1LSS - JenaLib

Asymmetric Unit (Jmol Viewer)

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)

Title :   KTN MJA218 CRYSTAL STRUCTURE IN COMPLEX WITH NAD+

Authors :   T. P. Roosild, S. Miller, I. R. Booth, S. Choe

Date :   18 May 02 (Deposition) - 03 Jul 02 (Release) - 12 Nov 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

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

Keywords :   Ktn Domain, Nad, Rck Domain, Potassium Transport, Potassium Channel, Ktra, Rossmann Fold, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. P. Roosild, S. Miller, I. R. Booth, S. Choe
A Mechanism Of Regulating Transmembrane Potassium Flux Through A Ligand-Mediated Conformational Switch.
Cell(Cambridge, Mass. ) V. 109 781 2002
PubMed-ID: 12086676 | Reference-DOI: 10.1016/S0092-8674(02)00768-7

Molecule 1 - TRK SYSTEM POTASSIUM UPTAKE PROTEIN TRKA HOMOLOG
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PHIS8
	Expression System Strain	:	BL-21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Fragment	:	KTN DOMAIN, RESIDUES 1-136
	Gene	:	KTRA
	Organism Scientific	:	METHANOCALDOCOCCUS JANNASCHII
	Organism Taxid	:	2190
	Synonym	:	K(+)-UPTAKE PROTEIN TRKA HOMOLOG

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	NAD	4	Ligand/Ion	NICOTINAMIDE-ADENINE-DINUCLEOTIDE

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	NAD	2	Ligand/Ion	NICOTINAMIDE-ADENINE-DINUCLEOTIDE

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	NAD	2	Ligand/Ion	NICOTINAMIDE-ADENINE-DINUCLEOTIDE

Biological Unit 3 (1, 8)

No.	Name	Count	Type	Full Name
1	NAD	8	Ligand/Ion	NICOTINAMIDE-ADENINE-DINUCLEOTIDE

Biological Unit 4 (1, 4)

No.	Name	Count	Type	Full Name
1	NAD	4	Ligand/Ion	NICOTINAMIDE-ADENINE-DINUCLEOTIDE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:7 , GLY A:9 , ARG A:10 , VAL A:11 , ASP A:30 , ILE A:31 , ASP A:51 , CYS A:52 , THR A:73 , GLY A:74 , ARG A:97 , HOH A:2005 , HOH A:2219 , HOH A:2224 , HOH A:2303 , HOH A:2339 , SER B:99	BINDING SITE FOR RESIDUE NAD A 1001
2	AC2	SOFTWARE	SER A:99 , HOH A:2339 , GLY B:7 , GLY B:9 , ARG B:10 , VAL B:11 , ASP B:30 , ILE B:31 , ASP B:32 , ILE B:35 , ASP B:51 , VAL B:72 , THR B:73 , GLY B:74 , LYS B:75 , ARG B:97 , HOH B:2001 , HOH B:2022 , HOH B:2076 , HOH B:2101 , HOH B:2283 , HOH C:2039	BINDING SITE FOR RESIDUE NAD B 1002
3	AC3	SOFTWARE	GLY C:7 , GLY C:9 , ARG C:10 , VAL C:11 , ASP C:30 , ILE C:31 , ILE C:35 , ASP C:51 , CYS C:52 , VAL C:72 , THR C:73 , GLY C:74 , VAL C:78 , ARG C:97 , HOH C:2046 , HOH C:2087 , HOH C:2182 , HOH C:2254 , HOH C:2330 , SER D:99 , NAD D:1004	BINDING SITE FOR RESIDUE NAD C 1003
4	AC4	SOFTWARE	LYS A:54 , NAD C:1003 , GLY D:7 , GLY D:9 , ARG D:10 , ASP D:30 , ILE D:31 , ASP D:32 , ASP D:51 , CYS D:52 , THR D:73 , GLY D:74 , ARG D:97 , HOH D:2060 , HOH D:2103 , HOH D:2154 , HOH D:2361	BINDING SITE FOR RESIDUE NAD D 1004

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

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

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

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RCK_N	PS51201	RCK N-terminal domain profile.	TRKA_METJA	2-124	4	A:2-124 B:2-124 C:2-124 D:2-124

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RCK_N	PS51201	RCK N-terminal domain profile.	TRKA_METJA	2-124	2	A:2-124 B:2-124 - -

Biological Unit 2 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RCK_N	PS51201	RCK N-terminal domain profile.	TRKA_METJA	2-124	2	- - C:2-124 D:2-124

Biological Unit 3 (1, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RCK_N	PS51201	RCK N-terminal domain profile.	TRKA_METJA	2-124	8	A:2-124 B:2-124 C:2-124 D:2-124

Biological Unit 4 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RCK_N	PS51201	RCK N-terminal domain profile.	TRKA_METJA	2-124	4	A:2-124 B:2-124 C:2-124 D:2-124

(no "Exon" information available for 1LSS)

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:132
 aligned with TRKA_METJA | Q58505 from UniProtKB/Swiss-Prot  Length:218

    Alignment length:132
                                    10        20        30        40        50        60        70        80        90       100       110       120       130  
           TRKA_METJA     1 MYIIIAGIGRVGYTLAKSLSEKGHDIVLIDIDKDICKKASAEIDALVINGDCTKIKTLEDAGIEDADMYIAVTGKEEVNLMSSLLAKSYGINKTIARISEIEYKDVFERLGVDVVVSPELIAANYIEKLIER 132
               SCOP domains d1lssa_ A: Ktn Mja218                                                                                                                SCOP domains
               CATH domains 1lssA00 A:1-132 NAD(P)-binding Rossmann-like Domain                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhh..eeee....hhhhhhhh......eeee...hhhhhhhhhhhhhhh....eeee....hhhhhhhhh...eeehhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -RCK_N  PDB: A:2-124 UniProt: 2-124                                                                                         -------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1lss A   1 MYIIIAGIGRVGYTLAKSLSEKGHDIVLIDIDKDICKKASAEIDALVINGDCTKIKTLEDAGIEDADMYIAVTGKEEVNLMSSLLAKSYGINKTIARISEIEYKDVFERLGVDVVVSPELIAANYIEKLIER 132
                                    10        20        30        40        50        60        70        80        90       100       110       120       130

Chain B from PDB  Type:PROTEIN  Length:132
 aligned with TRKA_METJA | Q58505 from UniProtKB/Swiss-Prot  Length:218

    Alignment length:132
                                    10        20        30        40        50        60        70        80        90       100       110       120       130  
           TRKA_METJA     1 MYIIIAGIGRVGYTLAKSLSEKGHDIVLIDIDKDICKKASAEIDALVINGDCTKIKTLEDAGIEDADMYIAVTGKEEVNLMSSLLAKSYGINKTIARISEIEYKDVFERLGVDVVVSPELIAANYIEKLIER 132
               SCOP domains d1lssb_ B: Ktn Mja218                                                                                                                SCOP domains
               CATH domains 1lssB00 B:1-132 NAD(P)-binding Rossmann-like Domain                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee....hhhhhhhhhhhh...eeeee.hhhhhhhhhhhh..eeee....hhhhhhhh......eeee...hhhhhhhhhhhhhhh....eeee..hhhhhhhhhhh...eeehhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -RCK_N  PDB: B:2-124 UniProt: 2-124                                                                                         -------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1lss B   1 MYIIIAGIGRVGYTLAKSLSEKGHDIVLIDIDKDICKKASAEIDALVINGDCTKIKTLEDAGIEDADMYIAVTGKEEVNLMSSLLAKSYGINKTIARISEIEYKDVFERLGVDVVVSPELIAANYIEKLIER 132
                                    10        20        30        40        50        60        70        80        90       100       110       120       130

Chain C from PDB  Type:PROTEIN  Length:132
 aligned with TRKA_METJA | Q58505 from UniProtKB/Swiss-Prot  Length:218

    Alignment length:132
                                    10        20        30        40        50        60        70        80        90       100       110       120       130  
           TRKA_METJA     1 MYIIIAGIGRVGYTLAKSLSEKGHDIVLIDIDKDICKKASAEIDALVINGDCTKIKTLEDAGIEDADMYIAVTGKEEVNLMSSLLAKSYGINKTIARISEIEYKDVFERLGVDVVVSPELIAANYIEKLIER 132
               SCOP domains d1lssc_ C: Ktn Mja218                                                                                                                SCOP domains
               CATH domains 1lssC00 C:1-132 NAD(P)-binding Rossmann-like Domain                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeee....hhhhhhhhhhhh...eeeee.hhhhhhhhhhhh..eeee....hhhhhhhhhhh.eeeeee...hhhhhhhhhhhhhh....eeeee..hhhhhhhhhhh...eeehhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -RCK_N  PDB: C:2-124 UniProt: 2-124                                                                                         -------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1lss C   1 MYIIIAGIGRVGYTLAKSLSEKGHDIVLIDIDKDICKKASAEIDALVINGDCTKIKTLEDAGIEDADMYIAVTGKEEVNLMSSLLAKSYGINKTIARISEIEYKDVFERLGVDVVVSPELIAANYIEKLIER 132
                                    10        20        30        40        50        60        70        80        90       100       110       120       130

Chain D from PDB  Type:PROTEIN  Length:132
 aligned with TRKA_METJA | Q58505 from UniProtKB/Swiss-Prot  Length:218

    Alignment length:132
                                    10        20        30        40        50        60        70        80        90       100       110       120       130  
           TRKA_METJA     1 MYIIIAGIGRVGYTLAKSLSEKGHDIVLIDIDKDICKKASAEIDALVINGDCTKIKTLEDAGIEDADMYIAVTGKEEVNLMSSLLAKSYGINKTIARISEIEYKDVFERLGVDVVVSPELIAANYIEKLIER 132
               SCOP domains d1lssd_ D: Ktn Mja218                                                                                                                SCOP domains
               CATH domains 1lssD00 D:1-132 NAD(P)-binding Rossmann-like Domain                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee..hhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhh..eeee....hhhhhhhhhhhhh.eeee...hhhhhhhhhhhhhhh....eeee..hhhhhhhhhhh...eeehhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -RCK_N  PDB: D:2-124 UniProt: 2-124                                                                                         -------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1lss D   1 MYIIIAGIGRVGYTLAKSLSEKGHDIVLIDIDKDICKKASAEIDALVINGDCTKIKTLEDAGIEDADMYIAVTGKEEVNLMSSLLAKSYGINKTIARISEIEYKDVFERLGVDVVVSPELIAANYIEKLIER 132
                                    10        20        30        40        50        60        70        80        90       100       110       120       130

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: NAD(P)-binding Rossmann-fold domains (1604)

Superfamily: NAD(P)-binding Rossmann-fold domains (1604)

Family: Potassium channel NAD-binding domain (19)

Protein domain: Ktn Mja218 (1)

Methanococcus jannaschii [TaxId: 2190] (1)

1a	d1lssa_	A:
1b	d1lssb_	B:
1c	d1lssc_	C:
1d	d1lssd_	D:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

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

Topology: Rossmann fold (7312)

Homologous Superfamily: NAD(P)-binding Rossmann-like Domain (1244)

Methanocaldococcus jannaschii. Organism_taxid: 2190. (4)

1a	1lssA00	A:1-132
1b	1lssB00	B:1-132
1c	1lssC00	C:1-132
1d	1lssD00	D:1-132

(no "Pfam Domain" information available for 1LSS)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (TRKA_METJA | Q58505)

molecular function
	GO:0008324	cation transmembrane transporter activity	Enables the transfer of cation from one side of the membrane to the other.
	GO:0015079	potassium ion transmembrane transporter activity	Enables the transfer of potassium ions (K+) from one side of a membrane to the other.
biological process
	GO:0098655	cation transmembrane transport	A process in which a cation is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
	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: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.

Asymmetric Unit
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	1lss
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1lsu	KTN BSU222 CRYSTAL STRUCTURE IN COMPLEX WITH NADH

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 4)

Sites (4, 4)

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