2HKD - JenaLib

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

Asym./Biol. Unit (Jmol Viewer)

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

Title :   THE CRYSTAL STRUCTURE OF ENGINEERED OSPA

Authors :   K. Makabe, V. Terechko, S. Koide

Date :   03 Jul 06 (Deposition) - 21 Nov 06 (Release) - 28 Jun 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

Chains :   Asym./Biol. Unit : A

Keywords :   Beta Sheet, Engineered Protein, De Novo Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. Makabe, D. Mcelheny, V. Tereshko, A. Hilyard, G. Gawlak, S. Yan, A. Koide, S. Koide
Atomic Structures Of Peptide Self-Assembly Mimics.
Proc. Natl. Acad. Sci. Usa V. 103 17753 2006
PubMed-ID: 17093048 | Reference-DOI: 10.1073/PNAS.0606690103

Molecule 1 - OUTER SURFACE PROTEIN A
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Mutation	:	YES
	Organism Common	:	LYME DISEASE SPIROCHETE
	Organism Scientific	:	BORRELIELLA BURGDORFERI
	Organism Taxid	:	139

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 1)

No.	Name	Count	Type	Full Name
1	PG4	1	Ligand/Ion	TETRAETHYLENE GLYCOL

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:191 , GLU A:193 , LYS A:204 , ILE A:206	BINDING SITE FOR RESIDUE PG4 A 801

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

Asymmetric/Biological Unit

No.	Residues
1	Asp A:49	-	Gly A:50

Asymmetric/Biological Unit (10, 10)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
01	UniProt	VAR_OSPA_BORBU_001 *	P	35	S	OSPA_BORBU	---	---	A	P	35	S
02	UniProt	VAR_OSPA_BORBU_002 *	K	39	N	OSPA_BORBU	---	---	A	K	39	N
03	UniProt	VAR_OSPA_BORBU_003 *	D	59	H	OSPA_BORBU	---	---	A	D	59	H
04	UniProt	VAR_OSPA_BORBU_004 *	I	90	V	OSPA_BORBU	---	---	A	I	90	V
05	UniProt	VAR_OSPA_BORBU_005 *	V	114	A	OSPA_BORBU	---	---	A	V	114	A
06	UniProt	VAR_OSPA_BORBU_006 *	N	127	S	OSPA_BORBU	---	---	A	N	127	S
07	UniProt	VAR_OSPA_BORBU_007 *	R	144	K	OSPA_BORBU	---	---	A	R	213	K
08	UniProt	VAR_OSPA_BORBU_008 *	G	149	E	OSPA_BORBU	---	---	A	G	218	E
09	UniProt	VAR_OSPA_BORBU_009 *	G	164	S	OSPA_BORBU	---	---	A	G	233	S
10	UniProt	VAR_OSPA_BORBU_010 *	E	196	A	OSPA_BORBU	---	---	A	E	265	A
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

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

(no "Exon" information available for 2HKD)

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:315
 aligned with D0VWU8_BORBG | D0VWU8 from UniProtKB/TrEMBL  Length:320

    Alignment length:315
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315     
         D0VWU8_BORBG     6 NSVSVDLPGSMKVLVSKSSNADGKYDLIATVDALELSGTSDKNNGSGVLEGVKADASKVKLTISDDLGQTTLEVFKSDGSTLVSKKVTSKDKSSTYELFNEKGELSLKYITRADKSSTYELFNEKGELSLKYITRADKSSTYELFNEKGELSEKKITRADKSSTYELFNEKGELSLKYITRADGTRLEYTGIKSDGSGKAKEVLKGYVLEGTLTAEKTTLVVKEGTVTLSKNISKSGEVSVELNDTDSSAATKKTAAWNSGTSTLTITVNSKKTKDLVFTSSNTITVQQYDSNGTSLEGSAVEITKLDEIKNALK 320
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee........eeeeeee..eeeeeee......eeeeee.....eeeeee.....eeeeeee......eeeeeeee....eeeeee.....eeeeeee.....eeeeee.....eeeeeee.....eeeeee.....eeeeeee.....eeeeee.....eeeeeee.....eeeee.......eeeeeee..eeeeeee....eeeeeee..eeeeeee.....eeeeeee........eeeeee....eeeeee..eeeeeeee.....eeeee............ee..hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------S---N-------------------H------------------------------V-----------------------A------------S-------------------------------------------------------------------------------------K----E--------------S-------------------------------A----------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2hkd A  28 NSVSVDLPGSMKVLVSKSSNADGKYDLIATVDALELSGTSDKNNGSGVLEGVKADASKVKLTISDDLGQTTLEVFKSDGSTLVSKKVTSKDKSSTEEKFNEKGELSEKKITRADKSSTEEKFNEKGELSEKKITRADKSSTEEKFNEKGELSEKKITRADKSSTEEKFNEKGEVSEKIITRADGTRLEYTGIKSDGSGKAKEVLKGYVLEGTLTAEKTTLVVKEGTVTLSKNISKSGEVSVELNDTDSSAATKKTAAWNSGTSTLTITVNSKKTKDLVFTSSNTITVQQYDSNGTSLEGSAVEITKLDEIKNALK 342
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337

Chain A from PDB  Type:PROTEIN  Length:315
 aligned with OSPA_BORBU | P0CL66 from UniProtKB/Swiss-Prot  Length:273

    Alignment length:315
                                                                                                                                130                                                                   131                                                                                                                                              
                                    37        47        57        67        77        87        97       107       117       127  |      -         -         -         -         -         -         -  |    138       148       158       168       178       188       198       208       218       228       238       248       258       268     
           OSPA_BORBU    28 NSVSVDLPGEMKVLVSKEKNKDGKYDLIATVDKLELKGTSDKNNGSGVLEGVKADKSKVKLTISDDLGQTTLEVFKEDGKTLVSKKVTSKDKSSTEEKFNEKG---------------------------------------------------------------------EVSEKIITRADGTRLEYTGIKSDGSGKAKEVLKGYVLEGTLTAEKTTLVVKEGTVTLSKNISKSGEVSVELNDTDSSAATKKTAAWNSGTSTLTITVNSKKTKDLVFTKENTITVQQYDSNGTKLEGSAVEITKLDEIKNALK 273
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeee........eeeeeee..eeeeeee......eeeeee.....eeeeee.....eeeeeee......eeeeeeee....eeeeee.....eeeeeee.....eeeeee.....eeeeeee.....eeeeee.....eeeeeee.....eeeeee.....eeeeeee.....eeeee.......eeeeeee..eeeeeee....eeeeeee..eeeeeee.....eeeeeee........eeeeee....eeeeee..eeeeeeee.....eeeee............ee..hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------S---N-------------------H------------------------------V-----------------------A------------S-------------------------------------------------------------------------------------K----E--------------S-------------------------------A----------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2hkd A  28 NSVSVDLPGSMKVLVSKSSNADGKYDLIATVDALELSGTSDKNNGSGVLEGVKADASKVKLTISDDLGQTTLEVFKSDGSTLVSKKVTSKDKSSTEEKFNEKGELSEKKITRADKSSTEEKFNEKGELSEKKITRADKSSTEEKFNEKGELSEKKITRADKSSTEEKFNEKGEVSEKIITRADGTRLEYTGIKSDGSGKAKEVLKGYVLEGTLTAEKTTLVVKEGTVTLSKNISKSGEVSVELNDTDSSAATKKTAAWNSGTSTLTITVNSKKTKDLVFTSSNTITVQQYDSNGTSLEGSAVEITKLDEIKNALK 342
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337

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 2HKD)

(no "CATH Domain" information available for 2HKD)

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (OSPA_BORBU | P0CL66)

cellular component
	GO:0009279		cell outer membrane		A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.
	GO:0016020		membrane		A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Chain A (D0VWU8_BORBG | D0VWU8)

cellular component
	GO:0009279		cell outer membrane		A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.

Asymmetric/Biological Unit
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	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Asp A:49 - Gly A:50	[ RasMol ]

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	2hkd
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		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
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	D0VWU8_BORBG \| D0VWU8
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		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt
	OSPA_BORBU \| P0CL66
		Comparative Protein Structure Models	:	ModBase
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		Disease Information	:	OMIM

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		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
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	D0VWU8_BORBG \| D0VWU8
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	OSPA_BORBU \| P0CL66
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	OSPA_BORBU \| P0CL66	:	1fj1 1osp 2af5 2fkg 2fkj 2g8c 2i5v 2i5z 2ol6 2ol7 2ol8 2oy1 2oy5 2oy7 2oy8 2oyb 2pi3 3aum 5b10 5b11
UniProtKB/TrEMBL
	D0VWU8_BORBG \| D0VWU8	:	2oy8 3ec5

(no "Related Entries Specified in the PDB File" available for 2HKD)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 1)

Sites (1, 1)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (10, 10)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (2, 4)

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Databases

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Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File