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Asym./Biol. Unit (Jmol Viewer)

Title :   AN ANISOTROPIC MODEL FOR POTASSIUM CHANNEL KCSA

Authors :   X. Chen, B. K. Poon, A. Dousis, Q. Wang, J. Ma

Date :   02 Aug 07 (Deposition) - 25 Sep 07 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.20

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

Keywords :   Potassium Channel, Membrane Proteins, Normal-Mode Refinement, Anisotropic Thermal Factors, Metal Transport, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   X. Chen, B. K. Poon, A. Dousis, Q. Wang, J. Ma
Normal-Mode Refinement Of Anisotropic Thermal Parameters For Potassium Channel Kcsa At 3. 2 A Crystallographic Resolution
Structure V. 15 955 2007
PubMed-ID: 17698000 | Reference-DOI: 10.1016/J.STR.2007.06.012
(for further references see the PDB file header)

Molecule 1 - VOLTAGE-GATED POTASSIUM CHANNEL
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PQE60
	Expression System Strain	:	XL1-BLUE
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	KCSA, SKC1
	Organism Scientific	:	STREPTOMYCES LIVIDANS
	Organism Taxid	:	1916
	Synonym	:	POTASSIUM CHANNEL KCSA

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

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 3)

No.	Name	Count	Type	Full Name
1	K	3	Ligand/Ion	POTASSIUM ION

(no "Site" information available for 2QTO)

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

(no "Cis Peptide Bond" information available for 2QTO)

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

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

(no "Exon" information available for 2QTO)

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:97
 aligned with KCSA_STRLI | P0A334 from UniProtKB/Swiss-Prot  Length:160

    Alignment length:97
                                    32        42        52        62        72        82        92       102       112       
           KCSA_STRLI    23 ALHWRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALATWFVGREQ 119
               SCOP domains d2qtoa1 A:23-119 Potassium channel protein                                                        SCOP domains
               CATH domains 2qtoA00 A:23-119  [code=1.10.287.70, no name defined]                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------- Transcript
                 2qto A  23 ALHWRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRCVAVVVMVAGITSFGLVTAALATWFVGREQ 119
                                    32        42        52        62        72        82        92       102       112

Chain B from PDB  Type:PROTEIN  Length:97
 aligned with KCSA_STRLI | P0A334 from UniProtKB/Swiss-Prot  Length:160

    Alignment length:97
                                    32        42        52        62        72        82        92       102       112       
           KCSA_STRLI    23 ALHWRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALATWFVGREQ 119
               SCOP domains d2qtob1 B:23-119 Potassium channel protein                                                        SCOP domains
               CATH domains 2qtoB00 B:23-119  [code=1.10.287.70, no name defined]                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------- Transcript
                 2qto B  23 ALHWRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRCVAVVVMVAGITSFGLVTAALATWFVGREQ 119
                                    32        42        52        62        72        82        92       102       112

Chain C from PDB  Type:PROTEIN  Length:97
 aligned with KCSA_STRLI | P0A334 from UniProtKB/Swiss-Prot  Length:160

    Alignment length:97
                                    32        42        52        62        72        82        92       102       112       
           KCSA_STRLI    23 ALHWRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALATWFVGREQ 119
               SCOP domains d2qtoc1 C:23-119 Potassium channel protein                                                        SCOP domains
               CATH domains 2qtoC00 C:23-119  [code=1.10.287.70, no name defined]                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------- Transcript
                 2qto C  23 ALHWRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRCVAVVVMVAGITSFGLVTAALATWFVGREQ 119
                                    32        42        52        62        72        82        92       102       112

Chain D from PDB  Type:PROTEIN  Length:97
 aligned with KCSA_STRLI | P0A334 from UniProtKB/Swiss-Prot  Length:160

    Alignment length:97
                                    32        42        52        62        72        82        92       102       112       
           KCSA_STRLI    23 ALHWRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRLVAVVVMVAGITSFGLVTAALATWFVGREQ 119
               SCOP domains d2qtod1 D:23-119 Potassium channel protein                                                        SCOP domains
               CATH domains 2qtoD00 D:23-119  [code=1.10.287.70, no name defined]                                             CATH domains
           Pfam domains (1) ----------Ion_trans_2-2qtoD01 D:33-116                                                        --- Pfam domains (1)
           Pfam domains (2) ----------Ion_trans_2-2qtoD02 D:33-116                                                        --- Pfam domains (2)
           Pfam domains (3) ----------Ion_trans_2-2qtoD03 D:33-116                                                        --- Pfam domains (3)
           Pfam domains (4) ----------Ion_trans_2-2qtoD04 D:33-116                                                        --- Pfam domains (4)
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------- Transcript
                 2qto D  23 ALHWRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRCVAVVVMVAGITSFGLVTAALATWFVGREQ 119
                                    32        42        52        62        72        82        92       102       112

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: Membrane and cell surface proteins and peptides (2046)

Fold: Voltage-gated potassium channels (62)

Superfamily: Voltage-gated potassium channels (62)

Family: Voltage-gated potassium channels (61)

Protein domain: Potassium channel protein (37)

Streptomyces lividans [TaxId: 1916] (20)

1a	d2qtoa1	A:23-119
1b	d2qtob1	B:23-119
1c	d2qtoc1	C:23-119
1d	d2qtod1	D:23-119

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Helix Hairpins (718)

Homologous Superfamily: [code=1.10.287.70, no name defined] (106)

Streptomyces lividans. Organism_taxid: 1916. (3)

1a	2qtoA00	A:23-119
1b	2qtoB00	B:23-119
1c	2qtoC00	C:23-119
1d	2qtoD00	D:23-119

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Ion_channel (150)

Family: Ion_trans_2 (35)

Streptomyces lividans (16)

1a	Ion_trans_2-2qtoD01	D:33-116
1b	Ion_trans_2-2qtoD02	D:33-116
1c	Ion_trans_2-2qtoD03	D:33-116
1d	Ion_trans_2-2qtoD04	D:33-116

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D (KCSA_STRLI | P0A334)

molecular function
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0005249	voltage-gated potassium channel activity	Enables the transmembrane transfer of a potassium ion by a voltage-gated channel. A voltage-gated channel is a channel whose open state is dependent on the voltage across the membrane in which it is embedded.
biological process
	GO:0006811	ion transport	The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0071805	potassium ion transmembrane transport	A process in which a potassium ion is transported from one side of a membrane to the other.
	GO:0006813	potassium ion transport	The directed movement of potassium ions (K+) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	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:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	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.
	GO:0008076	voltage-gated potassium channel complex	A protein complex that forms a transmembrane channel through which potassium ions may cross a cell membrane in response to changes in membrane potential.

Asymmetric/Biological Unit
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1bl8	THIS IS THE NEWLY REFINED MODEL OF 1BL8 THAT WAS IMPROVED BY USING A NEW NORMAL-MODE BASED REFINEMENT METHOD

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