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(-) Description

Title :  CRYSTAL STRUCTURE OF BIOTIN CARBOXYLASE-BETA-GAMMA-ATP COMPLEX FROM CAMPYLOBACTER JEJUNI
 
Authors :  N. Maltseva, Y. Kim, M. Makowska-Grzyska, R. Mulligan, L. Papazisi, W. F. Anderson, A. Joachimiak, Center For Structural Genomics Of Infectious Diseases (Csgid)
Date :  15 Sep 10  (Deposition) - 20 Oct 10  (Release) - 20 Oct 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Alpha - Beta Fold, Carboxylase, Cytosol, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Maltseva, Y. Kim, M. Makowska-Grzyska, R. Mulligan, L. Papazisi, W. F. Anderson, A. Joachimiak, Center For Structural Genomics Of Infectious Diseases (Csgid)
Crystal Structure Of Biotin Carboxylase-Beta-Gamma-Atp Complex From Campylobacter Jejuni
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - BIOTIN CARBOXYLASE
    Chains: A, B
    EC Number: 6.3.4.14, 6.4.1.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21 MAGIC
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: ACCC, CJ1290C
    Organism Scientific: CAMPYLOBACTER JEJUNI SUBSP. JEJUNI
    Organism Taxid: 192222
    Strain: NCTC 11168

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 49)

Asymmetric/Biological Unit (6, 49)
No.NameCountTypeFull Name
1ANP2Ligand/IonPHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2CA4Ligand/IonCALCIUM ION
3CAC2Ligand/IonCACODYLATE ION
4FMT1Ligand/IonFORMIC ACID
5GOL4Ligand/IonGLYCEROL
6MSE36Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:33 , LYS A:38BINDING SITE FOR RESIDUE GOL A 452
02AC2SOFTWARETRP A:183 , SER A:184 , HOH A:572 , HOH A:612 , PHE B:347 , PRO B:349BINDING SITE FOR RESIDUE GOL A 457
03AC3SOFTWAREGLU A:289 , ASN A:291 , ANP A:460 , HOH A:588BINDING SITE FOR RESIDUE CA A 458
04AC4SOFTWAREGLU A:276 , GLU A:289 , ANP A:460 , HOH A:478BINDING SITE FOR RESIDUE CA A 459
05AC5SOFTWARELYS A:117 , ILE A:132 , ILE A:157 , LYS A:159 , GLY A:164 , GLY A:165 , GLY A:166 , MSE A:169 , GLU A:201 , LYS A:202 , TYR A:203 , ILE A:204 , HIS A:209 , GLN A:233 , HIS A:236 , GLU A:276 , LEU A:278 , GLU A:289 , THR A:437 , CA A:458 , CA A:459 , HOH A:531 , HOH A:603 , HOH A:715BINDING SITE FOR RESIDUE ANP A 460
06AC6SOFTWAREMSE A:114 , SER A:115 , LYS A:117 , ALA A:161 , ALA A:162 , GLY A:163 , HOH A:533 , HOH A:561 , HOH A:588 , HOH A:730 , HOH A:732BINDING SITE FOR RESIDUE CAC A 461
07AC7SOFTWAREASP A:39 , TYR A:372 , HOH A:648 , LYS B:356 , ILE B:358BINDING SITE FOR RESIDUE GOL B 453
08AC8SOFTWARELYS B:38 , HOH B:570BINDING SITE FOR RESIDUE GOL B 454
09AC9SOFTWAREGLU B:276 , GLU B:289 , ANP B:457 , HOH B:610BINDING SITE FOR RESIDUE CA B 455
10BC1SOFTWAREGLU B:289 , ASN B:291 , ANP B:457 , HOH B:611 , HOH B:684BINDING SITE FOR RESIDUE CA B 456
11BC2SOFTWARELYS B:117 , ILE B:132 , ILE B:157 , LYS B:159 , GLY B:164 , GLY B:165 , GLY B:166 , MSE B:169 , GLU B:201 , LYS B:202 , TYR B:203 , ILE B:204 , HIS B:209 , GLN B:233 , HIS B:236 , GLU B:276 , LEU B:278 , GLU B:289 , THR B:437 , HOH B:444 , CA B:455 , CA B:456 , HOH B:508 , HOH B:583 , HOH B:584 , HOH B:585 , HOH B:610 , HOH B:615 , HOH B:717 , HOH B:736BINDING SITE FOR RESIDUE ANP B 457
12BC3SOFTWAREMSE B:114 , SER B:115 , LYS B:117 , ALA B:161 , ALA B:162 , GLY B:163 , HOH B:560 , HOH B:612 , HOH B:684BINDING SITE FOR RESIDUE CAC B 458
13BC4SOFTWARESER B:344 , LYS B:415 , THR B:416BINDING SITE FOR RESIDUE FMT B 459

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3OUU)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Tyr A:154 -Pro A:155
2Ser A:243 -Pro A:244
3Tyr B:154 -Pro B:155
4Ser B:243 -Pro B:244

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3OUU)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3OUU)

(-) Exons   (0, 0)

(no "Exon" information available for 3OUU)

(-) Sequences/Alignments

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:446
 aligned with Q0P8W7_CAMJE | Q0P8W7 from UniProtKB/TrEMBL  Length:443

    Alignment length:446
                               1                                                                                                                                                                                                                                                                                                                                                                                                                                                          
                               |     7        17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437      
         Q0P8W7_CAMJE     - ---MEIKSILIANRGEIALRALRTIKEMGKKAICVYSEADKDALYLKYADASICIGKARSSESYLNIPAIIAAAEIAEADAIFPGYGFLSENQNFVEICAKHNIKFIGPSVEAMNLMSDKSKAKQVMQRAGVPVIPGSDGALAGAEAAKKLAKEIGYPVILKAAAGGGGRGMRVVENEKDLEKAYWSAESEAMTAFGDGTMYMEKYIQNPRHIEVQVIGDSFGNVIHVGERDCSMQRRHQKLIEESPAILLDEKTRTRLHETAIKAAKAIGYEGAGTFEFLVDKNLDFYFIEMNTRLQVEHCVSEMVSGIDIIEQMIKVAEGYALPSQESIKLNGHSIECRITAEDSKTFLPSPGKITKYIPPAGRNVRMESHCYQDYSVPAYYDSMIGKLVVWAEDRNKAIAKMKVALDELLISGIKTTKDFHLSMMENPDFINNNYDTNYLARH 443
               SCOP domains d3ouua1 A:-2-116 automated matches                                                                                     d3ouua2 A:117-329 automated matches                                                                                                                                                                                  d3ouua3 A:330-443 automated matches                                                                                SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeee..hhhhhhhhhhhhhhh..eeeeeee.hhh..hhhhhh.eeeeee...hhhhhhhhhhhhhhhhhhh..eee........hhhhhhhhhhh..ee...hhhhhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhh..eeeee.........eee.hhhhhhhhhhhhhhhhhhhhh...eeeee.....eeeeeeeee.....eeeeeeee...ee..ee.eeee.....hhhhhhhhhhhhhhhhhhh...eeeeeeeee.....eeeeeee.....hhhhhhhhhh.hhhhhhhhhhh.....hhhhh....eeeeeeee...........ee..eee......eeeee......ee......eeeeeeeee.hhhhhhhhhhhhhhhheee....hhhhhhhhhhhhhhhh......hhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ouu A  -2 SNAmEIKSILIANRGEIALRALRTIKEmGKKAICVYSEADKDALYLKYADASICIGKARSSESYLNIPAIIAAAEIAEADAIFPGYGFLSENQNFVEICAKHNIKFIGPSVEAmNLmSDKSKAKQVmQRAGVPVIPGSDGALAGAEAAKKLAKEIGYPVILKAAAGGGGRGmRVVENEKDLEKAYWSAESEAmTAFGDGTmYmEKYIQNPRHIEVQVIGDSFGNVIHVGERDCSmQRRHQKLIEESPAILLDEKTRTRLHETAIKAAKAIGYEGAGTFEFLVDKNLDFYFIEmNTRLQVEHCVSEmVSGIDIIEQmIKVAEGYALPSQESIKLNGHSIECRITAEDSKTFLPSPGKITKYIPPAGRNVRmESHCYQDYSVPAYYDSmIGKLVVWAEDRNKAIAKmKVALDELLISGIKTTKDFHLSmmENPDFINNNYDTNYLARH 443
                               |     7        17       |27        37        47        57        67        77        87        97       107   |  |117      |127       137       147       157       167 |     177       187  |    197| |    207       217       227    |  237       247       257       267       277       287  |    297     | 307     | 317       327       337       347       357       367       377      |387       397    |  407       417      |427       437      
                               |                      25-MSE                                                                               111-MSE      124-MSE                                      169-MSE              190-MSE 198-MSE                           232-MSE                                                   290-MSE      303-MSE   313-MSE                                               367-MSE          384-MSE           402-MSE               424-MSE               
                               1-MSE                                                                                                          114-MSE                                                                               200-MSE                                                                                                                                                                                                                          425-MSE              


Chain B from PDB  Type:PROTEIN  Length:443
 aligned with Q0P8W7_CAMJE | Q0P8W7 from UniProtKB/TrEMBL  Length:443

    Alignment length:443
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440   
         Q0P8W7_CAMJE     1 MEIKSILIANRGEIALRALRTIKEMGKKAICVYSEADKDALYLKYADASICIGKARSSESYLNIPAIIAAAEIAEADAIFPGYGFLSENQNFVEICAKHNIKFIGPSVEAMNLMSDKSKAKQVMQRAGVPVIPGSDGALAGAEAAKKLAKEIGYPVILKAAAGGGGRGMRVVENEKDLEKAYWSAESEAMTAFGDGTMYMEKYIQNPRHIEVQVIGDSFGNVIHVGERDCSMQRRHQKLIEESPAILLDEKTRTRLHETAIKAAKAIGYEGAGTFEFLVDKNLDFYFIEMNTRLQVEHCVSEMVSGIDIIEQMIKVAEGYALPSQESIKLNGHSIECRITAEDSKTFLPSPGKITKYIPPAGRNVRMESHCYQDYSVPAYYDSMIGKLVVWAEDRNKAIAKMKVALDELLISGIKTTKDFHLSMMENPDFINNNYDTNYLARH 443
               SCOP domains d3ouub1 B:1-116 automated matches                                                                                   d3ouub2 B:117-329 automated matches                                                                                                                                                                                  d3ouub3 B:330-443 automated matches                                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -CPSase_L_chain-3ouuB05 B:2-111                                                                                ----CPSase_L_D2-3ouuB01 B:116-325                                                                                                                                                                                     ----------Biotin_carb_C-3ouuB03 B:336-441                                                                           -- Pfam domains (1)
           Pfam domains (2) -CPSase_L_chain-3ouuB06 B:2-111                                                                                ----CPSase_L_D2-3ouuB02 B:116-325                                                                                                                                                                                     ----------Biotin_carb_C-3ouuB04 B:336-441                                                                           -- Pfam domains (2)
         Sec.struct. author ....eeee..hhhhhhhhhhhhhhh..eeeeeee.hhh.hhhhhh..eeeeee..hhhhhh.hhhhhhhhhhhh...eee........hhhhhhhhhhh..ee...hhhhhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhh..eeeee.........eee.hhhhhhhhhhhhhhhhhhhhh...eeeee.....eeeeeeeee.....eeeeeeee...ee..ee.eeee.....hhhhhhhhhhhhhhhhhhh...eeeeeeeee.....eeeeeee.....hhhhhhhhhh.hhhhhhhhhhh.....hhhhh....eeeeeeee...........ee..eee......eeeee......ee......eeeeeeeee.hhhhhhhhhhhhhhhheee....hhhhhhhhhhhhhhhh......hhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ouu B   1 mEIKSILIANRGEIALRALRTIKEmGKKAICVYSEADKDALYLKYADASICIGKARSSESYLNIPAIIAAAEIAEADAIFPGYGFLSENQNFVEICAKHNIKFIGPSVEAmNLmSDKSKAKQVmQRAGVPVIPGSDGALAGAEAAKKLAKEIGYPVILKAAAGGGGRGmRVVENEKDLEKAYWSAESEAmTAFGDGTmYmEKYIQNPRHIEVQVIGDSFGNVIHVGERDCSmQRRHQKLIEESPAILLDEKTRTRLHETAIKAAKAIGYEGAGTFEFLVDKNLDFYFIEmNTRLQVEHCVSEmVSGIDIIEQmIKVAEGYALPSQESIKLNGHSIECRITAEDSKTFLPSPGKITKYIPPAGRNVRmESHCYQDYSVPAYYDSmIGKLVVWAEDRNKAIAKmKVALDELLISGIKTTKDFHLSmmENPDFINNNYDTNYLARH 443
                            |       10        20    |   30        40        50        60        70        80        90       100       110|  |   120   |   130       140       150       160       170       180       190       200       210       220       230 |     240       250       260       270       280       290       300  |    310  |    320       330       340       350       360      |370       380   |   390       400 |     410       420   ||  430       440   
                            1-MSE                  25-MSE                                                                               111-MSE      124-MSE                                      169-MSE              190-MSE 198-MSE                           232-MSE                                                   290-MSE      303-MSE   313-MSE                                               367-MSE          384-MSE           402-MSE               424-MSE               
                                                                                                                                           114-MSE                                                                               200-MSE                                                                                                                                                                                                                          425-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  (3, 6)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OUU)

(-) Pfam Domains  (3, 6)

Asymmetric/Biological Unit
(-)
Clan: ATP-grasp (83)
(-)
Clan: no clan defined [family: Biotin_carb_C] (23)
(-)
Clan: no clan defined [family: CPSase_L_chain] (25)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q0P8W7_CAMJE | Q0P8W7)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003989    acetyl-CoA carboxylase activity    Catalysis of the reaction: ATP + acetyl-CoA + HCO3- = ADP + phosphate + malonyl-CoA.
    GO:0004075    biotin carboxylase activity    Catalysis of the reaction: ATP + biotin-carboxyl-carrier protein + CO2 = ADP + phosphate + carboxybiotin-carboxyl-carrier protein.
    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:0016874    ligase activity    Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
    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.

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        Q0P8W7_CAMJE | Q0P8W7: 3ouz

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