1TID - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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Title :   CRYSTAL STRUCTURES OF THE ADP AND ATP BOUND FORMS OF THE BACILLUS ANTI-SIGMA FACTOR SPOIIAB IN COMPLEX WITH THE ANTI-ANTI-SIGMA SPOIIAA: POISED FOR PHOSPHORYLATION COMPLEX WITH ATP, CRYSTAL FORM I

Authors :   S. Masuda, K. S. Murakami, S. Wang, C. A. Olson, J. Donigan, F. Leon, S. A. Darst, E. A. Campbell

Date :   02 Jun 04 (Deposition) - 15 Jun 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

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

Keywords :   Spoiiab, Spoiiaa, Anti-Sigma, Anti-Anti-Sigma, Sporulation, Serine Kinase, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. Masuda, K. S. Murakami, S. Wang, C. A. Olson, J. Donigian, F. Leon, S. A. Darst, E. A. Campbell
Crystal Structures Of The Adp And Atp Bound Forms Of The Bacillus Anti-Sigma Factor Spoiiab In Complex With The Anti-Anti-Sigma Spoiiaa.
J. Mol. Biol. V. 340 941 2004
PubMed-ID: 15236958 | Reference-DOI: 10.1016/J.JMB.2004.05.040
(for further references see the PDB file header)

Molecule 1 - ANTI-SIGMA F FACTOR
	Chains	:	A, C
	EC Number	:	2.7.1.37
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET21A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	SPOIIAB
	Organism Scientific	:	GEOBACILLUS STEAROTHERMOPHILUS
	Organism Taxid	:	1422
	Synonym	:	STAGE II SPORULATION PROTEIN AB

Molecule 2 - ANTI-SIGMA F FACTOR ANTAGONIST
	Chains	:	B, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET21A
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	SPOIIAA
	Mutation	:	YES
	Organism Scientific	:	GEOBACILLUS STEAROTHERMOPHILUS
	Organism Taxid	:	1422
	Synonym	:	STAGE II SPORULATION PROTEIN AA

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

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 23)

No.	Name	Count	Type	Full Name
1	ATP	2	Ligand/Ion	ADENOSINE-5'-TRIPHOSPHATE
2	MG	2	Ligand/Ion	MAGNESIUM ION
3	MSE	19	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:50 , ATP A:200 , HOH A:301 , HOH A:313	BINDING SITE FOR RESIDUE MG A 300
2	AC2	SOFTWARE	ASN C:50 , ATP C:201	BINDING SITE FOR RESIDUE MG C 301
3	AC3	SOFTWARE	GLU A:46 , ASN A:50 , ALA A:51 , HIS A:54 , ASP A:81 , VAL A:84 , GLY A:85 , ILE A:86 , ALA A:92 , PHE A:97 , THR A:98 , THR A:99 , ARG A:105 , SER A:106 , GLY A:107 , MSE A:108 , GLY A:109 , PHE A:110 , THR A:130 , MG A:300 , HOH A:301 , HOH A:305 , HOH A:312 , HOH A:313 , HOH A:314 , ALA B:58	BINDING SITE FOR RESIDUE ATP A 200
4	AC4	SOFTWARE	GLU C:46 , ASN C:50 , ALA C:51 , HIS C:54 , GLY C:55 , ASP C:81 , GLY C:85 , ILE C:86 , ALA C:92 , PHE C:97 , THR C:98 , THR C:99 , ARG C:105 , SER C:106 , GLY C:107 , MSE C:108 , GLY C:109 , PHE C:110 , MG C:301 , HOH C:319 , HOH C:320 , ALA D:58 , HOH D:119	BINDING SITE FOR RESIDUE ATP C 201

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

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

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

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	STAS	PS50801	STAS domain profile.	SP2AA_GEOSE	3-113	2	B:3-113 D:3-113

(no "Exon" information available for 1TID)

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:136
 aligned with SP2AB_GEOSE | O32727 from UniProtKB/Swiss-Prot  Length:146

    Alignment length:136
                                    10        20        30        40        50        60        70        80        90       100       110       120       130      
          SP2AB_GEOSE     1 MRNEMHLQFSARSENESFARVTVAAFVAQLDPTTDELTEIKTVVSEAVTNAIIHGYNNDPNGIVSISVIIEDGVVHLTVRDEGVGIPDIEEARQPLFTTKPELERSGMGFTIMENFMDEVIVESEVNKGTTVYLKK 136
               SCOP domains d1tida_ A: Anti-sigma factor spoIIab                                                                                                     SCOP domains
               CATH domains -1tidA00 A:2-136  [code=3.30.565.10, no name defined]                                                                                    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee.hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh.......eeeeeeeee..eeeeee........hhhhhh..............hhhhhhhhhh.eeeeeee...eeeeeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tid A   1 mRNEmHLQFSARSENESFARVTVAAFVAQLDPTmDELTEIKTVVSEAVTNAIIHGYNNDPNGIVSISVIIEDGVVHLTVRDEGVGIPDIEEARQPLFTTKPELERSGmGFTImENFmDEVIVESEVNKGTTVYLKK 136
                            |   |   10        20        30   |    40        50        60        70        80        90       100       110  |   |120       130      
                            1-MSE                           34-MSE                                                                   108-MSE|   |                   
                                5-MSE                                                                                                     113-MSE                   
                                                                                                                                              117-MSE

Chain B from PDB  Type:PROTEIN  Length:119
 aligned with SP2AA_GEOSE | O32726 from UniProtKB/Swiss-Prot  Length:116

    Alignment length:119
                               1                                                                                                                   
                               |     7        17        27        37        47        57        67        77        87        97       107         
          SP2AA_GEOSE     - ---MSLAIDLEVKQDELIVRLSGELDHHTAENCMNKCRMCLEKRAIRHIVLNLGQLTFMDSSGLGVILGRYKQIKNVGGQMVVCAVSPAVKRLFDMSGLFKIIRVEADEQFALQALGVA 116
               SCOP domains d1tidb_ B: Anti-sigma factor antagonist SpoIIaa                                                                         SCOP domains
               CATH domains 1tidB00 B:-2-116  [code=3.30.750.24, no name defined]                                                                   CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeee..eeeeeeeeeehhhhhhhhhhhhhhhhhhh...eeeeeeeeeeeehhhhhhhhhhhhhhhhhh...eeee..hhhhhhhhhhhhhhhh.eee.hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----STAS  PDB: B:3-113 UniProt: 3-113                                                                              --- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                 1tid B  -2 GSHmSLAIDLEVKQDVLIVRLSGELDHHTAEELREQVTDVLENRAIRHIVLNLGQLTFmDASGLGVILGRYKQIKNVGGQmVVCAVSPAVKRLFDmSGLFKIIRVEADEQFALQALGVA 116
                               |     7        17        27        37        47        57        67        77|       87     |  97       107         
                               |                                                     56-MSE                78-MSE         93-MSE                   
                               1-MSE

Chain C from PDB  Type:PROTEIN  Length:134
 aligned with SP2AB_GEOSE | O32727 from UniProtKB/Swiss-Prot  Length:146

    Alignment length:134
                                    12        22        32        42        52        62        72        82        92       102       112       122       132    
          SP2AB_GEOSE     3 NEMHLQFSARSENESFARVTVAAFVAQLDPTTDELTEIKTVVSEAVTNAIIHGYNNDPNGIVSISVIIEDGVVHLTVRDEGVGIPDIEEARQPLFTTKPELERSGMGFTIMENFMDEVIVESEVNKGTTVYLKK 136
               SCOP domains d1tidc_ C: Anti-sigma factor spoIIab                                                                                                   SCOP domains
               CATH domains 1tidC00 C:3-136  [code=3.30.565.10, no name defined]                                                                                   CATH domains
           Pfam domains (1) --------------------------------HATPase_c-1tidC01 C:35-136                                                                             Pfam domains (1)
           Pfam domains (2) --------------------------------HATPase_c-1tidC02 C:35-136                                                                             Pfam domains (2)
         Sec.struct. author .eeeeeee.hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh........eeeeeeeee..eeeeeeee......hhhhhh......hhhhh...hhhhhhhhhh.eeeeeee...eeeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tid C   3 NEmHLQFSARSENESFARVTVAAFVAQLDPTmDELTEIKTVVSEAVTNAIIHGYNNDPNGIVSISVIIEDGVVHLTVRDEGVGIPDIEEARQPLFTTKPELERSGmGFTImENFmDEVIVESEVNKGTTVYLKK 136
                              |     12        22        32 |      42        52        62        72        82        92       102     | 112|   |  122       132    
                              5-MSE                       34-MSE                                                                   108-MSE|   |                   
                                                                                                                                        113-MSE                   
                                                                                                                                            117-MSE

Chain D from PDB  Type:PROTEIN  Length:118
 aligned with SP2AA_GEOSE | O32726 from UniProtKB/Swiss-Prot  Length:116

    Alignment length:118
                              1                                                                                                                   
                              |      8        18        28        38        48        58        68        78        88        98       108        
          SP2AA_GEOSE     - --MSLAIDLEVKQDELIVRLSGELDHHTAENCMNKCRMCLEKRAIRHIVLNLGQLTFMDSSGLGVILGRYKQIKNVGGQMVVCAVSPAVKRLFDMSGLFKIIRVEADEQFALQALGVA 116
               SCOP domains d1tidd_ D: Anti-sigma factor antagonist SpoIIaa                                                                        SCOP domains
               CATH domains 1tidD00 D:-1-116  [code=3.30.750.24, no name defined]                                                                  CATH domains
           Pfam domains (1) -----STAS-1tidD01 D:4-109                                                                                      ------- Pfam domains (1)
           Pfam domains (2) -----STAS-1tidD02 D:4-109                                                                                      ------- Pfam domains (2)
         Sec.struct. author ....eeeeeeee..eeeeeeeeeehhhhhhhhhhhhhhhhhhh...eeeeeeeeeeeehhhhhhhhhhhhhhhhh....eeee..hhhhhhhhhhhhhhhh.eee.hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----STAS  PDB: D:3-113 UniProt: 3-113                                                                              --- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------- Transcript
                 1tid D  -1 SHmSLAIDLEVKQDVLIVRLSGELDHHTAEELREQVTDVLENRAIRHIVLNLGQLTFmDASGLGVILGRYKQIKNVGGQmVVCAVSPAVKRLFDmSGLFKIIRVEADEQFALQALGVA 116
                              |      8        18        28        38        48       |58        68        78        88    |   98       108        
                              1-MSE                                                 56-MSE                78-MSE         93-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 '\|'

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Heat Shock Protein 90 (209)

Homologous Superfamily: [code=3.30.565.10, no name defined] (205)

Geobacillus stearothermophilus. Organism_taxid: 1422. (5)

1a	1tidA00	A:2-136
1b	1tidC00	C:3-136

Topology: Transcription Regulator spoIIAA (28)

Homologous Superfamily: [code=3.30.750.24, no name defined] (12)

Geobacillus stearothermophilus. Organism_taxid: 1422. (4)

2a	1tidD00	D:-1-116
2b	1tidB00	B:-2-116

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: His_Kinase_A (147)

Family: HATPase_c (132)

Geobacillus stearothermophilus (Bacillus stearothermophilus) (5)

1a	HATPase_c-1tidC01	C:35-136
1b	HATPase_c-1tidC02	C:35-136

Clan: STAS (15)

Family: STAS (15)

Geobacillus stearothermophilus (Bacillus stearothermophilus) (4)

2a	STAS-1tidD01	D:4-109
2b	STAS-1tidD02	D:4-109

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,C (SP2AB_GEOSE | O32727)

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: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:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0004672	protein kinase activity	Catalysis of the phosphorylation of an amino acid residue in a protein, usually according to the reaction: a protein + ATP = a phosphoprotein + ADP.
	GO:0004674	protein serine/threonine kinase activity	Catalysis of the reactions: ATP + protein serine = ADP + protein serine phosphate, and ATP + protein threonine = ADP + protein threonine phosphate.
	GO:0016989	sigma factor antagonist activity	The function of binding to a sigma factor and stopping, preventing or reducing the rate of its transcriptional activity.
	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:0030436	asexual sporulation	The formation of spores derived from the products of an asexual cell division. Examples of this process are found in bacteria and fungi.
	GO:0045892	negative regulation of transcription, DNA-templated	Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
	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:0006468	protein phosphorylation	The process of introducing a phosphate group on to a protein.
	GO:0010468	regulation of gene expression	Any process that modulates the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form.
	GO:0030435	sporulation resulting in formation of a cellular spore	The process in which a relatively unspecialized cell acquires the specialized features of a cellular spore, a cell form that can be used for dissemination, for survival of adverse conditions because of its heat and dessication resistance, and/or for reproduction.

Chain B,D (SP2AA_GEOSE | O32726)

molecular function
	GO:0045152	antisigma factor binding	Interacting selectively and non-covalently with an antisigma factor, a factor which inhibits the ability of the sigma factor to function as a transcriptional initiator.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
	GO:0006355	regulation of transcription, DNA-templated	Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
	GO:0030435	sporulation resulting in formation of a cellular spore	The process in which a relatively unspecialized cell acquires the specialized features of a cellular spore, a cell form that can be used for dissemination, for survival of adverse conditions because of its heat and dessication resistance, and/or for reproduction.

Asymmetric/Biological Unit
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	1tid
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	SP2AA_GEOSE \| O32726
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	SP2AB_GEOSE \| O32727
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	2.7.1.37
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	SP2AA_GEOSE \| O32726
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UniProtKB/Swiss-Prot
	SP2AA_GEOSE \| O32726	:	1th8 1thn 1til
	SP2AB_GEOSE \| O32727	:	1l0o 1th8 1thn 1til

1th8	INHIBITORY COMPLEX, CRYSTAL FORM II
1thn	INHIBITORY COMPLEX, CRYSTAL FORM I
1til	POISED FOR PHOSPHORYLATION COMPLEX , CRYSTAL FORM II

Description

Compounds

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Chains, Units

Ligands, Modified Residues, Ions (3, 23)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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Exons (0, 0)

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SCOP Domains (2, 4)

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Pfam Domains (2, 4)

Gene Ontology (16, 18)

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