1NRZ - JenaLib

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Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Biological Unit 5 (Jmol Viewer)

Biological Unit 6 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE IIBSOR DOMAIN OF THE SORBOSE PERMEASE FROM KLEBSIELLA PNEUMONIAE SOLVED TO 1.75A RESOLUTION

Authors :   G. L. Orriss, B. Erni, T. Schirmer

Date :   27 Jan 03 (Deposition) - 22 Apr 03 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.75

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)
Biol. Unit 5: A,B  (1x)
Biol. Unit 6: C,D  (1x)

Keywords :   Beta Sheet Core, Flanking Helices, Right Handed Beta-Alpha-Beta Crossover, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. L. Orriss, B. Erni, T. Schirmer
Crystal Structure Of The Iibsor Domain Of The Sorbose Permease From Klebsiella Pneumoniae Solved To 1. 75A Resolution
J. Mol. Biol. V. 327 1111 2003
PubMed-ID: 12662934 | Reference-DOI: 10.1016/S0022-2836(03)00215-8

Molecule 1 - PTS SYSTEM, SORBOSE-SPECIFIC IIB COMPONENT
	Chains	:	A, B, C, D
	EC Number	:	2.7.1.69
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMSFBAM470
	Expression System Strain	:	WA2127DELTAG
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	SORB
	Organism Scientific	:	KLEBSIELLA PNEUMONIAE
	Organism Taxid	:	573
	Synonym	:	EIIB-SOR, SORBOSE-PERMEASE IIB COMPONENT, PHOSPHOTRANSFERASE ENZYME II, B COMPONENT, EIII-B-SOR

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D
Biological Unit 5 (1x)	:	A	B
Biological Unit 6 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	SO4	4	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 2 (0, 0)

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

Biological Unit 3 (1, 1)

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

Biological Unit 4 (1, 1)

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

Biological Unit 5 (1, 2)

No.	Name	Count	Type	Full Name
1	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 6 (1, 2)

No.	Name	Count	Type	Full Name
1	SO4	2	Ligand/Ion	SULFATE ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:12 , ARG A:44 , HOH A:2285 , ALA B:109 , TRP B:110 , HOH B:167	BINDING SITE FOR RESIDUE SO4 A 1165
2	AC2	SOFTWARE	ALA A:109 , TRP A:110 , HOH A:2167 , HOH A:2184 , HOH A:2193 , HOH A:2277 , ARG B:12 , ARG B:44 , HOH B:174	BINDING SITE FOR RESIDUE SO4 A 2165
3	AC3	SOFTWARE	ARG C:12 , ARG C:44 , HOH C:4234 , ALA D:109 , TRP D:110 , HOH D:3167 , HOH D:3173	BINDING SITE FOR RESIDUE SO4 D 3165
4	AC4	SOFTWARE	ALA C:109 , TRP C:110 , HOH C:4214 , ARG D:44 , HOH D:3219	BINDING SITE FOR RESIDUE SO4 C 4165

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

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

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

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PTS_EIIB_TYPE_4	PS51101	PTS_EIIB type-4 domain profile.	PTRB_KLEPN	1-164	4	A:2-164 B:2-164 C:2-164 D:2-164

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PTS_EIIB_TYPE_4	PS51101	PTS_EIIB type-4 domain profile.	PTRB_KLEPN	1-164	1	A:2-164 - - -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PTS_EIIB_TYPE_4	PS51101	PTS_EIIB type-4 domain profile.	PTRB_KLEPN	1-164	1	- B:2-164 - -

Biological Unit 3 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PTS_EIIB_TYPE_4	PS51101	PTS_EIIB type-4 domain profile.	PTRB_KLEPN	1-164	1	- - C:2-164 -

Biological Unit 4 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PTS_EIIB_TYPE_4	PS51101	PTS_EIIB type-4 domain profile.	PTRB_KLEPN	1-164	1	- - - D:2-164

Biological Unit 5 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PTS_EIIB_TYPE_4	PS51101	PTS_EIIB type-4 domain profile.	PTRB_KLEPN	1-164	2	A:2-164 B:2-164 - -

Biological Unit 6 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PTS_EIIB_TYPE_4	PS51101	PTS_EIIB type-4 domain profile.	PTRB_KLEPN	1-164	2	- - C:2-164 D:2-164

(no "Exon" information available for 1NRZ)

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:163
 aligned with PTRB_KLEPN | P37081 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:163
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160   
           PTRB_KLEPN     1 MQITLARIDDRLIHGQVTTVWSKVANAQRIIICNDDVFNDEVRRTLLRQAAPPGMKVNVVSLEKAVAVYHNPQYQDETVFYLFTNPHDVLTMVRQGVQIATLNIGGMAWRPGKKQLTKAVSLDPQDIQAFRELDKLGVKLDLRVVASDPSVNILDKINETAFC 163
               SCOP domains d1nrza_ A: Sorbose permease subunit IIb , EIIb-sor                                                                                                                  SCOP domains
               CATH domains 1nrzA00 A:2-164 Fructose Permease                                                                                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee....hhhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhh......eeeeee.......eeee..eeehhhhhhhhhhhhhh..eeee.........hhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE PTS_EIIB_TYPE_4  PDB: A:2-164 UniProt: 1-164                                                                                                                        PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nrz A   2 MQITLARIDDRLIHGQVTTVWSKVANAQRIIICNDDVFNDEVRRTLLRQAAPPGMKVNVVSLEKAVAVYHNPQYQDETVFYLFTNPHDVLTMVRQGVQIATLNIGGMAWRPGKKQLTKAVSLDPQDIQAFRELDKLGVKLDLRVVASDPSVNILDKINETAFC 164
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161

Chain B from PDB  Type:PROTEIN  Length:163
 aligned with PTRB_KLEPN | P37081 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:163
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160   
           PTRB_KLEPN     1 MQITLARIDDRLIHGQVTTVWSKVANAQRIIICNDDVFNDEVRRTLLRQAAPPGMKVNVVSLEKAVAVYHNPQYQDETVFYLFTNPHDVLTMVRQGVQIATLNIGGMAWRPGKKQLTKAVSLDPQDIQAFRELDKLGVKLDLRVVASDPSVNILDKINETAFC 163
               SCOP domains d1nrzb_ B: Sorbose permease subunit IIb , EIIb-sor                                                                                                                  SCOP domains
               CATH domains 1nrzB00 B:2-164 Fructose Permease                                                                                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.....hhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhh......eeeeee.......eeee..eeehhhhhhhhhhhhhh..eeee........eehhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE PTS_EIIB_TYPE_4  PDB: B:2-164 UniProt: 1-164                                                                                                                        PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nrz B   2 MQITLARIDDRLIHGQVTTVWSKVANAQRIIICNDDVFNDEVRRTLLRQAAPPGMKVNVVSLEKAVAVYHNPQYQDETVFYLFTNPHDVLTMVRQGVQIATLNIGGMAWRPGKKQLTKAVSLDPQDIQAFRELDKLGVKLDLRVVASDPSVNILDKINETAFC 164
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161

Chain C from PDB  Type:PROTEIN  Length:163
 aligned with PTRB_KLEPN | P37081 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:163
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160   
           PTRB_KLEPN     1 MQITLARIDDRLIHGQVTTVWSKVANAQRIIICNDDVFNDEVRRTLLRQAAPPGMKVNVVSLEKAVAVYHNPQYQDETVFYLFTNPHDVLTMVRQGVQIATLNIGGMAWRPGKKQLTKAVSLDPQDIQAFRELDKLGVKLDLRVVASDPSVNILDKINETAFC 163
               SCOP domains d1nrzc_ C: Sorbose permease subunit IIb , EIIb-sor                                                                                                                  SCOP domains
               CATH domains 1nrzC00 C:2-164 Fructose Permease                                                                                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.....hhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhh......eeeeee.......ee.....eehhhhhhhhhhhhhh..eeee.........hhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE PTS_EIIB_TYPE_4  PDB: C:2-164 UniProt: 1-164                                                                                                                        PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nrz C   2 MQITLARIDDRLIHGQVTTVWSKVANAQRIIICNDDVFNDEVRRTLLRQAAPPGMKVNVVSLEKAVAVYHNPQYQDETVFYLFTNPHDVLTMVRQGVQIATLNIGGMAWRPGKKQLTKAVSLDPQDIQAFRELDKLGVKLDLRVVASDPSVNILDKINETAFC 164
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161

Chain D from PDB  Type:PROTEIN  Length:163
 aligned with PTRB_KLEPN | P37081 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:163
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160   
           PTRB_KLEPN     1 MQITLARIDDRLIHGQVTTVWSKVANAQRIIICNDDVFNDEVRRTLLRQAAPPGMKVNVVSLEKAVAVYHNPQYQDETVFYLFTNPHDVLTMVRQGVQIATLNIGGMAWRPGKKQLTKAVSLDPQDIQAFRELDKLGVKLDLRVVASDPSVNILDKINETAFC 163
               SCOP domains d1nrzd_ D: Sorbose permease subunit IIb , EIIb-sor                                                                                                                  SCOP domains
               CATH domains 1nrzD00 D:2-164 Fructose Permease                                                                                                                                   CATH domains
           Pfam domains (1) -PTSIIB_sorb-1nrzD01 D:3-153                                                                                                                            ----------- Pfam domains (1)
           Pfam domains (2) -PTSIIB_sorb-1nrzD02 D:3-153                                                                                                                            ----------- Pfam domains (2)
           Pfam domains (3) -PTSIIB_sorb-1nrzD03 D:3-153                                                                                                                            ----------- Pfam domains (3)
           Pfam domains (4) -PTSIIB_sorb-1nrzD04 D:3-153                                                                                                                            ----------- Pfam domains (4)
         Sec.struct. author .eeeeeeee.....hhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhh......eeeeee.......eeee..eeehhhhhhhhhhhhhh..eeee........eehhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE PTS_EIIB_TYPE_4  PDB: D:2-164 UniProt: 1-164                                                                                                                        PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1nrz D   2 MQITLARIDDRLIHGQVTTVWSKVANAQRIIICNDDVFNDEVRRTLLRQAAPPGMKVNVVSLEKAVAVYHNPQYQDETVFYLFTNPHDVLTMVRQGVQIATLNIGGMAWRPGKKQLTKAVSLDPQDIQAFRELDKLGVKLDLRVVASDPSVNILDKINETAFC 164
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161

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) (23833)

Fold: PTS IIb component (9)

Superfamily: PTS IIb component (9)

Family: PTS IIb component (2)

Protein domain: Sorbose permease subunit IIb , EIIb-sor (1)

Klebsiella pneumoniae [TaxId: 573] (1)

1a	d1nrza_	A:
1b	d1nrzb_	B:
1c	d1nrzc_	C:
1d	d1nrzd_	D:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

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

Topology: Fructose Permease (6)

Homologous Superfamily: Fructose Permease (6)

Klebsiella pneumoniae. Organism_taxid: 573. (1)

1a	1nrzA00	A:2-164
1b	1nrzB00	B:2-164
1c	1nrzC00	C:2-164
1d	1nrzD00	D:2-164

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: PTSIIB_sorb] (6)

Family: PTSIIB_sorb (6)

Klebsiella pneumoniae (1)

1a	PTSIIB_sorb-1nrzD01	D:3-153
1b	PTSIIB_sorb-1nrzD02	D:3-153
1c	PTSIIB_sorb-1nrzD03	D:3-153
1d	PTSIIB_sorb-1nrzD04	D:3-153

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (PTRB_KLEPN | P37081)

molecular function
	GO:0016301	kinase activity	Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
	GO:0008982	protein-N(PI)-phosphohistidine-sugar phosphotransferase activity	Catalysis of the PEP-dependent, phosphoryl transfer-driven transport of substances across a membrane. The transport happens by catalysis of the reaction: protein N-phosphohistidine + sugar(out) = protein histidine + sugar phosphate(in). This differs from primary and secondary active transport in that the solute is modified during transport.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0034219	carbohydrate transmembrane transport	The process in which a carbohydrate is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
	GO:0008643	carbohydrate transport	The directed movement of carbohydrate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Carbohydrates are any of a group of organic compounds based of the general formula Cx(H2O)y.
	GO:0009401	phosphoenolpyruvate-dependent sugar phosphotransferase system	The uptake and phosphorylation of specific carbohydrates from the extracellular environment; uptake and phosphorylation are coupled, making the PTS a link between the uptake and metabolism of sugars; phosphoenolpyruvate is the original phosphate donor; phosphoenolpyruvate passes the phosphate via a signal transduction pathway, to enzyme 1 (E1), which in turn passes it on to the histidine protein, HPr; the next step in the system involves sugar-specific membrane-bound complex, enzyme 2 (EII), which transports the sugar into the cell; it includes the sugar permease, which catalyzes the transport reactions; EII is usually divided into three different domains, EIIA, EIIB, and EIIC.
	GO:0016310	phosphorylation	The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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1ble	THE HOMOLOGOUS IIBLEV DOMAIN OF THE FRUCTOSE PERMEASE FROM BACILLUS SUBTILIS

Description

Compounds

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Ligands, Modified Residues, Ions (1, 4)

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