1ZR2 | PD0665 - JenaLib

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Title :   STRUCTURE OF A SYNAPTIC GAMMA-DELTA RESOLVASE TETRAMER COVALENTLY LINKED TO TWO CLEAVED DNAS

Authors :   W. Li, S. Kamtekar, Y. Xiong, G. J. Sarkis, N. D. Grindley, T. A. Steitz

Date :   18 May 05 (Deposition) - 30 Aug 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.90

Chains :   Asym. Unit : A,B,I,J,K,X,Y,Z
Biol. Unit 1: A,B,I,J,K,X,Y,Z  (2x)

Keywords :   Resolvase, Site-Specific, Recombination, Flat Interface, Recombination-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   W. Li, S. Kamtekar, Y. Xiong, G. J. Sarkis, N. D. Grindley, T. A. Steitz
Structure Of A Synaptic Gamma Delta Resolvase Tetramer Covalently Linked To Two Cleaved Dnas.
Science V. 309 1210 2005
PubMed-ID: 15994378 | Reference-DOI: 10.1126/SCIENCE.1112064

Molecule 1 - TCAGTGTCCGATAATTTAT
	Chains	:	X, J
	Engineered	:	YES
	Other Details	:	SYMMETRIZED RESOLVASE SITES
	Synthetic	:	YES

Molecule 2 - AAA
	Chains	:	Z, I
	Engineered	:	YES
	Other Details	:	SYMMETRIZED RESOLVASE SITES
	Synthetic	:	YES

Molecule 3 - TTATCGGACACTG
	Chains	:	Y, K
	Engineered	:	YES
	Other Details	:	SYMMETRIZED RESOLVASE SITES
	Synthetic	:	YES

Molecule 4 - TRANSPOSON GAMMA-DELTA RESOLVASE
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PSW26131
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	TNPR
	Mutation	:	YES
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Other Details	:	ACTIVATED GAMMA-DELTA RESOLVASE MUTANT
	Synonym	:	TRANSPOSON TN1000 RESOLVASE

		1	2	3	4	5	6	7	8
Asymmetric Unit	:	A	B	I	J	K	X	Y	Z
Biological Unit 1 (2x)	:	A	B	I	J	K	X	Y	Z

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1ZR2)

(no "Site" information available for 1ZR2)

(no "SS Bond" information available for 1ZR2)

(no "Cis Peptide Bond" information available for 1ZR2)

(no "SAP(SNP)/Variant" information available for 1ZR2)

Asymmetric Unit (3, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RECOMBINASES_3	PS51736	Resolvase/invertase-type recombinase catalytic domain profile.	TNR1_ECOLI	2-137	2	A:3-137 B:3-137
2	RECOMBINASES_1	PS00397	Site-specific recombinases active site.	TNR1_ECOLI	6-14	2	A:6-14 B:6-14
3	RECOMBINASES_2	PS00398	Site-specific recombinases signature 2.	TNR1_ECOLI	58-70	2	A:58-70 B:58-70

Biological Unit 1 (3, 12)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RECOMBINASES_3	PS51736	Resolvase/invertase-type recombinase catalytic domain profile.	TNR1_ECOLI	2-137	4	A:3-137 B:3-137
2	RECOMBINASES_1	PS00397	Site-specific recombinases active site.	TNR1_ECOLI	6-14	4	A:6-14 B:6-14
3	RECOMBINASES_2	PS00398	Site-specific recombinases signature 2.	TNR1_ECOLI	58-70	4	A:58-70 B:58-70

(no "Exon" information available for 1ZR2)

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:183
 aligned with TNR1_ECOLI | P03012 from UniProtKB/Swiss-Prot  Length:183

    Alignment length:183
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180   
           TNR1_ECOLI     1 MRLFGYARVSTSQQSLDIQVRALKDAGVKANRIFTDKASGSSSDRKGLDLLRMKVEEGDVILVKKLDRLGRDTADMIQLIKEFDAQGVSIRFIDDGISTDGEMGKMVVTILSAVAQAERQRILERTNEGRQEAMAKGVVFGRKRKIDRDAVLNMWQQGLGASHISKTMNIARSTVYKVINESN 183
               SCOP domains d1zr2a2 A:1-140 gamma,delta resolvase, catalytic domain                                                                                     d1zr2a1 A:141-183                           SCOP domains
               CATH domains 1zr2A01 A:1-98  [code=3.40.50.1390, no name defined]                                              1zr2A02 A:99-137                       1zr2A03 A:138-183 Homeodomain-like             CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhh.hhh.eeee........hhhhhhhhhhh....eeee........hhhhhhhhhhhhhhhh.eeee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhh..hhhhhhh....hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -RECOMBINASES_3  PDB: A:3-137 UniProt: 2-137                                                                                             ---------------------------------------------- PROSITE (1)
                PROSITE (2) -----RECOMBINA-------------------------------------------RECOMBINASES_----------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1zr2 A   1 MALFGYARVSTSQQSLDIQVRALKDAGVKANRIFTDKASGSSSDRKGLDLLRMKVKEGDVILVKKLDRLGRDTADMIQLIKEFDAQGVSIRFIDDGISTDSYIGKMVVTILSAVAQAERQRILQRTNEGRQEAMAKGVVFGRKRKIDRDAVLNMWQQGLGASHISKTMNIARSTVYKVINESN 183
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180

Chain B from PDB  Type:PROTEIN  Length:182
 aligned with TNR1_ECOLI | P03012 from UniProtKB/Swiss-Prot  Length:183

    Alignment length:182
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181  
           TNR1_ECOLI     2 RLFGYARVSTSQQSLDIQVRALKDAGVKANRIFTDKASGSSSDRKGLDLLRMKVEEGDVILVKKLDRLGRDTADMIQLIKEFDAQGVSIRFIDDGISTDGEMGKMVVTILSAVAQAERQRILERTNEGRQEAMAKGVVFGRKRKIDRDAVLNMWQQGLGASHISKTMNIARSTVYKVINESN 183
               SCOP domains d1zr2b2 B:2-140 gamma,delta resolvase, catalytic domain                                                                                    d1zr2b1 B:141-183                           SCOP domains
               CATH domains 1zr2B01 B:2-98  [code=3.40.50.1390, no name defined]                                             1zr2B02 B:99-137                       1zr2B03 B:138-183 Homeodomain-like             CATH domains
           Pfam domains (1) -Resolvase-1zr2B03 B:3-139                                                                                                                -HTH_7-1zr2B01 B:141-182                   - Pfam domains (1)
           Pfam domains (2) -Resolvase-1zr2B04 B:3-139                                                                                                                -HTH_7-1zr2B02 B:141-182                   - Pfam domains (2)
         Sec.struct. author .eeee........hhhhhhhhhhh...hhh.ee..........hhhhhhhhhhh....eeee.hhhhh..hhhhhhhhhhhhhhhh.eeee....ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhh..hhhhhhhh...hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) RECOMBINASES_3  PDB: B:3-137 UniProt: 2-137                                                                                             ---------------------------------------------- PROSITE (1)
                PROSITE (2) ----RECOMBINA-------------------------------------------RECOMBINASES_----------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1zr2 B   2 ALFGYARVSTSQQSLDIQVRALKDAGVKANRIFTDKASGSSSDRKGLDLLRMKVKEGDVILVKKLDRLGRDTADMIQLIKEFDAQGVSIRFIDDGISTDSYIGKMVVTILSAVAQAERQRILQRTNEGRQEAMAKGVVFGRKRKIDRDAVLNMWQQGLGASHISKTMNIARSTVYKVINESN 183
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181

Chain I from PDB  Type:DNA  Length:3
                                   
                 1zr2 I  20 AAA  22

Chain J from PDB  Type:DNA  Length:19
                                                   
                 1zr2 J   1 TCAGTGTCCGATAATTTAT  19
                                    10

Chain K from PDB  Type:DNA  Length:13
                                             
                 1zr2 K  23 TTATCGGACACTG  35
                                    32

Chain X from PDB  Type:DNA  Length:19
                                                   
                 1zr2 X   1 TCAGTGTCCGATAATTTAT  19
                                    10

Chain Y from PDB  Type:DNA  Length:13
                                             
                 1zr2 Y  23 TTATCGGACACTG  35
                                    32

Chain Z from PDB  Type:DNA  Length:3
                                   
                 1zr2 Z  20 AAA  22

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 '\|'

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: HTH (544)

Family: HTH_7 (11)

Escherichia coli (strain K12) (4)

1a	HTH_7-1zr2B01	B:141-182
1b	HTH_7-1zr2B02	B:141-182

Clan: no clan defined [family: Resolvase] (7)

Family: Resolvase (7)

Escherichia coli (strain K12) (3)

2a	Resolvase-1zr2B03	B:3-139
2b	Resolvase-1zr2B04	B:3-139

Asymmetric Unit(hide GO term definitions)

Chain A,B (TNR1_ECOLI | P03012)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0000150	recombinase activity	Catalysis of the identification and base-pairing of homologous sequences between single-stranded DNA and double-stranded DNA.
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.

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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1zr2)

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	1zr2
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	TNR1_ECOLI \| P03012	:	1gdr 1gdt 1ght 1hx7 1res 1ret 1zr4 2gm4 2gm5 2rsl

Description

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Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

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