2AX3 - JenaLib

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Title :   CRYSTAL STRUCTURE OF A PUTATIVE CARBOHYDRATE KINASE (TM0922) FROM THERMOTOGA MARITIMA MSB8 AT 2.25 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   02 Sep 05 (Deposition) - 04 Oct 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.27

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (8x)
Biol. Unit 2: A,B  (1x)

Keywords :   Putative Carbohydrate Kinase, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Hypothetical Protein (Tm0922) From Thermotoga Maritima At 2. 27 A Resolution
To Be Published
PubMed: search

Molecule 1 - HYPOTHETICAL PROTEIN TM0922
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	TM0922
	Organism Scientific	:	THERMOTOGA MARITIMA
	Organism Taxid	:	243274
	Strain	:	MSB8

Molecule 2 - UNKNOWN PEPTIDE
	Chains	:	B
	Engineered	:	YES
	Other Details	:	UNKNOWN PEPTIDE, PROBABLY FROM EXPRESSION HOST
	Synthetic	:	YES

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (8x)	:	A	B
Biological Unit 2 (1x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 13)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	MSE	7	Mod. Amino Acid	SELENOMETHIONINE
3	UNK	5	Mod. Amino Acid

Biological Unit 1 (2, 64)

No.	Name	Count	Type	Full Name
1	GOL	8	Ligand/Ion	GLYCEROL
2	MSE	56	Mod. Amino Acid	SELENOMETHIONINE
3	UNK	-1	Mod. Amino Acid

Biological Unit 2 (2, 8)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	MSE	7	Mod. Amino Acid	SELENOMETHIONINE
3	UNK	-1	Mod. Amino Acid

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:5 , ASP A:55 , HOH A:596	BINDING SITE FOR RESIDUE GOL A 491

(no "SS Bond" information available for 2AX3)

Asymmetric Unit

No.	Residues
1	Phe A:182	-	Pro A:183
2	Phe A:269	-	Pro A:270

(no "SAP(SNP)/Variant" information available for 2AX3)

Asymmetric Unit (4, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	YJEF_N	PS51385	YjeF N-terminal domain profile.	NNR_THEMA	1-204	1	A:1-204
2	YJEF_C_3	PS51383	YjeF C-terminal domain profile.	NNR_THEMA	212-488	1	A:212-488
3	YJEF_C_1	PS01049	YjeF C-terminal domain signature 1.	NNR_THEMA	311-321	1	A:311-321
4	YJEF_C_2	PS01050	YjeF C-terminal domain signature 2.	NNR_THEMA	427-437	1	A:427-437

Biological Unit 1 (4, 32)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	YJEF_N	PS51385	YjeF N-terminal domain profile.	NNR_THEMA	1-204	8	A:1-204
2	YJEF_C_3	PS51383	YjeF C-terminal domain profile.	NNR_THEMA	212-488	8	A:212-488
3	YJEF_C_1	PS01049	YjeF C-terminal domain signature 1.	NNR_THEMA	311-321	8	A:311-321
4	YJEF_C_2	PS01050	YjeF C-terminal domain signature 2.	NNR_THEMA	427-437	8	A:427-437

Biological Unit 2 (4, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	YJEF_N	PS51385	YjeF N-terminal domain profile.	NNR_THEMA	1-204	1	A:1-204
2	YJEF_C_3	PS51383	YjeF C-terminal domain profile.	NNR_THEMA	212-488	1	A:212-488
3	YJEF_C_1	PS01049	YjeF C-terminal domain signature 1.	NNR_THEMA	311-321	1	A:311-321
4	YJEF_C_2	PS01050	YjeF C-terminal domain signature 2.	NNR_THEMA	427-437	1	A:427-437

(no "Exon" information available for 2AX3)

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:491
 aligned with NNR_THEMA | Q9X024 from UniProtKB/Swiss-Prot  Length:490

    Alignment length:491
                              1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488 
            NNR_THEMA     - --MKEIDELTIKEYGVDSRILMERAGISVVLAMEEELGNLSDYRFLVLCGGGNNGGDGFVVARNLLGVVKDVLVVFLGKKKTPDCEYNYGLYKKFGGKVVEQFEPSILNEFDVVVDAIFGTGLRGEITGEYAEIINLVNKSGKVVVSVDVPSGIDSNTGKVLRTAVKADLTVTFGVPKIGHILFPGRDLTGKLKVANIGHPVHLINSINRYVITREMVRSLLPERPRDSHKGTYGKVLIIAGSRLYSGAPVLSGMGSLKVGTGLVKLAVPFPQNLIATSRFPELISVPIDTEKGFFSLQNLQECLELSKDVDVVAIGPGLGNNEHVREFVNEFLKTLEKPAVIDADAINVLDTSVLKERKSPAVLTPHPGEMARLVKKTVGDVKYNYELAEEFAKENDCVLVLKSATTIVTDGEKTLFNITGNTGLSKGGSGDVLTGMIAGFIAQGLSPLEASTVSVYLHGFAAELFEQDERGLTASELLRLIPEAIRRLK 489
               SCOP domains --d2ax3a2 A:1-211 Hypothetical protein TM0922, N-terminal domain                                                                                                                                                     d2ax3a1 A:212-489 Hypothetical protein TM0922, C-terminal domain                                                                                                                                                                                                                       SCOP domains
               CATH domains 2ax3A01 A:-1-206 YjeF N-terminal domain-like                                                                                                                                                                    2ax3A02 A:207-489  [code=3.40.1190.20, no name defined]                                                                                                                                                                                                                                     CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh.....eeeeee..hhhhhhhhhhhhhhh....eeeeee.....hhhhhhhhhhhhhh...ee...hhhhhhhh.eeeee..........hhhhhhhhhhhhhh..eeeee.....................eeeee...hhhhhh.hhhhhhheeeee....hhhhhh...eee.hhhhhhhhh.......hhhhh.eeeee.......hhhhhhhhhhhhh...eeeeeee...hhhhhhhh...eeeee.......hhhhhhhhhhhhhh..eeee......hhhhhhhhhhhhhhh...eeehhhhhhh.hhhhhhh....eee..hhhhhhhhhh.hhhhhh.hhhhhhhhhhhhh.eeee....eeee....eeee...hhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --YJEF_N  PDB: A:1-204 UniProt: 1-204                                                                                                                                                                         -------YJEF_C_3  PDB: A:212-488 UniProt: 212-488                                                                                                                                                                                                                                            - PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------YJEF_C_1   ---------------------------------------------------------------------------------------------------------YJEF_C_2   ---------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ax3 A  -1 HHmKEIDELTIKEYGVDSRILmERAGISVVLAmEEELGNLSDYRFLVLCGGGNNGGDGFVVARNLLGVVKDVLVVFLGKKKTPDCEYNYGLYKKFGGKVVEQFEPSILNEFDVVVDAIFGTGLRGEITGEYAEIINLVNKSGKVVVSVDVPSGIDSNTGKVLRTAVKADLTVTFGVPKIGHILFPGRDLTGKLKVANIGHPVHLINSINRYVITREmVRSLLPERPRDSHKGTYGKVLIIAGSRLYSGAPVLSGmGSLKVGTGLVKLAVPFPQNLIATSRFPELISVPIDTEKGFFSLQNLQECLELSKDVDVVAIGPGLGNNEHVREFVNEFLKTLEKPAVIDADAINVLDTSVLKERKSPAVLTPHPGEmARLVKKTVGDVKYNYELAEEFAKENDCVLVLKSATTIVTDGEKTLFNITGNTGLSKGGSGDVLTGmIAGFIAQGLSPLEASTVSVYLHGFAAELFEQDERGLTASELLRLIPEAIRRLK 489
                              |      8        18 |      28  |     38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208      |218       228       238       248    |  258       268       278       288       298       308       318       328       338       348       358       368 |     378       388       398       408       418       428       438       448       458       468       478       488 
                              |                 20-MSE     31-MSE                                                                                                                                                                                 215-MSE                               253-MSE                                                                                                              370-MSE                                                           436-MSE                                                 
                              1-MSE

Chain B from PDB  Type:PROTEIN  Length:8
                                        
               SCOP domains -------- SCOP domains
               CATH domains -------- CATH domains
               Pfam domains -------- Pfam domains
         Sec.struct. author ....ee.. Sec.struct. author
                 SAPs(SNPs) -------- SAPs(SNPs)
                    PROSITE -------- PROSITE
                 Transcript -------- Transcript
                 2ax3 B   1 xxWxFHxx   8
                            || |  ||
                            1-UNK ||
                             2-UNK||
                               4-UNK
                                  7-UNK
                                   8-UNK

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 '\|'

(no "Pfam Domain" information available for 2AX3)

Asymmetric Unit(hide GO term definitions)

Chain A (NNR_THEMA | Q9X024)

molecular function
	GO:0052855	ADP-dependent NAD(P)H-hydrate dehydratase activity	Catalysis of the reaction: (6S)-6beta-hydroxy-1,4,5,6-tetrahydronicotinamide adenine dinucleotide + ADP = AMP + 3 H(+) + NADH + phosphate.
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	GO:0016853	isomerase activity	Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
	GO:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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.
biological process
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

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Description

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Ligands, Modified Residues, Ions (3, 13)

Sites (1, 1)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

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