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(-) Description

Title :  CRYSTAL STRUCTURE OF E.COLI MEND, 2-SUCCINYL-5-ENOLPYRUVYL-6-HYDROXY-3-CYCLOHEXADIENE-1-CARBOXYLATE SYNTHASE - SEMET PROTEIN
 
Authors :  A. Dawson, P. K. Fyfe, W. N. Hunter
Date :  05 Sep 08  (Deposition) - 21 Oct 08  (Release) - 14 Apr 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.81
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  A,B,C,D  (1x)
Keywords :  Manganese, Transferase, Thiamine Diphosphate Cofactor, Thiamine Pyrophosphate, Menaquinone Biosynthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Dawson, P. K. Fyfe, W. N. Hunter
Specificity And Reactivity In Menaquinone Biosynthesis: The Structure Of Escherichia Coli Mend (2-Succinyl-5-Enolpyruvyl-6-Hydroxy-3- Cyclohexadiene-1-Carboxylate Synthase).
J. Mol. Biol. V. 384 1353 2008
PubMed-ID: 18983854  |  Reference-DOI: 10.1016/J.JMB.2008.10.048

(-) Compounds

Molecule 1 - 2-SUCCINYL-5-ENOLPYRUVYL-6-HYDROXY-3-CYCLOHEXENE -1-CARBOXYLATE SYNTHASE
    Chains: A, B, C, D
    EC Number: 2.2.1.9
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15BTEV_ECMEND
    Expression System Strain: B834 (DE3)
    Expression System Taxid: 562
    Expression System Vector: PET15BTEV
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Other Details: SEMET SUBSTITUTED PROTEIN
    Strain: K12
    Synonym: 2-SUCCINYL-5-ENOLPYRUVYL-6-HYDROXY-3- CYCLOHEXADIENE-1-CARBOXYLATE SYNTHASE, MENAQUINONE BIOSYNTHESIS PROTEIN MEND

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD
Biological Unit 3 (1x): ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 54)

Asymmetric Unit (4, 54)
No.NameCountTypeFull Name
1CL13Ligand/IonCHLORIDE ION
2MN5Ligand/IonMANGANESE (II) ION
3MSE32Mod. Amino AcidSELENOMETHIONINE
4TPP4Ligand/IonTHIAMINE DIPHOSPHATE
Biological Unit 1 (2, 18)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MN-1Ligand/IonMANGANESE (II) ION
3MSE16Mod. Amino AcidSELENOMETHIONINE
4TPP2Ligand/IonTHIAMINE DIPHOSPHATE
Biological Unit 2 (2, 18)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MN-1Ligand/IonMANGANESE (II) ION
3MSE16Mod. Amino AcidSELENOMETHIONINE
4TPP2Ligand/IonTHIAMINE DIPHOSPHATE
Biological Unit 3 (2, 36)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2MN-1Ligand/IonMANGANESE (II) ION
3MSE32Mod. Amino AcidSELENOMETHIONINE
4TPP4Ligand/IonTHIAMINE DIPHOSPHATE

(-) Sites  (22, 22)

Asymmetric Unit (22, 22)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:391 , LEU A:392 , SER A:416 , GLY A:417 , ILE A:418 , ASP A:419 , GLY A:441 , ASP A:442 , LEU A:443 , SER A:444 , ASN A:469 , GLY A:471 , GLY A:472 , GLN A:473 , ILE A:474 , MN A:1558 , HOH A:2096 , HOH A:2097 , HOH A:2098 , PRO B:30 , GLU B:55 , THR B:81 , ALA B:82BINDING SITE FOR RESIDUE TPP A 1557
02AC2SOFTWAREASP A:442 , ASN A:469 , GLY A:471 , TPP A:1557 , HOH A:2098BINDING SITE FOR RESIDUE MN A 1558
03AC3SOFTWAREPRO A:30 , GLU A:55 , THR A:81 , ALA A:82 , SER B:391 , LEU B:392 , SER B:416 , GLY B:417 , ILE B:418 , ASP B:419 , GLY B:441 , ASP B:442 , LEU B:443 , SER B:444 , TYR B:447 , ASN B:469 , GLY B:471 , GLY B:472 , GLN B:473 , ILE B:474 , MN B:1558 , HOH B:2099BINDING SITE FOR RESIDUE TPP B 1557
04AC4SOFTWAREASP B:442 , ASN B:469 , GLY B:471 , TPP B:1557 , HOH B:2099BINDING SITE FOR RESIDUE MN B 1558
05AC5SOFTWARESER C:391 , LEU C:392 , SER C:416 , GLY C:417 , ILE C:418 , ASP C:419 , GLY C:441 , ASP C:442 , LEU C:443 , SER C:444 , ASN C:469 , GLY C:471 , GLY C:472 , GLN C:473 , ILE C:474 , MN C:1558 , HOH C:2084 , HOH C:2085 , HOH C:2086 , PRO D:30 , GLU D:55 , THR D:81 , ALA D:82BINDING SITE FOR RESIDUE TPP C 1557
06AC6SOFTWAREASP C:442 , ASN C:469 , GLY C:471 , TPP C:1557 , HOH C:2086BINDING SITE FOR RESIDUE MN C 1558
07AC7SOFTWAREPRO C:30 , GLU C:55 , THR C:81 , ALA C:82 , SER D:391 , LEU D:392 , SER D:416 , GLY D:417 , ILE D:418 , ASP D:419 , GLY D:441 , ASP D:442 , LEU D:443 , SER D:444 , TYR D:447 , ASN D:469 , GLY D:471 , GLY D:472 , GLN D:473 , ILE D:474 , MN D:1558 , HOH D:2111BINDING SITE FOR RESIDUE TPP D 1557
08AC8SOFTWAREASP D:442 , ASN D:469 , GLY D:471 , TPP D:1557 , HOH D:2111BINDING SITE FOR RESIDUE MN D 1558
09AC9SOFTWARESER A:32 , ARG A:33 , THR A:78 , GLN A:118BINDING SITE FOR RESIDUE CL A 1559
10BC1SOFTWARESER B:32 , ARG B:33 , THR B:78 , GLN B:118BINDING SITE FOR RESIDUE CL B 1559
11BC2SOFTWAREGLY C:31 , SER C:32 , THR C:78 , GLN C:118BINDING SITE FOR RESIDUE CL C 1559
12BC3SOFTWARESER D:32 , THR D:78BINDING SITE FOR RESIDUE CL D 1559
13BC4SOFTWAREPRO A:137 , ARG A:138 , ARG C:138BINDING SITE FOR RESIDUE CL C 1560
14BC5SOFTWAREARG B:138 , ARG D:138 , HOH D:2028BINDING SITE FOR RESIDUE CL B 1560
15BC6SOFTWAREASN A:390 , SER A:391 , ARG A:395 , ARG A:413BINDING SITE FOR RESIDUE CL A 1560
16BC7SOFTWAREASN B:390 , SER B:391 , ARG B:395 , ARG B:413BINDING SITE FOR RESIDUE CL B 1561
17BC8SOFTWARESER C:391 , ARG C:395 , ARG C:413BINDING SITE FOR RESIDUE CL C 1561
18BC9SOFTWARESER D:391 , ARG D:395 , ARG D:413BINDING SITE FOR RESIDUE CL D 1560
19CC1SOFTWAREHIS C:509 , ASP C:523 , HOH C:2087BINDING SITE FOR RESIDUE MN C 1562
20CC2SOFTWAREGLU A:505 , HIS D:496BINDING SITE FOR RESIDUE CL A 1561
21CC3SOFTWARELEU B:506 , LYS B:507 , THR B:530 , HOH B:2095BINDING SITE FOR RESIDUE CL B 1562
22CC4SOFTWARETHR B:243 , THR D:243BINDING SITE FOR RESIDUE CL D 1561

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2JLA)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2JLA)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2JLA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2JLA)

(-) Exons   (0, 0)

(no "Exon" information available for 2JLA)

(-) 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:556
 aligned with MEND_ECOLI | P17109 from UniProtKB/Swiss-Prot  Length:556

    Alignment length:556
                                    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       420       430       440       450       460       470       480       490       500       510       520       530       540       550      
           MEND_ECOLI     1 MSVSAFNRRWAAVILEALTRHGVRHICIAPGSRSTPLTLAAAENSAFIHHTHFDERGLGHLALGLAKVSKQPVAVIVTSGTAVANLYPALIEAGLTGEKLILLTADRPPELIDCGANQAIRQPGMFASHPTHSISLPRPTQDIPARWLVSTIDHALGTLHAGGVHINCPFAEPLYGEMDDTGLSWQQRLGDWWQDDKPWLREAPRLESEKQRDWFFWRQKRGVVVAGRMSAEEGKKVALWAQTLGWPLIGDVLSQTGQPLPCADLWLGNAKATSELQQAQIVVQLGSSLTGKRLLQWQASCEPEEYWIVDDIEGRLDPAHHRGRRLIANIADWLELHPAEKRQPWCVEIPRLAEQAMQAVIARRDAFGEAQLAHRICDYLPEQGQLFVGNSLVVRLIDALSQLPAGYPVYSNRGASGIDGLLSTAAGVQRASGKPTLAIVGDLSALYDLNALALLRQVSAPLVLIVVNNNGGQIFSLLPTPQSERERFYLMPQNVHFEHAAAMFELKYHRPQNWQELETAFADAWRTPTTTVIEMVVNDTDGAQTLQQLLAQVSHL 556
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh....eeee.....hhhhhhhhhhh...eeee..hhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhh..eeeeeee.hhhhh...................eeee........hhhhhhhhhhhhhhh.....eeeeee............hhhhhhhhhhhhhh....ee...eee.....hhhhhh...eeeee...hhhhhhhhhhhhhhhh..eee...........hhhhhh.hhhhhhhhh...eeeee.....hhhhhhhhhhh...eeeeee............eeeee.hhhhhhhhh.........hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh....eeee..hhhhhhhhhhh.......ee.........hhhhhhhhhhhhhh..eeeeeehhhhhhh..hhhhhh.....eeeeeee....hhhhhh..hhhhhhhhh.......hhhhhhhh..eee...hhhhhhhhhhh......eeeeeee...hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2jla A   1 mSVSAFNRRWAAVILEALTRHGVRHICIAPGSRSTPLTLAAAENSAFIHHTHFDERGLGHLALGLAKVSKQPVAVIVTSGTAVANLYPALIEAGLTGEKLILLTADRPPELIDCGANQAIRQPGmFASHPTHSISLPRPTQDIPARWLVSTIDHALGTLHAGGVHINCPFAEPLYGEmDDTGLSWQQRLGDWWQDDKPWLREAPRLESEKQRDWFFWRQKRGVVVAGRmSAEEGKKVALWAQTLGWPLIGDVLSQTGQPLPCADLWLGNAKATSELQQAQIVVQLGSSLTGKRLLQWQASCEPEEYWIVDDIEGRLDPAHHRGRRLIANIADWLELHPAEKRQPWCVEIPRLAEQAmQAVIARRDAFGEAQLAHRICDYLPEQGQLFVGNSLVVRLIDALSQLPAGYPVYSNRGASGIDGLLSTAAGVQRASGKPTLAIVGDLSALYDLNALALLRQVSAPLVLIVVNNNGGQIFSLLPTPQSERERFYLmPQNVHFEHAAAmFELKYHRPQNWQELETAFADAWRTPTTTVIEmVVNDTDGAQTLQQLLAQVSHL 556
                            |       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       420       430       440       450       460       470       480       490|      500  |    510       520       530    |  540       550      
                            |                                                                                                                         125-MSE                                              178-MSE                                            229-MSE                                                                                                                         357-MSE                                                                                                                               491-MSE     503-MSE                         535-MSE                 
                            1-MSE                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:556
 aligned with MEND_ECOLI | P17109 from UniProtKB/Swiss-Prot  Length:556

    Alignment length:556
                                    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       420       430       440       450       460       470       480       490       500       510       520       530       540       550      
           MEND_ECOLI     1 MSVSAFNRRWAAVILEALTRHGVRHICIAPGSRSTPLTLAAAENSAFIHHTHFDERGLGHLALGLAKVSKQPVAVIVTSGTAVANLYPALIEAGLTGEKLILLTADRPPELIDCGANQAIRQPGMFASHPTHSISLPRPTQDIPARWLVSTIDHALGTLHAGGVHINCPFAEPLYGEMDDTGLSWQQRLGDWWQDDKPWLREAPRLESEKQRDWFFWRQKRGVVVAGRMSAEEGKKVALWAQTLGWPLIGDVLSQTGQPLPCADLWLGNAKATSELQQAQIVVQLGSSLTGKRLLQWQASCEPEEYWIVDDIEGRLDPAHHRGRRLIANIADWLELHPAEKRQPWCVEIPRLAEQAMQAVIARRDAFGEAQLAHRICDYLPEQGQLFVGNSLVVRLIDALSQLPAGYPVYSNRGASGIDGLLSTAAGVQRASGKPTLAIVGDLSALYDLNALALLRQVSAPLVLIVVNNNGGQIFSLLPTPQSERERFYLMPQNVHFEHAAAMFELKYHRPQNWQELETAFADAWRTPTTTVIEMVVNDTDGAQTLQQLLAQVSHL 556
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh....eeee.....hhhhhhhhhh....eeee..hhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhh..eeeeeee.hhhhh...................eeee........hhhhhhhhhhhhhhh.....eeeeee............hhhhhhhhhhhhhh....ee...eee.....hhhhhh...eeeee...hhhhhhhhhhhhhhhh..eee...........hhhhhh.hhhhhhhhhhh.eeeee.....hhhhhhhhhhh...eeeeee............eeeee.hhhhhhhhh.........hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh....eeee..hhhhhhhhhhh.......ee.........hhhhhhhhhhhhhh..eeeeeehhhhhhhhhhhhhhhh....eeeeeee....hhhhhh..hhhhhhhhh.......hhhhhhhhh.eee...hhhhhhhhhhhhh....eeeeeee...hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2jla B   1 mSVSAFNRRWAAVILEALTRHGVRHICIAPGSRSTPLTLAAAENSAFIHHTHFDERGLGHLALGLAKVSKQPVAVIVTSGTAVANLYPALIEAGLTGEKLILLTADRPPELIDCGANQAIRQPGmFASHPTHSISLPRPTQDIPARWLVSTIDHALGTLHAGGVHINCPFAEPLYGEmDDTGLSWQQRLGDWWQDDKPWLREAPRLESEKQRDWFFWRQKRGVVVAGRmSAEEGKKVALWAQTLGWPLIGDVLSQTGQPLPCADLWLGNAKATSELQQAQIVVQLGSSLTGKRLLQWQASCEPEEYWIVDDIEGRLDPAHHRGRRLIANIADWLELHPAEKRQPWCVEIPRLAEQAmQAVIARRDAFGEAQLAHRICDYLPEQGQLFVGNSLVVRLIDALSQLPAGYPVYSNRGASGIDGLLSTAAGVQRASGKPTLAIVGDLSALYDLNALALLRQVSAPLVLIVVNNNGGQIFSLLPTPQSERERFYLmPQNVHFEHAAAmFELKYHRPQNWQELETAFADAWRTPTTTVIEmVVNDTDGAQTLQQLLAQVSHL 556
                            |       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       420       430       440       450       460       470       480       490|      500  |    510       520       530    |  540       550      
                            1-MSE                                                                                                                     125-MSE                                              178-MSE                                            229-MSE                                                                                                                         357-MSE                                                                                                                               491-MSE     503-MSE                         535-MSE                 


Chain C from PDB  Type:PROTEIN  Length:556
 aligned with MEND_ECOLI | P17109 from UniProtKB/Swiss-Prot  Length:556

    Alignment length:556
                                    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       420       430       440       450       460       470       480       490       500       510       520       530       540       550      
           MEND_ECOLI     1 MSVSAFNRRWAAVILEALTRHGVRHICIAPGSRSTPLTLAAAENSAFIHHTHFDERGLGHLALGLAKVSKQPVAVIVTSGTAVANLYPALIEAGLTGEKLILLTADRPPELIDCGANQAIRQPGMFASHPTHSISLPRPTQDIPARWLVSTIDHALGTLHAGGVHINCPFAEPLYGEMDDTGLSWQQRLGDWWQDDKPWLREAPRLESEKQRDWFFWRQKRGVVVAGRMSAEEGKKVALWAQTLGWPLIGDVLSQTGQPLPCADLWLGNAKATSELQQAQIVVQLGSSLTGKRLLQWQASCEPEEYWIVDDIEGRLDPAHHRGRRLIANIADWLELHPAEKRQPWCVEIPRLAEQAMQAVIARRDAFGEAQLAHRICDYLPEQGQLFVGNSLVVRLIDALSQLPAGYPVYSNRGASGIDGLLSTAAGVQRASGKPTLAIVGDLSALYDLNALALLRQVSAPLVLIVVNNNGGQIFSLLPTPQSERERFYLMPQNVHFEHAAAMFELKYHRPQNWQELETAFADAWRTPTTTVIEMVVNDTDGAQTLQQLLAQVSHL 556
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh....eeee.....hhhhhhhhhhh...eeee..hhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhh..eeeeeee.hhhhh...................eeee........hhhhhhhhhhhhhhh.....eeeeee............hhhhhhhhhhhhhh....ee...eee.....hhhhhh...eeeee...hhhhhhhhhhhhhhhh..eee...........hhhhhh.hhhhhhhhh...eeeee.....hhhhhhhhhhh...eeeeee............eeeee.hhhhhhhhh.........hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh....eeee..hhhhhhhhhhh.......eee........hhhhhhhhhhhhhh..eeeeeehhhhhhhhhhhhhhhh....eeeeeee....hhhhhh..hhhhhhhhh.......hhhhhhhh..eee...hhhhhhhhhhhhh....eeeeeee...hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2jla C   1 mSVSAFNRRWAAVILEALTRHGVRHICIAPGSRSTPLTLAAAENSAFIHHTHFDERGLGHLALGLAKVSKQPVAVIVTSGTAVANLYPALIEAGLTGEKLILLTADRPPELIDCGANQAIRQPGmFASHPTHSISLPRPTQDIPARWLVSTIDHALGTLHAGGVHINCPFAEPLYGEmDDTGLSWQQRLGDWWQDDKPWLREAPRLESEKQRDWFFWRQKRGVVVAGRmSAEEGKKVALWAQTLGWPLIGDVLSQTGQPLPCADLWLGNAKATSELQQAQIVVQLGSSLTGKRLLQWQASCEPEEYWIVDDIEGRLDPAHHRGRRLIANIADWLELHPAEKRQPWCVEIPRLAEQAmQAVIARRDAFGEAQLAHRICDYLPEQGQLFVGNSLVVRLIDALSQLPAGYPVYSNRGASGIDGLLSTAAGVQRASGKPTLAIVGDLSALYDLNALALLRQVSAPLVLIVVNNNGGQIFSLLPTPQSERERFYLmPQNVHFEHAAAmFELKYHRPQNWQELETAFADAWRTPTTTVIEmVVNDTDGAQTLQQLLAQVSHL 556
                            |       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       420       430       440       450       460       470       480       490|      500  |    510       520       530    |  540       550      
                            1-MSE                                                                                                                     125-MSE                                              178-MSE                                            229-MSE                                                                                                                         357-MSE                                                                                                                               491-MSE     503-MSE                         535-MSE                 


Chain D from PDB  Type:PROTEIN  Length:556
 aligned with MEND_ECOLI | P17109 from UniProtKB/Swiss-Prot  Length:556

    Alignment length:556
                                    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       420       430       440       450       460       470       480       490       500       510       520       530       540       550      
           MEND_ECOLI     1 MSVSAFNRRWAAVILEALTRHGVRHICIAPGSRSTPLTLAAAENSAFIHHTHFDERGLGHLALGLAKVSKQPVAVIVTSGTAVANLYPALIEAGLTGEKLILLTADRPPELIDCGANQAIRQPGMFASHPTHSISLPRPTQDIPARWLVSTIDHALGTLHAGGVHINCPFAEPLYGEMDDTGLSWQQRLGDWWQDDKPWLREAPRLESEKQRDWFFWRQKRGVVVAGRMSAEEGKKVALWAQTLGWPLIGDVLSQTGQPLPCADLWLGNAKATSELQQAQIVVQLGSSLTGKRLLQWQASCEPEEYWIVDDIEGRLDPAHHRGRRLIANIADWLELHPAEKRQPWCVEIPRLAEQAMQAVIARRDAFGEAQLAHRICDYLPEQGQLFVGNSLVVRLIDALSQLPAGYPVYSNRGASGIDGLLSTAAGVQRASGKPTLAIVGDLSALYDLNALALLRQVSAPLVLIVVNNNGGQIFSLLPTPQSERERFYLMPQNVHFEHAAAMFELKYHRPQNWQELETAFADAWRTPTTTVIEMVVNDTDGAQTLQQLLAQVSHL 556
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------TPP_enzyme_N-2jlaD05 D:8-172                                                                                                                                         -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_enzyme_C-2jlaD01 D:396-535                                                                                                              --------------------- Pfam domains (1)
           Pfam domains (2) -------TPP_enzyme_N-2jlaD06 D:8-172                                                                                                                                         -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_enzyme_C-2jlaD02 D:396-535                                                                                                              --------------------- Pfam domains (2)
           Pfam domains (3) -------TPP_enzyme_N-2jlaD07 D:8-172                                                                                                                                         -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_enzyme_C-2jlaD03 D:396-535                                                                                                              --------------------- Pfam domains (3)
           Pfam domains (4) -------TPP_enzyme_N-2jlaD08 D:8-172                                                                                                                                         -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TPP_enzyme_C-2jlaD04 D:396-535                                                                                                              --------------------- Pfam domains (4)
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh....eeee.....hhhhhhhhhhh...eeee..hhhhhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhh..eeeeeee.hhhhh...................eeee........hhhhhhhhhhhhhhh.....eeeeee............hhhhhhhhhhhhhh....ee...eee.....hhhhhh...eeeee...hhhhhhhhhhhhhhhh..eee...........hhhhhh.hhhhhhhhh...eeeee.....hhhhhhhhhhh...eeeeee............eeeee.hhhhhhhhh..........hhhhhhhhhhhhhhhh....hhhhhhhhhhhhh....eeee..hhhhhhhhhhh.......ee.........hhhhhhhhhhhhhh..eeeeeehhhhhhhhhhhhhhhh....eeeeeee....hhhhhh..hhhhhhhhh.......hhhhhhhh..eee...hhhhhhhhhhhhh....eeeeeee...hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2jla D   1 mSVSAFNRRWAAVILEALTRHGVRHICIAPGSRSTPLTLAAAENSAFIHHTHFDERGLGHLALGLAKVSKQPVAVIVTSGTAVANLYPALIEAGLTGEKLILLTADRPPELIDCGANQAIRQPGmFASHPTHSISLPRPTQDIPARWLVSTIDHALGTLHAGGVHINCPFAEPLYGEmDDTGLSWQQRLGDWWQDDKPWLREAPRLESEKQRDWFFWRQKRGVVVAGRmSAEEGKKVALWAQTLGWPLIGDVLSQTGQPLPCADLWLGNAKATSELQQAQIVVQLGSSLTGKRLLQWQASCEPEEYWIVDDIEGRLDPAHHRGRRLIANIADWLELHPAEKRQPWCVEIPRLAEQAmQAVIARRDAFGEAQLAHRICDYLPEQGQLFVGNSLVVRLIDALSQLPAGYPVYSNRGASGIDGLLSTAAGVQRASGKPTLAIVGDLSALYDLNALALLRQVSAPLVLIVVNNNGGQIFSLLPTPQSERERFYLmPQNVHFEHAAAmFELKYHRPQNWQELETAFADAWRTPTTTVIEmVVNDTDGAQTLQQLLAQVSHL 556
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                            1-MSE                                                                                                                     125-MSE                                              178-MSE                                            229-MSE                                                                                                                         357-MSE                                                                                                                               491-MSE     503-MSE                         535-MSE
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(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 2JLA)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2JLA)

(-) Pfam Domains  (2, 8)

Asymmetric Unit
(-)
Clan: THDP-binding (106)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (MEND_ECOLI | P17109)
molecular function
    GO:0070204    2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase activity    Catalysis of the reaction: 2-oxoglutarate + H(+) + isochorismate = 5-enolpyruvoyl-6-hydroxy-2-succinyl-cyclohex-3-ene-1-carboxylate + CO(2).
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0030145    manganese ion binding    Interacting selectively and non-covalently with manganese (Mn) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0030976    thiamine pyrophosphate binding    Interacting selectively and non-covalently with thiamine pyrophosphate, the diphosphoric ester of thiamine. Acts as a coenzyme of several (de)carboxylases, transketolases, and alpha-oxoacid dehydrogenases.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0009234    menaquinone biosynthetic process    The chemical reactions and pathways resulting in the formation of any of the menaquinones. Structurally, menaquinones consist of a methylated naphthoquinone ring structure and side chains composed of a variable number of unsaturated isoprenoid residues. Menaquinones that have vitamin K activity and are known as vitamin K2.

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  2jla
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  2.2.1.9
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 Related Entries

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

UniProtKB/Swiss-Prot
        MEND_ECOLI | P17109: 2jlc 3flm 3hww 3hwx 5ej4 5ej5 5ej6 5ej7 5ej8 5ej9 5eja 5ejm

(-) Related Entries Specified in the PDB File

2jlc CRYSTAL STRUCTURE OF E.COLI MEND, 2- SUCCINYL-5-ENOLPYRUVYL-6-HYDROXY-3- CYCLOHEXADIENE-1-CARBOXYLATE SYNTHASE - NATIVE PROTEIN