1U84 - JenaLib

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Description

Title :   CRYSTAL STRUCTURE OF APC36109 FROM BACILLUS STEAROTHERMOPHILUS

Authors :   Y. Kim, M. Zhou, F. Collart, A. Joachimiak, Midwest Center For Struc Genomics (Mcsg)

Date :   04 Aug 04 (Deposition) - 05 Oct 04 (Release) - 26 Sep 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

Chains :   Asym./Biol. Unit : A

Keywords :   Structural Genomics, Hypothetical Protein, Bacillus Stearothermophilus, Protein Structure Initiative, Mcsg, Psi, Midwest Center For Structural Genomics, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Kim, M. Zhou, F. Collart, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Crystal Structure Of Apc36109 From Bacillus Stearothermophilus
To Be Published
PubMed: search

Compounds

Molecule 1 - HYPOTHETICAL PROTEIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PMCSG7
	Expression System Strain	:	BL21DE3
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	GEOBACILLUS STEAROTHERMOPHILUS
	Organism Taxid	:	1422

Structural Features

Chains, Units

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (2, 2)

Asymmetric/Biological Unit (2, 2)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
2	GOL	1	Ligand/Ion	GLYCEROL

Sites (2, 2)

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TRP A:13 , HOH A:264 , HOH A:289	BINDING SITE FOR RESIDUE EDO A 102
2	AC2	SOFTWARE	PHE A:20 , GLN A:36 , ARG A:45 , PHE A:59 , GLU A:61 , LEU A:69 , ARG A:73 , HOH A:315	BINDING SITE FOR RESIDUE GOL A 101

SS Bonds (0, 0)

(no "SS Bond" information available for 1U84)

Cis Peptide Bonds (0, 0)

(no "Cis Peptide Bond" information available for 1U84)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

(no "SAP(SNP)/Variant" information available for 1U84)

PROSITE Motifs (0, 0)

(no "PROSITE Motif" information available for 1U84)

Exons (0, 0)

(no "Exon" information available for 1U84)

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
	(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:81
 aligned with Q5KVS1_GEOKA | Q5KVS1 from UniProtKB/TrEMBL  Length:87

    Alignment length:81
                                    12        22        32        42        52        62        72        82 
          Q5KVS1_GEOKA    3 GRQLNRLLLEWIGAWDPFGLGKDAYDVEAASVLQAVYETEDARTLAARIQSIYEFAFDEPIPFPDCLKLARRLLELKQAAS 83
               SCOP domains d1u84a_ A: hypothetical protein YugE                                              SCOP domains
               CATH domains 1u84A00 A:3-83 Hypothetical protein - apc36109-like domain                        CATH domains
               Pfam domains -----DUF1871-1u84A01 A:8-83                                                       Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------- Transcript
                  1u84 A  3 GQQLNRLLLEWIGAWDPFGLGKDAYDVEAASVLQAVYETEDARTLAARIQSIYEFAFDEPIPFPHCLKLARRLLELKQAAS 83
                                    12        22        32        42        52        62        72        82

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 (1, 1)

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: YugE-like (1)

Superfamily: YugE-like (1)

Family: YugE-like (1)

Protein domain: hypothetical protein YugE (1)

Bacillus stearothermophilus [TaxId: 1422] (1)

d1u84a_

CATH Domains (1, 1)

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Endonuclease III; domain 1 (74)

Homologous Superfamily: Hypothetical protein - apc36109-like domain (1)

Geobacillus stearothermophilus. Organism_taxid: 1422. (1)

1u84A00

A:3-83

Pfam Domains (1, 1)

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: DUF1871] (1)

Family: DUF1871 (1)

Geobacillus kaustophilus (1)

DUF1871-1u84A01

A:8-83

Gene Ontology (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)

(no "Gene Ontology" information available for 1U84)

Visualization

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Still Images

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 2)

Sites (2, 2)

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

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (1, 1)

Pfam Domains (1, 1)

Gene Ontology (0, 0)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File