1A0P - JenaLib

Title :   SITE-SPECIFIC RECOMBINASE, XERD

Authors :   H. S. Subramanya, L. K. Arciszewska, R. A. Baker, L. E. Bird, D. J. Sherratt, D. B. Wigley

Date :   05 Dec 97 (Deposition) - 18 Mar 98 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

Chains :   Asym./Biol. Unit : A

Keywords :   Xerd, Recombinase, Dna Binding, Dna Recombination (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. S. Subramanya, L. K. Arciszewska, R. A. Baker, L. E. Bird, D. J. Sherratt, D. B. Wigley
Crystal Structure Of The Site-Specific Recombinase, Xerd.
Embo J. V. 16 5178 1997
PubMed-ID: 9311978 | Reference-DOI: 10.1093/EMBOJ/16.17.5178
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

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/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
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Chain A from PDB  Type:PROTEIN  Length:271
 aligned with XERD_ECOLI | P0A8P8 from UniProtKB/Swiss-Prot  Length:298

    Alignment length:290
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292
           XERD_ECOLI     3 QDLARIEQFLDALWLEKNLAENTLNAYRRDLSMMVEWLHHRGLTLATAQSDDLQALLAERLEGGYKATSSARLLSAVRRLFQYLYREKFREDDPSAHLASPKLPQRLPKDLSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQ 292
               SCOP domains d1a0pa1 A:3-100 Recombinase XerD                                                                            d1a0pa2 A:111-292 Recombinase XerD                                                                                                                                                     SCOP domains
               CATH domains 1a0pA01 A:3-100  [code=1.10.150.130, no name defined]                                                       1a0pA02 A:111-292 Intergrase catalytic core                                                                                                                                            CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.........hhhhhhhhh...-------.hhhhhhhhhhhhhhhhh............----------....hhhhhhhhhh.....hhhhhhhhhhhhhhhh...hhhh....hhh......eeeee.....eeeee..hhhhhhhhhhhhh.hhhhh..................hhhhhhhhhhhhhh.........hhhhhhhhhhhhhhh....hhh....--....hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a0p A   3 QDLARIEQFLDALWLEKNLAENTLNAYRRDLSMMVEWLHHRGLTLATAQSDDLQALLAERL-------SSARLLSAVRRLFQYLYREKFREDDPSAHL----------KDLSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLL--SDLSTTQIYTHVATERLRQLHQ 292
                                    12        22        32        42        52        62|       72        82        92       | -       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262     | 272       282       292
                                                                                       63      71                          100        111                                                                                                                                                          268  |                     
                                                                                                                                                                                                                                                                                                      271

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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 (2, 2)

CATH Domains (2, 2)

Pfam Domains (0, 0)

Gene Ontology (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (XERD_ECOLI | P0A8P8)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0009009	site-specific recombinase activity	Catalysis of the formation of new phosphodiester bonds between a pair of short, unique DNA target sequences.
	GO:0009037	tyrosine-based site-specific recombinase activity	Catalysis of the formation of new phosphodiester bonds between a pair of short, unique DNA target sequences; occurs through a phosphotyrosyl intermediate in which the target sequence is first cleaved by the nucleophilic attack by a tyrosine in the active site.
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:0007049	cell cycle	The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
	GO:0051301	cell division	The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
	GO:0007059	chromosome segregation	The process in which genetic material, in the form of chromosomes, is organized into specific structures and then physically separated and apportioned to two or more sets. In eukaryotes, chromosome segregation begins with the condensation of chromosomes, includes chromosome separation, and ends when chromosomes have completed movement to the spindle poles.
	GO:0006276	plasmid maintenance	The maintenance of the integrity of extrachromosomal plasmid DNA; includes processes that ensure plasmids are retained in the daughter cells after cell division.
	GO:0071139	resolution of recombination intermediates	The cleavage and rejoining of intermediates, such as Holliday junctions, formed during DNA recombination to produce two intact molecules in which genetic material has been exchanged.
	GO:0006313	transposition, DNA-mediated	Any process involved in a type of transpositional recombination which occurs via a DNA intermediate.
cellular component
	GO:0048476	Holliday junction resolvase complex	A protein complex that mediates the conversion of a Holliday junction into two separate duplex DNA molecules; the complex includes a single- or multisubunit helicase that catalyzes the extension of heteroduplex DNA by branch migration and a nuclease that resolves the junction by nucleolytic cleavage.
	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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