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Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF PUTATIVE UNIVERSAL STRESS PROTEIN KPN_01444 - ATPASE

Authors :   C. Chang, H. Li, J. Bearden, A. Joachimiak, Midwest Center For Struc Genomics (Mcsg)

Date :   08 Dec 08 (Deposition) - 23 Dec 08 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.15

Chains :   Asym./Biol. Unit : A,B

Keywords :   Structural Genomic, Universal Stress Protein, Atpase, Ynaf, Klebsiella Pneumoniae Subsp. Pneumoniae, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Chang, H. Li, J. Bearden, A. Joachimiak
Crystal Structure Of Putative Universal Stress Protein Kpn_01444 - Atpase
To Be Published
PubMed: search

Molecule 1 - PUTATIVE UNIVERSAL STRESS PROTEIN KPN_01444
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMCSG19
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	KPN78578_14150, KPN_01444, YNAF
	Organism Scientific	:	KLEBSIELLA PNEUMONIAE SUBSP. PNEUMONIAE MGH 78578
	Organism Taxid	:	272620
	Strain	:	STRAIN ATCC 700721 / MGH 78578

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 11)

No.	Name	Count	Type	Full Name
1	ADP	2	Ligand/Ion	ADENOSINE-5'-DIPHOSPHATE
2	EDO	3	Ligand/Ion	1,2-ETHANEDIOL
3	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PRO A:5 , ILE A:6 , LEU A:35 , VAL A:37 , ILE A:110 , ALA A:111 , HIS A:113 , ARG A:114 , GLY A:123 , SER A:124 , ASN A:125 , ALA A:126 , HOH A:180 , HOH A:189 , HOH A:209 , HOH A:216	BINDING SITE FOR RESIDUE ADP A 201
2	AC2	SOFTWARE	ARG A:131 , HIS A:132 , TYR B:120 , LEU B:122 , ARG B:131 , HOH B:197	BINDING SITE FOR RESIDUE EDO A 202
3	AC3	SOFTWARE	PRO B:5 , ILE B:6 , LEU B:35 , VAL B:37 , PRO B:92 , ILE B:110 , ALA B:111 , HIS B:113 , ARG B:114 , GLY B:123 , SER B:124 , ASN B:125 , ALA B:126 , HOH B:144 , HOH B:181	BINDING SITE FOR RESIDUE ADP B 201
4	AC4	SOFTWARE	TYR A:120 , LEU A:122 , ARG A:131 , HOH A:183 , ARG B:131 , HIS B:132	BINDING SITE FOR RESIDUE EDO B 202
5	AC5	SOFTWARE	ASP A:59 , GLU A:60 , GLU A:63 , HIS B:84 , PHE B:85 , HIS B:86	BINDING SITE FOR RESIDUE EDO B 203

(no "SS Bond" information available for 3FH0)

Asymmetric/Biological Unit

No.	Residues
1	Leu A:103	-	Pro A:104
2	Leu B:103	-	Pro B:104

(no "SAP(SNP)/Variant" information available for 3FH0)

(no "PROSITE Motif" information available for 3FH0)

(no "Exon" information available for 3FH0)

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:125
 aligned with A6T8F5_KLEP7 | A6T8F5 from UniProtKB/TrEMBL  Length:141

    Alignment length:144
                               1                                                                                                                                            
                               |     7        17        27        37        47        57        67        77        87        97       107       117       127       137    
         A6T8F5_KLEP7     - ---MILVPIDISDKEFTERIISHVESEARIDDAEVHFLTVIPSLPYYASLGMAYTAELPGMDELREGSETQLKEIAKKFSIPEDRMHFHVAEGSPKDKILALAKSLPADLVIIASHRPDITTYLLGSNAAAVVRHAECSVLVVR 141
               SCOP domains d3fh0a_ A: au    tomated matches                                                                                                                 SCOP domains
               CATH domains 3fh0A00 A:-2-    141 Tyrosyl-Transfer RNA Sy               nthetase , subunit E, domain 1                                                        CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeee.....----.hhhhhhhhhhhhhh.eeeeeeee...---------------hhhhhhhhhhhhhhhhhh....hhh.eeeeeee.hhhhhhhhhhhhh...eeeee...........hhhhhhhhhhh..eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3fh0 A  -2 SNAmILVPIDISD----ERIISHVESEARIDDAEVHFLTVIPSL---------------GmDELREGSETQLKEIAKKFSIPEDRmHFHVAEGSPKDKILALAKSLPADLVIIASHRPDITTYLLGSNAAAVVRHAECSVLVVR 141
                               |     7  |    |17        27        37   |     -        57|       67        77     |  87        97       107       117       127       137    
                               |       10   15                        41              57|                       83-MSE                                                      
                               1-MSE                                                   58-MSE

Chain B from PDB  Type:PROTEIN  Length:125
 aligned with A6T8F5_KLEP7 | A6T8F5 from UniProtKB/TrEMBL  Length:141

    Alignment length:143
                              1                                                                                                                                            
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138   
         A6T8F5_KLEP7     - --MILVPIDISDKEFTERIISHVESEARIDDAEVHFLTVIPSLPYYASLGMAYTAELPGMDELREGSETQLKEIAKKFSIPEDRMHFHVAEGSPKDKILALAKSLPADLVIIASHRPDITTYLLGSNAAAVVRHAECSVLVVR 141
               SCOP domains d3fh0b_ B: a    utomated matches                                                                                                                SCOP domains
               CATH domains 3fh0B00 B:-1    -141 Tyrosyl-Transfer RNA S              ynthetase , subunit E, domain 1                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.....----.hhhhhhhhhhhh...eeeeeeee...--------------.hhhhhhhhhhhhhhhhhh....hhh.eeeeeee.hhhhhhhhhhhhh...eeeee...........hhhhhhhhhhh..eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fh0 B  -1 NAmILVPIDISD----ERIISHVESEARIDDAEVHFLTVIPSL--------------PGmDELREGSETQLKEIAKKFSIPEDRmHFHVAEGSPKDKILALAKSLPADLVIIASHRPDITTYLLGSNAAAVVRHAECSVLVVR 141
                              |      8 |    | 18        28        38  |      -       |58        68        78    |   88        98       108       118       128       138   
                              1-MSE   10   15                        41             56 |                       83-MSE                                                      
                                                                                      58-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 '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: Adenine nucleotide alpha hydrolase-like (440)

Superfamily: Adenine nucleotide alpha hydrolases-like (110)

Family: automated matches (23)

Protein domain: automated matches (23)

Klebsiella pneumoniae [TaxId: 272620] (2)

1a	d3fh0a_	A:
1b	d3fh0b_	B:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: Tyrosyl-Transfer RNA Synthetase , subunit E, domain 1 (328)

Pneumoniae mgh 78578 (Klebsiella pneumoniae subsp) (2)

1a	3fh0A00	A:-2-141
1b	3fh0B00	B:-1-141

(no "Pfam Domain" information available for 3FH0)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (A6T8F5_KLEP7 | A6T8F5)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
	GO:0006950	response to stress	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 disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Leu A:103 - Pro A:104	[ RasMol ]
		Leu B:103 - Pro B:104	[ RasMol ]

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 11)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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