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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF PUTATIVE DNA BINDING PROTEIN FROM METHANOCALDOCOCCUS JANNASCHII.

Authors :   C. Chang, G. Chhor, G. Cobb, A. Joachimiak, Midwest Center For Struc Genomics (Mcsg)

Date :   22 Jan 10 (Deposition) - 02 Feb 10 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Mcsg, Psi-2, Structural Genomics, Protein Structure Initiative, Midwest Center For Structural Genomics, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Chang, G. Chhor, G. Cobb, A. Joachimiak
Crystal Structure Of Putative Dna Binding Protein From Methanocaldococcus Jannaschii.
To Be Published
PubMed: search

Molecule 1 - PUTATIVE DNA BINDING PROTEIN MJ0014
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMCSG19
	Expression System Strain	:	BL21(DE3)MAGIC
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 63-213
	Gene	:	MJ0014
	Organism Common	:	METHANOCOCCUS JANNASCHII
	Organism Scientific	:	METHANOCALDOCOCCUS JANNASCHII
	Organism Taxid	:	243232
	Strain	:	DSM 2661

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 12)

No.	Name	Count	Type	Full Name
1	MSE	12	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 6)

No.	Name	Count	Type	Full Name
1	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (1, 6)

No.	Name	Count	Type	Full Name
1	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

(no "Site" information available for 3LHK)

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

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

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

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RECOMBINASES_3	PS51736	Resolvase/invertase-type recombinase catalytic domain profile.	Y014_METJA	63-213	4	A:63-206 B:63-206 C:63-205 D:63-206

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RECOMBINASES_3	PS51736	Resolvase/invertase-type recombinase catalytic domain profile.	Y014_METJA	63-213	2	A:63-206 B:63-206 - -

Biological Unit 2 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RECOMBINASES_3	PS51736	Resolvase/invertase-type recombinase catalytic domain profile.	Y014_METJA	63-213	2	- - C:63-205 D:63-206

(no "Exon" information available for 3LHK)

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:146
 aligned with Y014_METJA | Q60329 from UniProtKB/Swiss-Prot  Length:213

    Alignment length:146
                                    70        80        90       100       110       120       130       140       150       160       170       180       190       200      
           Y014_METJA    61 QRKIIGYARVSFNAQKDDLERQIQLIKSYAEENGWDIQILKDIGSGLNEKRKNYKKLLKMVMNRKVEKVIIAYPDRLTRFGFETLKEFFKSYGTEIVIINKKHKTPQEELVEDLITIVSHFAGKLYGMHSHKYKKLTKTVKEIVRE 206
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee.hhhhhhhhhhhhhhhhhhhhhh....eeeeee.......hhhhhhhhhhhhh..eeeeee.hhhhhh..hhhhhhhhhhhh..eeee.......hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --RECOMBINASES_3  PDB: A:63-206 UniProt: 63-213                                                                                                    PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lhk A  61 NAKIIGYARVSFNAQKDDLERQIQLIKSYAEENGWDIQILKDIGSGLNEKRKNYKKLLKmVmNRKVEKVIIAYPDRLTRFGFETLKEFFKSYGTEIVIINKKHKTPQEELVEDLITIVSHFAGKLYGmHSHKYKKLTKTVKEIVRE 206
                                    70        80        90       100       110       120 |     130       140       150       160       170       180       190       200      
                                                                                     120-MSE                                                             188-MSE              
                                                                                       122-MSE

Chain B from PDB  Type:PROTEIN  Length:145
 aligned with Y014_METJA | Q60329 from UniProtKB/Swiss-Prot  Length:213

    Alignment length:145
                                    71        81        91       101       111       121       131       141       151       161       171       181       191       201     
           Y014_METJA    62 RKIIGYARVSFNAQKDDLERQIQLIKSYAEENGWDIQILKDIGSGLNEKRKNYKKLLKMVMNRKVEKVIIAYPDRLTRFGFETLKEFFKSYGTEIVIINKKHKTPQEELVEDLITIVSHFAGKLYGMHSHKYKKLTKTVKEIVRE 206
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee.hhhhhhhhhhhhhhhhhhhhhh...eeeeeee.......hhhhhhhhhhhhh....eeee.hhhhh...hhhhhhhhhhhh..eeee.......hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -RECOMBINASES_3  PDB: B:63-206 UniProt: 63-213                                                                                                    PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lhk B  62 AKIIGYARVSFNAQKDDLERQIQLIKSYAEENGWDIQILKDIGSGLNEKRKNYKKLLKmVmNRKVEKVIIAYPDRLTRFGFETLKEFFKSYGTEIVIINKKHKTPQEELVEDLITIVSHFAGKLYGmHSHKYKKLTKTVKEIVRE 206
                                    71        81        91       101       111       121|      131       141       151       161       171       181      |191       201     
                                                                                    120-MSE                                                             188-MSE              
                                                                                      122-MSE

Chain C from PDB  Type:PROTEIN  Length:145
 aligned with Y014_METJA | Q60329 from UniProtKB/Swiss-Prot  Length:213

    Alignment length:145
                                    70        80        90       100       110       120       130       140       150       160       170       180       190       200     
           Y014_METJA    61 QRKIIGYARVSFNAQKDDLERQIQLIKSYAEENGWDIQILKDIGSGLNEKRKNYKKLLKMVMNRKVEKVIIAYPDRLTRFGFETLKEFFKSYGTEIVIINKKHKTPQEELVEDLITIVSHFAGKLYGMHSHKYKKLTKTVKEIVR 205
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhh..eeeeeee.......hhhhhhhhhhhhh..eeeeee.hhhhh...hhhhhhhhhhhh..eeee.......hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --RECOMBINASES_3  PDB: C:63-205 UniProt: 63-213                                                                                                   PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lhk C  61 NAKIIGYARVSFNAQKDDLERQIQLIKSYAEENGWDIQILKDIGSGLNEKRKNYKKLLKmVmNRKVEKVIIAYPDRLTRFGFETLKEFFKSYGTEIVIINKKHKTPQEELVEDLITIVSHFAGKLYGmHSHKYKKLTKTVKEIVR 205
                                    70        80        90       100       110       120 |     130       140       150       160       170       180       190       200     
                                                                                     120-MSE                                                             188-MSE             
                                                                                       122-MSE

Chain D from PDB  Type:PROTEIN  Length:145
 aligned with Y014_METJA | Q60329 from UniProtKB/Swiss-Prot  Length:213

    Alignment length:145
                                    71        81        91       101       111       121       131       141       151       161       171       181       191       201     
           Y014_METJA    62 RKIIGYARVSFNAQKDDLERQIQLIKSYAEENGWDIQILKDIGSGLNEKRKNYKKLLKMVMNRKVEKVIIAYPDRLTRFGFETLKEFFKSYGTEIVIINKKHKTPQEELVEDLITIVSHFAGKLYGMHSHKYKKLTKTVKEIVRE 206
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --Resolvase-3lhkD01 D:64-202                                                                                                                 ---- Pfam domains (1)
           Pfam domains (2) --Resolvase-3lhkD02 D:64-202                                                                                                                 ---- Pfam domains (2)
           Pfam domains (3) --Resolvase-3lhkD03 D:64-202                                                                                                                 ---- Pfam domains (3)
           Pfam domains (4) --Resolvase-3lhkD04 D:64-202                                                                                                                 ---- Pfam domains (4)
         Sec.struct. author .eeeeeeee.hhhhhhhhhhhhhhhhhhhhhh....eeeeee.......hhhhhhhhhhhhh..eeeeee.hhhhhh..hhhhhhhhhhhh..eeee.......hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -RECOMBINASES_3  PDB: D:63-206 UniProt: 63-213                                                                                                    PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lhk D  62 AKIIGYARVSFNAQKDDLERQIQLIKSYAEENGWDIQILKDIGSGLNEKRKNYKKLLKmVmNRKVEKVIIAYPDRLTRFGFETLKEFFKSYGTEIVIINKKHKTPQEELVEDLITIVSHFAGKLYGmHSHKYKKLTKTVKEIVRE 206
                                    71        81        91       101       111       121|      131       141       151       161       171       181      |191       201     
                                                                                    120-MSE                                                             188-MSE              
                                                                                      122-MSE

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 '\|'

(no "SCOP Domain" information available for 3LHK)

(no "CATH Domain" information available for 3LHK)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (Y014_METJA | Q60329)

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: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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Biological Units
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Description

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Ligands, Modified Residues, Ions (1, 12)

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