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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE SECRETED PROTEIN (LPG1979) FROM LEGIONELLA PNEUMOPHILA SUBSP. PNEUMOPHILA STR. PHILADELPHIA 1 AT 2.65 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  27 Mar 13  (Deposition) - 08 May 13  (Release) - 24 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.65
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A,B  (2x)
Keywords :  Orfan Protein, New Combination Of Alpha Helixes And Beta Sheets, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-Biology, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of A Hypothetical Protein (Lpg1979) From Legionella Pneumophila Subsp. Pneumophila Str. Philadelphia 1 At 2. 65 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: PB1
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: LPG1979, YP_095995.1
    Organism Scientific: LEGIONELLA PNEUMOPHILA SUBSP. PNEUMOPHILA
    Organism Taxid: 272624
    Strain: PHILADELPHIA 1

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): AB
Biological Unit 2 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 55)

Asymmetric Unit (6, 55)
No.NameCountTypeFull Name
11PE3Ligand/IonPENTAETHYLENE GLYCOL
2CL3Ligand/IonCHLORIDE ION
3MSE30Mod. Amino AcidSELENOMETHIONINE
4PEG3Ligand/IonDI(HYDROXYETHYL)ETHER
5PGE4Ligand/IonTRIETHYLENE GLYCOL
6SO412Ligand/IonSULFATE ION
Biological Unit 1 (5, 52)
No.NameCountTypeFull Name
11PE3Ligand/IonPENTAETHYLENE GLYCOL
2CL-1Ligand/IonCHLORIDE ION
3MSE30Mod. Amino AcidSELENOMETHIONINE
4PEG3Ligand/IonDI(HYDROXYETHYL)ETHER
5PGE4Ligand/IonTRIETHYLENE GLYCOL
6SO412Ligand/IonSULFATE ION
Biological Unit 2 (5, 104)
No.NameCountTypeFull Name
11PE6Ligand/IonPENTAETHYLENE GLYCOL
2CL-1Ligand/IonCHLORIDE ION
3MSE60Mod. Amino AcidSELENOMETHIONINE
4PEG6Ligand/IonDI(HYDROXYETHYL)ETHER
5PGE8Ligand/IonTRIETHYLENE GLYCOL
6SO424Ligand/IonSULFATE ION

(-) Sites  (25, 25)

Asymmetric Unit (25, 25)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR A:382BINDING SITE FOR RESIDUE CL A 501
02AC2SOFTWAREGLY A:438 , PHE A:439BINDING SITE FOR RESIDUE CL A 502
03AC3SOFTWAREARG A:118 , THR A:338 , GLN A:339BINDING SITE FOR RESIDUE SO4 A 503
04AC4SOFTWAREASN A:291 , MSE A:407 , LEU A:408 , HOH A:695 , ARG B:356BINDING SITE FOR RESIDUE SO4 A 504
05AC5SOFTWARELYS A:389 , ILE A:390 , GLY A:438 , HOH A:665BINDING SITE FOR RESIDUE SO4 A 505
06AC6SOFTWARESER A:297 , LYS A:298 , GLY A:299 , ARG A:375BINDING SITE FOR RESIDUE SO4 A 506
07AC7SOFTWAREARG A:356 , HIS B:142 , PRO B:145 , TYR B:149 , PHE B:255 , HOH B:722BINDING SITE FOR RESIDUE PGE A 507
08AC8SOFTWARETHR A:365 , ASN A:366 , ILE A:367 , HOH A:661 , THR B:365 , ASN B:366BINDING SITE FOR RESIDUE PGE A 508
09AC9SOFTWARELYS A:329 , ASP A:341 , TYR A:344BINDING SITE FOR RESIDUE 1PE A 509
10BC1SOFTWARETRP A:161 , LYS A:162 , LEU A:221 , GLU A:223 , HOH A:700BINDING SITE FOR RESIDUE 1PE A 510
11BC2SOFTWAREGLU A:188 , THR A:200 , HIS A:203BINDING SITE FOR RESIDUE PEG A 511
12BC3SOFTWARETHR B:110BINDING SITE FOR RESIDUE CL B 501
13BC4SOFTWARESER B:297 , LYS B:298 , GLY B:299 , ARG B:375 , HOH B:608 , HOH B:635 , HOH B:654 , HOH B:684BINDING SITE FOR RESIDUE SO4 B 502
14BC5SOFTWAREARG A:356 , ALA B:288 , ASN B:291 , MSE B:407 , LEU B:408 , HOH B:643BINDING SITE FOR RESIDUE SO4 B 503
15BC6SOFTWARELYS B:314 , LYS B:386 , LYS B:423BINDING SITE FOR RESIDUE SO4 B 504
16BC7SOFTWAREASN A:424 , HIS B:267 , SER B:271 , LEU B:310 , TRP B:425BINDING SITE FOR RESIDUE SO4 B 505
17BC8SOFTWARETHR B:437 , GLY B:438 , PHE B:439 , HOH B:685BINDING SITE FOR RESIDUE SO4 B 506
18BC9SOFTWAREGLU B:336 , THR B:338 , GLN B:339BINDING SITE FOR RESIDUE SO4 B 507
19CC1SOFTWARELYS B:423 , ASN B:424 , ASN B:426 , LYS B:429BINDING SITE FOR RESIDUE SO4 B 508
20CC2SOFTWARETYR A:427 , GLN B:102 , ASN B:115 , LYS B:121BINDING SITE FOR RESIDUE SO4 B 509
21CC3SOFTWAREARG A:127 , THR A:128 , GLY A:289 , SER A:290 , TYR B:62 , THR B:66 , GLY B:67 , ASP B:68 , GLU B:69 , THR B:70 , HOH B:655BINDING SITE FOR RESIDUE PGE B 510
22CC4SOFTWARELYS B:154 , TRP B:161 , LYS B:162 , LEU B:221 , GLU B:223BINDING SITE FOR RESIDUE PGE B 511
23CC5SOFTWAREALA B:327 , LYS B:329 , ALA B:340 , HOH B:703BINDING SITE FOR RESIDUE 1PE B 512
24CC6SOFTWAREGLN B:56 , TRP B:59 , GLY B:72BINDING SITE FOR RESIDUE PEG B 513
25CC7SOFTWAREPHE B:255 , THR B:258 , SER B:262BINDING SITE FOR RESIDUE PEG B 514

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4JX2)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Thr A:182 -Pro A:183
2Thr B:182 -Pro B:183
3Lys B:386 -Pro B:387

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4JX2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4JX2)

(-) Exons   (0, 0)

(no "Exon" information available for 4JX2)

(-) 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:402
                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhh............hhhhhhhhhhhhh.......eeeeee.eeeee.....eeeeee.......hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh....hhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhheeeeee..........hhhhhhhhhhhhhhh....hhh.eee...............hhhhhhhhhh.hhhhhhhhhhhhhhhh........................hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhh................................ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4jx2 A  50 NTYVTPQAFWNLYFDFTGDETPGYPKGKINISQTLFQSEmKKAQQNEGQLILFINSTLYIYNSDRQLKLKQLmRTAPNSGFTEmTAISHIGPALmYLAKIKENGDASWKSQmENLLKDIQAVKVINAQTPNNWLEQVNAPAWKPHLTTIHNmIDYACSmAGNYmSDVLNEKLSFDmASLQNDFLNGNKTYPIPYNNVmIGTFmLTALQSmDQLHSKISQLKIDWPHAKVIIRFVAGSNVSAGVSKGSNWLVPFVQALSNNKLATDRIYITPYAAVKPSLGAQELTQADYNYYNNTVWGARHNRRIIANEVFTNITSIFLPDRPAIPGDYTYSKPPKIEDFLmRLKFSLAEPTEmLSNTVGFWmAGELAEKNWNYNKISIPGITTGFPEGISTYPNNNPVIQR 455
                                    59        69        79        89 ||    103       113       123  |    133   |   143    |  153       163 |     173       183       193       203 |     213   |   223     | 233       243       253  |    263       273       283       293       303       313       323       333       343       353       363       373       383       393 |     403   |   413  |    423       433       443       453  
                                                                  89-MSE                          126-MSE    137-MSE    148-MSE          165-MSE                                 205-MSE  |    |         229-MSE               251-MSE|      |                                                                                                                                 395-MSE     407-MSE  416-MSE                                   
                                                                    91|                                                                                                                 212-MSE|                                    256-MSE  |                                                                                                                                                                                                
                                                                     96                                                                                                                      217-MSE                                       263-MSE                                                                                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:399
                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhh..............hhhhhhhhhhhhh....eeeeee.eeeee.....eeeeee.......hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh....hhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhheeeeee..........hhhhhhhhhhhhhhh....hhh.eee...............hhhhhhhhhh.hhhhhhhhhhhhhhhh........................hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhh................................ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jx2 B  50 NTYVTPQAFWNLYFDFTGDETPGYPKGKINISQTLFQSEmKKNEGQLILFINSTLYIYNSDRQLKLKQLmRTAPNSGFTEmTAISHIGPALmYLAKIKENGDASWKSQmENLLKDIQAVKVINAQTPNNWLEQVNAPAWKPHLTTIHNmIDYACSmAGNYmSDVLNEKLSFDmASLQNDFLNGNKTYPIPYNNVmIGTFmLTALQSmDQLHSKISQLKIDWPHAKVIIRFVAGSNVSAGVSKGSNWLVPFVQALSNNKLATDRIYITPYAAVKPSLGAQELTQADYNYYNNTVWGARHNRRIIANEVFTNITSIFLPDRPAIPGDYTYSKPPKIEDFLmRLKFSLAEPTEmLSNTVGFWmAGELAEKNWNYNKISIPGITTGFPEGISTYPNNNPVIQR 455
                                    59        69        79        89 ||    106       116       126       136|      146 |     156       166       176       186       196       206     | 216|      226  |    236       246    |  256      |266       276       286       296       306       316       326       336       346       356       366       376       386       396       406|      416       426       436       446         
                                                                  89-MSE                       126-MSE    137-MSE    148-MSE          165-MSE                                 205-MSE  |    |         229-MSE               251-MSE|      |                                                                                                                                 395-MSE     407-MSE  416-MSE                                   
                                                                    91|                                                                                                              212-MSE|                                    256-MSE  |                                                                                                                                                                                                
                                                                     99                                                                                                                   217-MSE                                       263-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 4JX2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4JX2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4JX2)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4JX2)

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