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(-) Description

Title :  X-RAY STRUCTURE OF LIN1025 PROTEIN FROM LISTERIA INNOCUA, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET LKR164
 
Authors :  A. Kuzin, M. Su, S. Lew, J. Seetharaman, P. Patel, R. Xiao, C. Ciccosanti J. K. Everett, R. Nair, T. B. Acton, B. Rost, G. T. Montelione, J. F. Hunt Northeast Structural Genomics Consortium (Nesg)
Date :  20 Sep 10  (Deposition) - 20 Oct 10  (Release) - 22 Feb 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.61
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 :  Structural Genomics, Psi-Biology, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Kuzin, M. Su, S. Lew, J. Seetharaman, P. Patel, R. Xiao, C. Ciccosanti, D. Lee, J. K. Everett, R. Nair, T. B. Acton, B. Rost, G. T. Montelione, J. F. Hunt, L. Tong
Northeast Structural Genomics Consortium Target Lkr164
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - LIN1025 PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Gene: LIN1025
    Organism Scientific: LISTERIA INNOCUA
    Organism Taxid: 1642

 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  (2, 39)

Asymmetric Unit (2, 39)
No.NameCountTypeFull Name
1MSE36Mod. Amino AcidSELENOMETHIONINE
2PEG3Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 1 (1, 9)
No.NameCountTypeFull Name
1MSE9Mod. Amino AcidSELENOMETHIONINE
2PEG-1Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 2 (2, 10)
No.NameCountTypeFull Name
1MSE9Mod. Amino AcidSELENOMETHIONINE
2PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 3 (2, 10)
No.NameCountTypeFull Name
1MSE9Mod. Amino AcidSELENOMETHIONINE
2PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 4 (2, 10)
No.NameCountTypeFull Name
1MSE9Mod. Amino AcidSELENOMETHIONINE
2PEG1Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMSE B:78 , ILE B:225BINDING SITE FOR RESIDUE PEG B 322
2AC2SOFTWAREHIS C:208 , THR D:93 , MSE D:160 , ARG D:207 , ARG D:217BINDING SITE FOR RESIDUE PEG D 322

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3OWQ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3OWQ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3OWQ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3OWQ)

(-) Exons   (0, 0)

(no "Exon" information available for 3OWQ)

(-) 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:237
 aligned with Q92CZ6_LISIN | Q92CZ6 from UniProtKB/TrEMBL  Length:321

    Alignment length:251
                                    79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319 
         Q92CZ6_LISIN    70 KKPFSVLLMGSDARPGETNGRADTIILATANKQQNAVEMVSIPRDTKVDYGNGDIGKINASYSNGGPSGTVSAVEKLMPGVPVDYFISINMEGFKDLVDAVGGITVYNDIDLTEVNSKFVKGNITLNGTDALQYVRIRHEDPRGDFGRQDRQRDVIIGIANKVISSSGVSNFESIMKAVGDNFQTNMTLTDITSMATNYSSVLKNVDSQELKGEGEMIYSESYGFDLYYFAPDETDLERVINMFKKSLDIT 320
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee..------.....eeeeeeee....eeeeee.....eee...-.eee.hhhhh..hhhhhhhhhhhh.......eeeeehhhhhhhhhhhh..eeeee.............eeeeehhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.-------hhhhh.hhh.eee..hhhhhhhhhhhhhhhhheeeeee..eeeeeee......eeeeeeehhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3owq A  70 KKPFSVLLmGSD------NGRADTIILATANKQQNAVEmVSIPRDTKVDYGN-DIGKINASYSNGGPSGTVSAVEKLmPGVPVDYFISINmEGFKDLVDAVGGITVYNDIDLTEVNSKFVKGNITLNGTDALQYVRIRHEDPRGDFGRQDRQRDVIIGIANKVIS-------ESImKAVGDNFQTNmTLTDITSmATNYSSVLKNVDSQELKGEGEmIYSESYGFDLYYFAPDETDLERVINmFKKSLDIT 320
                                    79 |      89        99       109       119 | |   129       139       149       159|      169       179       189       199       209       219       229    |    -  |  | 249      |259    |  269       279      |289       299       309  |    319 
                                   78-MSE    88                 108-MSE      121 |                     147-MSE      160-MSE                                                                   234     242  |        256-MSE 264-MSE               286-MSE                   312-MSE    
                                                                               123                                                                                                                       245-MSE                                                                       


Chain B from PDB  Type:PROTEIN  Length:233
 aligned with Q92CZ6_LISIN | Q92CZ6 from UniProtKB/TrEMBL  Length:321

    Alignment length:249
                                    79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309         
         Q92CZ6_LISIN    70 KKPFSVLLMGSDARPGETNGRADTIILATANKQQNAVEMVSIPRDTKVDYGNGDIGKINASYSNGGPSGTVSAVEKLMPGVPVDYFISINMEGFKDLVDAVGGITVYNDIDLTEVNSKFVKGNITLNGTDALQYVRIRHEDPRGDFGRQDRQRDVIIGIANKVISSSGVSNFESIMKAVGDNFQTNMTLTDITSMATNYSSVLKNVDSQELKGEGEMIYSESYGFDLYYFAPDETDLERVINMFKKSLD 318
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeee.------.....eeeeeeee....eeeeee.....ee---....ee.hhhhhhhhhhhhhhhhhhh.......eeeeeehhhhhhhhhhh..eeeee.............eeeeehhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh....-------...hhh.eee..hhhhhhhhhhhhhhhhh.eeeee..eeeeeeee....eeeeeeee..hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3owq B  70 KKPFSVLLmGSD------NGRADTIILATANKQQNAVEmVSIPRDTKV---NGDIGKINASYSNGGPSGTVSAVEKLmPGVPVDYFISINmEGFKDLVDAVGGITVYNDIDLTEVNSKFVKGNITLNGTDALQYVRIRHEDPRGDFGRQDRQRDVIIGIANKVISSSG-------mKAVGDNFQTNmTLTDITSmATNYSSVLKNVDSQELKGEGEmIYSESYGFDLYYFAPDETDLERVINmFKKSLD 318
                                    79 |      89        99       109       | - |     129       139       149       159|      169       179       189       199       209       219       229       | -     | 249      |259    |  269       279      |289       299       309  |      
                                   78-MSE    88                 108-MSE  117 121                       147-MSE      160-MSE                                                                      237     245-MSE    256-MSE 264-MSE               286-MSE                   312-MSE  


Chain C from PDB  Type:PROTEIN  Length:237
 aligned with Q92CZ6_LISIN | Q92CZ6 from UniProtKB/TrEMBL  Length:321

    Alignment length:251
                                    78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318 
         Q92CZ6_LISIN    69 KKKPFSVLLMGSDARPGETNGRADTIILATANKQQNAVEMVSIPRDTKVDYGNGDIGKINASYSNGGPSGTVSAVEKLMPGVPVDYFISINMEGFKDLVDAVGGITVYNDIDLTEVNSKFVKGNITLNGTDALQYVRIRHEDPRGDFGRQDRQRDVIIGIANKVISSSGVSNFESIMKAVGDNFQTNMTLTDITSMATNYSSVLKNVDSQELKGEGEMIYSESYGFDLYYFAPDETDLERVINMFKKSLDI 319
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeee.--------...eeeeeeee....eeeeee.......------..hhhhhhhhhhhhhhhhhhhhhh......eeeeeehhhhhhhhhhh..eeeee.............eeeeehhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhh...eee..hhhhhhhhhhhhhhhhh.eeee...eee..ee......ee..eeehhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3owq C  69 KKKPFSVLLmGSD--------RADTIILATANKQQNAVEmVSIPRDTKV------IGKINASYSNGGPSGTVSAVEKLmPGVPVDYFISINmEGFKDLVDAVGGITVYNDIDLTEVNSKFVKGNITLNGTDALQYVRIRHEDPRGDFGRQDRQRDVIIGIANKVISSSGVSNFESImKAVGDNFQTNmTLTDITSmATNYSSVLKNVDSQELKGEGEmIYSESYGFDLYYFAPDETDLERVINmFKKSLDI 319
                                    78  |      - |      98       108        |-     | 128       138       148       158 |     168       178       188       198       208       218       228       238      |248       258     | 268       278       288       298       308   |   318 
                                    78-MSE      90               108-MSE  117    124                    147-MSE      160-MSE                                                                              245-MSE    256-MSE 264-MSE               286-MSE                   312-MSE   


Chain D from PDB  Type:PROTEIN  Length:237
 aligned with Q92CZ6_LISIN | Q92CZ6 from UniProtKB/TrEMBL  Length:321

    Alignment length:252
                                    78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318  
         Q92CZ6_LISIN    69 KKKPFSVLLMGSDARPGETNGRADTIILATANKQQNAVEMVSIPRDTKVDYGNGDIGKINASYSNGGPSGTVSAVEKLMPGVPVDYFISINMEGFKDLVDAVGGITVYNDIDLTEVNSKFVKGNITLNGTDALQYVRIRHEDPRGDFGRQDRQRDVIIGIANKVISSSGVSNFESIMKAVGDNFQTNMTLTDITSMATNYSSVLKNVDSQELKGEGEMIYSESYGFDLYYFAPDETDLERVINMFKKSLDIT 320
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) -------------       -LytR_cpsA_psr-3owqD01 D:90-234                                                                                                                        --------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -------------       -LytR_cpsA_psr-3owqD02 D:90-234                                                                                                                        --------------------------------------------------------------------------------- Pfam domains (2)
           Pfam domains (3) -------------       -LytR_cpsA_psr-3owqD03 D:90-234                                                                                                                        --------------------------------------------------------------------------------- Pfam domains (3)
           Pfam domains (4) -------------       -LytR_cpsA_psr-3owqD04 D:90-234                                                                                                                        --------------------------------------------------------------------------------- Pfam domains (4)
         Sec.struct. author ....eeeeeee..-------....eeeeeee.....eeeeee.....ee..---..ee.hhhhh..hhhhhhhhhhhhh......eeeeehhhhhhhhhhhh..eeeee.............eeeeehhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh.-----hhhhhhhhhh..eee..hhhhhhhhhhhhhhhhheeeeee..eeeeeee......eeeeeeehhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3owq D  69 KKKPFSVLLmGSD-------GRADTIILATANKQQNAVEmVSIPRDTKVDY---DIGKINASYSNGGPSGTVSAVEKLmPGVPVDYFISINmEGFKDLVDAVGGITVYNDIDLTEVNSKFVKGNITLNGTDALQYVRIRHEDPRGDFGRQDRQRDVIIGIANKVIS-----NFESImKAVGDNFQTNmTLTDITSmATNYSSVLKNVDSQELKGEGEmIYSESYGFDLYYFAPDETDLERVINmFKKSLDIT 320
                                    78  |      -|       98       108       118|   |  128       138       148       158 |     168       178       188       198       208       218       228     |   - |    |248       258     | 268       278       288       298       308   |   318  
                                    78-MSE     89                108-MSE    119 123                     147-MSE      160-MSE                                                                   234   240    |        256-MSE 264-MSE               286-MSE                   312-MSE    
                                                                                                                                                                                                          245-MSE
   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  (0, 0)

(no "SCOP Domain" information available for 3OWQ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OWQ)

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: no clan defined [family: LytR_cpsA_psr] (6)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (Q92CZ6_LISIN | Q92CZ6)
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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 Related Entries

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(-) Related Entries Specified in the PDB File

3nro 96% IDENTITY RELATED ID: LKR164 RELATED DB: TARGETDB