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(-) Description

Title :  CRYSTAL STRUCTURE OF BETA-KETOACYL-ACP SYNTHASE II (FABF) FROM VIBRIO CHOLERAE (SPACE GROUP P212121) AT 1.75 ANGSTROM
 
Authors :  J. Hou, M. Chruszcz, I. G. Shabalin, H. Zheng, D. R. Cooper, W. F. Anderso W. Minor, Center For Structural Genomics Of Infectious Diseas (Csgid)
Date :  21 Mar 13  (Deposition) - 03 Apr 13  (Release) - 03 Apr 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  C,D  (1x)
Biol. Unit 2:  A,B  (1x)
Keywords :  Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Vibrio Cholerae, Fabf, Beta-Ketoacyl-(Acyl Carrier Protein) Synthase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Hou, M. Chruszcz, I. G. Shabalin, H. Zheng, D. R. Cooper, W. F. Anderson, W. Minor, Center For Structural Genomics Of Infectious Diseases (Csgid)
Crystal Structure Of Beta-Ketoacyl-Acp Synthase Ii (Fabf) From Vibrio Cholerae (Space Group P43) At 2. 2 Angstrom
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - 3-OXOACYL-[ACYL-CARRIER-PROTEIN] SYNTHASE 2
    Chains: D, A, B, C
    EC Number: 2.3.1.179
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21-CODONPLUS(DE3)-RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: FABF, VC2019, VC_2019
    Organism Scientific: VIBRIO CHOLERAE O1
    Organism Taxid: 243277
    Strain: ATCC 39315 / EL TOR INABA N16961
    Synonym: FABF, 3-OXOACYL-[ACYL-CARRIER-PROTEIN] SYNTHASE II, BETA- KETOACYL-ACP SYNTHASE II, KAS II

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x):   CD
Biological Unit 2 (1x): AB  

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2GOL2Ligand/IonGLYCEROL
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2GOL-1Ligand/IonGLYCEROL
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2GOL2Ligand/IonGLYCEROL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG D:212 , GLU D:215BINDING SITE FOR RESIDUE ACT D 501
2AC2SOFTWAREARG A:289 , LEU B:29 , ARG B:100 , GOL B:502BINDING SITE FOR RESIDUE GOL A 501
3AC3SOFTWAREARG B:212BINDING SITE FOR RESIDUE ACT B 501
4AC4SOFTWAREARG A:289 , GOL A:501 , LYS B:26BINDING SITE FOR RESIDUE GOL B 502

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4JRM)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4JRM)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4JRM)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4JRM)

(-) Exons   (0, 0)

(no "Exon" information available for 4JRM)

(-) 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:412
                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains d4jrma1 A:3-252 automated matches                                                                                                                                                                                                                         d4jrma2 A:253-414 automated matches                                                                                                                                SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.....hhhhhhhhhhh....eee............eee.....hhhhh.hhhhhh..hhhhhhhhhhhhhhhhhhh......hhh.eeeeee....hhhhhhhhhhhhhhhhhhhh..hhhhhhh.hhhhhhhhhhhh....ee...hhhhhhhhhhhhhhhhhhhh...eeeeeeee...hhhhhhhhhhh........hhhhh...............eeeeeeeeehhhhhhhh....eeeeeeeeee...........hhhhhhhhhhhhhhhh.hhh.eeeee.....hhhhhhhhhhhhhhhhhhhhhhhheee.hhhhhh.hhhhhhhhhhhhhhhhhhhhee......................ee.....eeeeeeee...eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jrm A   3 KRRVVVTGMGMLSPVGNTVESSWKALLAGQSGIVNIEHFDTTNFSTRFAGLVKGFDCEQYMSKKDARKMDLFIQYGIAAGIQALEDSGLEVNEENAARIGVAIGSGIGGLELIETGHQALIEKGPRKVSPFFVPSTIVNMIAGNLSIMRGLRGPNIAISTACTTGLHNIGHAARMIAYGDADAMVAGGAEKASTPLGMAGFGAAKALSTRNDEPQKASRPWDKDRDGFVLGDGAGIMVLEEYEHAKARGAKIYAEVVGFGMSGDAYHMTSPSEDGSGGALAMEAAMRDAGVTGEQIGYVNAHGTSTPAGDVAEVKGIKRALGEAGTKQVLVSSTKSMTGHLLGAAGSVEAIITVMSLVDQMVPPTINLDNPEEGLGVDLVPHVARKVESMEYAMCNSFGFGGTNGSLIFKRM 414
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412  


Chain B from PDB  Type:PROTEIN  Length:412
                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains d4jrmb1 B:3-252 automated matches                                                                                                                                                                                                                         d4jrmb2 B:253-414 automated matches                                                                                                                                SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.....hhhhhhhhhhh....eee............eee.....hhhhh.hhhhhh..hhhhhhhhhhhhhhhhhhh......hhh.eeeeee....hhhhhhhhhhhhhhhhhhhh..hhhhhhh.hhhhhhhhhhhh....ee...hhhhhhhhhhhhhhhhhhhh...eeeeeeee...hhhhhhhhhhh........hhhhh...............eeeeeeeeehhhhhhh.....eeeeeeeeee...........hhhhhhhhhhhhhhhh.hhh.eeeee.....hhhhhhhhhhhhhhhhhhhhhhhheee.hhhhhh.hhhhhhhhhhhhhhhhhhhhee......................ee.....eeeeeeee...eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jrm B   3 KRRVVVTGMGMLSPVGNTVESSWKALLAGQSGIVNIEHFDTTNFSTRFAGLVKGFDCEQYMSKKDARKMDLFIQYGIAAGIQALEDSGLEVNEENAARIGVAIGSGIGGLELIETGHQALIEKGPRKVSPFFVPSTIVNMIAGNLSIMRGLRGPNIAISTACTTGLHNIGHAARMIAYGDADAMVAGGAEKASTPLGMAGFGAAKALSTRNDEPQKASRPWDKDRDGFVLGDGAGIMVLEEYEHAKARGAKIYAEVVGFGMSGDAYHMTSPSEDGSGGALAMEAAMRDAGVTGEQIGYVNAHGTSTPAGDVAEVKGIKRALGEAGTKQVLVSSTKSMTGHLLGAAGSVEAIITVMSLVDQMVPPTINLDNPEEGLGVDLVPHVARKVESMEYAMCNSFGFGGTNGSLIFKRM 414
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412  


Chain C from PDB  Type:PROTEIN  Length:413
                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains d4jrmc1 C:2-252 automated matches                                                                                                                                                                                                                          d4jrmc2 C:253-414 automated matches                                                                                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeee.....hhhhhhhhhhh....eee............eee.....hhhhh.hhhhhh..hhhhhhhhhhhhhhhhhhh......hhh.eeeeee....hhhhhhhhhhhhhhhhhhhh..hhhhhhh.hhhhhhhhhhhh....ee...hhhhhhhhhhhhhhhhhhhh...eeeeeeee...hhhhhhhhhhh........hhhhhh..............eeeeeeeeehhhhhhhh....eeeeeeeeee...........hhhhhhhhhhhhhhhh.hhh.eeeee.....hhhhhhhhhhhhhhhhhhhh....eee.hhhhhh.hhhhhhhhhhhhhhhhhhhhee......................ee.....eeeeeeee...eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jrm C   2 SKRRVVVTGMGMLSPVGNTVESSWKALLAGQSGIVNIEHFDTTNFSTRFAGLVKGFDCEQYMSKKDARKMDLFIQYGIAAGIQALEDSGLEVNEENAARIGVAIGSGIGGLELIETGHQALIEKGPRKVSPFFVPSTIVNMIAGNLSIMRGLRGPNIAISTACTTGLHNIGHAARMIAYGDADAMVAGGAEKASTPLGMAGFGAAKALSTRNDEPQKASRPWDKDRDGFVLGDGAGIMVLEEYEHAKARGAKIYAEVVGFGMSGDAYHMTSPSEDGSGGALAMEAAMRDAGVTGEQIGYVNAHGTSTPAGDVAEVKGIKRALGEAGTKQVLVSSTKSMTGHLLGAAGSVEAIITVMSLVDQMVPPTINLDNPEEGLGVDLVPHVARKVESMEYAMCNSFGFGGTNGSLIFKRM 414
                                    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       281       291       301       311       321       331       341       351       361       371       381       391       401       411   


Chain D from PDB  Type:PROTEIN  Length:412
                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains d4jrmd1 D:3-252 automated matches                                                                                                                                                                                                                         d4jrmd2 D:253-414 automated matches                                                                                                                                SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.....hhhhhhhhhhh....eee............eee.....hhhhh.hhhhhh..hhhhhhhhhhhhhhhhhhh......hhh.eeeeee....hhhhhhhhhhhhhhhhhhhh..hhhhhhh.hhhhhhhhhhhh....ee...hhhhhhhhhhhhhhhhhhhh...eeeeeeee...hhhhhhhhhhh........hhhhhh..............eeeeeeeeehhhhhhh.....eeeeeeeeee...........hhhhhhhhhhhhhhhh.hhh.eeeee.....hhhhhhhhhhhhhhhhhhhhhhhheee.hhhhhh.hhhhhhhhhhhhhhhhhhhhee......................ee.....eeeeeeee...eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jrm D   3 KRRVVVTGMGMLSPVGNTVESSWKALLAGQSGIVNIEHFDTTNFSTRFAGLVKGFDCEQYMSKKDARKMDLFIQYGIAAGIQALEDSGLEVNEENAARIGVAIGSGIGGLELIETGHQALIEKGPRKVSPFFVPSTIVNMIAGNLSIMRGLRGPNIAISTACTTGLHNIGHAARMIAYGDADAMVAGGAEKASTPLGMAGFGAAKALSTRNDEPQKASRPWDKDRDGFVLGDGAGIMVLEEYEHAKARGAKIYAEVVGFGMSGDAYHMTSPSEDGSGGALAMEAAMRDAGVTGEQIGYVNAHGTSTPAGDVAEVKGIKRALGEAGTKQVLVSSTKSMTGHLLGAAGSVEAIITVMSLVDQMVPPTINLDNPEEGLGVDLVPHVARKVESMEYAMCNSFGFGGTNGSLIFKRM 414
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412
   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, 8)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)
(-)
Fold: Thiolase-like (231)
(-)
Superfamily: Thiolase-like (231)
(-)
Family: automated matches (108)
(-)
Protein domain: automated matches (108)
(-)
Vibrio cholerae [TaxId: 243277] (3)
1ad4jrma1A:3-252
1bd4jrma2A:253-414
1cd4jrmb1B:3-252
1dd4jrmb2B:253-414
1ed4jrmc1C:2-252
1fd4jrmc2C:253-414
1gd4jrmd1D:3-252
1hd4jrmd2D:253-414

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4JRM)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4JRM)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)

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        FABF_VIBCH | Q9KQH9: 4jrh

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