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(-) Description

Title :  CRYSTAL STRUCTURE OF BIOTIN CARBOXYLASE-ADP 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) - 13 Oct 10  (Release) - 13 Oct 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A  (1x)
Biol. Unit 3:  B  (1x)
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-Adp Complex From Campylobacter Jejuni
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - BIOTIN CARBOXYLASE
    ChainsA, B
    EC Number6.3.4.14, 6.4.1.2
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPMCSG7
    Expression System StrainKRXPGRO7
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneACCC, CJ1290C
    Organism ScientificCAMPYLOBACTER JEJUNI SUBSP. JEJUNI
    Organism Taxid192222
    StrainNCTC 11168

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)AB
Biological Unit 2 (1x)A 
Biological Unit 3 (1x) B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (8, 61)

Asymmetric Unit (8, 61)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2FMT5Ligand/IonFORMIC ACID
3GOL13Ligand/IonGLYCEROL
4MG2Ligand/IonMAGNESIUM ION
5MLT1Ligand/IonMALATE ION
6MSE36Mod. Amino AcidSELENOMETHIONINE
7SRT1Ligand/IonS,R MESO-TARTARIC ACID
8TLA1Ligand/IonL(+)-TARTARIC ACID
Biological Unit 1 (7, 59)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2FMT5Ligand/IonFORMIC ACID
3GOL13Ligand/IonGLYCEROL
4MG-1Ligand/IonMAGNESIUM ION
5MLT1Ligand/IonMALATE ION
6MSE36Mod. Amino AcidSELENOMETHIONINE
7SRT1Ligand/IonS,R MESO-TARTARIC ACID
8TLA1Ligand/IonL(+)-TARTARIC ACID
Biological Unit 2 (5, 28)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2FMT2Ligand/IonFORMIC ACID
3GOL6Ligand/IonGLYCEROL
4MG-1Ligand/IonMAGNESIUM ION
5MLT-1Ligand/IonMALATE ION
6MSE18Mod. Amino AcidSELENOMETHIONINE
7SRT1Ligand/IonS,R MESO-TARTARIC ACID
8TLA-1Ligand/IonL(+)-TARTARIC ACID
Biological Unit 3 (6, 31)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2FMT3Ligand/IonFORMIC ACID
3GOL7Ligand/IonGLYCEROL
4MG-1Ligand/IonMAGNESIUM ION
5MLT1Ligand/IonMALATE ION
6MSE18Mod. Amino AcidSELENOMETHIONINE
7SRT-1Ligand/IonS,R MESO-TARTARIC ACID
8TLA1Ligand/IonL(+)-TARTARIC ACID

(-) Sites  (25, 25)

Asymmetric Unit (25, 25)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:24 , ASP A:308 , GLU A:311 , HOH A:490 , HOH A:586 , HOH A:686 , HOH A:796 , HOH A:844 , HOH B:596BINDING SITE FOR RESIDUE GOL A 451
02AC2SOFTWARELYS A:38 , SER A:49BINDING SITE FOR RESIDUE GOL A 452
03AC3SOFTWARELYS A:98 , HIS A:99 , HOH A:598BINDING SITE FOR RESIDUE GOL A 454
04AC4SOFTWARELYS A:121 , GLN A:125 , ILE A:132 , PRO A:133 , GLY A:134 , SER A:135 , HOH A:568 , HOH A:611 , HOH A:906BINDING SITE FOR RESIDUE GOL A 456
05AC5SOFTWARETRP A:183 , HOH A:834BINDING SITE FOR RESIDUE GOL A 457
06AC6SOFTWARELYS A:117 , ILE A:132 , ILE A:157 , LYS A:159 , GLY A:163 , 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 , GLU A:276 , LEU A:278 , ILE A:288 , GLU A:289 , THR A:437 , MG A:461 , HOH A:634 , HOH A:635 , HOH A:800 , HOH A:806 , HOH A:891BINDING SITE FOR RESIDUE ADP A 460
07AC7SOFTWAREGLU A:276 , GLU A:289 , ADP A:460 , HOH A:806 , HOH A:809BINDING SITE FOR RESIDUE MG A 461
08AC8SOFTWARESER A:344 , LYS A:415 , THR A:416 , HOH A:519BINDING SITE FOR RESIDUE FMT A 462
09AC9SOFTWAREARG A:126 , ALA A:266 , HOH A:696 , LYS B:4BINDING SITE FOR RESIDUE GOL A 463
10BC1SOFTWARELYS A:238 , ASN A:291 , ARG A:293 , GLN A:295 , VAL A:296 , GLU A:297 , ARG A:338 , FMT A:465 , HOH A:512 , HOH A:800 , HOH A:806 , HOH A:828 , HOH A:863BINDING SITE FOR RESIDUE SRT A 464
11BC2SOFTWAREGLN A:237 , LYS A:238 , ARG A:338 , SRT A:464 , HOH A:615 , HOH A:828BINDING SITE FOR RESIDUE FMT A 465
12BC3SOFTWAREASP A:39 , LYS B:356 , ILE B:358 , HOH B:489 , HOH B:618BINDING SITE FOR RESIDUE GOL B 453
13BC4SOFTWAREHOH A:626 , GLY B:306 , MLT B:463 , HOH B:590 , HOH B:724 , HOH B:760BINDING SITE FOR RESIDUE FMT B 452
14BC5SOFTWAREARG A:363 , GLU B:24 , ASP B:308 , GLU B:311 , HOH B:715 , HOH B:720 , HOH B:751 , HOH B:860BINDING SITE FOR RESIDUE GOL B 444
15BC6SOFTWARETYR B:33 , LYS B:38 , SER B:49BINDING SITE FOR RESIDUE GOL B 454
16BC7SOFTWARELYS B:98 , HIS B:99 , HOH B:728BINDING SITE FOR RESIDUE GOL B 455
17BC8SOFTWARELYS B:265BINDING SITE FOR RESIDUE GOL B 456
18BC9SOFTWARELYS B:418 , HOH B:614 , HOH B:854BINDING SITE FOR RESIDUE FMT B 457
19CC1SOFTWARELYS 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 , GLU B:276 , LEU B:278 , ILE B:288 , GLU B:289 , THR B:437 , MG B:459 , HOH B:734 , HOH B:808 , HOH B:853 , HOH B:894BINDING SITE FOR RESIDUE ADP B 458
20CC2SOFTWAREGLU B:276 , GLU B:289 , ADP B:458 , HOH B:807 , HOH B:808BINDING SITE FOR RESIDUE MG B 459
21CC3SOFTWAREMSE A:303 , ASN A:364 , HOH A:675 , MSE B:303 , ASN B:364 , TRP B:391 , FMT B:452 , HOH B:584 , HOH B:693BINDING SITE FOR RESIDUE MLT B 463
22CC4SOFTWARESER B:412 , GLY B:413 , ILE B:414 , GOL B:467BINDING SITE FOR RESIDUE GOL B 465
23CC5SOFTWAREGLN B:237 , LYS B:238 , ARG B:293 , GLN B:295 , VAL B:296 , GLU B:297 , ARG B:338 , FMT B:468 , HOH B:524 , HOH B:807 , HOH B:808 , HOH B:853BINDING SITE FOR RESIDUE TLA B 466
24CC6SOFTWAREASP B:343 , SER B:344 , LYS B:415 , THR B:416 , GOL B:465 , HOH B:550BINDING SITE FOR RESIDUE GOL B 467
25CC7SOFTWAREGLN B:237 , LYS B:238 , ARG B:338 , HOH B:449 , TLA B:466 , HOH B:582BINDING SITE FOR RESIDUE FMT B 468

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric 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 3OUZ)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3OUZ)

(-) 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:445
 aligned with Q0P8W7_CAMJE | Q0P8W7 from UniProtKB/TrEMBL  Length:443

    Alignment length:445
                              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     
         Q0P8W7_CAMJE     - --MEIKSILIANRGEIALRALRTIKEMGKKAICVYSEADKDALYLKYADASICIGKARSSESYLNIPAIIAAAEIAEADAIFPGYGFLSENQNFVEICAKHNIKFIGPSVEAMNLMSDKSKAKQVMQRAGVPVIPGSDGALAGAEAAKKLAKEIGYPVILKAAAGGGGRGMRVVENEKDLEKAYWSAESEAMTAFGDGTMYMEKYIQNPRHIEVQVIGDSFGNVIHVGERDCSMQRRHQKLIEESPAILLDEKTRTRLHETAIKAAKAIGYEGAGTFEFLVDKNLDFYFIEMNTRLQVEHCVSEMVSGIDIIEQMIKVAEGYALPSQESIKLNGHSIECRITAEDSKTFLPSPGKITKYIPPAGRNVRMESHCYQDYSVPAYYDSMIGKLVVWAEDRNKAIAKMKVALDELLISGIKTTKDFHLSMMENPDFINNNYDTNYLARH 443
               SCOP domains d3ouza1 A:-1-116 automated matches                                                                                    d3ouza2 A:117-329 automated matches                                                                                                                                                                                  d3ouza3 A:330-443 automated matches                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeee..hhhhhhhhhhhhhhh..eeeeeee.hhh..hhhhhh.eeeeee.....hhhhhhhhhhhhhhhhh..eee........hhhhhhhhhhh..ee...hhhhhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhh..eeeee........eeee.hhhhhhhhhhhhhhhhhhhhh...eeeee.....eeeeeeeee.....eeeeeeeeeeeee..eeeeeee.....hhhhhhhhhhhhhhhhhhh...eeeeeeeee.....eeeeeee.....hhhhhhhhhh.hhhhhhhhhhh.....hhhhh....eeeeeeee...........ee..eee......eeeee......ee......eeeeeeeee.hhhhhhhhhhhhhhhheee....hhhhhhhhhhhhhhhh.....hhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ouz A  -1 NAmEIKSILIANRGEIALRALRTIKEmGKKAICVYSEADKDALYLKYADASICIGKARSSESYLNIPAIIAAAEIAEADAIFPGYGFLSENQNFVEICAKHNIKFIGPSVEAmNLmSDKSKAKQVmQRAGVPVIPGSDGALAGAEAAKKLAKEIGYPVILKAAAGGGGRGmRVVENEKDLEKAYWSAESEAmTAFGDGTmYmEKYIQNPRHIEVQVIGDSFGNVIHVGERDCSmQRRHQKLIEESPAILLDEKTRTRLHETAIKAAKAIGYEGAGTFEFLVDKNLDFYFIEmNTRLQVEHCVSEmVSGIDIIEQmIKVAEGYALPSQESIKLNGHSIECRITAEDSKTFLPSPGKITKYIPPAGRNVRmESHCYQDYSVPAYYDSmIGKLVVWAEDRNKAIAKmKVALDELLISGIKTTKDFHLSmmENPDFINNNYDTNYLARH 443
                              |      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     
                              |                      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 d3ouzb1 B:1-116 automated matches                                                                                   d3ouzb2 B:117-329 automated matches                                                                                                                                                                                  d3ouzb3 B:330-443 automated matches                                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -CPSase_L_chain-3ouzB05 B:2-111                                                                                ----CPSase_L_D2-3ouzB01 B:116-325                                                                                                                                                                                     ----------Biotin_carb_C-3ouzB03 B:336-441                                                                           -- Pfam domains (1)
           Pfam domains (2) -CPSase_L_chain-3ouzB06 B:2-111                                                                                ----CPSase_L_D2-3ouzB02 B:116-325                                                                                                                                                                                     ----------Biotin_carb_C-3ouzB04 B:336-441                                                                           -- Pfam domains (2)
         Sec.struct. author ....eeee..hhhhhhhhhhhhhhh..eeeeeee.hhh..hhhhhh.eeeeee.....hhhhhhhhhhhhhhhh...eee........hhhhhhhhhhh..ee...hhhhhhhh.hhhhhhhhhhhh.............hhhhhhhhhhhhh..eeeee........eeee.hhhhhhhhhhhhhhhhhhhhh...eeeee.....eeeeeeeee.....eeeeeeeeeeeee..eeeeeee.....hhhhhhhhhhhhhhhhhhh...eeeeeeeee.....eeeeeee.....hhhhhhhhhh.hhhhhhhhhhh.....hhhhh....eeeeeeee...........ee..eee......eeeee......ee......eeeeeeeee.hhhhhhhhhhhhhhhheee....hhhhhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ouz 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 Unit

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (3, 6)

Asymmetric Unit

(-) Gene Ontology  (7, 7)

Asymmetric 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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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q0P8W7_CAMJE | Q0P8W73ouu

(-) Related Entries Specified in the PDB File

3ouu SAME PROTEIN WITH DIFFERENT LIGAND RELATED ID: IDP90722 RELATED DB: TARGETDB