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(-) Description

Title :  ESCHERICHIA COLI ALPHA-2-MACROGLOBULIN ACTIVATED BY PORCINE ELASTASE
 
Authors :  C. D. Fyfe, R. Grinter, A. W. Roszak, I. Josts, R. J. Cogdell, D. Walker
Date :  14 Nov 14  (Deposition) - 15 Jul 15  (Release) - 29 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.65
Chains :  Asym./Biol. Unit :  A
Keywords :  Thioester Domain, Macroglobulin, Lipid Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. D. Fyfe, R. Grinter, I. Josts, K. Mosbahi, A. W. Roszak, R. J. Cogdell D. M. Wall, R. J. Burchmore, O. Byron, D. Walker
Structure Of Protease-Cleaved Escherichia Coli Alpha-2-Macroglobulin Reveals A Putative Mechanism Of Conformational Activation For Protease Entrapment.
Acta Crystallogr. , Sect. D V. 71 1478 2015
PubMed-ID: 26143919  |  Reference-DOI: 10.1107/S1399004715008548

(-) Compounds

Molecule 1 - UNCHARACTERIZED LIPOPROTEIN YFHM
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: B2520, JW2504, YFHM
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 19)

Asymmetric/Biological Unit (1, 19)
No.NameCountTypeFull Name
1MSE19Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 4RTD)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Glu A:684 -Gly A:685
2Tyr A:741 -Ser A:742
3Asp A:950 -Gly A:951
4Lys A:1178 -Glu A:1179
5Pro A:1442 -Gly A:1443

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4RTD)

(-) 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:1122
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee....ee....eeeeeeeee...........eeeeee.....eeeeeee......eeeeee.......eeeeeeee.....eeeeeeee.......eeeeee...........eeeeeeeee..........eeeeeeeee......................eeeeeeee.......eeeee..........eeeeeeeeee.....eeeeeeeeee.....eeeeee................eeeeee........eeeee..eeeeeee...............eeeeee....eeee.....eee.......eeeeeee.....eeeeeee..........eeee...ee.....eeeeeee...........eeeeeeeehhhhhhhh....hhhhhhh...........hhhhhh............eee...ee.....eeeeee........eeeeeeee....eeeeeee.ee...eeeeee....ee...eeeeeeeeee.....eeeeeeeeeee.eee......eeee.......eeeeeee....eeeeeeeeee..........eeeeeeeeeee.....eeeeeeeee....eee.........hhhh.eeeeeee....................hhhhhhhhhh.....hhhhhhhh.....hhhhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh........eeeee......eee......eeehhhhhh.eeee.....eeeeeeeee............eeeeeeee.......hhhhee...eeeeeeeeee...eeeeeeeee....eee...............hhhhhhhhhhheeeeeee...eeeeeeee.....eeeeeeeee...eee....eeeee......eee......eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4rtd A  385 SKQFFmFGPRDLYRPGETVILNGLLRDADGKALPNQPIKLDVIKPDGQVLRSVVSQPENGLYHFTWPLDSNAATGmWHIRANTGDNQYRmWDFHVEDFmPERmALNLTGEKTPLTPKDEVKFSVVGYYLYGAPANGNTLQGQLFLRPLREAVSALPGFEFGDIAAENLSRTLDEVQLTLDDKGRGEVSTESQWKETHSPLQVIFQGSLLESGGRPVTRRAERAIWPADALPGIRPQFASKQPIVDEGSNAAFDIVYSDAQGVKKAVSGLQVRLIRERRDYYWNWSEDEGWQSQFDQKDLIENEQTLDLKADETGKVSFPVEWGAYRLEVKAPNEAVSSVRFWAGYSENRRLDLALETPAKmRPNQPLTVKIKASTKNGEKPKQVNVLVSAVDSGVLNITDYVTPDPWQAFFGQKAALRFGGDGDELKRGGKPPVNHVNIVVQQALPVTLNEQGEGSVTLPIGDFNGELRVmAQAWTADDFGSNESKVIVAAPVIAELNmPRFmASGDTSRLTLDITNLTDKPQKLNVALTASGLLELVSDSPAAVELAPGVRTTLFIPVRALPGYGDGEIQATISGLALPGETVADQHKQWKIGVRPAFPAQTVNYGTALQPGETWAIPADGLQNFSPVTLEGQLLLSGKPPLNIARYIKELKAYPYGCLEQTASGLFPSLYTNAAQLQALGIKGDSDEKRRASVDIGISRLLQmQRDNGGFALWDKNGDEEYWLTAYVmDFLVRAGEQGYSVPTDAINRGNERLLRYLQDPGmmSIPYADNLKASKFAVQSYAALVLARQQKAPLGALREIWEHRADAASGLPLLQLGVALKTmGDATRGEEAIALALKTPRNSDERIWLGDYGSSLRDNALmLSLLEENKLLPDEQYTLLNTLSQQAFGERWLSTQESNALFLAARTIQDLPGKWQAQTSFSAEQLTGEKAQNSNLNSDQLVTLQVSNSGDQPLWLRmDASGYPQSAPLPANNVLQIERHILGTDGKSKSLDSLRSGDLVLVWLQVKASNSVPDALVVDLLPAGLELENQNLSASLEQSGGEVQNLLNQmQQANIKHIEFRDDRFVAAVAVDEYQPVTLVYLARAVTPGTYQVPQPmVESmYVPQWRATGAAEDLLIVRP 1653
                                 | 394       404       414       424       434       444       454     | 464       474       484  |    494       504       514       524       534       544       554       564       574       584       594       604       614       636       646       656       666       676       686       696       706       716       726       736     ||858       868|      878       888       898       908       918   ||  948       958       968       978       988       998|     1008      1018      1028  |   1038      1048      1058      1068      1078      1088      1098      1108      1118      1128      1138      1148      1158      1168      1178      1188      1198      1208      1218      1228    | 1238      1248      1258      1268      1278      1288   || 1298      1308      1318      1328      1338      1348    | 1358      1368      1378      1388   |  1398      1408      1418      1428      1438      1448      1458      1468      1478      1488      1498      1508      1518      1528      1538      1548      1558   || 1571      1581 |    1591      1601      1611      1621      1631  |   1641      1651  
                                 |                                                                   460-MSE       474-MSE  483-MSE                                                                                                                                     623|                                                                                                       742|           869-MSE                                              922|                                                     999-MSE                    1027-MSE                                                                                                                                                                                                      1233-MSE                 1258-MSE                          1292-MSE                                                     1353-MSE                               1392-MSE                                                                                        1488-MSE                                                                  1562|             1583-MSE                                       1630-MSE                   
                               390-MSE                                                                                          487-MSE                                                                                                                                  636                                                                                                        855                                                                 943                                                                                    1031-MSE                                                                                                                                                                                                                                                              1293-MSE                                                                                                                                                                                                                                                                      1566                                                                1634-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 4RTD)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asp A:950 - Gly A:951   [ RasMol ]  
    Glu A:684 - Gly A:685   [ RasMol ]  
    Lys A:1178 - Glu A:1179   [ RasMol ]  
    Pro A:1442 - Gly A:1443   [ RasMol ]  
    Tyr A:741 - Ser A:742   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        YFHM_ECOLI | P76578: 4ziq 4ziu 4zjg 4zjh 5a42

(-) Related Entries Specified in the PDB File

4acq THIOLESTER TYR1175GLY VARIANT SALMONELLA TYPHIMURIUM ALPHA- 2-MACROGLOBULIN
4u48 NATIVE UNREACTED SALMONELLA TYPHIMURIUM ALPHA-2- MACROGLOBULIN
4u59 METHYLAMINE TREATED SALMONELLA TYPHIMURIUM ALPHA-2- MACROGLOBULIN