C. trachomatis serovar D proteins that do not have a significant (e-value < 0.0001) blast hit to the C. pneumoniae AR39 proteome. 
Gene Id		COG	 Definition

CT002		 J	 gatC Glu-tRNA Gln amidotransferase C subunit
CT007		 -	 hypothetical protein
CT013		 C	 cydA cytochrome oxidase D subunit I
CT024		 R	 hemK protoporphyrinogen oxidase
CT026		 J	 rs16 30S ribosomal S16 protein
CT029		 L	 rnhB ribonuclease H II
CT037		 -	 hypothetical protein <basic>
CT048		 R	 conserved hypothetical protein <possible methyltransferase>
CT049		 -	 hypothetical protein <acidic>
CT050		 -	 hypothetical protein <acidic>
CT051		 -	 hypothetical protein <acidic>
CT074		 L	 recF RecF protein
CT081		 -	 chlamydial T2 protein <basic>
CT084		 I	 conserved hypothetical protein <possible phospholipase D HKD-related>>
CT093		 H	 ribF riboflavin kinase
CT095		 J	 rbfA ribosome binding factor A
CT100		 I	 acpS holo-<acyl-carrier protein> synthase
CT115		 -	 hypothetical protein <basic>
CT116		 -	 hypothetical protein
CT117		 -	 hypothetical protein
CT118		 -	 hypothetical protein
CT119		 -	 incA probable inclusion membrane protein A
CT120		 -	 hypothetical protein
CT127		 M	 ydhO P60-related protein
CT134		 -	 hypothetical protein
CT135		 -	 hypothetical protein
CT153		 -	 hypothetical protein
CT154		 I	 conserved hypothetical protein <possible phospholipase D HKD-related>
CT155		 I	 conserved hypothetical protein <basic><possible phospholipase D HKD-related protein>
CT156		 -	 hypothetical protein <basic>
CT157		 I	 conserved hypothetical protein <basic><possible phospholipase D HKD-related protein>
CT158		 I	 conserved hypothetical protein <possible phospholipase D protein>
CT159		 -	 hypothetical protein
CT160		 -	 hypothetical protein
CT161		 -	 hypothetical protein <basic>
CT162		 -	 hypothetical protein
CT163		 -	 hypothetical protein <basic>
CT164		 -	 hypothetical protein
CT165		 -	 hypothetical protein <basic>
CT166		 -	 toxin B-related protein
CT167		 -	 hypothetical protein
CT168		 -	 hypothetical protein
CT169		 -	 trpR Trp operon repressor
CT170		 E	 trpB tryptophan synthase beta subunit
CT171		 E	 trpA tryptophan synthase alpha chain
CT172		 -	 hypothetical protein
CT173		 -	 hypothetical protein <basic>
CT174		 -	 hypothetical protein <basic>
CT176		 O	 conserved hypothetical protein
CT185		 G	 zwf glucose-6-phosphate dehydrogenase
CT186		 G	 nagB/devB/zwf glucosamine-6-phosphate isomerase <glucosamine-6-phosphate deaminase>
CT192		 -	 hypothetical protein <acidic>
CT194		 P	 mgtE Mg2+ transport protein
CT196		 -	 hypothetical protein
CT197		 O	 gcp O-sialoglycoprotein endopeptidase <glycoprotease>
CT204		 P	 ybhI oxoglutarate/malate translocator protein
CT214		 -	 hypothetical protein <basic>
CT220		 H	 "ubiX phenylacrylic acid decarboxylase <PAD>, 3-octaprenyl-4-hydroxybenzoate carboxy-lyase"
CT222		 -	 hypothetical protein <possible endonuclease>
CT223		 -	 hypothetical protein
CT224		 -	 hypothetical protein <acidic>
CT225		 -	 hypothetical protein
CT226		 -	 hypothetical protein <acidic>
CT227		 -	 hypothetical protein
CT228		 -	 hypothetical protein <acidic>
CT229		 -	 hypothetical protein
CT230		 C	 aaaT glutamate/aspartate transport carrier permease
CT231		 R	 sodium-dependent transporter
CT233		 -	 hypothetical protein <possible inclusion membrane protein C/incC>
CT241		 M	 probable outer membrane protein <Omp85 analog>
CT249		 -	 hypothetical protein
CT259		 T	 probable protein phosphatase
CT261		 L	 dnaQ DNA polymerase III alpha/epsilon chain
CT274		 R	 hypothetical protein <acidic>
CT284		 I	 conserved hypothetical protein <possible phospholipase D HKD-related protein
CT290		 G	 ptsN nitrogen regulatory IIa protein
CT291		 G	 ptsN nitrogen regulatory IIa domain protein <PTS IIA><phosphotransferase>
CT300		 -	 hypothetical protein <basic>
CT306		 C	 atpD probable ATP synthase subunit D
CT310		 -	 atpE possible ATP synthase subunit E
CT327		 E	 trpC phosphoribosylanthranilate isomerase
CT345		 -	 hypothetical protein <basic>
CT352		 -	 hypothetical protein <basic>
CT357		 -	 R hypothetical protein <basic>
CT357R		 -	 
CT358		 -	 hypothetical protein <acidic>
CT359		 R	 bioY probable biotin synthase
CT360		 -	 hypothetical protein <acidic>
CT363		 E	 asd aspartate semialdehyde dehydrogenase
CT366		 E	 aroA 3-phosphoshikimate-1-carboxyvinyltransferase <EpsP synthase>
CT369		 E	 aroB 3-dehydroquinate synthase
CT374		 E	 arcD arginine/ornithine antiporter
CT375		 R	 probable D-amino acid dehydrogenase
CT380		 R	 phnP probable PHNP-like protein
CT385		 F	 hitA/ycfF protein kinase C inhibitor <HIT family protein>
CT390		 -	 aspC aspartate aminotransferase
CT397		 K	 vacB ribonuclease II <VACB-related>
CT401		 C	 gltT proton/sodium:glutamate symporter protein
CT403		 J	 spoU 23S rRNA methyltransferase
CT409		 E	 dagA alanine glycine carrier permease/ sodium-dependent
CT424		 T	 rsbV anti-sigma factor/sporulation-related protein
CT430		 E	 dapF diaminopimelate epimerase
CT435		 P	 cysJ probable sulfite reductase
CT439		 -	 rs12 30S ribosomal protein S12
CT449		 -	 hypothetical protein
CT453		 I	 plsC 1-acyl-sn-glycerol-3-phosphate acyltransferase
CT458		 R	 conserved hypothetical protein<YHHY related acetyltransferase?>
CT461		 R	 conserved hypothetical protein <basic>
CT464		 R	 conserved hypothetical protein <acidic><possible phosphoglycolate phosphatase>
CT467		 T	 pilS/atoS/ntrB two-component sensor histidine kinase <ATOS-related>
CT468		 T	 "pilR/atoC/ntrC two-component sensor system regulatory subunit <ATOC-like, NTRC-like>"
CT472		 S	 hypothetical protein
CT477		 L	 methylated DNA-protein-cysteine S-methyltransferase
CT524		 J	 rs19 30S ribosomal protein S19
CT536		 L	 dnaQ DNA polymerase III alpha chain
CT540		 J	 spoU ribosomal RNA methylase
CT547		 -	 hypothetical protein
CT553		 J	 fmu FMU/SUN-related methyltransferase
CT563		 N	 SctS/YscS/fliQ flagellar biosynthesis protein <YopS translocation protein/ FLIQ>>
CT564		 N	 SctT/YscT flagellar biosynthesis- YopT translocation protein <FLIR or YSCT-related>
CT580		 R	 conserved hypothetical protein
CT596		 N	 exbB probable biopolymer transport <tolQ> protein
CT603		 O	 tsa thiol specific antioxidant <thioredoxin peroxidase>
CT606		 F	 conserved hypothetical protein
CT609		 K	 rpoN RNA polymerase sigma-54 factor <major sigma factor>
CT630		 T	 conserved hypothetical protein <acidic>
CT631		 -	 hypothetical protein
CT637		 E	 tyrB aromatic amino acid aminotransferase
CT649		 H	 "ygfA 5-formyltetrahydrofolate cyclo-ligase <5,10-methenyltetrahydrofolate synthetase>"
CT672		 N	 conserved hypothetical protein <acidic><possible FLIN flagellar motor switch domain>
CT673		 T	 pkn5 possible serine/threonine kinase
CT683		 R	 O-linked GlcNAc transferase
CT692		 P	 ygo4 phosphate permease/transporter
CT694		 -	 hypothetical protein
CT710		 C	 pckA phosphoenolpyruvate carboxykinase
CT735		 E	 dagA D-alanine/glycine permease
CT742		 -	 gycA/trmA probable RNA methyltransferase
CT765		 T	 rsbV anti-sigma factor/ sporulation-related protein
CT769		 S	 conserved hypothetical protein <acidic><possible ybeB protein>
CT773		 E	 ldh/dhlE leucine dehydrogenase <glutamate dehydrogenase?>
CT784		 L	 rnpA ribonuclease P protein component
CT786		 J	 rl36 50S ribosomal protein L36
CT789		 -	 hypothetical protein <basic>
CT793		 -	 hypothetical protein <basic>
CT804		 S	 conserved hypothetical protein <YCHB/YABH family>
CT811		 I	 plsX PLSX-related fatty acid/phospholipid biosynthesis protein
CT813		 -	 conserved hypothetical protein <acidic>
CT844		 F	 yfhC cytosine deaminase
CT853		 S	 membrane protein <YHGN-related>
CT854		 P	 conserved hypothetical protein <probable ABC transporter-permease>
CT856		 P	 ychM sulphate transporter protein
CT867		 -	 conserved hypothetical protein <acidic> <possible thiol protease>
CT868		 -	 conserved hypothetical protein <possible thiol protease>
CT873		 -	 hypothetical protein
CT875		 -	 hypothetical protein
pCT02		 	 plasmid virulence factor pGP2-D
pCT03		 	 plasmid virulence factor PGP3-D.
pCT04		 	 plasmid virulence factor PGP4-D
pCT07		 	 plasmid virulence factor PGP7-D
pCT08		 	 plasmid virulence factor pGP8-D