFVGIEGYVIDETRNMLVIAGDRIWKVPKDVSIFEFEADDGTKIKIPGERLVGRPEMRLKKRWKKW 127
                                    45        55        65        75        85        95       105       115       125

Chain B from PDB  Type:PROTEIN  Length:91
 aligned with RNP1_PYRHO | O59425 from UniProtKB/Swiss-Prot  Length:127

    Alignment length:91
                                    46        56        66        76        86        96       106       116       126 
           RNP1_PYRHO    37 RVTRRNIIWHELIGLRVRIVGSTHPAFVGIEGYVIDETRNMLVIAGDRIWKVPKDVCIFEFEADDGTKIKIPGERLVGRPEMRLKKRWKKW 127
               SCOP domains d1v76b_ B: Hypothetical protein PH1771                                                      SCOP domains
               CATH domains 1v76B00 B:37-127 RNase P subunit p29-like                                                   CATH domains
           Pfam domains (1) UPF0086-1v76B01 B:37-123                                                               ---- Pfam domains (1)
           Pfam domains (2) UPF0086-1v76B02 B:37-123                                                               ---- Pfam domains (2)
         Sec.struct. author ...............eeeeeee........eeeeeee...eeeee...eeeee...eeeeee.....eeeee.hhhh.hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------- Transcript
                 1v76 B  37 RVTRRNIIWHELIGLRVRIVGSTHPAFVGIEGYVIDETRNMLVIAGDRIWKVPKDVSIFEFEADDGTKIKIPGERLVGRPEMRLKKRWKKW 127
                                    46        56        66        76        86        96       106       116       126

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (1, 2)

Pfam Domains (1, 2)

Gene Ontology (14, 14)

Asymmetric Unit(hide GO term definitions)

Chain A,B (RNP1_PYRHO | O59425)

molecular function
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	GO:0004519	endonuclease activity	Catalysis of the hydrolysis of ester linkages within nucleic acids by creating internal breaks.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0004518	nuclease activity	Catalysis of the hydrolysis of ester linkages within nucleic acids.
	GO:0004526	ribonuclease P activity	Catalysis of the endonucleolytic cleavage of RNA, removing 5' extra nucleotides from tRNA precursor.
	GO:0004540	ribonuclease activity	Catalysis of the hydrolysis of phosphodiester bonds in chains of RNA.
biological process
	GO:0090502	RNA phosphodiester bond hydrolysis, endonucleolytic	The chemical reactions and pathways involving the hydrolysis of internal 3',5'-phosphodiester bonds in one or two strands of ribonucleotides.
	GO:0006379	mRNA cleavage	Any process in which a pre-mRNA or mRNA molecule is cleaved at specific sites or in a regulated manner.
	GO:0006364	rRNA processing	Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
	GO:0001682	tRNA 5'-leader removal	Generation of the mature 5'-end of the tRNA, usually via an endonucleolytic cleavage by RNase P.
	GO:0008033	tRNA processing	The process in which a pre-tRNA molecule is converted to a mature tRNA, ready for addition of an aminoacyl group.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0000172	ribonuclease MRP complex	A ribonucleoprotein complex that contains an RNA molecule of the snoRNA family, and cleaves the rRNA precursor as part of rRNA transcript processing. It also has other roles: In S. cerevisiae it is involved in cell cycle-regulated degradation of daughter cell-specific mRNAs, while in mammalian cells it also enters the mitochondria and processes RNAs to create RNA primers for DNA replication.
	GO:0030677	ribonuclease P complex	A ribonucleoprotein complex that catalyzes cleavage of the leader sequence of precursor tRNAs (pre-tRNAs), generating the mature 5' end of tRNAs.

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