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(-) Description

Title :  2.75 ANGSTROM RESOLUTION CRYSTAL STRUCTURE OF ACETAMIDASE FROM YERSINIA ENTEROCOLITICA.
 
Authors :  G. Minasov, L. Shuvalova, K. Flores, I. Dubrovska, S. Grimshaw, K. Kwon W. F. Anderson, Center For Structural Genomics Of Infectious D (Csgid)
Date :  21 Dec 16  (Deposition) - 04 Jan 17  (Release) - 04 Jan 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.75
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Acetamidase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Minasov, L. Shuvalova, K. Flores, I. Dubrovska, S. Grimshaw, K. Kwon, W. F. Anderson, Center For Structural Genomics Of Infectious Diseases (Csgid)
2. 75 Angstrom Resolution Crystal Structure Of Acetamidase From Yersinia Enterocolitica.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE ACETAMIDASE/FORMAMIDASE
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PMCSG53
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: Y11_22331
    Organism Scientific: YERSINIA ENTEROCOLITICA SUBSP. PALEARCTICA
    Organism Taxid: 930944
    Serotype O: 3
    Strain: DSM 13030 / CIP 106945 / Y11

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 68)

Asymmetric/Biological Unit (2, 68)
No.NameCountTypeFull Name
1MSE60Mod. Amino AcidSELENOMETHIONINE
2NA8Ligand/IonSODIUM ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:82 , ASN A:190 , ASP A:192 , ASP A:217 , NA A:402 , HOH A:632binding site for residue NA A 401
2AC2SOFTWAREASP A:217 , HIS A:219 , GLU A:226 , GLU A:233 , NA A:401 , HOH A:632binding site for residue NA A 402
3AC3SOFTWAREASP B:217 , HIS B:219 , GLU B:226 , GLU B:233 , NA B:402 , HOH B:556binding site for residue NA B 401
4AC4SOFTWAREASN B:82 , ASN B:190 , ASP B:192 , ASP B:217 , NA B:401 , HOH B:556 , HOH B:579binding site for residue NA B 402
5AC5SOFTWAREASN C:82 , ASN C:190 , ASP C:192 , ASP C:217 , NA C:402 , HOH C:593binding site for residue NA C 401
6AC6SOFTWAREASP C:217 , HIS C:219 , GLU C:226 , GLU C:233 , NA C:401 , HOH C:593binding site for residue NA C 402
7AC7SOFTWAREASP D:217 , HIS D:219 , GLU D:226 , GLU D:233 , NA D:402 , HOH D:551binding site for residue NA D 401
8AC8SOFTWAREASN D:82 , ASN D:190 , ASP D:192 , ASP D:217 , NA D:401 , HOH D:551binding site for residue NA D 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5UBU)

(-) Cis Peptide Bonds  (12, 12)

Asymmetric/Biological Unit
No.Residues
1Mse A:78 -Pro A:79
2Gly A:86 -Pro A:87
3Arg A:268 -Pro A:269
4Mse B:78 -Pro B:79
5Gly B:86 -Pro B:87
6Arg B:268 -Pro B:269
7Mse C:78 -Pro C:79
8Gly C:86 -Pro C:87
9Arg C:268 -Pro C:269
10Mse D:78 -Pro D:79
11Gly D:86 -Pro D:87
12Arg D:268 -Pro D:269

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5UBU)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5UBU)

(-) Exons   (0, 0)

(no "Exon" information available for 5UBU)

(-) 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:330
                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhh........eeeehhhhhh....ee.......eee....eeeee..............hhhhhh........eeeeee.......eeeeeeeeeee.....eeeeee......................eeeeeee...eee......ee...eeeeeee......ee...ee..eee.........eeeeee.....eeeeeeeee.............ee.eeeeeeeeee........eeee..eeeeeeee.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhheeeeee.....eeeeeeee.hhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5ubu A   0 AmKWLEESImVKRGVGAGRKPVTHHLTEEmQKEFHYTIGPYSTPVLTIEPGDRVIVDTRDAFEGAISSEQDIPSQLLKmPFLNPQNGPImINGAEKGDVIAVYIESmLPRGVNPHGICAmIPHFGGLTGTDLTAmLNDPLPEKVRmIKLDSEKVYWSERHTLPYKPHIGTLSVSPEIDSINSLTPDNHGGNmDVPDIGPGSITYLPVRAPGGRLFIGDAHACQGDGEICGTAVEFASITTIKVDLIKNWQLSWPRmENAETImSIGSARPLEDATRIAYRDLIYWLVADFGFEQWDAYmLLSQCGKVRLGNmVDPKYTVGAmLNKELLAQ 329
                             |       9        19        29        39        49        59        69        79        89        99      |109       119       129    |  139     | 149       159       169       179       189 |     199       209       219       229       239       249     | 259  |    269       279       289       299       309 |     319 |     329
                             |       9-MSE              29-MSE                                           78-MSE     89-MSE          106-MSE      119-MSE        134-MSE    145-MSE                                       191-MSE                                                         255-MSE  |                                 298-MSE      311-MSE   321-MSE    
                             1-MSE                                                                                                                                                                                                                                                              262-MSE                                                               


Chain B from PDB  Type:PROTEIN  Length:331
                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh........eeeehhhhhh....ee.......eee....eeeee..............hhhhhh.......eeeeeee.......eeeeeeeeeee.....eeeeee......................eeeeeee...eee......ee...eeeeeee......ee...ee..eee.........eeeeee.....eeeeeeeee.............ee.eeeeeeeeee........eeee..eeeeeeee.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhheeeeee.....eeeeeeee.hhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ubu B  -1 NAmKWLEESImVKRGVGAGRKPVTHHLTEEmQKEFHYTIGPYSTPVLTIEPGDRVIVDTRDAFEGAISSEQDIPSQLLKmPFLNPQNGPImINGAEKGDVIAVYIESmLPRGVNPHGICAmIPHFGGLTGTDLTAmLNDPLPEKVRmIKLDSEKVYWSERHTLPYKPHIGTLSVSPEIDSINSLTPDNHGGNmDVPDIGPGSITYLPVRAPGGRLFIGDAHACQGDGEICGTAVEFASITTIKVDLIKNWQLSWPRmENAETImSIGSARPLEDATRIAYRDLIYWLVADFGFEQWDAYmLLSQCGKVRLGNmVDPKYTVGAmLNKELLAQ 329
                              |      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 
                              1-MSE   9-MSE              29-MSE                                           78-MSE     89-MSE          106-MSE      119-MSE        134-MSE    145-MSE                                       191-MSE                                                         255-MSE  |                                 298-MSE      311-MSE   321-MSE    
                                                                                                                                                                                                                                                                                                 262-MSE                                                               


Chain C from PDB  Type:PROTEIN  Length:330
                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh........eeeehhhhhh....ee.......eee....eeeee..............hhhhhh.......eeeeeee.......eeeeeeeeeee.....eeeeee......................eeeeeee...eee......ee...eeeeeee......ee...ee..eee.........eeeeee.....eeeeeeeee.............ee.eeeeeeeeee........eeee..eeeeeeee.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhheeeeee.....eeeeeeee.hhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5ubu C   0 AmKWLEESImVKRGVGAGRKPVTHHLTEEmQKEFHYTIGPYSTPVLTIEPGDRVIVDTRDAFEGAISSEQDIPSQLLKmPFLNPQNGPImINGAEKGDVIAVYIESmLPRGVNPHGICAmIPHFGGLTGTDLTAmLNDPLPEKVRmIKLDSEKVYWSERHTLPYKPHIGTLSVSPEIDSINSLTPDNHGGNmDVPDIGPGSITYLPVRAPGGRLFIGDAHACQGDGEICGTAVEFASITTIKVDLIKNWQLSWPRmENAETImSIGSARPLEDATRIAYRDLIYWLVADFGFEQWDAYmLLSQCGKVRLGNmVDPKYTVGAmLNKELLAQ 329
                             |       9        19        29        39        49        59        69        79        89        99      |109       119       129    |  139     | 149       159       169       179       189 |     199       209       219       229       239       249     | 259  |    269       279       289       299       309 |     319 |     329
                             1-MSE   9-MSE              29-MSE                                           78-MSE     89-MSE          106-MSE      119-MSE        134-MSE    145-MSE                                       191-MSE                                                         255-MSE  |                                 298-MSE      311-MSE   321-MSE    
                                                                                                                                                                                                                                                                                                262-MSE                                                               


Chain D from PDB  Type:PROTEIN  Length:329
                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh........eeeehhhhhh....ee.......eee....eeeee..............hhhhhh........eeeeee.......eeeeeeeeeee.....eeeeee......................eeeeeee...eee......ee...eeeeeee......ee...ee..eee.........eeeeee.....eeeeeeeee.............ee.eeeeeeeeee........eeee..eeeeeeee.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhheeeeee.....eeeeeeee.hhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ubu D   1 mKWLEESImVKRGVGAGRKPVTHHLTEEmQKEFHYTIGPYSTPVLTIEPGDRVIVDTRDAFEGAISSEQDIPSQLLKmPFLNPQNGPImINGAEKGDVIAVYIESmLPRGVNPHGICAmIPHFGGLTGTDLTAmLNDPLPEKVRmIKLDSEKVYWSERHTLPYKPHIGTLSVSPEIDSINSLTPDNHGGNmDVPDIGPGSITYLPVRAPGGRLFIGDAHACQGDGEICGTAVEFASITTIKVDLIKNWQLSWPRmENAETImSIGSARPLEDATRIAYRDLIYWLVADFGFEQWDAYmLLSQCGKVRLGNmVDPKYTVGAmLNKELLAQ 329
                            |       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|        
                            1-MSE   9-MSE              29-MSE                                           78-MSE     89-MSE          106-MSE      119-MSE        134-MSE    145-MSE                                       191-MSE                                                         255-MSE  |                                 298-MSE      311-MSE   321-MSE    
                                                                                                                                                                                                                                                                                               262-MSE
   Legend:   → Mismatch (orange background)
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  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 5UBU)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5UBU)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5UBU)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
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