1KYH - JenaLib

Title :   STRUCTURE OF BACILLUS SUBTILIS YXKO, A MEMBER OF THE UPF0031 FAMILY AND A PUTATIVE KINASE

Authors :   R. Zhang, I. Dementieva, E. Vinokour, F. Collart, A. Joachimiak, Midwe For Structural Genomics (Mcsg)

Date :   04 Feb 02 (Deposition) - 14 Aug 02 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

Chains :   Asym. Unit : A
Biol. Unit 1: A  (1x)
Biol. Unit 2: A  (4x)

Keywords :   Structural Genomics, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. Zhang, J. Grembecka, E. Vinokour, F. Collart, I. Dementieva, W. Minor, A. Joachimiak
Structure Of Bacillus Subtilis Yxko--A Member Of The Upf003 Family And A Putative Kinase.
J. Struct. Biol. V. 139 161 2002
PubMed-ID: 12457846 | Reference-DOI: 10.1016/S1047-8477(02)00532-4

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 5)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (3, 3)

Asymmetric Unit (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	YJEF_C_3	PS51383	YjeF C-terminal domain profile.	NNRD_BACSU	7-275	1	A:7-275
2	YJEF_C_1	PS01049	YjeF C-terminal domain signature 1.	NNRD_BACSU	98-108	1	A:98-108
3	YJEF_C_2	PS01050	YjeF C-terminal domain signature 2.	NNRD_BACSU	212-222	1	A:212-222

Biological Unit 1 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	YJEF_C_3	PS51383	YjeF C-terminal domain profile.	NNRD_BACSU	7-275	1	A:7-275
2	YJEF_C_1	PS01049	YjeF C-terminal domain signature 1.	NNRD_BACSU	98-108	1	A:98-108
3	YJEF_C_2	PS01050	YjeF C-terminal domain signature 2.	NNRD_BACSU	212-222	1	A:212-222

Biological Unit 2 (3, 12)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	YJEF_C_3	PS51383	YjeF C-terminal domain profile.	NNRD_BACSU	7-275	4	A:7-275
2	YJEF_C_1	PS01049	YjeF C-terminal domain signature 1.	NNRD_BACSU	98-108	4	A:98-108
3	YJEF_C_2	PS01050	YjeF C-terminal domain signature 2.	NNRD_BACSU	212-222	4	A:212-222

Exons (0, 0)

Sequences/Alignments

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:268
 aligned with NNRD_BACSU | P94368 from UniProtKB/Swiss-Prot  Length:276

    Alignment length:275
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271     
           NNRD_BACSU     2 NVPFWTEEHVRATLPERDAESHKGTYGTALLLAGSDDMPGAALLAGLGAMRSGLGKLVIGTSENVIPLIVPVLPEATYWRDGWKKAADAQLEETYRAIAIGPGLPQTESVQQAVDHVLTADCPVILDAGALAKRTYPKREGPVILTPHPGEFFRMTGVPVNELQKKRAEYAKEWAAQLQTVIVLKGNQTVIAFPDGDCWLNPTGNGALAKGGTGDTLTGMILGMLCCHEDPKHAVLNAVYLHGACAELWTDEHSAHTLLAHELSDILPRVWKRFE 276
               SCOP domains d1kyha_ A: Hypoth       etical protein YxkO                                                                                                                                                                                                                                         SCOP domains
               CATH domains 1kyhA00 A:2-276         [code=3.40.1190.20, no name defined]                                                                                                                                                                                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhh...-------...eeeee......hhhhhhhhhhhhhh...eeeee....hhhhhh......ee..hhhhhh..........eeee......hhhhhhhhhhhh.....eee.hhhh...........eee..hhhhhhhhhh.hhhhhh.hhhhhhhhhhhhhh.eeee.....eee.....eee....hhhhh..hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -----YJEF_C_3  PDB: A:7-275 UniProt: 7-275                                                                                                                                                                                                                                        - PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------YJEF_C_1   -------------------------------------------------------------------------------------------------------YJEF_C_2   ------------------------------------------------------ PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1kyh A   2 NVPFWTEEHVRATLPER-------TYGTALLLAGSDDmPGAALLAGLGAmRSGLGKLVIGTSENVIPLIVPVLPEATYWRDGWKKAADAQLEETYRAIAIGPGLPQTESVQQAVDHVLTADCPVILDAGALAKRTYPKREGPVILTPHPGEFFRmTGVPVNELQKKRAEYAKEWAAQLQTVIVLKGNQTVIAFPDGDCWLNPTGNGALAKGGTGDTLTGmILGmLCCHEDPKHAVLNAVYLHGACAELWTDEHSAHTLLAHELSDILPRVWKRFE 276
                                    11      |  -    |   31       |41        51        61        71        81        91       101       111       121       131       141       151    |  161       171       181       191       201       211       221   |   231       241       251       261       271     
                                           18      26           39-MSE      51-MSE                                                                                                  156-MSE                                                          221-MSE                                                   
                                                                                                                                                                                                                                                         225-MSE

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 '\|'

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (5, 5)

Asymmetric Unit(hide GO term definitions)

Chain A (NNRD_BACSU | P94368)

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: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: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:0046496	nicotinamide nucleotide metabolic process	The chemical reactions and pathways involving nicotinamide nucleotides, any nucleotide that contains combined nicotinamide.

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