1XKP - JenaLib

Molecule 1 - PUTATIVE MEMBRANE-BOUND YOP TARGETING PROTEIN YOPN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PDEST42
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 32-277
	Gene	:	YOPN
	Mutation	:	YES
	Organism Scientific	:	YERSINIA PESTIS
	Organism Taxid	:	632

Molecule 2 - CHAPERONE PROTEIN SYCN
	Chains	:	B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PDEST42
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	SYCN
	Mutation	:	YES
	Organism Scientific	:	YERSINIA PESTIS
	Organism Taxid	:	632

Molecule 3 - CHAPERONE PROTEIN YSCB
	Chains	:	C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PDEST42
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	YSCB
	Mutation	:	YES
	Organism Scientific	:	YERSINIA PESTIS
	Organism Taxid	:	632
	Synonym	:	YOP PROTEINS TRANSLOCATION PROTEIN B

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 21)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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:231
 aligned with YOPN_YERPE | P68640 from UniProtKB/Swiss-Prot  Length:293

    Alignment length:238
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261        
           YOPN_YERPE    32 GQFRGESVQIVSGTLQSIADMAEEVTFVFSERKELSLDKRKLSDSQARVSDVEEQVNQYLSKVPELEQKQNVSELLSLLSNSPNISLSQLKAYLEGKSEEPSEQFKMLCGLRDALKGRPELAHLSHLVEQALVSMAEEQGETIVLGARITPEAYRESQSGVNPLQPLRDTYRDAVMGYQGIYAIWSDLQKRFPNGDIDSVILFLQKALSADLQSQQSGSGREKLGIVISDLQKLKEFG 269
               SCOP domains -----------------------------------------d1xkpa1 A:73-269 Outer membrane protein yopN (LcrE)                                                                                                                                                   SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------H       rpJ-1xkpA01 A:57-223                                                                                                                                           ---------------------------------------------- Pfam domains
         Sec.struct. author .ee..eeeeee.....hhhhhhhhhh-------..hhhhh.eeehhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh.....hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh..hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xkp A  32 xQFRGESVQIVSGTLQSIADMAEEVT-------ELSLDkRkLSDSQARVSDVEEQVNQYLSkVPELEQkQNVSELLSLLSNSPNISLSQLkAYLEGkSEEPSEQFkMLCGLRDALkGRPELAHLSHLVEQALVSMAEEQGETIVLGARITPEAYRESQSGVNPLQPLRDTYRDAVMGYQGIYAIWSDLQkRFPNGDIDSVILFLQkALSADLQSQQSGSGREkLGIVISDLQkLkEFG 269
                            |       41        51     |   -   |    71|       81        91 |     101       111       121|     |131     | 141     | 151       161       171       181       191       201       211       221       231     | 241       251  |    261  | |   
                           32-DMG                   57      65    | |                   93-MLY  |                   122-MLY |      137-MLY   147-MLY                                                                   221-MLY         237-MLY          254-MLY   264-MLY 
                                                                 70-MLY                       100-MLY                     128-MLY                                                                                                                                   266-MLY
                                                                   72-MLY

Chain B from PDB  Type:PROTEIN  Length:121
 aligned with SYCN_YERPE | P61380 from UniProtKB/Swiss-Prot  Length:123

    Alignment length:121
                                    11        21        31        41        51        61        71        81        91       101       111       121 
           SYCN_YERPE     2 SWIEPIISHFCQDLGVPTSSPLSPLIQLEMAQSGTLQLEQHGATLTLWLARSLAWHRCEDAMVKALTLTAAQKSGALPLRAGWLGESQLVLFVSLDERSLTLPLLHQAFEQLLRLQQEVLA 122
               SCOP domains d1xkpb1 B:2-122 Chaperone protein SycN                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhh..........eeeeee...eeeeeeee..eeeeeeeee.hhhhhhhhhhhhhhhhhhhhh.....eeeee...eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xkp B   2 SWIEPIISHFCQDLGVPTSSPLSPLIQLEMAQSGTLQLEQHGATLTLWLARSLAWHRCEDAMVkALTLTAAQkSGALPLRAGWLGESQLVLFVSLDERSLTLPLLHQAFEQLLRLQQEVLA 122
                                    11        21        31        41        51        61   |    71  |     81        91       101       111       121 
                                                                                          65-MLY   74-MLY

Chain C from PDB  Type:PROTEIN  Length:126
 aligned with YSCB_YERPE | Q56973 from UniProtKB/Swiss-Prot  Length:137

    Alignment length:126
                                    11        21        31        41        51        61        71        81        91       101       111       121      
           YSCB_YERPE     2 QNLLKNLAASLGRKPFVADKQGVYRLTIDKHLVMLAPHGSELVLRTPIDAPMLREGNNVNVTLLRSLMQQALAWAKRYPQTLVLDDCGQLVLEARLRLQELDTHGLQEVINKQLALLEHLIPQLTP 127
               SCOP domains d1xkpc1 C:2-127 Chaperone protein YscB                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains -CesT-1xkpC01 C:3-122                                                                                                    ----- Pfam domains
         Sec.struct. author hhhhhhhhhhh............eeeee..eeeeeeee..eeeeeee..hhh.ee..eehhhhhhhhhhhhhhhh.....eeee.....eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1xkp C   2 QNLLkNLAASLGRkPFVADkQGVYRLTIDkHLVMLAPHGSELVLRTPIDAPMLREGNNVNVTLLRSLMQQALAWAKRYPQTLVLDDCGQLVLEARLRLQELDTHGLQEVINkQLALLEHLIPQLTP 127
                                |   11   |    21        31        41        51        61        71        81        91       101       111 |     121      
                                6-MLY   15-MLY |        31-MLY                                                                           113-MLY          
                                              21-MLY

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 (3, 3)

CATH Domains (0, 0)

Pfam Domains (2, 2)

Gene Ontology (12, 16)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (YOPN_YERPE | P68640)

biological process
	GO:0050709	negative regulation of protein secretion	Any process that stops, prevents, or reduces the frequency, rate or extent of the controlled release of a protein from a cell.
	GO:0009405	pathogenesis	The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
	GO:0030254	protein secretion by the type III secretion system	The process in which proteins are transferred into the extracellular milieu or directly into host cells by the bacterial type III secretion system; secretion occurs in a continuous process without the distinct presence of periplasmic intermediates and does not involve proteolytic processing of secreted proteins.
	GO:0046903	secretion	The controlled release of a substance by a cell or a tissue.
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:0009986	cell surface	The external part of the cell wall and/or plasma membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0019867	outer membrane	The external membrane of Gram-negative bacteria or certain organelles such as mitochondria and chloroplasts; freely permeable to most ions and metabolites.

Chain B (SYCN_YERPE | P61380)

biological process
	GO:0009306	protein secretion	The controlled release of proteins from a cell.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Chain C (YSCB_YERPE | Q56973)

biological process
	GO:0050708	regulation of protein secretion	Any process that modulates the frequency, rate or extent of the controlled release of a protein from a cell.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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Access by PDB/NDB ID
	1xkp
		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)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	SYCN_YERPE \| P61380
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt
	YOPN_YERPE \| P68640
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt
	YSCB_YERPE \| Q56973
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

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		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

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		Disease Information	:	OMIM

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		Age Related Information	:	GenAge

Description

Compounds