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(-) Description

Title :  CRYSTAL STRUCTURE OF YTAA (2635576) FROM BACILLUS SUBTILIS AT 2.50 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  08 Jun 07  (Deposition) - 26 Jun 07  (Release) - 24 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  2635576, Ytaa, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. D. Scheeff, H. L. Axelrod, M. D. Miller, H. J. Chiu, A. M. Deacon, I. A. Wilson, G. Manning
Genomics, Evolution, And Crystal Structure Of A New Family Of Bacterial Spore Kinases.
Proteins V. 78 1470 2010
PubMed-ID: 20077512  |  Reference-DOI: 10.1002/PROT.22663

(-) Compounds

Molecule 1 - YTAA PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: HK100
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: YTAA, BSU30920
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
    Strain: 168

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 32)

Asymmetric Unit (6, 32)
No.NameCountTypeFull Name
1ADN2Ligand/IonADENOSINE
2CIT1Ligand/IonCITRIC ACID
3EDO8Ligand/Ion1,2-ETHANEDIOL
4MSE17Mod. Amino AcidSELENOMETHIONINE
5SO42Ligand/IonSULFATE ION
6UNL2Ligand/IonUNKNOWN LIGAND
Biological Unit 1 (4, 12)
No.NameCountTypeFull Name
1ADN1Ligand/IonADENOSINE
2CIT-1Ligand/IonCITRIC ACID
3EDO2Ligand/Ion1,2-ETHANEDIOL
4MSE8Mod. Amino AcidSELENOMETHIONINE
5SO4-1Ligand/IonSULFATE ION
6UNL1Ligand/IonUNKNOWN LIGAND
Biological Unit 2 (6, 20)
No.NameCountTypeFull Name
1ADN1Ligand/IonADENOSINE
2CIT1Ligand/IonCITRIC ACID
3EDO6Ligand/Ion1,2-ETHANEDIOL
4MSE9Mod. Amino AcidSELENOMETHIONINE
5SO42Ligand/IonSULFATE ION
6UNL1Ligand/IonUNKNOWN LIGAND

(-) Sites  (15, 15)

Asymmetric Unit (15, 15)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG B:168 , HIS B:172BINDING SITE FOR RESIDUE SO4 B 6
02AC2SOFTWARELYS B:80 , LYS B:165 , HOH B:432BINDING SITE FOR RESIDUE SO4 B 7
03AC3SOFTWAREILE A:51 , ASP A:122 , TRP A:123 , ILE A:124 , GLY A:243 , LEU A:246BINDING SITE FOR RESIDUE ADN A 1
04AC4SOFTWAREILE B:51 , CYS B:70 , ASP B:122 , TRP B:123 , ILE B:124 , LEU B:246 , ILE B:256 , HOH B:465BINDING SITE FOR RESIDUE ADN B 2
05AC5SOFTWAREGLN A:252 , ARG A:299 , LYS B:142 , SER B:298 , ARG B:299BINDING SITE FOR RESIDUE CIT B 3
06AC6SOFTWARELYS B:165 , HIS B:172 , ARG B:176 , ARG B:268 , ARG B:271 , LYS B:272 , TYR B:318 , HOH B:451 , HOH B:461BINDING SITE FOR RESIDUE UNL B 4
07AC7SOFTWAREHIS A:172 , ARG A:176 , ARG A:268 , ARG A:271 , LYS A:272 , TYR A:318BINDING SITE FOR RESIDUE UNL A 5
08AC8SOFTWAREASN A:250 , GLU B:192BINDING SITE FOR RESIDUE EDO A 8
09AC9SOFTWAREASN B:104 , SER B:111 , HIS B:113 , HOH B:458BINDING SITE FOR RESIDUE EDO B 9
10BC1SOFTWARESER B:108 , HOH B:369BINDING SITE FOR RESIDUE EDO B 10
11BC2SOFTWAREARG B:216 , GLN B:219 , SER B:220 , GLN B:308 , ILE B:312 , ILE B:357BINDING SITE FOR RESIDUE EDO B 11
12BC3SOFTWARELYS A:93 , LEU A:109 , GLN B:219 , SER B:220BINDING SITE FOR RESIDUE EDO B 358
13BC4SOFTWARETRP A:284 , ASP A:286 , PHE A:289 , ASN A:290 , ASN A:351 , ALA A:352 , HOH A:424BINDING SITE FOR RESIDUE EDO A 358
14BC5SOFTWARELEU B:131 , ASP B:285BINDING SITE FOR RESIDUE EDO B 359
15BC6SOFTWAREARG B:325 , ARG B:330BINDING SITE FOR RESIDUE EDO B 360

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2Q83)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2Q83)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2Q83)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2Q83)

(-) Exons   (0, 0)

(no "Exon" information available for 2Q83)

(-) 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:332
 aligned with COTI_BACSU | O34656 from UniProtKB/Swiss-Prot  Length:357

    Alignment length:336
                                    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       281       291       301       311       321       331       341       351      
           COTI_BACSU    22 LSAEDAKKLTELAENVLQGWDVQAEKIDVIQGNQMALVWKVHTDSGAVCLKRIHRPEKKALFSIFAQDYLAKKGMNVPGILPNKKGSLYSKHGSFLFVVYDWIEGRPFELTVKQDLEFIMKGLADFHTASVGYQPPNGVPIFTKLGRWPNHYTKRCKQMETWKLMAEAEKEDPFSQLYLQEIDGFIEDGLRIKDRLLQSTYVPWTEQLKKSPNLCHQDYGTGNTLLGENEQIWVIDLDTVSFDLPIRDLRKMIIPLLDTTGVWDDETFNVMLNAYESRAPLTEEQKQVMFIDMLFPYELYDVIREKYVRKSALPKEELESAFEYERIKANALRQLI 357
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 2q83A01 A:22-124 Phosphorylase     Kinase; domain 1                                                    2q83A02 A:125-357  [code=3.90.1200.10, no name defined]                                                                                                                                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhh.....eeee..----.eeeeeee..eeeeeeee..hhhhhhhhhhhhhhhhhhh...............eee..eeeeeee..........hhhhhhhhhhhhhhhhhhhh...............hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee........eee.hhh.eee......ee..hhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2q83 A  22 LSAEDAKKLTELAENVLQGWDVQAEKIDVIQ----ALVWKVHTDSGAVCLKRIHRPEKKALFSIFAQDYLAKKGmNVPGILPNKKGSLYSKHGSFLFVVYDWIEGRPFELTVKQDLEFImKGLADFHTASVGYQPPNGVPIFTKLGRWPNHYTKRCKQmETWKLmAEAEKEDPFSQLYLQEIDGFIEDGLRIKDRLLQSTYVPWTEQLKKSPNLCHQDYGTGNTLLGENEQIWVIDLDTVSFDLPIRDLRKmIIPLLDTTGVWDDETFNVmLNAYESRAPLTEEQKQVmFIDmLFPYELYDVIREKYVRKSALPKEELESAFEYERIKANALRQLI 357
                                    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 |     281       291|      301       311  |    321       331       341       351      
                                                         52   57                                     96-MSE                                      141-MSE                                180-MSE |                                                                                    273-MSE            292-MSE           310-MSE                                           
                                                                                                                                                                                              186-MSE                                                                                                                         314-MSE                                       


Chain B from PDB  Type:PROTEIN  Length:332
 aligned with COTI_BACSU | O34656 from UniProtKB/Swiss-Prot  Length:357

    Alignment length:336
                                    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       281       291       301       311       321       331       341       351      
           COTI_BACSU    22 LSAEDAKKLTELAENVLQGWDVQAEKIDVIQGNQMALVWKVHTDSGAVCLKRIHRPEKKALFSIFAQDYLAKKGMNVPGILPNKKGSLYSKHGSFLFVVYDWIEGRPFELTVKQDLEFIMKGLADFHTASVGYQPPNGVPIFTKLGRWPNHYTKRCKQMETWKLMAEAEKEDPFSQLYLQEIDGFIEDGLRIKDRLLQSTYVPWTEQLKKSPNLCHQDYGTGNTLLGENEQIWVIDLDTVSFDLPIRDLRKMIIPLLDTTGVWDDETFNVMLNAYESRAPLTEEQKQVMFIDMLFPYELYDVIREKYVRKSALPKEELESAFEYERIKANALRQLI 357
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 2q83B01 B:22-124 Phosphorylase     Kinase; domain 1                                                    2q83B02 B:125-357  [code=3.90.1200.10, no name defined]                                                                                                                                                                                   CATH domains
           Pfam domains (1) -------------------------APH-2    q83B01 B:47-307                                                                                                                                                                                                                                             -------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -------------------------APH-2    q83B02 B:47-307                                                                                                                                                                                                                                             -------------------------------------------------- Pfam domains (2)
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh.....eeee.----..eeeeee.....eeeeee..hhhhhhhhhhhhhhhhhhh...............eee..eeeeeee..........hhhhhhhhhhhhhhhhhhhh...............hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee....hhh.eee.hhh.eee......ee..hhhhhhhhhhhhh......hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2q83 B  22 LSAEDAKKLTELAENVLQGWDVQAEKIDVI----mALVWKVHTDSGAVCLKRIHRPEKKALFSIFAQDYLAKKGmNVPGILPNKKGSLYSKHGSFLFVVYDWIEGRPFELTVKQDLEFImKGLADFHTASVGYQPPNGVPIFTKLGRWPNHYTKRCKQmETWKLmAEAEKEDPFSQLYLQEIDGFIEDGLRIKDRLLQSTYVPWTEQLKKSPNLCHQDYGTGNTLLGENEQIWVIDLDTVSFDLPIRDLRKmIIPLLDTTGVWDDETFNVmLNAYESRAPLTEEQKQVmFIDmLFPYELYDVIREKYVRKSALPKEELESAFEYERIKANALRQLI 357
                                    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 |     281       291|      301       311  |    321       331       341       351      
                                                        51    |                                      96-MSE                                      141-MSE                                180-MSE |                                                                                    273-MSE            292-MSE           310-MSE                                           
                                                             56-MSE                                                                                                                           186-MSE                                                                                                                         314-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  (0, 0)

(no "SCOP Domain" information available for 2Q83)

(-) CATH Domains  (2, 4)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: PKinase (934)
(-)
Family: APH (15)
(-)
Bacillus subtilis (7)
1aAPH-2q83B01B:47-307
1bAPH-2q83B02B:47-307

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (COTI_BACSU | O34656)
biological process
    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.
cellular component
    GO:0031160    spore wall    The specialized envelope lying outside the cell membrane of a spore.

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  2q83
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  COTI_BACSU | O34656
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