2AZ3 - 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)

Title :   STRUCTURE OF A HALOPHILIC NUCLEOSIDE DIPHOSPHATE KINASE FROM HALOBACTERIUM SALINARUM IN COMPLEX WITH CDP

Authors :   H. Besir, K. Zeth, A. Bracher, U. Heider, M. Ishibashi, M. Tokunaga, D. Oesterhelt

Date :   09 Sep 05 (Deposition) - 20 Dec 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

Chains :   Asym. Unit : A,B,C,D,E,F,G,H,I
Biol. Unit 1: A,B,C  (2x)
Biol. Unit 2: D,E,F,G,H,I  (1x)

Keywords :   Halophilic, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. Besir, K. Zeth, A. Bracher, U. Heider, M. Ishibashi, M. Tokunaga, D. Oesterhelt
Structure Of A Halophilic Nucleoside Diphosphate Kinase From Halobacterium Salinarum
Febs Lett. V. 579 6595 2005
PubMed-ID: 16293253 | Reference-DOI: 10.1016/J.FEBSLET.2005.10.052
(for further references see the PDB file header)

Molecule 1 - NUCLEOSIDE DIPHOSPHATE KINASE
	Chains	:	A, B, C, D, E, F, G, H, I
	EC Number	:	2.7.4.6
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15B
	Expression System Strain	:	BL21[DE3]
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	NDK
	Organism Scientific	:	HALOBACTERIUM SALINARUM
	Organism Taxid	:	2242
	Synonym	:	NDK, NDP KINASE, NUCLEOSIDE-2-P KINASE

		1	2	3	4	5	6	7	8	9
Asymmetric Unit	:	A	B	C	D	E	F	G	H	I
Biological Unit 1 (2x)	:	A	B	C
Biological Unit 2 (1x)	:				D	E	F	G	H	I

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 11)

No.	Name	Count	Type	Full Name
1	CDP	9	Ligand/Ion	CYTIDINE-5'-DIPHOSPHATE
2	MG	2	Ligand/Ion	MAGNESIUM ION

Biological Unit 1 (1, 6)

No.	Name	Count	Type	Full Name
1	CDP	6	Ligand/Ion	CYTIDINE-5'-DIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION

Biological Unit 2 (1, 6)

No.	Name	Count	Type	Full Name
1	CDP	6	Ligand/Ion	CYTIDINE-5'-DIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:55 , CDP A:1100	BINDING SITE FOR RESIDUE MG A 201
02	AC2	SOFTWARE	GLU B:55 , CDP B:1200	BINDING SITE FOR RESIDUE MG B 202
03	AC3	SOFTWARE	LYS A:13 , GLU A:55 , HIS A:56 , PHE A:61 , LEU A:65 , ARG A:89 , THR A:95 , LEU A:113 , GLY A:114 , ASN A:116 , HIS A:119 , MG A:201 , HOH A:1112 , HOH A:1115 , GLU D:55 , GLU D:57 , ASP D:58	BINDING SITE FOR RESIDUE CDP A 1100
04	AC4	SOFTWARE	LYS B:13 , HIS B:56 , PHE B:61 , LEU B:65 , ARG B:89 , THR B:95 , LEU B:113 , GLY B:114 , ASN B:116 , MG B:202 , GLU F:55 , GLU F:57 , ASP F:58	BINDING SITE FOR RESIDUE CDP B 1200
05	AC5	SOFTWARE	LYS C:13 , HIS C:56 , PHE C:61 , LEU C:65 , ARG C:89 , THR C:95 , LEU C:113 , GLY C:114 , ASN C:116 , HIS C:119 , HOH C:1308 , GLU E:55 , GLU E:57 , ASP E:58	BINDING SITE FOR RESIDUE CDP C 1300
06	AC6	SOFTWARE	LYS D:13 , HIS D:56 , PHE D:61 , LEU D:65 , ARG D:89 , THR D:95 , ARG D:106 , LEU D:113 , GLY D:114 , ASN D:116	BINDING SITE FOR RESIDUE CDP D 1400
07	AC7	SOFTWARE	LYS E:13 , HIS E:56 , PHE E:61 , LEU E:65 , ARG E:89 , THR E:95 , ARG E:106 , LEU E:113 , GLY E:114 , ASN E:116	BINDING SITE FOR RESIDUE CDP E 1500
08	AC8	SOFTWARE	HIS F:56 , PHE F:61 , LEU F:65 , ARG F:89 , THR F:95 , LEU F:113 , GLY F:114 , ASN F:116	BINDING SITE FOR RESIDUE CDP F 1600
09	AC9	SOFTWARE	LYS G:13 , TYR G:53 , HIS G:56 , PHE G:61 , LEU G:65 , ARG G:89 , THR G:95 , LEU G:113 , GLY G:114 , ASN G:116 , HIS G:119 , HOH G:1702	BINDING SITE FOR RESIDUE CDP G 1700
10	BC1	SOFTWARE	GLU G:124 , LYS H:13 , HIS H:56 , PHE H:61 , LEU H:65 , ARG H:89 , THR H:95 , LEU H:113 , ASN H:116 , HIS H:119 , HOH H:1816	BINDING SITE FOR RESIDUE CDP H 1800
11	BC2	SOFTWARE	LYS I:13 , HIS I:56 , PHE I:61 , LEU I:65 , ARG I:89 , THR I:95 , ARG I:106 , LEU I:113 , GLY I:114 , ASN I:116 , HIS I:119	BINDING SITE FOR RESIDUE CDP I 1900

(no "SS Bond" information available for 2AZ3)

(no "Cis Peptide Bond" information available for 2AZ3)

(no "SAP(SNP)/Variant" information available for 2AZ3)

(no "PROSITE Motif" information available for 2AZ3)

(no "Exon" information available for 2AZ3)

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:152
 aligned with NDK_HALSA | P61136 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:152
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153  
            NDK_HALSA     4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
               SCOP domains d2az3a_ A: Nucleoside diphosphate kinase, NDK                                                                                                            SCOP domains
               CATH domains 2az3A00 A:4-155  [code=3.30.70.141, no name defined]                                                                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeehhhhhhh.hhhhhhhhhhhh..eeeeeeee..hhhhhhhhhhhhh...hhhhhhhhhh...eeeeeee..hhhhhhhhhhh..hhhhh...hhhhhhh.......eee......hhhhhhhhhhh...........hhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2az3 A   4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153

Chain B from PDB  Type:PROTEIN  Length:151
 aligned with NDK_HALSA | P61136 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:151
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154 
            NDK_HALSA     5 DERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
               SCOP domains d2az3b_ B: Nucleoside diphosphate kinase, NDK                                                                                                           SCOP domains
               CATH domains 2az3B00 B:5-155  [code=3.30.70.141, no name defined]                                                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeehhhhhhh.hhhhhhhhhhhh..eeeeeeee..hhhhhhhhhhhhh...hhhhhhhhhh...eeeeeee..hhhhhhhhhhh..........hhhhhhh.......eee......hhhhhhhhhhh...........hhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2az3 B   5 DERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154

Chain C from PDB  Type:PROTEIN  Length:153
 aligned with NDK_HALSA | P61136 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:153
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153   
            NDK_HALSA     4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYED 156
               SCOP domains d2az3c_ C: Nucleoside diphosphate kinase, NDK                                                                                                             SCOP domains
               CATH domains 2az3C00 C:4-156  [code=3.30.70.141, no name defined]                                                                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeehhhhhhh.hhhhhhhhhhhh..eeeeeeee..hhhhhhhhhhhhh...hhhhhhhhhh...eeeeeee..hhhhhhhhhhh..........hhhhhhh.......eee......hhhhhhhhhhhhhhhh......hhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2az3 C   4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYED 156
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153

Chain D from PDB  Type:PROTEIN  Length:152
 aligned with NDK_HALSA | P61136 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:152
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153  
            NDK_HALSA     4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
               SCOP domains d2az3d_ D: Nucleoside diphosphate kinase, NDK                                                                                                            SCOP domains
               CATH domains 2az3D00 D:4-155  [code=3.30.70.141, no name defined]                                                                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeehhhhhhh.hhhhhhhhhhhh..eeeeeeee..hhhhhhhhhhhhh...hhhhhhhhhh...eeeeeee..hhhhhhhhhhh..hhhhh...hhhhhhh.......eee......hhhhhhhhhhhhhhhh......hhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2az3 D   4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153

Chain E from PDB  Type:PROTEIN  Length:152
 aligned with NDK_HALSA | P61136 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:152
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153  
            NDK_HALSA     4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
               SCOP domains d2az3e_ E: Nucleoside diphosphate kinase, NDK                                                                                                            SCOP domains
               CATH domains 2az3E00 E:4-155  [code=3.30.70.141, no name defined]                                                                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeehhhhhhh.hhhhhhhhhhhh..eeeeeeee..hhhhhhhhhhhhh....hhhhhh......eeeeeee..hhhhhhhhhhh..........hhhhhhh.......eee......hhhhhhhhhhhhhhhh......hhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2az3 E   4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153

Chain F from PDB  Type:PROTEIN  Length:152
 aligned with NDK_HALSA | P61136 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:152
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153  
            NDK_HALSA     4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
               SCOP domains d2az3f_ F: Nucleoside diphosphate kinase, NDK                                                                                                            SCOP domains
               CATH domains 2az3F00 F:4-155  [code=3.30.70.141, no name defined]                                                                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeehhhhhhh.hhhhhhhhhhhh..eeeeeeeee.hhhhhhhhhhhhh...hhhhhhhhhh..eeeeeeee..hhhhhhhhhhh..........hhhhhhh.......eee......hhhhhhhhhhhhhhhh......hhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2az3 F   4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153

Chain G from PDB  Type:PROTEIN  Length:152
 aligned with NDK_HALSA | P61136 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:152
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153  
            NDK_HALSA     4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
               SCOP domains d2az3g_ G: Nucleoside diphosphate kinase, NDK                                                                                                            SCOP domains
               CATH domains 2az3G00 G:4-155  [code=3.30.70.141, no name defined]                                                                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeehhhhhhhhhhhhhhhhhhhh..eeeeeeee..hhhhhhhhhhhhhhh.hhhhhhhhhhh..eeeeeee..hhhhhhhhhhh..........hhhhhhh.......eee......hhhhhhhhhhh...........hhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2az3 G   4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153

Chain H from PDB  Type:PROTEIN  Length:152
 aligned with NDK_HALSA | P61136 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:152
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153  
            NDK_HALSA     4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
               SCOP domains d2az3h_ H: Nucleoside diphosphate kinase, NDK                                                                                                            SCOP domains
               CATH domains 2az3H00 H:4-155  [code=3.30.70.141, no name defined]                                                                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeehhhhhhh.hhhhhhhhhhhh..eeeeeeee..hhhhhhhhh.......hhhhhhhhh....eeeeeee..hhhhhhhhhhh..........hhhhhhh.......eee......hhhhhhhhhhhhhhhh......hhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2az3 H   4 HDERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153

Chain I from PDB  Type:PROTEIN  Length:151
 aligned with NDK_HALSA | P61136 from UniProtKB/Swiss-Prot  Length:161

    Alignment length:151
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154 
            NDK_HALSA     5 DERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
               SCOP domains d2az3i_ I: Nucleoside diphosphate kinase, NDK                                                                                                           SCOP domains
               CATH domains 2az3I00 I:5-155  [code=3.30.70.141, no name defined]                                                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeehhhhhhh.hhhhhhhhhhhh..eeeeeeee..hhhhhhhhh.......hhhhhhhhhh...eeeeeee..hhhhhhhhhhh..........hhhhhhh.......eee......hhhhhhhhhhhhhhhh......hhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2az3 I   5 DERTFVMVKPDGVQRGLIGDIVTRLETKGLKMVGGKFMRIDEELAHEHYAEHEDKPFFDGLVSFITSGPVFAMVWEGADATRQVRQLMGATDAQDAAPGTIRGDYGNDLGHNLIHGSDHEDEGANEREIALFFDDDELVDWDRDASAWVYE 155
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154

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) (23004)

Fold: Ferredoxin-like (1795)

Superfamily: Nucleoside diphosphate kinase, NDK (129)

Family: Nucleoside diphosphate kinase, NDK (112)

Protein domain: Nucleoside diphosphate kinase, NDK (66)

Halobacterium salinarum [TaxId: 2242] (2)

1a	d2az3a_	A:
1b	d2az3b_	B:
1c	d2az3c_	C:
1d	d2az3d_	D:
1e	d2az3e_	E:
1f	d2az3f_	F:
1g	d2az3g_	G:
1h	d2az3h_	H:
1i	d2az3i_	I:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Alpha-Beta Plaits (1688)

Homologous Superfamily: [code=3.30.70.141, no name defined] (46)

Halobacterium salinarum. Organism_taxid: 2242. (1)

1a	2az3B00	B:5-155
1b	2az3I00	I:5-155
1c	2az3A00	A:4-155
1d	2az3D00	D:4-155
1e	2az3E00	E:4-155
1f	2az3F00	F:4-155
1g	2az3G00	G:4-155
1h	2az3H00	H:4-155
1i	2az3C00	C:4-156

(no "Pfam Domain" information available for 2AZ3)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F,G,H,I (NDK_HALSA | P61136)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0016301	kinase activity	Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0004550	nucleoside diphosphate kinase activity	Catalysis of the reaction: ATP + nucleoside diphosphate = ADP + nucleoside triphosphate.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	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:0006241	CTP biosynthetic process	The chemical reactions and pathways resulting in the formation of CTP, cytidine 5'-triphosphate.
	GO:0006183	GTP biosynthetic process	The chemical reactions and pathways resulting in the formation of GTP, guanosine triphosphate.
	GO:0006228	UTP biosynthetic process	The chemical reactions and pathways resulting in the formation of UTP, uridine (5'-)triphosphate.
	GO:0006165	nucleoside diphosphate phosphorylation	The process of introducing a phosphate group into a nucleoside diphosphate to produce a nucleoside triphosphate.
	GO:0009142	nucleoside triphosphate biosynthetic process	The chemical reactions and pathways resulting in the formation of a nucleoside triphosphate, a compound consisting of a nucleobase linked to a deoxyribose or ribose sugar esterified with triphosphate on the sugar.
	GO:0009117	nucleotide metabolic process	The chemical reactions and pathways involving a nucleotide, a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the glycose moiety; may be mono-, di- or triphosphate; this definition includes cyclic nucleotides (nucleoside cyclic phosphates).
	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:0006163	purine nucleotide metabolic process	The chemical reactions and pathways involving a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
	GO:0006220	pyrimidine nucleotide metabolic process	The chemical reactions and pathways involving a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005622	intracellular	The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

Asymmetric Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		CDP	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]
		AC7	[ RasMol ]	+environment [ RasMol ]
		AC8	[ RasMol ]	+environment [ RasMol ]
		AC9	[ RasMol ]	+environment [ RasMol ]
		BC1	[ RasMol ]	+environment [ RasMol ]
		BC2	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2az3)

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	2az3
		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
	NDK_HALSA \| P61136
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	2.7.4.6
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	NDK_HALSA \| P61136
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	NDK_HALSA \| P61136	:	2az1

1nue	HUMAN NDK-B IN COMPLEX WITH GDP
2az1	THE SAME PROTEIN

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 11)

Sites (11, 11)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 9)

CATH Domains (1, 9)

Pfam Domains (0, 0)

Gene Ontology (17, 17)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File