3THN - JenaLib

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Title :   CRYSTAL STRUCTURE OF MRE11 CORE WITH MANGANESE

Authors :   C. Moeckel, K. Lammens

Date :   19 Aug 11 (Deposition) - 12 Oct 11 (Release) - 01 Feb 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.81

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

Keywords :   Dna Breaks, Homologous Recombination, Dna Binding Protein, Endodeoxyribonucleases, Exodeoxyribonucleases, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Mockel, K. Lammens, A. Schele, K. P. Hopfner
Atp Driven Structural Changes Of The Bacterial Mre11:Rad50 Catalytic Head Complex.
Nucleic Acids Res. V. 40 914 2012
PubMed-ID: 21937514 | Reference-DOI: 10.1093/NAR/GKR749

Molecule 1 - EXONUCLEASE, PUTATIVE
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	CORE DOMAIN, UNP RESIDUES 7-325
	Gene	:	MRE11, TM_1635
	Mutation	:	YES
	Organism Scientific	:	THERMOTOGA MARITIMA
	Organism Taxid	:	2336

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 5)

No.	Name	Count	Type	Full Name
1	MN	2	Ligand/Ion	MANGANESE (II) ION
2	SO4	3	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 6)

No.	Name	Count	Type	Full Name
1	MN	-1	Ligand/Ion	MANGANESE (II) ION
2	SO4	6	Ligand/Ion	SULFATE ION

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:14 , HIS A:16 , ASP A:58 , HIS A:216 , HIS A:218	BINDING SITE FOR RESIDUE MN A 360
2	AC2	SOFTWARE	ASP A:58 , ASN A:93 , HIS A:180 , HIS A:216	BINDING SITE FOR RESIDUE MN A 361
3	AC3	SOFTWARE	MET A:7 , GLN A:130 , LYS A:255	BINDING SITE FOR RESIDUE SO4 A 1
4	AC4	SOFTWARE	ARG A:128 , LYS A:255	BINDING SITE FOR RESIDUE SO4 A 2
5	AC5	SOFTWARE	LEU A:186 , ARG A:202 , ARG A:221	BINDING SITE FOR RESIDUE SO4 A 3

(no "SS Bond" information available for 3THN)

Asymmetric Unit

No.	Residues
1	Ala A:187	-	Gly A:188
2	Ala A:190	-	Gly A:191
3	Gln A:226	-	Pro A:227

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

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

(no "Exon" information available for 3THN)

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:313
 aligned with Q9X1X0_THEMA | Q9X1X0 from UniProtKB/TrEMBL  Length:385

    Alignment length:319
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316         
         Q9X1X0_THEMA     7 LKILHTSDWHLGVTSWTSSRPVDRREELKKALDKVVEEAEKREVDLILLTGDLLHSRNNPSVVALHDLLDYLKRMMRTAPVVVLPGNHDWKGLKLFGNFVTSISSDITFVMSFEPVDVEAKRGQKVRILPFPYPDESEALRKNEGDFRFFLESRLNKLYEEALKKEDFAIFMGHFTVEGLAGYAGIEQGREIIINRALIPSVVDYAALGHIHSFREIQKQPLTIYPGSLIRIDFGEEADEKGAVFVELKRGEPPRYERIDASPLPLKTLYYKKIDTSALKSIRDFCRNFPGYVRVVYEEDSGILPDLMGEIDNLVKIER 325
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.......ee......eehhhhhhhhhhhhhhhhhhh...eeee...........hhhhhhhhhhhhhhhhhhh.eee......hhhhhhhhhhhhhhh..eee......eeee.....eeeeeee....hhhhhhhh...hhhhhhhhhhhhhhhhh....eeeeeee...........----.....hhhhh.....eeeee.....eeee....eee.......hhhhh....eeeeee.......eeeeee.....eeeeeeee.hhhhhhhhhhhhh....eeeeeeee..--..hhhhhh..eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3thn A   7 MKILHTSDWHLGVTSWTSSRPVDRREELKKALDKVVEEAEKREVDLILLTGDLLHSRNNPSVVALHDLLDYLKRMMRTAPVVVLPGNQDWKGLKLFGNFVTSISSDITFVMSFEPVDVEAKRGQKVRILPFPYPDESEALRKNEGDFRFFLESRLNKLYEEALKKEDFAIFMGHFTVEGLAGYAG----REIIINRALIPSVVDYAALGHIHSFREIQKQPLTIYPGSLIRIDFGEEADEKGAVFVELKRGEPPRYERIDASPLPLKTLYYKKIDTSALKSIRDSCRNFPGYVRVVYEEDS--LPDLMGEIDNLVKIER 325
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186    |  196       206       216       226       236       246       256       266       276       286       296       306|  |   316         
                                                                                                                                                                                                                  191  196                                                                                                            307  |               
                                                                                                                                                                                                                                                                                                                                         310

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 3THN)

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

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

Asymmetric Unit(hide GO term definitions)

Chain A (Q9X1X0_THEMA | Q9X1X0)

molecular function
	GO:0008408	3'-5' exonuclease activity	Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 3' end.
	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:0004527	exonuclease activity	Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 3' or 5' end.
	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.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
	GO:0006259	DNA metabolic process	Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.
	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:0006260	DNA replication	The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by initiation proteins, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.
	GO:0090305	nucleic acid phosphodiester bond hydrolysis	The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.

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

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Ala A:187 - Gly A:188	[ RasMol ]
		Ala A:190 - Gly A:191	[ RasMol ]
		Gln A:226 - Pro A:227	[ RasMol ]

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	3thn
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	Q9X1X0_THEMA \| Q9X1X0	:	2q8u 3qf7 3qg5 3tho 4nzv 4o24 4o43 4o4k 4o5g 4w9m

Description

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Ligands, Modified Residues, Ions (2, 5)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

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