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Asym./Biol. Unit (Jmol Viewer)

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

Title :   CRYSTAL STRUCTURE OF THE MARINER MOS1 PAIRED END COMPLEX WITH MG

Authors :   J. M. Richardson, M. D. Walkinshaw

Date :   03 Jun 09 (Deposition) - 22 Sep 09 (Release) - 16 Oct 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.50

Chains :   Asym./Biol. Unit : A,B,C,D,E,F,G,H

Keywords :   Protein-Dna Complex, Synaptic Complex, Transposase, Inverted Repeat Dna, Dna Binding Protein-Dna Complex, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. M. Richardson, S. D. Colloms, D. J. Finnegan, M. D. Walkinshaw
Molecular Architecture Of The Mos1 Paired-End Complex: The Structural Basis Of Dna Transposition In A Eukaryote
Cell(Cambridge, Mass. ) V. 138 1096 2009
PubMed-ID: 19766564 | Reference-DOI: 10.1016/J.CELL.2009.07.012

Molecule 1 - TRANSPOSABLE ELEMENT MARINER, COMPLETE CDS
	Chains	:	A, B
	EC Number	:	2.7.7.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Gene	:	T
	Mutation	:	YES
	Organism Common	:	FRUIT FLY
	Organism Scientific	:	DROSOPHILA MAURITIANA
	Organism Taxid	:	7226
	Synonym	:	MOS1 TRANSPOSASE

Molecule 2 - MOS1 NTS INVERTED REPEAT DNA
	Chains	:	C, E, G
	Engineered	:	YES
	Other Details	:	SYNTHETIC DNA
	Synthetic	:	YES

Molecule 3 - MOS1 TS INVERTED REPEAT DNA
	Chains	:	D, F, H
	Engineered	:	YES
	Other Details	:	SYNTHETIC DNA
	Synthetic	:	YES

		1	2	3	4	5	6	7	8
Asymmetric/Biological Unit	:	A	B	C	D	E	F	G	H

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 3)

No.	Name	Count	Type	Full Name
1	MG	1	Ligand/Ion	MAGNESIUM ION
2	SO4	2	Ligand/Ion	SULFATE ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:156 , ASP A:249	BINDING SITE FOR RESIDUE MG A 1001
2	AC2	SOFTWARE	ARG A:71 , DT D:45	BINDING SITE FOR RESIDUE SO4 A 346
3	AC3	SOFTWARE	ARG B:71 , DT F:45	BINDING SITE FOR RESIDUE SO4 B 346

Asymmetric/Biological Unit

No.	Residues
1	A:136	-	A:336
2	B:136	-	B:336

(no "Cis Peptide Bond" information available for 3HOS)

(no "SAP(SNP)/Variant" information available for 3HOS)

(no "PROSITE Motif" information available for 3HOS)

(no "Exon" information available for 3HOS)

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:336
 aligned with MOS1T_DROMA | Q7JQ07 from UniProtKB/Swiss-Prot  Length:345

    Alignment length:341
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344 
          MOS1T_DROMA     5 VPNKEQTRTVLIFCFHLKKTAAESHRMLVEAFGEQVPTVKKCERWFQRFKSGDFDVDDKEHGKPPKRYEDAELQALLDEDDAQTQKQLAEQLEVSQQAVSNRLREMGKIQKVGRWVPHELNERQMERRKNTCEILLSRYKRKSFLHRIVTGDEKWIFFVSPKRKKSYVDPGQPATSTARPNRFGKKTMLCVWWDQSGVIYYELLKRGETVNTARYQQQLINLNRALQRKRPEYQKRQHRVIFLHDNAPSHTARAVRDTLETLNWEVLPHAAYSPDLAPSDYHLFASMGHALAEQRFDSYESVKKWLDEWFAAKDDEFYWRGIHKLPERWEKCVASDGKYLE 345
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh..hhhhhhhhhhhhh.....hhhhhhhhhhhhhh.................hhhhhhhhhhhh...hhhhhhh....hhhhhhhhhhhh..eeee..ee....hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee..ee.......eeee........ee.......eeeeeeeee..eeeeeeee......hhhhhhhhhhhhhhhhhhhh...-----..eee........hhhhhhhhhh...ee..........hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hos A   5 VPNKEQTRTVLIFCFHLKKTAAESHRMLVEAFGEQVPTVKTCERWFQRFKSGDFDVDDKEHGKPPKRYEDAELQALLDEDDAQTQKQLAEQLEVSQQAVSNRLREMGKIQKVGRWVPHELNERQMERRKNTCEILLSRYKRKSFLHRIVTGDEKWIFFVNPKRKKSYVDPGQPATSTARPNRFGKKTMLCVWWDQSGVIYYELLKPGETVNAARYQQQLINLNRALQRKRPEY-----RVIFLHDNAPSHTARAVRDTLETLNWEVLPHAAYSPDLAPSDYHLFASMGHALAEQRFDSYESVKKWLDEWFAAKDDEFYWRGIHKLPERWEKCVASDGKYFE 345
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234  |    244       254       264       274       284       294       304       314       324       334       344 
                                                                                                                                                                                                                                                                  237   243

Chain B from PDB  Type:PROTEIN  Length:337
 aligned with MOS1T_DROMA | Q7JQ07 from UniProtKB/Swiss-Prot  Length:345

    Alignment length:341
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344 
          MOS1T_DROMA     5 VPNKEQTRTVLIFCFHLKKTAAESHRMLVEAFGEQVPTVKKCERWFQRFKSGDFDVDDKEHGKPPKRYEDAELQALLDEDDAQTQKQLAEQLEVSQQAVSNRLREMGKIQKVGRWVPHELNERQMERRKNTCEILLSRYKRKSFLHRIVTGDEKWIFFVSPKRKKSYVDPGQPATSTARPNRFGKKTMLCVWWDQSGVIYYELLKRGETVNTARYQQQLINLNRALQRKRPEYQKRQHRVIFLHDNAPSHTARAVRDTLETLNWEVLPHAAYSPDLAPSDYHLFASMGHALAEQRFDSYESVKKWLDEWFAAKDDEFYWRGIHKLPERWEKCVASDGKYLE 345
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhh..hhhhhhhhhhhhh.....hhhhhhhhhhhhhh..................hhhhhhhhhhh...hhhhhhhhh..hhhhhhhhhhh...eeee..ee.....hhhhhhhhhhhhhhhhhhhhh.hhh.eeeeee..ee.......eeee........ee.......ee.eeeeee..eeeeeee.......hhhhhhhhhhhhhhhhhhhh....----..eee........hhhhhhhhhh...eee.....hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hos B   5 VPNKEQTRTVLIFCFHLKKTAAESHRMLVEAFGEQVPTVKTCERWFQRFKSGDFDVDDKEHGKPPKRYEDAELQALLDEDDAQTQKQLAEQLEVSQQAVSNRLREMGKIQKVGRWVPHELNERQMERRKNTCEILLSRYKRKSFLHRIVTGDEKWIFFVNPKRKKSYVDPGQPATSTARPNRFGKKTMLCVWWDQSGVIYYELLKPGETVNAARYQQQLINLNRALQRKRPEYQ----RVIFLHDNAPSHTARAVRDTLETLNWEVLPHAAYSPDLAPSDYHLFASMGHALAEQRFDSYESVKKWLDEWFAAKDDEFYWRGIHKLPERWEKCVASDGKYFE 345
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234   |   244       254       264       274       284       294       304       314       324       334       344 
                                                                                                                                                                                                                                                                   238  243

Chain C from PDB  Type:DNA  Length:25
                                                         
                 3hos C   4 GGTGTACAAGTATGAAATGTCGTTT  28
                                    13        23

Chain D from PDB  Type:DNA  Length:28
                                                            
                 3hos D  29 AAACGACATTTCATACTTGTACACCTGA  56
                                    38        48

Chain E from PDB  Type:DNA  Length:25
                                                         
                 3hos E   4 GGTGTACAAGTATGAAATGTCGTTT  28
                                    13        23

Chain F from PDB  Type:DNA  Length:28
                                                            
                 3hos F  29 AAACGACATTTCATACTTGTACACCTGA  56
                                    38        48

Chain G from PDB  Type:DNA  Length:25
                                                         
                 3hos G   4 GGTGTACAAGTATGAAATGTCGTTT  28
                                    13        23

Chain H from PDB  Type:DNA  Length:28
                                                            
                 3hos H  29 AAACGACATTTCATACTTGTACACCTGA  56
                                    38        48

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 "SCOP Domain" information available for 3HOS)

(no "CATH Domain" information available for 3HOS)

(no "Pfam Domain" information available for 3HOS)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (MOS1T_DROMA | Q7JQ07)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	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:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0004518	nuclease activity	Catalysis of the hydrolysis of ester linkages within nucleic acids.
biological process
	GO:0015074	DNA integration	The process in which a segment of DNA is incorporated into another, usually larger, DNA molecule such as a chromosome.
	GO:0006310	DNA recombination	Any process in which a new genotype is formed by reassortment of genes resulting in gene combinations different from those that were present in the parents. In eukaryotes genetic recombination can occur by chromosome assortment, intrachromosomal recombination, or nonreciprocal interchromosomal recombination. Intrachromosomal recombination occurs by crossing over. In bacteria it may occur by genetic transformation, conjugation, transduction, or F-duction.
	GO:0090305	nucleic acid phosphodiester bond hydrolysis	The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.
cellular component
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
		MG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		SO4	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

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		AC3	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3hos)

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	3hos
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
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	MOS1T_DROMA \| Q7JQ07
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	2.7.7.-
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

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		Disease Information	:	OMIM

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		Interatomic Contacts of Structural Units	:	CSU
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	MOS1T_DROMA \| Q7JQ07
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UniProtKB/Swiss-Prot
	MOS1T_DROMA \| Q7JQ07	:	2f7t 3hot 4mda 4mdb 4r79 4u7b 5hoo

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 3)

Sites (3, 3)

SS Bonds (2, 2)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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Gene Ontology (9, 9)

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