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

Asym./Biol. Unit (Jmol Viewer)

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

Title :   CRYSTAL STRUCTURES OF TRYPANOSOMA BRUCIEI MRP1/MRP2

Authors :   M. A. Schumacher, E. Karamooz, A. Zikova, L. Trantirek, J. Lukes

Date :   28 Mar 06 (Deposition) - 05 Sep 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.89

Chains :   Asym./Biol. Unit : A,B,D,G

Keywords :   T. Brucei; Guide Rna; Matchmaking; Rna Editing, Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. A. Schumacher, E. Karamooz, A. Zikova, L. Trantirek, J. Lukes
Crystal Structures Of T. Brucei Mrp1/Mrp2 Guide-Rna Binding Complex Reveal Rna Matchmaking Mechanism.
Cell(Cambridge, Mass. ) V. 126 701 2006
PubMed-ID: 16923390 | Reference-DOI: 10.1016/J.CELL.2006.06.047

Molecule 1 - MITOCHONDRIAL RNA-BINDING PROTEIN 2
	Chains	:	A, G
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PETDUET-1
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID, COEXPRESSION
	Gene	:	MRP1
	Organism Scientific	:	TRYPANOSOMA BRUCEI
	Organism Taxid	:	185431
	Strain	:	TREU927
	Synonym	:	MRP2, GUIDE RNA-BINDING PROTEIN

Molecule 2 - MITOCHONDRIAL RNA-BINDING PROTEIN 1
	Chains	:	B, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PETDUET-1
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID, COEXPRESSION
	Gene	:	MRP2
	Organism Scientific	:	TRYPANOSOMA BRUCEI
	Organism Taxid	:	185431
	Strain	:	TREU927
	Synonym	:	MRP1

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	D	G

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 2)

No.	Name	Count	Type	Full Name
1	ACY	2	Ligand/Ion	ACETIC ACID

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:153 , LYS A:169 , THR A:171	BINDING SITE FOR RESIDUE ACY A 7401
2	AC2	SOFTWARE	ASN G:153 , THR G:155 , THR G:171	BINDING SITE FOR RESIDUE ACY G 7402

(no "SS Bond" information available for 2GIA)

(no "Cis Peptide Bond" information available for 2GIA)

(no "SAP(SNP)/Variant" information available for 2GIA)

(no "PROSITE Motif" information available for 2GIA)

(no "Exon" information available for 2GIA)

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:154
 aligned with Q952G2_9TRYP | Q952G2 from UniProtKB/TrEMBL  Length:224

    Alignment length:166
                                    65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215      
         Q952G2_9TRYP    56 WRRPSLAQQRARRAQLPPAFDVVHWNDEDISRGHLLRVLHRDTFVVLDYHRQARMLTEEGNKAERVVSVMLPAVYTARFLAVLEGRSEKVEVHSRYTNATFTPNPAAPYTFTLKCTSTRPAQQKQQVAGEEGDETFEWTVEFDVAESLMLQRFLTQALHYNTGFAR 221
               SCOP domains d2giaa1 A:56-221 Guide RNA binding protein gBP25                                                                                                                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh..eeeeee.hhhhhhh.eeeeeeee..eeeeeeeee..........eeeeeeeee..hhhhhhhhhhh.....eeee...eeeeeee.......eeeeeeeee.------------.eeeeeeeeehhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gia A  56 WRRPSLAQQRARRAQLPPAFDVVHWNDEDISRGHLLRVLHRDTFVVLDYHRQARMLTEEGNKAERVVSVMLPAVYTARFLAVLEGRSEKVEVHSRYTNATFTPNPAAPYTFTLKCTSTRP------------DETFEWTVEFDVAESLMLQRFLTQALHYNTGFAR 221
                                    65        75        85        95       105       115       125       135       145       155       165       175         -  |    195       205       215      
                                                                                                                                                 175          188

Chain B from PDB  Type:PROTEIN  Length:146
 aligned with P90629_9TRYP | P90629 from UniProtKB/TrEMBL  Length:206

    Alignment length:146
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167      
         P90629_9TRYP    28 SLPKFEIHDVRDDPALGTMTRVAVDGKLLLISQYPQLGPRKVDPNDLSPQFDADRRISVRLRHVDLAYLVGVCKERVPRHRMETKAYTLDFEKSAQGYHLHGKVHRVASQRMEDWSVKFDNHFAVTLEHFLESALDESFGFRQHYA 173
               SCOP domains d2giab1 B:28-173 GBP21                                                                                                                             SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee...hhhh.eeeeeeee..eeeeeeee................hhhhheeee.hhhhhhhhhhhhh....eeeee....eeeeee...eeeeeeee........eeeeeeeehhhhhhhhhhhhhhhhhh.hhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gia B  28 SLPKFEIHDVRDDPAEGTMTRVAVDGKLLLISQYPQLGPRKVDPNDLSPQFDADRRISVRLRHVDLAYLVGVCKERVPRHRMETKAYTLDFEKSAQGYHLHGKVHRVASQRMEDWSVKFDNHFAVTLEHFLESALDESFGFRQHYA 173
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167

Chain D from PDB  Type:PROTEIN  Length:146
 aligned with P90629_9TRYP | P90629 from UniProtKB/TrEMBL  Length:206

    Alignment length:146
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167      
         P90629_9TRYP    28 SLPKFEIHDVRDDPALGTMTRVAVDGKLLLISQYPQLGPRKVDPNDLSPQFDADRRISVRLRHVDLAYLVGVCKERVPRHRMETKAYTLDFEKSAQGYHLHGKVHRVASQRMEDWSVKFDNHFAVTLEHFLESALDESFGFRQHYA 173
               SCOP domains d2giad_ D: GBP21                                                                                                                                   SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee...hhhh.eeeeeeee..eeeeeeee................hhhhheeee.hhhhhhhhhhhhh....eeeee....eeeeee...eeeeeeee........eeeeeeeehhhhhhhhhhhhhhhhhh.hhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gia D  28 SLPKFEIHDVRDDPAEGTMTRVAVDGKLLLISQYPQLGPRKVDPNDLSPQFDADRRISVRLRHVDLAYLVGVCKERVPRHRMETKAYTLDFEKSAQGYHLHGKVHRVASQRMEDWSVKFDNHFAVTLEHFLESALDESFGFRQHYA 173
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167

Chain G from PDB  Type:PROTEIN  Length:155
 aligned with Q952G2_9TRYP | Q952G2 from UniProtKB/TrEMBL  Length:224

    Alignment length:167
                                    64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       
         Q952G2_9TRYP    55 KWRRPSLAQQRARRAQLPPAFDVVHWNDEDISRGHLLRVLHRDTFVVLDYHRQARMLTEEGNKAERVVSVMLPAVYTARFLAVLEGRSEKVEVHSRYTNATFTPNPAAPYTFTLKCTSTRPAQQKQQVAGEEGDETFEWTVEFDVAESLMLQRFLTQALHYNTGFAR 221
               SCOP domains d2giag_ G: Guide RNA binding protein gBP25                                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh..eeeeee....hhhh.eeeeeeee..eeeeeeeee..........eeeeeeeee..hhhhhhhhhhh.....eeee...eeeeeee.......eeeeeeeee.------------.eeeeeeeeehhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gia G  55 KWRRPSLAQQRARRAQLPPAFDVVHWNDEDISRGHLLRVLHRDTFVVLDYHRQARMLTEEGNKAERVVSVMLPAVYTARFLAVLEGRSEKVEVHSRYTNATFTPNPAAPYTFTLKCTSTRP------------DETFEWTVEFDVAESLMLQRFLTQALHYNTGFAR 221
                                    64        74        84        94       104       114       124       134       144       154       164       174|        -   |   194       204       214       
                                                                                                                                                  175          188

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 2GIA)

(no "Pfam Domain" information available for 2GIA)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,G (Q952G2_9TRYP | Q952G2)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
biological process
	GO:0009451	RNA modification	The covalent alteration of one or more nucleotides within an RNA molecule to produce an RNA molecule with a sequence that differs from that coded genetically.
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
cellular component
	GO:0005739	mitochondrion	A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.

Chain B,D (P90629_9TRYP | P90629)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
biological process
	GO:0016556	mRNA modification	The covalent alteration of one or more nucleotides within an mRNA molecule to produce an mRNA molecule with a sequence that differs from that coded genetically.
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
cellular component
	GO:0005739	mitochondrion	A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.

Asymmetric/Biological Unit
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		AC2	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2gia)

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	2gia
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		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
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	P90629_9TRYP \| P90629
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	Q952G2_9TRYP \| Q952G2
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		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
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	P90629_9TRYP \| P90629
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	Q952G2_9TRYP \| Q952G2
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/TrEMBL
	P90629_9TRYP \| P90629	:	2gid 2gje
	Q952G2_9TRYP \| Q952G2	:	2gid 2gje

Description

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

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Exons (0, 0)

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SCOP Domains (2, 4)

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Gene Ontology (6, 10)

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