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(-) Description

Title :  CRYSTAL STRUCTURE OF ALANINE RACEMASE FROM BARTONELLA HENSELAE WITH COVALENTLY BOUND PYRIDOXAL PHOSPHATE
 
Authors :  Seattle Structural Genomics Center For Infectious Disease (S
Date :  30 Nov 09  (Deposition) - 22 Dec 09  (Release) - 20 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.04
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Niaid, Ssgcid, Seattle Structural Genomics Center For Infectious Disease, Iodide Soak, Alanine Racemase, Llp, Cat-Scratch Disease, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Abendroth, A. S. Gardberg, J. I. Robinson, J. S. Christensen, B. L. Staker, P. J. Myler, L. J. Stewart, T. E. Edwards
Sad Phasing Using Iodide Ions In A High-Throughput Structural Genomics Environment.
J. Struct. Funct. Genom. V. 12 83 2011
PubMed-ID: 21359836  |  Reference-DOI: 10.1007/S10969-011-9101-7

(-) Compounds

Molecule 1 - ALANINE RACEMASE
    Chains: A, B
    EC Number: 5.1.1.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: AVA0421
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: ALR, BH12810
    Organism Common: ROCHALIMAEA HENSELAE
    Organism Scientific: BARTONELLA HENSELAE
    Organism Taxid: 38323

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1LLP2Mod. Amino Acid2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE)

(-) Sites  (0, 0)

(no "Site" information available for 3KW3)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3KW3)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Ala A:38 -Pro A:39
2His A:240 -Pro A:241
3Ala B:38 -Pro B:39
4His B:240 -Pro B:241

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3KW3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3KW3)

(-) Exons   (0, 0)

(no "Exon" information available for 3KW3)

(-) 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:344
 aligned with A0A0H3LZE4_B | A0A0H3LZE4 from UniProtKB/TrEMBL  Length:372

    Alignment length:360
                                    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
         A0A0H3LZE4_B    13 FPATAIATIDVRAIVANYRTLAQHVAPTECSAVVKANAYGLGAHKIAPALYQAGCRTFFVAQIEEALQLKAVLPENVMIALLNGFPHKAEEFVAQSGIIPLLNSWSTIEDWQTLCQKKNKKFPAIIQVDTNMSRLGLDKKELQKLIKNPTIFEKAEIKYILSHLANGEDASHSSNNKQLAAFKRVLAQLPTCKVSFANSGGIFLGSDFYFDLVRPGIALYGVDPHGKHPTPLKAVVKVEAQVLQSRFIDAGIPVGYRESFMTRRPSTLATISIGYADGWPRILSNKGTVYFNGHKLPIVGHISMDSIIVDATDLDKKPQRGDWVELIGPHQPLEKVSTDTNTIPHEILTSLGKRYKRIYI 372
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeehhhhhhhhhhhhhhhh..ee.eehhhhhhh.hhhhhhhhhhhh...eeee.hhhhhhhhhhhh....eeee.......hhhhhhhh..eeee.hhhhhhhhhhhhhhhh...eeeee..........hhhhhhhhhhh.hhhhhheeeeee...........hhhhhhhhhhhhhhh......ee..hhhhhhhhhhhh..ee..hhhhhh..............eeeeeeeeeeee.----------------..eeeee..hhhhh.hhhhh...eeee..eeee.........eeee............eeeee....hhhhhhhhhh.hhhhhhhh.....eeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3kw3 A  13 FPATAIATIDVRAIVANYRTLAQHVAPTECSAVVkANAYGLGAHKIAPALYQAGCRTFFVAQIEEALQLKAVLPENVMIALLNGFPHKAEEFVAQSGIIPLLNSWSTIEDWQTLCQKKNKKFPAIIQVDTNMSRLGLDKKELQKLIKNPTIFEKAEIKYILSHLANGEDASHSSNNKQLAAFKRVLAQLPTCKVSFANSGGIFLGSDFYFDLVRPGIALYGVDPHGKHPTPLKAVVKVEAQVLQSRFI----------------PSTLATISIGYADGWPRILSNKGTVYFNGHKLPIVGHISMDSIIVDATDLDKKPQRGDWVELIGPHQPLEKVSTDTNTIPHEILTSLGKRYKRIYI 372
                                    22        32        42    |   52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       | -         -    |  282       292       302       312       322       332       342       352       362       372
                                                             47-LLP                                                                                                                                                                                                              260              277                                                                                               


Chain B from PDB  Type:PROTEIN  Length:359
 aligned with A0A0H3LZE4_B | A0A0H3LZE4 from UniProtKB/TrEMBL  Length:372

    Alignment length:359
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363         
         A0A0H3LZE4_B    14 PATAIATIDVRAIVANYRTLAQHVAPTECSAVVKANAYGLGAHKIAPALYQAGCRTFFVAQIEEALQLKAVLPENVMIALLNGFPHKAEEFVAQSGIIPLLNSWSTIEDWQTLCQKKNKKFPAIIQVDTNMSRLGLDKKELQKLIKNPTIFEKAEIKYILSHLANGEDASHSSNNKQLAAFKRVLAQLPTCKVSFANSGGIFLGSDFYFDLVRPGIALYGVDPHGKHPTPLKAVVKVEAQVLQSRFIDAGIPVGYRESFMTRRPSTLATISIGYADGWPRILSNKGTVYFNGHKLPIVGHISMDSIIVDATDLDKKPQRGDWVELIGPHQPLEKVSTDTNTIPHEILTSLGKRYKRIYI 372
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeehhhhhhhhhhhhhhhh..ee.eehhhhhhh.hhhhhhhhhhhh...eeee.hhhhhhhhhhhh....eeee.......hhhhhhhh..eeee.hhhhhhhhhhhhhhhh...eeeee..........hhhhhhhhhhh.hhhhhheeeeee...........hhhhhhhhhhhhhhhh.....ee..hhhhhhhhhhhh..ee..hhhhhh..............eeeeeeeeeeeee....eehhhhhee....eeeeee..hhhhh.hhhhh...eeee..eeee.........eeee............eeeee....hhhhhhhhhh.hhhhhhhh.....eeeee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3kw3 B  14 PATAIATIDVRAIVANYRTLAQHVAPTECSAVVkANAYGLGAHKIAPALYQAGCRTFFVAQIEEALQLKAVLPENVMIALLNGFPHKAEEFVAQSGIIPLLNSWSTIEDWQTLCQKKNKKFPAIIQVDTNMSRLGLDKKELQKLIKNPTIFEKAEIKYILSHLANGEDASHSSNNKQLAAFKRVLAQLPTCKVSFANSGGIFLGSDFYFDLVRPGIALYGVDPHGKHPTPLKAVVKVEAQVLQSRFIDAGIPVGYRESFMTRRPSTLATISIGYADGWPRILSNKGTVYFNGHKLPIVGHISMDSIIVDATDLDKKPQRGDWVELIGPHQPLEKVSTDTNTIPHEILTSLGKRYKRIYI 372
                                    23        33        43   |    53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363         
                                                            47-LLP
   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 3KW3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3KW3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3KW3)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3KW3)

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  Cis Peptide Bonds
    Ala A:38 - Pro A:39   [ RasMol ]  
    Ala B:38 - Pro B:39   [ RasMol ]  
    His A:240 - Pro A:241   [ RasMol ]  
    His B:240 - Pro B:241   [ RasMol ]  
 

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