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Repeat Table for Treponema pallidum

Repeat Name Copy # Location Length Gene & Intergenic Id(s) Definitions-Comments
1    628,636   TP0001   chromosomal replication initiator protein 
2    742,750   TP0001   chromosomal replication initiator protein 
3    1710,1717   TP0002   DNA polymerase III, subunit beta 
4    2313,2320   TP0002   DNA polymerase III, subunit beta 
5    2837,2844   TP0003   RecF protein 
6    12476,12485   TP0012   hypothetical protein (basic) 
7    25363,25371   TP0021 , TP0022   hypothetical protein
hypothetical protein 
8    31900,31907   TP0025   conserved hypothetical protein 
9    34071,34079   IGR19   
10    38239,38247   IGR22   
11    41147,41154   TP0033   probable ABC transporter component; predicted MSD element 
12    43306,43313   TP0035   ABC transporter, ATP-binding protein (NBD element) 
13    43839,43846   TP0036   ABC transporter, permease protein; predicted MSD element 
14    49355,49364   TP0040   methyl-accepting chemotaxis protein 
15    54681,54688   TP0045   adenosine aminohydrolase (deaminase) 
16    56963,56970   TP0047   conserved hypothetical protein (basic) 
17    58345,58352   TP0049   conserved hypothetical protein (basic) 
18    64074,64083   IGR43   
19    69008,69015   TP0059   hypothetical protein 
20    72672,72680   TP0067   conserved hypothetical protein (containing TPR domains) 
21    77006,77014   TP0071   ATP-dependent Clp protease subunit B 
22    85890,85897   TP0078   spore coat polysaccharide biosynthesis protein 
23    94710,94718   IGR65   
24    103657,103664   TP0094   phosphotransacetylase 
25    109084,109091   TP0101   cytochrome c biogenesis protein 
26    110502,110509   TP0102   DNA helicase II 
27    113561,113569   TP0103   ATP-dependent DNA helicase 
28    114822,114829   TP0104   5'-nucleotidase 
29    115407,115414   TP0104   5'-nucleotidase 
30    120188,120195   TP0106   transporter (possible carnitine, choline, or glycine betaine transporter) 
31    122219,122228   IGR84   
32    125394,125401   TP0110   hypothetical protein 
33    127339,127346   TP0111   RNA polymerase sigma-54 factor 
34    129049,129056   TP0112   cysteine aminopeptidase C 
35    134218,134225   TP0116   excinuclease ABC, subunit B 
36    136727,136736   IGR94   
37    140941,140949   IGR98   
38    143725,143733   TP0123   hypothetical protein containing TPR domains 
39    148340,148349   TP0126   hypothetical protein 
40    148935,148945   TP0127   hypothetical protein (member of large T.p. group) 
41    152927,152935   IGR107   
42    155619,155627   TP0135   hypothetical protein (basic) 
43    157323,157330   TP0136   hypothetical protein 
44    157419,157426   TP0136   hypothetical protein 
45    160700,160707   TP0140   Probable sodium translocating ATPase subunit J 
46    162728,162735   TP0142   ABC transporter; possible ferric transport ATP-binding protein 
47    163750,163757   TP0143   probable ABC transporter protein, possibly for iron, molybdenum, amino acids 
48    164419,164427   TP0143   probable ABC transporter protein, possibly for iron, molybdenum, amino acids 
49    167095,167102   TP0145   long-chain-fatty-acid--CoA ligase 
50    168959,168966   TP0146   chromate resistance protein A (authentic frameshift - corrected) 
51    170158,170165   TP0147   alpha-amylase 1 
52    173057,173064   TP0151   hypothetical protein 
53    176429,176436   TP0154   conserved hypothetical protein (basic) 
54    176902,176909   TP0154   conserved hypothetical protein (basic) 
55    194283,194290   TP0176   hypothetical protein (basic) 
56    198527,198535   TP0180   hypothetical protein 
57    207435,207442   IGR145   
58    218806,218813   TP0216   heat shock protein 70 
59    219326,219333   TP0216   heat shock protein 70 
60    222256,222264   TP0218   possible sigma factor SigB regulation protein 
61    223941,223948   TP0219   possible sigma factor SigB regulation protein 
62    224107,224114   TP0219   possible sigma factor SigB regulation protein 
63    228515,228522   TP0223   aspartate aminotransferase 
64    239180,239187   TP0230   primosomal protein N 
65    245330,245337   IGR188   
66    257869,257876   IGR193   
67    267997,268004   TP0256   phosphatidylglycerophosphate synthase (CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase) 
68    268218,268226   TP0257   protein D, glycerophosphodiester phosphodiesterase 
69    287285,287292   TP0270   polynucleotide adenylyltransferase 
70    291452,291459   TP0275   UDP-N-acetyl-D-mannosamine transferase 
71    294249,294258   TP0279   30S ribosomal protein S1/ cytidylate kinase 
72    303492,303499   TP0289   hypothetical protein 
73    314514,314521   TP0301   ABC transporter, predicted ribose/galactose permease (MSD) protein 
74    327965,327975   IGR236   
75    332364,332372   IGR239   
76    334673,334683   TP0318   hypothetical protein 
77    347105,347112   TP0327   outer membrane protein 
78    352316,352324   TP0330   probable cell division protein 
79    361138,361146   TP0339   possible ftsH suppressor protein SfhB 
80    370516,370523   TP0345   phospho-N-acetylmuramoyl-pentapeptide-transferase 
81    372050,372062   TP0347   hypothetical protein 
82    372788,372796   TP0348   hypothetical protein 
83    373347,373354   TP0348   hypothetical protein 
84    375514,375521   TP0350   gamma-glutamyl phosphate reductase (glutamate-5-semialdehyde dehydrogenase) 
85    375948,375955   TP0351   glutamate 5-kinase 
86    393852,393859   TP0369   hypothetical protein 
87    405215,405224   IGR282   
88    407943,407955   IGR284   
89    411997,412004   TP0387   cell division protein 
90    416479,416486   TP0391   integrase/recombinase 
91    416629,416636   TP0391   integrase/recombinase 
92    416968,416976   TP0392   conserved hypothetical protein (containing TPR domains) 
93    417233,417241   TP0392   conserved hypothetical protein (containing TPR domains) 
94    421044,421052   TP0395   integrase/recombinase 
95    421798,421805   IGR290   
96    423836,423843   TP0399   flagellar basal-body M ring protein 
97    431119,431127   TP0407   possible halo acid dehalogenase 
98    440557,440564   TP0413   phosphoglucomutase 
99    470408,470416   TP0444   conserved hypothetical protein/ possible lipoprotein precursor 
100    471294,471301   TP0444   conserved hypothetical protein/ possible lipoprotein precursor 
101    473250,473257   TP0446   GCPE-related protein (protein E) 
102    475651,475658   TP0449   hypothetical protein 
103    490812,490821   TP0461   hypothetical protein (acidic) 
104    509476,509484   TP0479   hypothetical protein (basic) 
105    515397,515404   TP0484   hypothetical protein(basic) 
106    515425,515433   TP0484   hypothetical protein(basic) 
107    517088,517095   TP0485   possible adenylate cyclase 
108    520335,520342   TP0487   hypothetical protein(basic) 
109    526643,526650   TP0492   DNA primase 
110    529083,529090   TP0493   RNA polymerase sigma-70 factor 
111    532366,532373   TP0497   rod shape-determining protein 
112    532939,532948   TP0498   rod shape-determining protein 
113    534430,534438   TP0500   penicillin-binding protein 
114    537664,537671   TP0502   ankyrin repeat protein 
115    541141,541148   TP0506   trigger factor 
116    549634,549641   TP0513   TRK system potassium uptake protein 
117    551783,551792   TP0514   excinuclease ABC, subunit A 
118    552900,552907   TP0514   excinuclease ABC, subunit A 
119    554679,554686   TP0515   conserved hypothetical protein 
120    563178,563185   TP0522   hypothetical protein(basic) 
121    564099,564106   TP0523   UDP-N-acetylglucosamine--N-acetylmuramyl-(pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase 
122    599253,599260   TP0553   conserved hypothetical protein (integral membrane) 
123    601960,601967   TP0555   glutamate/ aspartate transporter 
124    611914,611921   TP0564   hypothetical protein 
125    614705,614712   TP0566   alginate O-acetylation protein 
126    615638,615645   TP0566   alginate O-acetylation protein 
127    625273,625280   TP0575   phosphoenolpyruvate-protein phosphotransferase (authentic frameshift - corrected) 
128    626682,626689   TP0576   peptide chain release factor 2 
129    627626,627633   TP0577   hypothetical protein(basic) 
130    630401,630408   TP0580   ABC transporter; probable MSD component 
131    632781,632788   TP0582   ABC transporter, probable MSD protein 
132    635327,635336   TP0585   dipeptide/oligopeptide ABC transporter periplasmic binding protein 
133    640102,640109   TP0588   conserved hypothetical protein 
134    640210,640218   TP0588   conserved hypothetical protein 
135    642617,642624   IGR422   
136    649164,649171   TP0598   hypothetical protein 
137    649345,649352   TP0598   hypothetical protein 
138    654443,654450   TP0602   CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) (CDP-diglyceride synthetase) (CDP-diglyceride pyrophorylase) 
139    654493,654501   TP0602   CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) (CDP-diglyceride synthetase) (CDP-diglyceride pyrophorylase) 
140    654873,654880   TP0602   CDP-diacylglycerol synthase (phosphatidate cytidylyltransferase) (CDP-diglyceride synthetase) (CDP-diglyceride pyrophorylase) 
141    663916,663923   TP0611   ABC transporter, ATP-binding protein 
142    669837,669846   TP0618   hypothetical protein(acidic) 
143    672917,672924   IGR443   
144    675231,675241   IGR444   
145    676570,676577   TP0622 , TP0623   hypothetical protein
possible membrane-bound lytic murein transglycosylase D (murein hydrolase D) (regulatory protein DnrI) 
146    682009,682017   TP0626   probable exonuclease SbcD 
147    682513,682520   TP0627   exonuclease SbcC 
148    682672,682679   TP0627   exonuclease SbcC 
149    682736,682745   TP0627   exonuclease SbcC 
150    684817,684825   TP0627   exonuclease SbcC 
151    685268,685275   TP0627   exonuclease SbcC 
152    692641,692649   TP0634   DNA ligase 
153    693781,693788   TP0634   DNA ligase 
154    697644,697652   IGR456   
155    711684,711692   TP0648   conserved hypothetical protein 
156    721295,721302   TP0659   flagellar hook-associated protein 3 
157    731524,731531   TP0669   DNA polymerase III, subunit alpha 
158    750537,750544   TP0685   ABC transporter, galactoside transport ATP-binding protein 
159    755464,755471   TP0688   mccF-like protein (immunity protein) 
160    757632,757641   TP0690   hypothetical protein 
161    759050,759057   TP0692   recA protein 
162    761520,761527   TP0693   hypothetical protein 
163    765058,765065   TP0696   conserved hypothetical protein 
164    765713,765721   TP0697   hypothetical protein 
165    781322,781330   TP0713   flagellar-associated GTP-binding protein (flagellar biosynthesis protein) 
166    785522,785529   TP0716   flagellar biosynthetic protein 
167    787816,787823   TP0720   flagellar motor switch protein FliY 
168    796777,796784   TP0731   conserved hypothetical protein 
169    803799,803806   TP0737   sugar ABC transporter, periplasmic binding protein 
170    805333,805340   TP0739   conserved hypothetical protein 
171    818153,818160   TP0753   hypothetical protein 
172    819341,819348   TP0754   conserved hypothetical protein 
173    825028,825037   TP0761   hypothetical protein(basic) 
174    827014,827021   TP0763   hypothetical protein(basic) 
175    837558,837565   TP0770   ATP-dependent RNA helicase DEAD-family 
176    846484,846491   TP0780   conserved hypothetical protein/ possible NH(3)-dependent NAD(+) synthetase 
177    849437,849444   TP0783   hypothetical protein 
178    851564,851572   TP0785   conserved hypothetical protein 
179    852971,852978   TP0787   hypothetical protein 
180    862834,862841   TP0796   thiamine biosynthesis lipoprotein 
181    863194,863201   IGR575   
182    864178,864185   TP0798   methionyl-tRNA synthetase 
183    865670,865678   TP0798   methionyl-tRNA synthetase 
184    880547,880554   TP0812   long-chain-fatty-acid--CoA ligase (authentic frameshift - corrected) 
185    886925,886932   TP0818   hypothetical protein(basic) 
186    896248,896255   TP0829   conserved hypothetical protein 
187    921780,921787   TP0851   hypothetical protein 
188    930886,930893   TP0855   hypothetical protein 
189    936399,936409   TP0859   hypothetical protein(basic) 
190    944090,944097   TP0865   hypothetical protein(basic) 
191    949833,949841   TP0872   possible flagellar hook-associated protein 2 (flagellar filament cap protein) 
192    953349,953356   TP0876   conserved hypothetical protein/ possible endopeptidase 
193    955308,955316   TP0878   hypothetical protein(basic) 
194    958813,958820   TP0882   hypothetical protein 
195    961340,961347   TP0883   conserved hypothetical protein (integral membrane) 
196    961639,961646   TP0884   conserved hypothetical protein (integral membrane) 
197    962407,962414   TP0884   conserved hypothetical protein (integral membrane) 
198    975852,975859   TP0898   possible ATP-dependent nuclease 
199    978266,978273   TP0898   possible ATP-dependent nuclease 
200    979001,979008   TP0898   possible ATP-dependent nuclease 
201    979796,979804   TP0899   hypothetical protein 
202    980222,980229   TP0900   hypothetical protein 
203    980379,980386   TP0900   hypothetical protein 
204    980741,980748   TP0900   hypothetical protein 
205    987855,987862   TP0907   conserved hypothetical protein/ possible 16S rRNA processing protein 
206    1003353,1003360   TP0924   hypothetical protein/ possible Tex protein 
207    1005371,1005379   IGR668   
208    1014992,1014999   TP0933   UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimelate ligase 
209    1015401,1015408   TP0934   neutral amino acid transporter 
210    1015607,1015614   TP0934   neutral amino acid transporter 
211    1027075,1027082   TP0945   ribulose-phosphate 3-epimerase (pentose-5-phosphate 3-epimerase) 
212    1029026,1029033   TP0947   peptidyl-prolyl cis-trans isomerase (cyclophilin B) 
213    1031762,1031769   TP0949   60 kDa inner-membrane protein homolog 
214    1042655,1042663   TP0961   flagellar hook basal-body protein FlgG 
215    1048651,1048658   TP0966   hypothetical protein(basic) 
216    1053934,1053942   TP0969   hypothetical protein 
217    1070550,1070557   IGR719   
218    1073486,1073493   IGR723   
219    1073949,1073956   TP0990   conserved hypothetical protein 
220    1076101,1076108   TP0990   conserved hypothetical protein 
221    1076883,1076890   TP0992   conserved hypothetical protein 
222    1094231,1094238   TP1005   DNA polymerase III subunits gamma and tau 
223    1122128,1122135   TP1028   DNA helicase II 
224    1124049,1124059   TP1030   hypothetical protein(basic) 
225    1133954,1133961   TP1037   hemolysin III 
226    61359,61368   TP0052   protoporphyrinogen oxidase 
227    99205,99214   TP0090   UDP-N-acetylpyruvoylglucosamine reductase 
228    100526,100536   TP0091   cysteinyl-tRNA synthetase 
229    105322,105331   TP0095   conserved hypothetical protein (containing TPR domains) 
230    107037,107046   TP0098   heat-shock protein DnaJ 
231    119862,119872   TP0106   transporter (possible carnitine, choline, or glycine betaine transporter) 
232    156307,156316   TP0135   hypothetical protein (basic) 
233    164116,164126   TP0143   probable ABC transporter protein, possibly for iron, molybdenum, amino acids 
234    175135,175144   TP0152   hypothetical protein/ possible nitrogen fixation-related protein 
235    177027,177038   TP0154   conserved hypothetical protein (basic) 
236    182819,182829   TP0160   prolyl-tRNA synthetase 
237    251714,251724   TP0242   DNA-directed RNA polymerase beta' subunit 
238    271138,271147   TP0260   hypothetical protein 
239    294258,294269   TP0279   30S ribosomal protein S1/ cytidylate kinase 
240    298812,298821   TP0284   hypothetical protein 
241    301378,301387   TP0288   spore coat polysaccharide biosynthesis protein F 
242    309908,309917   TP0296   conserved hypothetical protein (basic) 
243    322425,322434   TP0305   CTP synthase 
244    327726,327736   TP0312   conserved hypothetical protein (basic) 
245    357655,357665   TP0335   hypothetical protein 
246    363108,363117   TP0340   folylpolyglutamate synthetase 
247    375206,375215   TP0350   gamma-glutamyl phosphate reductase (glutamate-5-semialdehyde dehydrogenase) 
248    389427,389436   IGR273   
249    405226,405235   IGR282   
250    442921,442930   TP0416   signal recognition particle protein 
251    457245,457254   TP0429   V-type ATPase subunit I 
252    464626,464635   TP0438   conserved hypothetical protein (basic) 
253    525273,525283   TP0491   conserved hypothetical protein (basic) 
254    593597,593607   TP0549   ATP-dependent Clp protease 
255    594389,594399   TP0549   ATP-dependent Clp protease 
256    598496,598505   TP0552   hypothetical protein 
257    602977,602986   TP0556   asparagine synthetase A (aspartate--ammonia ligase) 
258    660114,660123   TP0609   asparaginyl-tRNA synthetase 
259    691590,691599   TP0633   protein-methionine-S-oxide reductase 
260    695001,695010   TP0636   hypothetical protein 
261    715491,715500   TP0651   conserved hypothetical protein (integral membrane) 
262    747834,747843   TP0683   octaprenyl-diphosphate synthase/ farnesyltranstransferase 
263    757603,757613   TP0690   hypothetical protein 
264    758874,758883   TP0692   recA protein 
265    760472,760483   TP0693   hypothetical protein 
266    774669,774680   TP0706   conserved hypothetical protein/ possible lysostaphin 
267    777108,777117   TP0710   conserved hypothetical protein 
268    816097,816107   TP0751   hypothetical protein 
269    847186,847196   TP0780   conserved hypothetical protein/ possible NH(3)-dependent NAD(+) synthetase 
270    852302,852311   TP0786   ABC transporter, ATP-binding protein 
271    915957,915968   TP0843   conserved hypothetical protein/ possible heat-shock protein 
272    928336,928345   TP0854   hypothetical protein 
273    932305,932317   TP0855   hypothetical protein 
274    937513,937522   TP0861   glucosamine-fructose-6-phosphate aminotransferase 
275    976976,976985   TP0898   possible ATP-dependent nuclease 
276    982047,982056   TP0900   hypothetical protein 
277    1034903,1034915   TP0953   pheromone shutdown protein 
278    1046068,1046078   TP0964   ABC transporter, ATP-binding protein 
279    1110442,1110451   TP1018   conserved hypothetical protein 
280    1123501,1123510   TP1029   possible ATP-dependent RNA helicase 
281    1126747,1126756   TP1033   conserved hypothetical protein 
282    58540,58551   IGR39   
283    108046,108057   TP0099   uridylate kinase 
284    143320,143331   TP0123   hypothetical protein containing TPR domains 
285    158053,158064   TP0136   hypothetical protein 
286    177036,177048   TP0154   conserved hypothetical protein (basic) 
287    226864,226876   TP0221   carboxypeptidase 
288    257824,257835   TP0245 , IGR193  hypothetical protein 
289    289284,289295   IGR215   
290    302476,302487   TP0289   hypothetical protein 
291    338095,338106   TP0322   ribose/galactose ABC transporter, permease (MSD) protein 
292    365424,365435   TP0342   cytidylate kinase 
293    395338,395349   TP0371   conserved hypothetical protein/ possible homoserine kinase 
294    558697,558708   TP0518   conserved hypothetical protein 
295    565481,565492   TP0524   ATP-dependent protease LA (lon) 
296    676476,676487   TP0622 , TP0623   hypothetical protein
possible membrane-bound lytic murein transglycosylase D (murein hydrolase D) (regulatory protein DnrI) 
297    743549,743560   TP0678 , TP0679   hypothetical protein(basic)
hypothetical protein(basic) 
298    806093,806104   IGR532   
299    878837,878848   TP0810   DNA adenine methyltransferase 
300    936223,936234   TP0859   hypothetical protein(basic) 
301    1131504,1131515   TP1036   heavy metal-transporting ATPase/ cation-transporting ATPase 
302    149328,149355   IGR104   
303  4.00 150541,150564 6 IGR105   
304    730296,730313   TP0668   conserved hypothetical protein (integral membrane) 
305    923963,923981   TP0853   ATP-binding protein 
306    1030008,1030026   TP0949   60 kDa inner-membrane protein homolog 
307  4.70 149328,149355   IGR104   
308  2.10 156438,156569 63 IGR108   
309  2.00 157270,157462 94 TP0136   hypothetical protein 
310  3.20 394434,394491 18 TP0370   hypothetical protein (acidic) 
311  2.70 451943,452030 33 TP0424   possible V-type ATPase subunit E 
312  7.10 461079,461507 60 TP0433 , TP0434   hypothetical protein
hypothetical protein (acidic) 
313  2.40 461079,461143
461324,461504
181 TP0433 , TP0434   hypothetical protein
hypothetical protein (acidic) 
314  17.70 497265,497688 24 TP0470   conserved hypothetical protein (basic) 
315  2.30 741613,741637 11 TP0676   hypothetical protein(acidic) 
316  2.30 835425,835640 93 TP0769   outer membrane protein 
317  3.20 1050282,1050310 9 TP0967   hypothetical protein 



Copy #is the number of repeat units
Location is given in genome coordinates
Length is the size of the consensus repeat unit in nucleotides
Gene & Intergenic Id(s) are the ids of the gene and intergenic space records in which the repeat is located
Definitions-Comments are the definition lines from the genes and the comments from the intergenic space records in the previous columns


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