3RMP - JenaLib

Molecule 1 - CP4-LIKE INTEGRASE
	Chains	:	A, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET 21
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Fragment	:	ARM-TYPE BINDING DOMAIN (UNP RESIDUES 1-80)
	Gene	:	INT, INT2, YPO1917, YP_1660, Y2393
	Organism Scientific	:	YERSINIA PESTIS
	Organism Taxid	:	632
	Synonym	:	HPI INTEGRASE, INT PROTEIN, PROPHAGE INTEGRASE

*Molecule 2 - 5'-D(TPAPAPTPGPAPCPCPAPCPCPAPAPTPA)-3'**
	Chains	:	E, G
	Engineered	:	YES
	Synthetic	:	YES

*Molecule 3 - 5'-D(TPAPTPTPGPGPTPGPGPTPCPAPTPTPA)-3'**
	Chains	:	F, H
	Engineered	:	YES
	Synthetic	:	YES

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

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:77
 aligned with Q9Z3B4_YERPE | Q9Z3B4 from UniProtKB/TrEMBL  Length:420

    Alignment length:77
                                    11        21        31        41        51        61        71       
          Q9Z3B4_YERPE    2 SLTDAKIRTLKPSDKPFKVSDSHGLYLLVKPGGSRHWYLKYRISGKESRIALGAYPAISLSDARQQREGIRKMLALN 78
               SCOP domains ----------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhh.......eeee....eeeee.....eeeeeeeee..eeeeeeeee....hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------- Transcript
                  3rmp A  2 SLTDAKIRTLKPSDKPFKVSDSHGLYLLVKPGGSRHWYLKYRISGKESRIALGAYPAISLSDARQQREGIRKMLALN 78
                                    11        21        31        41        51        61        71

Chain C from PDB  Type:PROTEIN  Length:75
 aligned with Q9Z3B4_YERPE | Q9Z3B4 from UniProtKB/TrEMBL  Length:420

    Alignment length:77
                                    11        21        31        41        51        61        71       
          Q9Z3B4_YERPE    2 SLTDAKIRTLKPSDKPFKVSDSHGLYLLVKPGGSRHWYLKYRISGKESRIALGAYPAISLSDARQQREGIRKMLALN 78
               SCOP domains ----------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhh..--...eeee....eeeee.....eeeeeeeee..eeeeeeeee....hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------- Transcript
                  3rmp C  2 SLTDAKIRTLK--DKPFKVSDSHGLYLLVKPGGSRHWYLKYRISGKESRIALGAYPAISLSDARQQREGIRKMLALN 78
                                    11|  |    21        31        41        51        61        71       
                                     12 15

Chain E from PDB  Type:DNA  Length:14
                                             
                  3rmp E  1 TAATGACCACCAAT 14
                                    10

Chain F from PDB  Type:DNA  Length:13
                                            
                  3rmp F  2 ATTGGTGGTCATT 14
                                    11

Chain G from PDB  Type:DNA  Length:15
                                              
                  3rmp G  1 TAATGACCACCAATA 15
                                    10

Chain H from PDB  Type:DNA  Length:13
                                            
                  3rmp H  2 ATTGGTGGTCATT 14
                                    11

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 '\|'

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,C (Q9Z3B4_YERPE | Q9Z3B4)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0008979	prophage integrase activity	Catalysis of the integration of prophage DNA into a target DNA molecule, usually a bacterial chromosome, via a sequence-specific recombination event which involves the formation of an intasome, a DNA-protein-complex designed for site-specific recombination of the phage and host DNA.
	GO:0043565	sequence-specific DNA binding	Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
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:0075713	establishment of integrated proviral latency	A process by which the virus integrates into the host genome and establishes as a stable provirus or prophage.
	GO:0032359	provirus excision	The molecular events that lead to the excision of a viral genome from the host genome.

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	Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 3rmp)

	Sites
(no "Sites" information available for 3rmp)

	Cis Peptide Bonds
		Leu A:77 - Asn A:78	[ RasMol ]
		Leu C:77 - Asn C:78	[ RasMol ]
		Tyr A:56 - Pro A:57	[ RasMol ]
		Tyr C:56 - Pro C:57	[ RasMol ]

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Description

Compounds