2WCC - JenaLib

Title :   PHAGE LAMBDA INTDBD1-64 COMPLEX WITH P PRIME 2 DNA

Authors :   E. A. Fadeev, M. D. Sam, R. T. Clubb

Date :   11 Mar 09 (Deposition) - 07 Apr 09 (Release) - 12 May 09 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : 1,2,3  (20x)

Keywords :   Dna Integration, Dna Recombination, Excision, Integration, Phage Lambda, Recombination, Protein Dna Complex, Protein/Dna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. A. Fadeev, M. D. Sam, R. T. Clubb
Nmr Structure Of The Amino-Terminal Domain Of The Lambda Integrase Protein In Complex With Dna: Immobilization Of A Flexible Tail Facilitates Beta- Sheet Recognition Of The Major Groove.
J. Mol. Biol. V. 388 682 2009
PubMed-ID: 19324050 | Reference-DOI: 10.1016/J.JMB.2009.03.041

Compounds

*Molecule 1 - DNA (5'-D(DCPDGPDAPDGPDTPDCPDAP DAPDAPDAPDTPDC)-3')*
	Chains	:	1
	Organism Common	:	PHAGE LAMBDA
	Organism Scientific	:	ENTEROBACTERIA PHAGE LAMBDA
	Organism Taxid	:	10710
	Other Details	:	INTN(1-64) COMPLEX WITH 12 MER DOUBLE STRANDED P'2 DNA
	Synthetic	:	YES

*Molecule 2 - DNA (5'-D(DGPDAPDTPDTPDTPDTPDGP DAPDCPDTPDGPDC)-3')*
	Chains	:	2
	Organism Common	:	PHAGE LAMBDA
	Organism Scientific	:	ENTEROBACTERIA PHAGE LAMBDA
	Organism Taxid	:	10710
	Other Details	:	INTN(1-64) COMPLEX WITH 12 MER DOUBLE STRANDED P'2 DNA
	Synthetic	:	YES

Molecule 3 - INTEGRASE
	Chains	:	3
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Fragment	:	P'2 DNA BINDING DOMAIN, RESIDUES 1-64
	Organism Common	:	PHAGE LAMBDA
	Organism Scientific	:	ENTEROBACTERIA PHAGE LAMBDA
	Organism Taxid	:	10710
	Other Details	:	INTN(1-64) COMPLEX WITH 12 MER DOUBLE STRANDED P'2 DNA
	Synonym	:	PHAGE LAMBDA INTN-DNA COMPLEX

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

NMR Structure

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	UniProt sequence: complete aligned part

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Chain 1 from PDB  Type:DNA  Length:12
                                           
                  2wcc 1  1 GCAGTCAAAATC 12
                                    10

Chain 2 from PDB  Type:DNA  Length:12
                                           
                  2wcc 2 13 GATTTTGACTGC 24
                                    22

Chain 3 from PDB  Type:PROTEIN  Length:64
 aligned with VINT_LAMBD | P03700 from UniProtKB/Swiss-Prot  Length:356

    Alignment length:64
                                    10        20        30        40        50        60    
            VINT_LAMBD    1 MGRRRSHERRDLPPNLYIRNNGYYCYRDPRTGKEFGLGRDRRIAITEAIQANIELFSGHKHKPL 64
               SCOP domains ---------------------------------------------------------------- SCOP domains
               CATH domains 2wcc300 3:1-64 Classic Zinc Finger                               CATH domains
               Pfam domains Phage_integ_N-2wcc301 3:1-64                                     Pfam domains
         Sec.struct. author .......hhhhh...eee.....eeee......eee...hhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------- Transcript
                  2wcc 3  1 MGRRRSHERRDLPPNLYIRNNGYYCYRDPRTGKEFGLGRDRRIAITEAIQANIELFSGHKHKPL 64
                                    10        20        30        40        50        60

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Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (1, 1)

Pfam Domains (1, 1)

Gene Ontology (9, 9)

NMR Structure(hide GO term definitions)

Chain 3 (VINT_LAMBD | P03700)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	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:0008907	integrase activity	Catalysis of the integration of one segment of DNA into another.
	GO:0003676	nucleic acid binding	Interacting selectively and non-covalently with any nucleic acid.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
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:0046718	viral entry into host cell	The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File

1ae9	STRUCTURE OF THE LAMBDA INTEGRASE CATALYTIC CORE
1kjk	SOLUTION STRUCTURE OF THE LAMBDA INTEGRASE AMINO-TERMINALDOMAIN
1m97	CONSERVATION OF STRUCTURE AND FUNCTION AMONG TYROSINERECOMBINASES: HOMOLOGY-BASED MODELING OF THE LAMBDAINTEGRASE CORE-BINDING DOMAIN
1p7d	CRYSTAL STRUCTURE OF THE LAMBDA INTEGRASE ( RESIDUES 75-356)BOUND TO DNA
1z19	CRYSTAL STRUCTURE OF A LAMBDA INTEGRASE(75- 356) DIMER BOUNDTO A COC' CORE SITE
1z1b	CRYSTAL STRUCTURE OF A LAMBDA INTEGRASE DIMER BOUND TO ACOC' CORE SITE
1z1g	CRYSTAL STRUCTURE OF A LAMBDA INTEGRASE TETRAMER BOUND TO AHOLLIDAY JUNCTION

Description