3KZ3 - JenaLib

Asymmetric Unit (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Title :   A STRUCTURE OF A LAMBDA REPRESSOR FRAGMENT MUTANT

Authors :   M. Gruebele, F. Liu, Y. Gao

Date :   07 Dec 09 (Deposition) - 23 Feb 10 (Release) - 07 Apr 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.64

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: A  (1x)
Biol. Unit 3: B  (1x)

Keywords :   Five Helix Bundle, Dna-Binding, Repressor, Transcription, Transcription Regulation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   F. Liu, Y. G. Gao, M. Gruebele
A Survey Of Lambda Repressor Fragments From Two-State To Downhill Folding.
J. Mol. Biol. V. 397 789 2010
PubMed-ID: 20138892 | Reference-DOI: 10.1016/J.JMB.2010.01.071

Molecule 1 - REPRESSOR PROTEIN CI
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL-21
	Expression System Taxid	:	562
	Expression System Vector Type	:	ROSETTA
	Fragment	:	UNP RESIDUES 8-85
	Gene	:	CI
	Mutation	:	YES
	Organism Common	:	BACTERIOPHAGE LAMBDA
	Organism Scientific	:	ENTEROBACTERIA PHAGE LAMBDA
	Organism Taxid	:	10710

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:	A
Biological Unit 3 (1x)	:		B

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 3KZ3)

(no "Site" information available for 3KZ3)

(no "SS Bond" information available for 3KZ3)

(no "Cis Peptide Bond" information available for 3KZ3)

(no "SAP(SNP)/Variant" information available for 3KZ3)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HTH_CROC1	PS50943	Cro/C1-type HTH domain profile.	RPC1_LAMBD	19-77	2	A:17-75 B:17-75

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HTH_CROC1	PS50943	Cro/C1-type HTH domain profile.	RPC1_LAMBD	19-77	2	A:17-75 B:17-75

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HTH_CROC1	PS50943	Cro/C1-type HTH domain profile.	RPC1_LAMBD	19-77	1	A:17-75 -

Biological Unit 3 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HTH_CROC1	PS50943	Cro/C1-type HTH domain profile.	RPC1_LAMBD	19-77	1	- B:17-75

(no "Exon" information available for 3KZ3)

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:80
 aligned with RPC1_LAMBD | P03034 from UniProtKB/Swiss-Prot  Length:237

    Alignment length:80
                                    16        26        36        46        56        66        76        86
            RPC1_LAMBD    7 PLTQEQLEDARRLKAIYEKKKNELGLSQESVADKMGMGQSGVGALFNGINALNAYNAALLAKILKVSVEEFSPSIAREIY 86
               SCOP domains d3kz3a_ A: lambda C1 repressor, DNA-binding domain                               SCOP domains
               CATH domains 3kz3A00 A:5-84 lambda repressor-like DNA-binding domains                         CATH domains
               Pfam domains -------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh..hhhhhhhhhh.....hhhhhhhhhhhhh.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------HTH_CROC1  PDB: A:17-75 UniProt: 19-77                     --------- PROSITE
                 Transcript -------------------------------------------------------------------------------- Transcript
                  3kz3 A  5 SLTQEQLEDARRLKAIWEKKKNELGLSYESVADKMGMGQSAVAALFNGINALNAYNAALLAKILKVSVEEFSPSIAREIR 84
                                    14        24        34        44        54        64        74        84

Chain B from PDB  Type:PROTEIN  Length:80
 aligned with RPC1_LAMBD | P03034 from UniProtKB/Swiss-Prot  Length:237

    Alignment length:80
                                    16        26        36        46        56        66        76        86
            RPC1_LAMBD    7 PLTQEQLEDARRLKAIYEKKKNELGLSQESVADKMGMGQSGVGALFNGINALNAYNAALLAKILKVSVEEFSPSIAREIY 86
               SCOP domains d3kz3b_ B: lambda C1 repressor, DNA-binding domain                               SCOP domains
               CATH domains 3kz3B00 B:5-84 lambda repressor-like DNA-binding domains                         CATH domains
           Pfam domains (1) ---------------HTH_3-3kz3B01 B:20-75                                   --------- Pfam domains (1)
           Pfam domains (2) ---------------HTH_3-3kz3B02 B:20-75                                   --------- Pfam domains (2)
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhh.hhhhhhhhhh.....hhhhhhhhhhhhh.hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------HTH_CROC1  PDB: B:17-75 UniProt: 19-77                     --------- PROSITE
                 Transcript -------------------------------------------------------------------------------- Transcript
                  3kz3 B  5 SLTQEQLEDARRLKAIWEKKKNELGLSYESVADKMGMGQSAVAALFNGINALNAYNAALLAKILKVSVEEFSPSIAREIR 84
                                    14        24        34        44        54        64        74        84

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

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: lambda repressor-like DNA-binding domains (180)

Superfamily: lambda repressor-like DNA-binding domains (180)

Family: Phage repressors (36)

Protein domain: lambda C1 repressor, DNA-binding domain (5)

Bacteriophage lambda [TaxId: 10710] (5)

1a	d3kz3a_	A:
1b	d3kz3b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: 434 Repressor (Amino-terminal Domain) (116)

Homologous Superfamily: lambda repressor-like DNA-binding domains (100)

Bacteriophage lambda (Enterobacteria phage lambda) (1)

1a	3kz3A00	A:5-84
1b	3kz3B00	B:5-84

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: HTH (544)

Family: HTH_3 (27)

Enterobacteria phage lambda (Bacteriophage lambda) (4)

1a	HTH_3-3kz3B01	B:20-75
1b	HTH_3-3kz3B02	B:20-75

Asymmetric Unit(hide GO term definitions)

Chain A,B (RPC1_LAMBD | P03034)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	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:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0006351	transcription, DNA-templated	The cellular synthesis of RNA on a template of DNA.

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	RPC1_LAMBD \| P03034	:	1f39 1gfx 1j5g 1kca 1lli 1lmb 1lrp 1lwq 1rio 3bdn 3woa

1lmb	STRUCTURE OF WILD TYPE LAMBDA REPRESSOR

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