2E6E - JenaLib

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

Asym./Biol. Unit (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE STATIONARY PHASE SURVIVAL PROTEIN SURE FROM THERMUS THERMOPHILUS HB8

Authors :   W. Iwasaki, K. Miki

Date :   26 Dec 06 (Deposition) - 28 Aug 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

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

Keywords :   Sure Protein, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   W. Iwasaki, K. Miki
Crystal Structure Of The Stationary Phase Survival Protein Sure With Metal Ion And Amp
J. Mol. Biol. V. 371 123 2007
PubMed-ID: 17561111 | Reference-DOI: 10.1016/J.JMB.2007.05.007

Molecule 1 - 5'-NUCLEOTIDASE SURE
	Chains	:	A, B, C, D
	EC Number	:	3.1.3.5
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET11A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	THERMUS THERMOPHILUS
	Organism Taxid	:	300852
	Strain	:	HB8
	Synonym	:	STATIONARY PHASE SURVIVAL PROTEIN SURE, NUCLEOSIDE 5'- MONOPHOSPHATE PHOSPHOHYDROLASE

		1	2	3	4
Asymmetric/Biological Unit	:	A	B	C	D

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 2E6E)

(no "Site" information available for 2E6E)

(no "SS Bond" information available for 2E6E)

Asymmetric/Biological Unit

No.	Residues
1	Gly A:94	-	Val A:95
2	Arg A:157	-	Pro A:158
3	Gly B:94	-	Val B:95
4	Arg B:157	-	Pro B:158
5	Gly C:94	-	Val C:95
6	Arg C:157	-	Pro C:158
7	Gly D:94	-	Val D:95
8	Arg D:157	-	Pro D:158

(no "SAP(SNP)/Variant" information available for 2E6E)

(no "PROSITE Motif" information available for 2E6E)

(no "Exon" information available for 2E6E)

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:221
 aligned with SURE_THET8 | Q53W92 from UniProtKB/Swiss-Prot  Length:244

    Alignment length:236
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230      
           SURE_THET8     1 MRILVTNDDGIYSPGLWALAEAASQFGEVFVAAPDTEQSAAGHAITIAHPVRAYPHPSPLHAPHFPAYRVRGTPADCVALGLHLFGPVDLVLSGVNLGSNLGHEIWHSGTVAAAKQGYLFGLSAAAFSVPLNGEVPDFAGLRPWLLRTLETLLRLERPFLVNVNLPLRPKGFLWTRQSVRAYEGVVIPGEDPMGRPFYWFAPRPLKEAEEGTDRWAVAQGFVSATPLRLDLTDETR 236
               SCOP domains d2e6ea_ A: automated matches                                                                                                                                                                                                                 SCOP domains
               CATH domains 2e6eA00 A:1-236  [code=3.40.1210.10           , no name defined]                                                                                                                                                                             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee......hhhhhhhhhhhh...eeeeeee.-----------..eeeeeee...........eeeee.hhhhhhhhhhhhh....eeeeeeee...hhhhhhhhhhhhhhhhhhhh..eeeeeee..----.hhhhhhhhhhhhhhhhh......eeeee......eeee.......eeeeeeeee.....eeeeeeeee.......hhhhhhhh.eeeeee.......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2e6e A   1 MRILVTNDDGIYSPGLWALAEAASQFGEVFVAAPD-----------IAHPVRAYPHPSPLHAPHFPAYRVRGTPADCVALGLHLFGPVDLVLSGVNLGSNLGHEIWHSGTVAAAKQGYLFGLSAAAFSVPL----PDFAGLRPWLLRTLETLLRLERPFLVNVNLPLRPKGFLWTRQSVRAYEGVVIPGEDPMGRPFYWFAPRPLKEAEEGTDRWAVAQGFVSATPLRLDLTDETR 236
                                    10        20        30    |    -      | 50        60        70        80        90       100       110       120       130|    | 140       150       160       170       180       190       200       210       220       230      
                                                             35          47                                                                                 131  136

Chain B from PDB  Type:PROTEIN  Length:210
 aligned with SURE_THET8 | Q53W92 from UniProtKB/Swiss-Prot  Length:244

    Alignment length:238
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230        
           SURE_THET8     1 MRILVTNDDGIYSPGLWALAEAASQFGEVFVAAPDTEQSAAGHAITIAHPVRAYPHPSPLHAPHFPAYRVRGTPADCVALGLHLFGPVDLVLSGVNLGSNLGHEIWHSGTVAAAKQGYLFGLSAAAFSVPLNGEVPDFAGLRPWLLRTLETLLRLERPFLVNVNLPLRPKGFLWTRQSVRAYEGVVIPGEDPMGRPFYWFAPRPLKEAEEGTDRWAVAQGFVSATPLRLDLTDETRLQ 238
               SCOP domains d2e6eb_ B: automated matches                                                                                                                                                                                                                   SCOP domains
               CATH domains 2e6eB00 B:1-238  [code=3.40.1210.10,          no name defin   ed]                                                                                                                                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee......hhhhhhhhhhhhh..eeeeeee..---------...eeeeeeee...---....eeeee.hhhhhhhhhhhhh....eeeeeee.--------------hhhhhhhhh..eeeeee...--...hhhhhhhhhhhhhhhhh......eeeee......eeee....hhhhh.eeeeee.....eeeeee..hhhhh...hhhhhhhh.eeeeee......hhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2e6e B   1 MRILVTNDDGIYSPGLWALAEAASQFGEVFVAAPDT---------TIAHPVRAYPHPSP---PHFPAYRVRGTPADCVALGLHLFGPVDLVLSGVNL--------------AAAKQGYLFGLSAAAFSVPL--EVPDFAGLRPWLLRTLETLLRLERPFLVNVNLPLRPKGFLWTRQSVRAYEGVVIPGEDPMGRPFYWFAPRPLKEAEEGTDRWAVAQGFVSATPLRLDLTDETRLQ 238
                                    10        20        30     |   -     |  50        |-  |     70        80        90      |  -         - |     120       130|  |   140       150       160       170       180       190       200       210       220       230        
                                                              36        46           59  63                                97            112                131  |                                                                                                        
                                                                                                                                                               134

Chain C from PDB  Type:PROTEIN  Length:217
 aligned with SURE_THET8 | Q53W92 from UniProtKB/Swiss-Prot  Length:244

    Alignment length:238
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230        
           SURE_THET8     1 MRILVTNDDGIYSPGLWALAEAASQFGEVFVAAPDTEQSAAGHAITIAHPVRAYPHPSPLHAPHFPAYRVRGTPADCVALGLHLFGPVDLVLSGVNLGSNLGHEIWHSGTVAAAKQGYLFGLSAAAFSVPLNGEVPDFAGLRPWLLRTLETLLRLERPFLVNVNLPLRPKGFLWTRQSVRAYEGVVIPGEDPMGRPFYWFAPRPLKEAEEGTDRWAVAQGFVSATPLRLDLTDETRLQ 238
               SCOP domains d2e6ec_ C: automated matches                                                                                                                                                                                                                   SCOP domains
               CATH domains 2e6eC00 C:1-238  [code=3.40.1210.10             , no name     defined]                                                                                                                                                                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee......hhhhhhhhhhhhh..eeeeeee.-------------.eeeeee...----....eeeee.hhhhhhhhhhhhh....eeeeeeee...hhhhhhhhhhhhhhhhhhhh..eeeeeee..----.....hhhhhhhhhhhhhhh....eeeee.......eee.......eeeeeeeee.....eeeeeeeee.......hhhhhhh...eeeee......hhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2e6e C   1 MRILVTNDDGIYSPGLWALAEAASQFGEVFVAAPD-------------HPVRAYPHPS----PHFPAYRVRGTPADCVALGLHLFGPVDLVLSGVNLGSNLGHEIWHSGTVAAAKQGYLFGLSAAAFSVPL----PDFAGLRPWLLRTLETLLRLERPFLVNVNLPLRPKGFLWTRQSVRAYEGVVIPGEDPMGRPFYWFAPRPLKEAEEGTDRWAVAQGFVSATPLRLDLTDETRLQ 238
                                    10        20        30    |    -        50       | -  |     70        80        90       100       110       120       130|    | 140       150       160       170       180       190       200       210       220       230        
                                                             35            49       58   63                                                                 131  136

Chain D from PDB  Type:PROTEIN  Length:205
 aligned with SURE_THET8 | Q53W92 from UniProtKB/Swiss-Prot  Length:244

    Alignment length:237
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       
           SURE_THET8     1 MRILVTNDDGIYSPGLWALAEAASQFGEVFVAAPDTEQSAAGHAITIAHPVRAYPHPSPLHAPHFPAYRVRGTPADCVALGLHLFGPVDLVLSGVNLGSNLGHEIWHSGTVAAAKQGYLFGLSAAAFSVPLNGEVPDFAGLRPWLLRTLETLLRLERPFLVNVNLPLRPKGFLWTRQSVRAYEGVVIPGEDPMGRPFYWFAPRPLKEAEEGTDRWAVAQGFVSATPLRLDLTDETRL 237
               SCOP domains d2e6ed_ D: automated matches                                                                                                                                                                                                                  SCOP domains
               CATH domains 2e6eD00 D:1-237  [code=3.40.1210.10           , no name d     efined]                                                                                                                                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee......hhhhhhhhhhhh...eeeeee..-----------..eeeeeee..-----....eeeee.hhhhhhhhhhhhh....eeeeeee.-------------.hhhhhhhhh..eeeeee..---...hhhhhhhhhhhhhhhhh......eeeee.......eee...hhhhhh.eeeeee.....eeeeee..hhhhh...hhhhhhhh..eeeee......hhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2e6e D   1 MRILVTNDDGIYSPGLWALAEAASQFGEVFVAAPD-----------IAHPVRAYPHP-----PHFPAYRVRGTPADCVALGLHLFGPVDLVLSGVNL-------------VAAAKQGYLFGLSAAAFSVP---EVPDFAGLRPWLLRTLETLLRLERPFLVNVNLPLRPKGFLWTRQSVRAYEGVVIPGEDPMGRPFYWFAPRPLKEAEEGTDRWAVAQGFVSATPLRLDLTDETRL 237
                                    10        20        30    |    -      | 50      |  -  |     70        80        90      |  -         -|      120       130   |   140       150       160       170       180       190       200       210       220       230       
                                                             35          47        57    63                                97           111                130 134

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: SurE-like (17)

Superfamily: SurE-like (17)

Family: automated matches (12)

Protein domain: automated matches (12)

Thermus thermophilus HB8 [TaxId: 300852] (6)

1a	d2e6ea_	A:
1b	d2e6eb_	B:
1c	d2e6ec_	C:
1d	d2e6ed_	D:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

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

Topology: Stationary-phase Survival Protein Sure Homolog; Chain: A, (14)

Homologous Superfamily: [code=3.40.1210.10, no name defined] (14)

Thermus thermophilus hb8. Organism_taxid: 300852. Strain: hb8. (6)

1a	2e6eA00	A:1-236
1b	2e6eC00	C:1-238
1c	2e6eB00	B:1-238
1d	2e6eD00	D:1-237

(no "Pfam Domain" information available for 2E6E)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D (SURE_THET8 | Q53W92)

molecular function
	GO:0008253	5'-nucleotidase activity	Catalysis of the reaction: a 5'-ribonucleotide + H2O = a ribonucleoside + phosphate.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0008252	nucleotidase activity	Catalysis of the reaction: a nucleotide + H2O = a nucleoside + phosphate.
	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:0016311	dephosphorylation	The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 2e6e)

	Sites
(no "Sites" information available for 2e6e)

	Cis Peptide Bonds
		Arg A:157 - Pro A:158	[ RasMol ]
		Arg B:157 - Pro B:158	[ RasMol ]
		Arg C:157 - Pro C:158	[ RasMol ]
		Arg D:157 - Pro D:158	[ RasMol ]
		Gly A:94 - Val A:95	[ RasMol ]
		Gly B:94 - Val B:95	[ RasMol ]
		Gly C:94 - Val C:95	[ RasMol ]
		Gly D:94 - Val D:95	[ RasMol ]

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Access by PDB/NDB ID
	2e6e
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
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Access by UniProt ID/Accession number
	SURE_THET8 \| Q53W92
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	3.1.3.5
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		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
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	SURE_THET8 \| Q53W92
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	SURE_THET8 \| Q53W92	:	2e69 2e6b 2e6c 2e6g 2e6h

1ilv	SURE FROM THERMATOGA MARITIMA
1j9j	SURE FROM THERMATOGA MARITIMA
1j9k	SURE FROM THERMATOGA MARITIMA COMPLEXED WITH CALCIUM AND TUNGSTATE.
1j9l	SURE FROM THERMATOGA MARITIMA COMPLEXED WITH CALCIUM AND VANADATE.
1l5x	SURE HOMOLOG FROM PYROBACULUM AEROPHILUM
2e69	SURE FROM THERMUS THERMOPHILUS HB8 COMPLEXED WITH SULFATE.
2e6b	SURE FROM THERMUS THERMOPHILUS HB8 COMPLEXED WITH MAGNESIUM AND TUNGSTATE.
2e6c	SURE FROM THERMUS THERMOPHILUS HB8 COCRYSTALLIZED WITH MANGANESE AND AMP.
2e6g	SURE FROM THERMUS THERMOPHILUS HB8 COMPLEXED WITH PHOSPHATE.
2e6h	E37A MUTANT OF SURE FROM THERMUS THERMOPHILUS HB8 COCRYSTALLIZED WITH MANGANESE AND AMP.

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (8, 8)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 4)

CATH Domains (1, 4)

Pfam Domains (0, 0)

Gene Ontology (7, 7)

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