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(-) Description

Title :  SALMONELLA GLOBAL DOMAIN 245
 
Authors :  C. Dong, H. Dong
Date :  15 Feb 16  (Deposition) - 19 Apr 17  (Release) - 19 Apr 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.64
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 :  Salmonella 245-586, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Dong, Z. Zhang, X. Tang, S. Huang, H. Li, B. Peng, C. Dong
Structural Insights Into Cardiolipin Transfer From The Inne Membrane To The Outer Membrane By Pbga In Gram-Negative Bacteria.
Sci Rep V. 6 30815 2016
PubMed-ID: 27487745  |  Reference-DOI: 10.1038/SREP30815

(-) Compounds

Molecule 1 - INNER MEMBRANE PROTEIN YEJM
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Gene: YEJM, STM2228
    Organism Scientific: SALMONELLA TYPHIMURIUM (STRAIN LT2 / SGSC1412 / ATCC 700720)
    Organism Taxid: 99287

 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  (1, 32)

Asymmetric Unit (1, 32)
No.NameCountTypeFull Name
1MSE32Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 3 (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE
Biological Unit 4 (1, 8)
No.NameCountTypeFull Name
1MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 5I5D)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5I5D)

(-) Cis Peptide Bonds  (10, 10)

Asymmetric Unit
No.Residues
1Tyr A:246 -Pro A:247
2Val A:521 -Pro A:522
3Tyr B:246 -Pro B:247
4Val B:521 -Pro B:522
5Tyr C:246 -Pro C:247
6Ser C:363 -Mse C:364
7Thr C:520 -Val C:521
8Val C:521 -Pro C:522
9Tyr D:246 -Pro D:247
10Val D:521 -Pro D:522

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5I5D)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5I5D)

(-) Exons   (0, 0)

(no "Exon" information available for 5I5D)

(-) 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:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................eeeeeeeeee...hhhhhhhhhhhhhhh.eee..ee....hhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhh..eeeeee.....hhhhhhh.............hhhhhhhhhhhhhhhh......eeeeeee...........hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeeee...hhhhhh...hhhhhh..eeee......eee...eehhhhhhhhhhhh.....hhhhh...............eeee...eeeee....eeeee....eeee........hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5i5d A 243 SVQYPLSNLHYRDmGTGQNVLLITVDGLNYSRFEKQmPELATFAEQNIDFTRHmSSGNTTDNGIFGLFYGISPGYmDGVLSTRTPAALITALNQQGYQLGLFSSDGFASPLYRQALLSDFSmPAAQTQSDAQTASQWIDWLGRYAQEDNRWFSWISFNGTNIDDSNQKNFVKRYASAASDVDAQINRVLNALREAGKFDNTVVIITAGRGIPLTPEENRFDWSQGHLQVPLVIHWPGTPAQRINVLTDHTDVmTTLmQRLLHVSTPANEYSQGQDIFTVPRRHNWVTAADGSTLAITTPQmTLVLNNNGHYQTYDLHGEKIPQLSLLLQVLTEEKRFIA 585
                                   252   |   262       272      |282       292   |   302       312     | 322       332       342       352       362 |     372       382       392       402       412       422       432       442       452       462       472       482       492  |   |502       512       522       532       542|      552       562||     576         
                                       256-MSE                279-MSE          296-MSE               318-MSE                                       364-MSE                                                                                                                            495-MSE                                         543-MSE             563|                 
                                                                                                                                                                                                                                                                                          499-MSE                                                          568                 


Chain B from PDB  Type:PROTEIN  Length:340
                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................eeeeeeeeee...hhhhhhhhhhhhhhhheee..ee....hhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhh..eeeeee.....hhhhhhh.............hhhhhhhhhhhhhhhh......eeeeeee...........hhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeeeee...hhhhhh...hhhhhh..eeee......eee...eehhhhhhhhhhhh.....hhhhh...............eeee...eeeee....eeeee....eeee........hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5i5d B 242 VSVQYPLSNLHYRDmGTGQNVLLITVDGLNYSRFEKQmPELATFAEQNIDFTRHmSSGNTTDNGIFGLFYGISPGYmDGVLSTRTPAALITALNQQGYQLGLFSSDGFASPLYRQALLSDFSmPAAQTQSDAQTASQWIDWLGRYAQEDNRWFSWISFNGTNIDDSNQKNFVKRYASAASDVDAQINRVLNALREAGKFDNTVVIITAGRGIPLTPEENRFDWSQGHLQVPLVIHWPGTPAQRINVLTDHTDVmTTLmQRLLHVSTPANEYSQGQDIFTVPRRHNWVTAADGSTLAITTPQmTLVLNNNGHYQTYDLHGEKIPQLSLLLQVLTEEKRFIA 585
                                   251    |  261       271       281       291    |  301       311      |321       331       341       351       361  |    371       381       391       401       411       421       431       441       451       461       471       481       491   |   501       511       521       531       541 |     551       561 ||    575       585
                                        256-MSE                279-MSE          296-MSE               318-MSE                                       364-MSE                                                                                                                            495-MSE                                         543-MSE             563|                 
                                                                                                                                                                                                                                                                                           499-MSE                                                          568                 


Chain C from PDB  Type:PROTEIN  Length:338
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................eeeeeeeeee...hhhhhhhhhhhhhhh.eee..ee....hhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhh..eeeeee.....hhhhhhh.............hhhhhhhhhhhhhhhh......eeeeeee...........hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeeee...hhhhhh...hhhhhh..eeee......eee...eehhhhhhhhhhhh.....hhhhh...............eeee...eeeee....eeeee....eeee........hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5i5d C 244 VQYPLSNLHYRDmGTGQNVLLITVDGLNYSRFEKQmPELATFAEQNIDFTRHmSSGNTTDNGIFGLFYGISPGYmDGVLSTRTPAALITALNQQGYQLGLFSSDGFASPLYRQALLSDFSmPAAQTQSDAQTASQWIDWLGRYAQEDNRWFSWISFNGTNIDDSNQKNFVKRYASAASDVDAQINRVLNALREAGKFDNTVVIITAGRGIPLTPEENRFDWSQGHLQVPLVIHWPGTPAQRINVLTDHTDVmTTLmQRLLHVSTPANEYSQGQDIFTVPRRHNWVTAADGSTLAITTPQmTLVLNNNGHYQTYDLHGEKIPQLSLLLQVLTEEKRFIA 585
                                   253  |    263       273     | 283       293  |    303       313    |  323       333       343       353       363|      373       383       393       403       413       423       433       443       453       463       473       483       493 |   | 503       513       523       533       543       553       563|      577        
                                      256-MSE                279-MSE          296-MSE               318-MSE                                       364-MSE                                                                                                                            495-MSE                                         543-MSE             563|                 
                                                                                                                                                                                                                                                                                         499-MSE                                                          568                 


Chain D from PDB  Type:PROTEIN  Length:342
                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....................eeeeeeeeee...hhhhhhhhhhhhhhh.eee..ee....hhhhhhhhhhhh.hhhhhhhhhhhh..hhhhhhhhhh..eeeeee.....hhhhhhh.............hhhhhhhhhhhhhhhh......eeeeeee...........hhhhhhhhhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeeee...hhhhhh...hhhhhh..eeee......eee...eehhhhhhhhhhhh.....hhhhh...............eeee...eeeee....eeeee....eeee........hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5i5d D 240 EAVSVQYPLSNLHYRDmGTGQNVLLITVDGLNYSRFEKQmPELATFAEQNIDFTRHmSSGNTTDNGIFGLFYGISPGYmDGVLSTRTPAALITALNQQGYQLGLFSSDGFASPLYRQALLSDFSmPAAQTQSDAQTASQWIDWLGRYAQEDNRWFSWISFNGTNIDDSNQKNFVKRYASAASDVDAQINRVLNALREAGKFDNTVVIITAGRGIPLTPEENRFDWSQGHLQVPLVIHWPGTPAQRINVLTDHTDVmTTLmQRLLHVSTPANEYSQGQDIFTVPRRHNWVTAADGSTLAITTPQmTLVLNNNGHYQTYDLHGEKIPQLSLLLQVLTEEKRFIA 585
                                   249      |259       269       279       289      |299       309       319       329       339       349       359    |  369       379       389       399       409       419       429       439       449       459       469       479       489     | 499       509       519       529       539   |   549       559   ||  573       583  
                                          256-MSE                279-MSE          296-MSE               318-MSE                                       364-MSE                                                                                                                            495-MSE                                         543-MSE             563|                 
                                                                                                                                                                                                                                                                                             499-MSE                                                          568
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5I5D)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5I5D)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5I5D)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
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    Tyr A:246 - Pro A:247   [ RasMol ]  
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        YEJM_SALTY | P40709: 5i5f

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