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(-) Description

Title :  E. CLOACAE MURA IN COMPLEX WITH UTP
 
Authors :  J. -Y. Zhu, Y. Yang, E. Schonbrunn
Date :  16 Mar 12  (Deposition) - 20 Mar 13  (Release) - 20 Mar 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Open Enzyme State, Cell Wall, Biogenesis/Degradation, Peptidoglycan Synthesis, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. -Y. Zhu, Y. Yang, S. Betzi, E. Schonbrunn
Open-Close Transition Of Mura
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - UDP-N-ACETYLGLUCOSAMINE 1-CARBOXYVINYLTRANSFERASE
    ChainsA, B, C, D
    EC Number2.5.1.7
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET9D
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    GeneECL_04571, MURA, MURZ
    Organism ScientificENTEROBACTER CLOACAE SUBSP. CLOACAE
    Organism Taxid716541
    StrainATCC 13047 / DSM 30054 / NBRC 13535 / NCDC 279-56
    SynonymMURA, ENOYLPYRUVATE TRANSFERASE, UDP-N-ACETYLGLUCOSAMINE ENOLPYRUVYL TRANSFERASE, EPT

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCD
Biological Unit 1 (1x)A   
Biological Unit 2 (1x) B  
Biological Unit 3 (1x)  C 
Biological Unit 4 (1x)   D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 24)

Asymmetric Unit (4, 24)
No.NameCountTypeFull Name
1ACT6Ligand/IonACETATE ION
2EDO12Ligand/Ion1,2-ETHANEDIOL
3IAS4Mod. Amino AcidBETA-L-ASPARTIC ACID
4UTP2Ligand/IonURIDINE 5'-TRIPHOSPHATE
Biological Unit 1 (4, 7)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2EDO3Ligand/Ion1,2-ETHANEDIOL
3IAS1Mod. Amino AcidBETA-L-ASPARTIC ACID
4UTP1Ligand/IonURIDINE 5'-TRIPHOSPHATE
Biological Unit 2 (4, 4)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2EDO1Ligand/Ion1,2-ETHANEDIOL
3IAS1Mod. Amino AcidBETA-L-ASPARTIC ACID
4UTP1Ligand/IonURIDINE 5'-TRIPHOSPHATE
Biological Unit 3 (3, 7)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2EDO5Ligand/Ion1,2-ETHANEDIOL
3IAS1Mod. Amino AcidBETA-L-ASPARTIC ACID
4UTP-1Ligand/IonURIDINE 5'-TRIPHOSPHATE
Biological Unit 4 (3, 6)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2EDO3Ligand/Ion1,2-ETHANEDIOL
3IAS1Mod. Amino AcidBETA-L-ASPARTIC ACID
4UTP-1Ligand/IonURIDINE 5'-TRIPHOSPHATE

(-) Sites  (20, 20)

Asymmetric Unit (20, 20)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPRO A:298 , HIS A:299 , ALA B:297BINDING SITE FOR RESIDUE EDO A 501
02AC2SOFTWARETYR A:226 , ARG A:227 , EDO A:503 , HOH A:712 , HOH A:767 , HOH A:789BINDING SITE FOR RESIDUE EDO A 502
03AC3SOFTWAREASN A:43 , ARG A:227 , VAL A:228 , PRO A:230 , ASN A:253 , EDO A:502 , HOH A:789BINDING SITE FOR RESIDUE EDO A 503
04AC4SOFTWAREARG A:91 , TRP A:95 , GLY A:164 , UTP A:506BINDING SITE FOR RESIDUE ACT A 504
05AC5SOFTWAREASP A:404 , LYS A:405 , HOH A:845BINDING SITE FOR RESIDUE ACT A 505
06AC6SOFTWAREARG A:91 , PRO A:121 , VAL A:122 , ASP A:123 , LEU A:124 , HIS A:125 , LYS A:160 , SER A:162 , VAL A:163 , GLY A:164 , ACT A:504 , HOH A:640 , HOH A:760BINDING SITE FOR RESIDUE UTP A 506
07AC7SOFTWAREALA B:21 , LYS B:22 , ASN B:23 , ASP B:231 , ILE B:233 , ARG B:371 , HOH B:734BINDING SITE FOR RESIDUE EDO B 501
08AC8SOFTWARELYS A:265 , GLU A:268 , ARG B:187 , THR B:210 , ASP B:211BINDING SITE FOR RESIDUE ACT B 502
09AC9SOFTWAREARG B:91 , PRO B:121 , VAL B:122 , ASP B:123 , LEU B:124 , HIS B:125 , LYS B:160 , SER B:162 , VAL B:163 , GLY B:164 , HOH B:723 , HOH B:790BINDING SITE FOR RESIDUE UTP B 503
10BC1SOFTWAREGLU B:177 , ARG C:397BINDING SITE FOR RESIDUE EDO C 501
11BC2SOFTWAREPRO C:9 , THR C:10 , ARG C:11 , SER C:245 , ILE C:382BINDING SITE FOR RESIDUE EDO C 502
12BC3SOFTWAREILE B:117 , ALA C:291 , VAL C:292 , THR C:293 , THR C:320 , HOH C:638 , HIS D:155 , VAL D:157 , GLU D:183BINDING SITE FOR RESIDUE EDO C 503
13BC4SOFTWAREGLY C:224 , VAL C:225BINDING SITE FOR RESIDUE EDO C 504
14BC5SOFTWAREGLU C:177 , GLY C:178 , GLY C:217BINDING SITE FOR RESIDUE EDO C 505
15BC6SOFTWAREALA C:92 , ILE C:94 , TRP C:95 , GLY C:164BINDING SITE FOR RESIDUE ACT C 506
16BC7SOFTWAREASN D:43 , VAL D:44 , LYS D:46 , GLY D:68 , GLU D:400BINDING SITE FOR RESIDUE EDO D 501
17BC8SOFTWAREGLU A:329 , ASN A:330 , GLU D:325 , PHE D:328 , GLU D:329 , ASN D:330 , ARG D:331 , PHE D:332BINDING SITE FOR RESIDUE EDO D 502
18BC9SOFTWARESER D:162 , VAL D:163 , GLY D:164 , HOH D:723BINDING SITE FOR RESIDUE EDO D 503
19CC1SOFTWAREHOH C:671 , IAS D:67 , GLY D:68 , SER D:69BINDING SITE FOR RESIDUE ACT D 504
20CC2SOFTWAREGLU B:130 , LEU D:138 , GLU D:139 , GLU D:140 , GLY D:141 , TYR D:142 , HOH D:694BINDING SITE FOR RESIDUE ACT D 505

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4E7C)

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Gly A:8 -Pro A:9
2His A:299 -Pro A:300
3Gly B:8 -Pro B:9
4His B:299 -Pro B:300
5Gly C:8 -Pro C:9
6His C:299 -Pro C:300
7Gly D:8 -Pro D:9
8His D:299 -Pro D:300

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4E7C)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4E7C)

(-) Exons   (0, 0)

(no "Exon" information available for 4E7C)

(-) 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:419
                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4e7ca_ A: UDP-N-acetylglucosamine enolpyruvyl transferase (EPT, MurA, MurZ)                                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.....eeee...hhhhhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhh.eeee...eeee.......eehhhhhh.hhhhhhhhhhhhhhhheeeee...........hhhhhhhhhhh..eeeee..eeeee........eeee...hhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhh..eee.....eeeee.......eeee...hhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhhhhh..eeee...eeeee..........eee......hhhhhhhhhhhhhh...eeeeee........hhhhhhh...eeeee..eeeee........eee..hhhhhhhhhhhhhhh.eeeeee.hhhhhhhh.hhhhhhhhh..eeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4e7c A   1 MDKFRVQGPTRLQGEVTISGAKNAALPILFAALLAEEPVEIQNVPKLKDIDTTMKLLTQLGTKVERxGSVWIDASNVNNFSAPYDLVKTMRASIWALGPLVARFGQGQVSLPGGCAIGARPVDLHIFGLEKLGAEIKLEEGYVKASVNGRLKGAHIVMDKVSVGATVTIMSAATLAEGTTIIENAAREPEIVDTANFLVALGAKISGQGTDRITIEGVERLGGGVYRVLPDRIETGTFLVAAAISGGKIVCRNAQPDTLDAVLAKLREAGADIETGEDWISLDMHGKRPKAVTVRTAPHPAFPTDMQAQFTLLNLVAEGTGVITETIFENRFMHVPELIRMGAHAEIESNTVICHGVEKLSGAQVMATDLRASASLVLAGCIAEGTTVVDRIYHIDRGYERIEDKLRALGANIERVKGE 419
                                    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         
                                                                                             67-IAS                                                                                                                                                                                                                                                                                                                                                            

Chain B from PDB  Type:PROTEIN  Length:419
                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4e7cb_ B: UDP-N-acetylglucosamine enolpyruvyl transferase (EPT, MurA, MurZ)                                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.....eeee...hhhhhhhhhhhhhhh...eeee....hhhhhhhhhhhhhh..eeee...eeee.......eehhhhhh.hhhhhhhhhhhhhhhheeeee...........hhhhhhhhhhh..eeeee..eeeee........eeee...hhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhh..eee.....eeeee.......eeee...hhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhhhhh..eeee....eeee..........eee......hhhhhhhhhhhhhh...eeeeee........hhhhhhhh..eeeee..eeeee........ee...hhhhhhhhhhhhhhh.eeeeee.hhhhhhhh.hhhhhhhh...eeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4e7c B   1 MDKFRVQGPTRLQGEVTISGAKNAALPILFAALLAEEPVEIQNVPKLKDIDTTMKLLTQLGTKVERxGSVWIDASNVNNFSAPYDLVKTMRASIWALGPLVARFGQGQVSLPGGCAIGARPVDLHIFGLEKLGAEIKLEEGYVKASVNGRLKGAHIVMDKVSVGATVTIMSAATLAEGTTIIENAAREPEIVDTANFLVALGAKISGQGTDRITIEGVERLGGGVYRVLPDRIETGTFLVAAAISGGKIVCRNAQPDTLDAVLAKLREAGADIETGEDWISLDMHGKRPKAVTVRTAPHPAFPTDMQAQFTLLNLVAEGTGVITETIFENRFMHVPELIRMGAHAEIESNTVICHGVEKLSGAQVMATDLRASASLVLAGCIAEGTTVVDRIYHIDRGYERIEDKLRALGANIERVKGE 419
                                    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         
                                                                                             67-IAS                                                                                                                                                                                                                                                                                                                                                            

Chain C from PDB  Type:PROTEIN  Length:419
                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4e7cc_ C: UDP-N-acetylglucosamine enolpyruvyl transferase (EPT, MurA, MurZ)                                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.....eeee...hhhhhhhhhhhhhhh...eeee....hhhhhhhhhhhhhh..eeee...eeee.......eehhhhhh.hhhhhhhhhhhhhhhheeeee.....ee...hhhhhhhhhhhh..eeeee..eeeee........eee....hhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhh..eee.....eeeee.......eeee...hhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhhhhh..eeee...eeeee.........eee.......hhhhhhhhhhhhhh...eeeee........hhhhhhhhh...eeee..eeeee........ee...hhhhhhhhhhhhhhh.eeeee..hhhhhhhh.hhhhhhhh...eeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4e7c C   1 MDKFRVQGPTRLQGEVTISGAKNAALPILFAALLAEEPVEIQNVPKLKDIDTTMKLLTQLGTKVERxGSVWIDASNVNNFSAPYDLVKTMRASIWALGPLVARFGQGQVSLPGGCAIGARPVDLHIFGLEKLGAEIKLEEGYVKASVNGRLKGAHIVMDKVSVGATVTIMSAATLAEGTTIIENAAREPEIVDTANFLVALGAKISGQGTDRITIEGVERLGGGVYRVLPDRIETGTFLVAAAISGGKIVCRNAQPDTLDAVLAKLREAGADIETGEDWISLDMHGKRPKAVTVRTAPHPAFPTDMQAQFTLLNLVAEGTGVITETIFENRFMHVPELIRMGAHAEIESNTVICHGVEKLSGAQVMATDLRASASLVLAGCIAEGTTVVDRIYHIDRGYERIEDKLRALGANIERVKGE 419
                                    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         
                                                                                             67-IAS                                                                                                                                                                                                                                                                                                                                                            

Chain D from PDB  Type:PROTEIN  Length:419
                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4e7cd_ D: UDP-N-acetylglucosamine enolpyruvyl transferase (EPT, MurA, MurZ)                                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.....eeee...hhhhhhhhhhhhhhh...eeee....hhhhhhhhhhhhhh..eeee...eeee.......eehhhhh..hhhhhhhhhhhhhhhheeeee.....ee...hhhhhhhhhhhh..eeee...eeeee........eee....hhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhh..eee.....eeeee.......eeee...hhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhhhhh..eeee...eeeee.........eee.......hhhhhhhhhhhhh....eeeee........hhhhhhhh...eeeee..eeeee........ee...hhhhhhhhhhhhhhh.eeeee..hhhhhh...hhhhhhhh...eeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4e7c D   1 MDKFRVQGPTRLQGEVTISGAKNAALPILFAALLAEEPVEIQNVPKLKDIDTTMKLLTQLGTKVERxGSVWIDASNVNNFSAPYDLVKTMRASIWALGPLVARFGQGQVSLPGGCAIGARPVDLHIFGLEKLGAEIKLEEGYVKASVNGRLKGAHIVMDKVSVGATVTIMSAATLAEGTTIIENAAREPEIVDTANFLVALGAKISGQGTDRITIEGVERLGGGVYRVLPDRIETGTFLVAAAISGGKIVCRNAQPDTLDAVLAKLREAGADIETGEDWISLDMHGKRPKAVTVRTAPHPAFPTDMQAQFTLLNLVAEGTGVITETIFENRFMHVPELIRMGAHAEIESNTVICHGVEKLSGAQVMATDLRASASLVLAGCIAEGTTVVDRIYHIDRGYERIEDKLRALGANIERVKGE 419
                                    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         
                                                                                             67-IAS                                                                                                                                                                                                                                                                                                                                                            

   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  (1, 4)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4E7C)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4E7C)

(-) Gene Ontology  (11, 11)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        MURA_ENTCC | P330381dlg 1ejc 1ejd 1eyn 1naw 1q3g 1ryw 1ybg 3kqa 3lth 3spb 3su9 3swa 3swi 3swq 3upk 3v4t 3v5v 4e7b 4e7d 4e7e 4e7f 4e7g 4eii

(-) Related Entries Specified in the PDB File

4e7b 4e7d 4e7e 4e7f 4e7g