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(-) Description

Title :  CRYSTAL STRUCTURE I OF MURF FROM ACINETOBACTER BAUMANNII
 
Authors :  Y. J. An, C. S. Jeong, S. S. Cha
Date :  19 May 14  (Deposition) - 01 Apr 15  (Release) - 01 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Udp-N-Acetylmuramoyl-Tripeptide-D-Alanyl-D-Ananine Ligase, Murf, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. S. Cha, Y. J. An, C. S. Jeong, J. H. Yu, K. M. Chung
Atp-Binding Mode Including A Carbamoylated Lysine And Two Mg(2+) Ions, And Substrate-Binding Mode In Acinetobacter Baumannii Murf
Biochem. Biophys. Res. Commun. V. 450 1045 2014
PubMed-ID: 24978312  |  Reference-DOI: 10.1016/J.BBRC.2014.06.108

(-) Compounds

Molecule 1 - UDP-N-ACETYLMURAMOYL-TRIPEPTIDE--D-ALANYL-D-ALANINE LIGASE
    Chains: A, B
    EC Number: 6.3.2.10
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PRSET-A
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: ABBFA_000315
    Organism Scientific: ACINETOBACTER BAUMANNII
    Organism Taxid: 557600
    Strain: AB307-0294

 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  (3, 8)

Asymmetric Unit (3, 8)
No.NameCountTypeFull Name
1ATP2Ligand/IonADENOSINE-5'-TRIPHOSPHATE
2KCX2Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
3MG4Ligand/IonMAGNESIUM ION
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1ATP1Ligand/IonADENOSINE-5'-TRIPHOSPHATE
2KCX1Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
3MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1ATP1Ligand/IonADENOSINE-5'-TRIPHOSPHATE
2KCX1Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
3MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:123 , GLY A:124 , LYS A:125 , THR A:126 , THR A:127 , ASN A:150 , GLU A:172 , ASN A:197 , HIS A:292 , ASN A:296 , ARG A:327 , LEU A:328 , ASP A:341 , ASN A:344 , SER A:349 , LYS A:448 , MG A:502 , MG A:503BINDING SITE FOR RESIDUE ATP A 501
2AC2SOFTWARETHR A:126 , ASN A:150 , GLU A:172 , ATP A:501BINDING SITE FOR RESIDUE MG A 502
3AC3SOFTWAREHIS A:202 , KCX A:216 , ATP A:501BINDING SITE FOR RESIDUE MG A 503
4AC4SOFTWARESER B:123 , GLY B:124 , LYS B:125 , THR B:126 , THR B:127 , ASN B:150 , GLU B:172 , ASN B:197 , HIS B:292 , ASN B:296 , ARG B:327 , ASP B:341 , ASN B:344 , SER B:349 , ALA B:352 , LYS B:448 , MG B:502 , MG B:503BINDING SITE FOR RESIDUE ATP B 501
5AC5SOFTWARETHR B:126 , ASN B:150 , GLU B:172 , ATP B:501BINDING SITE FOR RESIDUE MG B 502
6AC6SOFTWAREHIS B:202 , KCX B:216 , ATP B:501BINDING SITE FOR RESIDUE MG B 503

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4QF5)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ala A:334 -Pro A:335
2Ala B:334 -Pro B:335

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4QF5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4QF5)

(-) Exons   (0, 0)

(no "Exon" information available for 4QF5)

(-) 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:459
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhh.ee.hhh.......eee.........eeee.......hhhhhhhhhhhh...eeee........eeee..hhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhh....eee........hhhhhhhh.......eeeee......hhhhhhhhhhh..eeee......hhhhhhhhhhhhhhhhhhhh......eeeee....hhhhhhhhh...eeeee......eeeeeeee..eeeeeeee..eeeeeee...hhhhhhhhhhhhhhhhhh..hhhhhhhhhhh........eeeee..eeeeee....hhhhhhhhhhhhhh...eeeeeee.......hhhhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhhhh.eeee.hhhhhhhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qf5 A   7 STVPLEPWTAQQLQQATQGYWHKDQIPQTEIKRILTDSRHAESGDAFLALKGERFDAHNFVAQVVANGCQVAIVERPIDAEIAQLVVADTRLALGQLGAYRREQNAQLKVIALTGSSGKTTTKEMLGSILSRLAPTLITRGNLNNDLGVPMMLLELRKEHQYAVMELGANHQGEIDYTSKIVQPHVAGILNIGTAHLGEFGGRDGICRAkSEIYRHILPQGVAIVPQQDDFTAEIREAAKSHQIMSFGEGGDVFATEIELLPQSANFQLHTPQGSSFVRLPFAGEHNVQNATAAVAFALALGVSLEDIVKGLEQAQGAKGRLNFIQKAPHLFIDDTYNANPTSMRAAAQVLLQQNGIKVMVMGDIGELGDSSWQEHHDLGRDLAELPLDHIVAVGQFASAALEGAGLHSTKLKAFQTQAEALPFLINLIQTHQPQSMSFLFKGSRFTHMETLMADLMEK 465
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456         
                                                                                                                                                                                                                                           216-KCX                                                                                                                                                                                                                                                     


Chain B from PDB  Type:PROTEIN  Length:453
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhh.ee.hhh.......eee.........eeee.......hhhhhhhhhhhh...eeee........eeee..hhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhhhhhhhhh...eee........hhhhhhhh.......eeeee......hhhhhhhhhhh..eeee......hhhhhhhhhhhhhhhhhhhh......eeeee....hhhhhhhhh...eeeee......eeeeeeee..eeeeeeee..eeeeeee...hhhhhhhhhhhhhhhhhh..hhhhhhhhhhh........eeeee..eeeeee....hhhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhhhhh...eeeee..hhhhhhhhh..eeee.hhhhhhhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4qf5 B   9 VPLEPWTAQQLQQATQGYWHKDQIPQTEIKRILTDSRHAESGDAFLALKGERFDAHNFVAQVVANGCQVAIVERPIDAEIAQLVVADTRLALGQLGAYRREQNAQLKVIALTGSSGKTTTKEMLGSILSRLAPTLITRGNLNNDLGVPMMLLELRKEHQYAVMELGANHQGEIDYTSKIVQPHVAGILNIGTAHLGEFGGRDGICRAkSEIYRHILPQGVAIVPQQDDFTAEIREAAKSHQIMSFGEGGDVFATEIELLPQSANFQLHTPQGSSFVRLPFAGEHNVQNATAAVAFALALGVSLEDIVKGLEQAQGAKGRLNFIQKAPHLFIDDTYNANPTSMRAAAQVLLQQNGIKVMVMGDIGELGDSSWQEHHDLGRDLAELPLDHIVAVGQFASAALEGATKLKAFQTQAEALPFLINLIQTHQPQSMSFLFKGSRFTHMETLMADLMEK 465
                                    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  ||   422       432       442       452       462   
                                                                                                                                                                                                                                         216-KCX                                                                                                                                                                                            411|                                                 
                                                                                                                                                                                                                                                                                                                                                                                                                                             416
   Legend:   → Mismatch (orange background)
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  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 4QF5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4QF5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4QF5)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4QF5)

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