1DM9 - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   HEAT SHOCK PROTEIN 15 KD

Authors :   B. L. Staker, P. Korber, J. C. A. Bardwell, M. A. Saper

Date :   14 Dec 99 (Deposition) - 18 Feb 00 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Heat Shock Proteins, Protein-Rna Interactions, Ribosome, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   B. L. Staker, P. Korber, J. C. Bardwell, M. A. Saper
Structure Of Hsp15 Reveals A Novel Rna-Binding Motif.
Embo J. V. 19 749 2000
PubMed-ID: 10675344 | Reference-DOI: 10.1093/EMBOJ/19.4.749
(for further references see the PDB file header)

Molecule 1 - HYPOTHETICAL 15.5 KD PROTEIN IN MRCA-PCKA INTERGENIC REGION
	Chains	:	A, B
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 6)

No.	Name	Count	Type	Full Name
1	SO4	6	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 2 (1, 5)

No.	Name	Count	Type	Full Name
1	SO4	5	Ligand/Ion	SULFATE ION

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:37 , GLY A:40 , THR A:56 , ARG B:28 , HOH B:1040	BINDING SITE FOR RESIDUE SO4 B 991
2	AC2	SOFTWARE	GLU A:90 , ARG B:10 , ARG B:28 , PRO B:45 , HOH B:1019	BINDING SITE FOR RESIDUE SO4 B 992
3	AC3	SOFTWARE	ARG A:19 , ARG A:75	BINDING SITE FOR RESIDUE SO4 A 993
4	AC4	SOFTWARE	ARG B:19 , ARG B:75	BINDING SITE FOR RESIDUE SO4 B 994
5	AC5	SOFTWARE	ARG A:42 , HOH A:1007 , HOH A:1041 , ASN B:52 , LYS B:69	BINDING SITE FOR RESIDUE SO4 B 995
6	AC6	SOFTWARE	ARG A:28 , HOH A:1025 , HIS B:37 , GLY B:40 , THR B:56	BINDING SITE FOR RESIDUE SO4 B 990

(no "SS Bond" information available for 1DM9)

(no "Cis Peptide Bond" information available for 1DM9)

(no "SAP(SNP)/Variant" information available for 1DM9)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	S4	PS50889	S4 RNA-binding domain profile.	HSLR_ECOLI	9-71	2	A:9-71 B:9-71

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	S4	PS50889	S4 RNA-binding domain profile.	HSLR_ECOLI	9-71	1	A:9-71 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	S4	PS50889	S4 RNA-binding domain profile.	HSLR_ECOLI	9-71	1	- B:9-71

(no "Exon" information available for 1DM9)

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:104
 aligned with HSLR_ECOLI | P0ACG8 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:104
                                    14        24        34        44        54        64        74        84        94       104    
           HSLR_ECOLI     5 PAVEVRLDKWLWAARFYKTRALAREMIEGGKVHYNGQRSKPSKIVELNATLTLRQGNDERTVIVKAITEQRRPASEAALLYEETAESVEKREKMALARKLNALT 108
               SCOP domains d1dm9a_ A: Heat shock protein 15 kD                                                                      SCOP domains
               CATH domains 1dm9A00 A:5-108 Structural Genomics Hypothetical 15.5 Kd Protein In Mrca-pcka Intergenic Region; Chain   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhh....hhhhhhhhhhh..eee..ee...........eeeeee..eeeeeee.eee....hhhhhh..eeehhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----S4  PDB: A:9-71 UniProt: 9-71                                  ------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------- Transcript
                 1dm9 A   5 PAVEVRLDKWLWAARFYKTRALAREMIEGGKVHYNGQRSKPSKIVELNATLTLRQGNDERTVIVKAITEQRRPASEAALLYEETAESVEKREKMALARKLNALT 108
                                    14        24        34        44        54        64        74        84        94       104

Chain B from PDB  Type:PROTEIN  Length:107
 aligned with HSLR_ECOLI | P0ACG8 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:107
                                    13        23        33        43        53        63        73        83        93       103       
           HSLR_ECOLI     4 KPAVEVRLDKWLWAARFYKTRALAREMIEGGKVHYNGQRSKPSKIVELNATLTLRQGNDERTVIVKAITEQRRPASEAALLYEETAESVEKREKMALARKLNALTMP 110
               SCOP domains d1dm9b_ B: Heat shock protein 15 kD                                                                         SCOP domains
               CATH domains 1dm9B00 B:4-110 Structural Genomics Hypothetical 15.5 Kd Protein In Mrca-pcka Intergenic Region; Chain      CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhh....hhhhhhhhhhh..eee..ee...........eeeeee..eeeeeee.eee......hhhhh.eeehhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----S4  PDB: B:9-71 UniProt: 9-71                                  --------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 1dm9 B   4 KPAVEVRLDKWLWAARFYKTRALAREMIEGGKVHYNGQRSKPSKIVELNATLTLRQGNDERTVIVKAITEQRRPASEAALLYEETAESVEKREKMALARKLNALTMP 110
                                    13        23        33        43        53        63        73        83        93       103

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: Alpha and beta proteins (a+b) (23004)

Fold: Alpha-L RNA-binding motif (83)

Superfamily: Alpha-L RNA-binding motif (83)

Family: Heat shock protein 15 kD (2)

Protein domain: Heat shock protein 15 kD (2)

Escherichia coli [TaxId: 562] (2)

1a	d1dm9a_	A:
1b	d1dm9b_	B:

(no "Pfam Domain" information available for 1DM9)

Asymmetric Unit(hide GO term definitions)

Chain A,B (HSLR_ECOLI | P0ACG8)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	GO:0019239	deaminase activity	Catalysis of the removal of an amino group from a substrate, producing ammonia (NH3).
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0009982	pseudouridine synthase activity	Catalysis of the reaction: RNA uridine = RNA pseudouridine. Conversion of uridine in an RNA molecule to pseudouridine by rotation of the C1'-N-1 glycosidic bond of uridine in RNA to a C1'-C5.
	GO:0043023	ribosomal large subunit binding	Interacting selectively and non-covalently with any part of the larger ribosomal subunit.
	GO:0003727	single-stranded RNA binding	Interacting selectively and non-covalently with single-stranded RNA.
biological process
	GO:0034605	cellular response to heat	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a heat stimulus, a temperature stimulus above the optimal temperature for that organism.
	GO:0000455	enzyme-directed rRNA pseudouridine synthesis	The intramolecular conversion of uridine to pseudouridine during ribosome biogenesis where the enzyme specifies the site that becomes pseudouridylated without using a guide RNA.
	GO:0009408	response to heat	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a heat stimulus, a temperature stimulus above the optimal temperature for that organism.
cellular component
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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	1dm9
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Description

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Ligands, Modified Residues, Ions (1, 6)

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