Query 024706
Match_columns 264
No_of_seqs 145 out of 912
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 06:44:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024706.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024706hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2383 Predicted ATPase [Gene 100.0 4.4E-84 9.5E-89 605.4 16.3 253 1-254 203-463 (467)
2 COG1485 Predicted ATPase [Gene 100.0 4.7E-78 1E-82 559.1 16.1 223 1-253 140-364 (367)
3 PF03969 AFG1_ATPase: AFG1-lik 100.0 3E-77 6.4E-82 563.9 19.5 223 1-253 137-361 (362)
4 PRK08116 hypothetical protein; 96.7 0.0035 7.7E-08 57.3 6.0 76 122-198 143-227 (268)
5 PRK06921 hypothetical protein; 94.8 0.051 1.1E-06 49.7 5.4 76 122-198 147-231 (266)
6 PRK08116 hypothetical protein; 94.4 0.077 1.7E-06 48.5 5.5 56 11-72 200-255 (268)
7 PRK08181 transposase; Validate 94.3 0.059 1.3E-06 49.6 4.4 64 7-73 185-249 (269)
8 PRK09183 transposase/IS protei 94.2 0.13 2.8E-06 46.7 6.6 64 7-73 182-247 (259)
9 PRK06835 DNA replication prote 94.0 0.095 2.1E-06 49.5 5.5 76 122-198 212-295 (329)
10 PF00308 Bac_DnaA: Bacterial d 93.6 0.2 4.2E-06 44.4 6.4 74 123-197 66-145 (219)
11 PRK08181 transposase; Validate 93.5 0.29 6.3E-06 45.0 7.4 75 122-198 135-215 (269)
12 PRK07952 DNA replication prote 93.3 0.4 8.6E-06 43.5 8.0 75 123-198 129-211 (244)
13 PRK06526 transposase; Provisio 93.3 0.22 4.7E-06 45.3 6.2 62 9-73 179-241 (254)
14 PRK05642 DNA replication initi 92.9 0.37 8.1E-06 43.0 7.2 73 122-198 74-146 (234)
15 PRK08939 primosomal protein Dn 92.8 0.34 7.4E-06 45.3 6.9 61 9-70 238-305 (306)
16 PRK12377 putative replication 92.3 0.48 1E-05 43.0 7.0 75 123-198 131-212 (248)
17 PF01695 IstB_IS21: IstB-like 91.2 0.58 1.3E-05 40.1 6.0 75 122-198 76-156 (178)
18 PRK08727 hypothetical protein; 90.8 0.81 1.7E-05 40.7 6.8 72 123-198 71-142 (233)
19 PF03969 AFG1_ATPase: AFG1-lik 90.3 0.42 9.1E-06 45.8 4.8 54 144-200 123-176 (362)
20 PRK06526 transposase; Provisio 87.9 0.57 1.2E-05 42.6 3.6 74 123-198 128-207 (254)
21 PRK09183 transposase/IS protei 86.4 1.5 3.4E-05 39.7 5.6 74 123-198 132-212 (259)
22 PRK06835 DNA replication prote 86.1 1.4 3.1E-05 41.6 5.4 56 10-71 267-322 (329)
23 PRK14086 dnaA chromosomal repl 85.5 2 4.2E-05 44.2 6.3 74 123-197 346-425 (617)
24 PRK08084 DNA replication initi 85.4 3 6.5E-05 37.1 6.9 70 124-197 76-146 (235)
25 PRK12377 putative replication 84.3 2.5 5.5E-05 38.4 5.9 60 7-72 181-241 (248)
26 TIGR03420 DnaA_homol_Hda DnaA 83.9 3.9 8.5E-05 35.2 6.8 70 123-196 68-137 (226)
27 PRK08727 hypothetical protein; 83.9 2.5 5.4E-05 37.5 5.7 48 7-64 111-161 (233)
28 COG1484 DnaC DNA replication p 83.2 1.5 3.4E-05 39.7 4.1 100 121-251 133-239 (254)
29 PRK08939 primosomal protein Dn 82.4 2.5 5.3E-05 39.5 5.2 102 123-248 186-295 (306)
30 COG1485 Predicted ATPase [Gene 82.1 3 6.6E-05 40.0 5.7 56 141-199 123-178 (367)
31 PRK06921 hypothetical protein; 81.3 2.7 5.8E-05 38.4 4.9 55 9-70 202-258 (266)
32 TIGR00362 DnaA chromosomal rep 77.7 4.6 9.9E-05 38.7 5.5 75 122-197 167-247 (405)
33 PRK05642 DNA replication initi 76.4 3.6 7.8E-05 36.6 4.1 30 8-37 116-145 (234)
34 PRK06893 DNA replication initi 73.7 9.9 0.00022 33.6 6.2 70 124-197 70-140 (229)
35 PRK12422 chromosomal replicati 73.2 10 0.00022 37.3 6.7 76 122-198 170-251 (445)
36 PRK00149 dnaA chromosomal repl 72.9 6.6 0.00014 38.3 5.3 74 123-197 180-259 (450)
37 PRK09087 hypothetical protein; 72.2 8.5 0.00019 34.2 5.5 45 150-198 89-133 (226)
38 PF14532 Sigma54_activ_2: Sigm 71.9 6.7 0.00014 31.6 4.3 55 140-198 62-116 (138)
39 PRK07952 DNA replication prote 71.7 9.4 0.0002 34.6 5.6 58 9-72 182-240 (244)
40 COG1484 DnaC DNA replication p 70.3 6.6 0.00014 35.6 4.4 57 14-72 192-248 (254)
41 PF00308 Bac_DnaA: Bacterial d 69.0 4.8 0.0001 35.5 3.1 48 10-64 118-165 (219)
42 PRK09087 hypothetical protein; 66.5 7.1 0.00015 34.7 3.7 46 9-64 104-152 (226)
43 PRK14087 dnaA chromosomal repl 64.4 17 0.00038 35.7 6.3 74 122-196 172-253 (450)
44 PRK08084 DNA replication initi 63.4 15 0.00032 32.6 5.1 47 8-64 116-166 (235)
45 PRK06620 hypothetical protein; 60.6 18 0.00038 31.8 5.1 44 147-196 84-127 (214)
46 PRK06893 DNA replication initi 59.6 14 0.00029 32.7 4.2 31 8-38 110-141 (229)
47 COG0593 DnaA ATPase involved i 53.8 21 0.00046 35.0 4.7 50 148-198 175-224 (408)
48 PRK14088 dnaA chromosomal repl 52.6 25 0.00054 34.4 5.1 73 123-196 162-241 (440)
49 PF10298 WhiA_N: WhiA N-termin 48.0 13 0.00027 28.0 1.8 35 160-194 29-63 (86)
50 PF01695 IstB_IS21: IstB-like 47.5 7.8 0.00017 33.1 0.6 49 12-60 128-178 (178)
51 PRK14087 dnaA chromosomal repl 45.9 21 0.00046 35.1 3.4 28 9-36 226-253 (450)
52 PF00158 Sigma54_activat: Sigm 45.3 17 0.00038 30.7 2.4 29 22-50 134-162 (168)
53 TIGR00362 DnaA chromosomal rep 42.1 24 0.00052 33.8 3.1 29 9-37 219-247 (405)
54 PRK14088 dnaA chromosomal repl 42.1 43 0.00094 32.8 4.9 44 11-64 216-262 (440)
55 PF00004 AAA: ATPase family as 39.9 14 0.00031 28.3 1.0 16 22-38 102-117 (132)
56 PRK00149 dnaA chromosomal repl 39.1 29 0.00063 33.8 3.2 29 9-37 231-259 (450)
57 PRK06620 hypothetical protein; 38.7 47 0.001 29.2 4.2 43 10-64 101-146 (214)
58 PRK12422 chromosomal replicati 36.9 32 0.0007 33.8 3.2 44 11-64 224-270 (445)
59 KOG1783 Small nuclear ribonucl 36.8 32 0.0007 25.7 2.4 25 49-73 10-34 (77)
60 PF05862 IceA2: Helicobacter p 36.8 21 0.00046 25.3 1.3 25 20-45 34-58 (59)
61 TIGR01618 phage_P_loop phage n 36.6 59 0.0013 29.0 4.5 48 147-194 80-145 (220)
62 PLN02237 glyceraldehyde-3-phos 34.6 1.2E+02 0.0026 30.1 6.6 101 13-124 180-318 (442)
63 PRK14086 dnaA chromosomal repl 34.3 36 0.00077 35.2 3.1 28 9-36 397-424 (617)
64 PRK08903 DnaA regulatory inact 33.5 89 0.0019 27.0 5.1 45 146-193 88-133 (227)
65 PTZ00315 2'-phosphotransferase 32.5 55 0.0012 33.6 4.0 32 5-36 238-269 (582)
66 cd00223 TOPRIM_TopoIIB_SPO TOP 30.7 1.4E+02 0.003 24.8 5.6 54 128-197 11-66 (160)
67 TIGR01243 CDC48 AAA family ATP 30.3 41 0.00089 35.0 2.8 62 10-71 574-649 (733)
68 TIGR02463 MPGP_rel mannosyl-3- 28.6 1E+02 0.0022 26.3 4.6 48 12-69 22-70 (221)
69 PF00158 Sigma54_activat: Sigm 28.2 53 0.0012 27.7 2.7 65 130-198 68-150 (168)
70 TIGR03420 DnaA_homol_Hda DnaA 28.2 65 0.0014 27.5 3.3 28 9-36 110-137 (226)
71 PF14532 Sigma54_activ_2: Sigm 26.9 51 0.0011 26.3 2.3 38 9-46 84-124 (138)
72 PF07082 DUF1350: Protein of u 26.4 56 0.0012 30.0 2.6 40 11-57 36-83 (250)
73 COG0593 DnaA ATPase involved i 26.1 55 0.0012 32.1 2.7 49 9-64 195-243 (408)
74 PF13524 Glyco_trans_1_2: Glyc 24.1 69 0.0015 23.3 2.4 29 12-41 13-41 (92)
75 PF00448 SRP54: SRP54-type pro 23.6 82 0.0018 27.3 3.1 50 147-197 82-131 (196)
76 KOG2383 Predicted ATPase [Gene 22.4 1.4E+02 0.003 29.7 4.6 53 144-199 189-241 (467)
77 PF12149 HSV_VP16_C: Herpes si 22.2 29 0.00064 21.1 -0.0 25 118-142 4-28 (30)
78 PF09984 DUF2222: Uncharacteri 21.2 1E+02 0.0022 25.8 3.1 25 10-34 37-74 (146)
79 COG4138 BtuD ABC-type cobalami 21.1 1.2E+02 0.0027 27.0 3.6 27 4-30 164-190 (248)
80 PLN02358 glyceraldehyde-3-phos 20.5 4.2E+02 0.009 25.3 7.4 125 13-149 110-269 (338)
81 cd01427 HAD_like Haloacid deha 20.4 1.2E+02 0.0026 22.5 3.1 25 12-36 30-54 (139)
82 COG5440 Uncharacterized conser 20.2 1.7E+02 0.0036 25.1 4.1 44 12-55 85-135 (161)
No 1
>KOG2383 consensus Predicted ATPase [General function prediction only]
Probab=100.00 E-value=4.4e-84 Score=605.40 Aligned_cols=253 Identities=49% Similarity=0.816 Sum_probs=227.3
Q ss_pred CCCChhhHHHHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhccEEEEeCCCCCcCCC-CccCccee
Q 024706 1 MVTDVADALILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERCVVHEIGSSVDYRKM-TSAQQGFY 79 (264)
Q Consensus 1 ~V~DIaDAmiL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~~V~~ld~~~DYR~~-~~~~~~~~ 79 (264)
|||||||||||+|||++||+.||||||||||+|+|||+|||||+.|+|||.+|+++|.|+.|||++|||+. .+...++|
T Consensus 203 QVTDVADAmiL~rLf~~Lf~~GvVlvATSNR~P~dLYknGlQR~~F~PfI~~L~~rc~vi~ldS~vDYR~~~~~~~~~~y 282 (467)
T KOG2383|consen 203 QVTDVADAMILKRLFEHLFKNGVVLVATSNRAPEDLYKNGLQRENFIPFIALLEERCKVIQLDSGVDYRRKAKSAGENYY 282 (467)
T ss_pred hhhhHHHHHHHHHHHHHHHhCCeEEEEeCCCChHHHhhcchhhhhhhhHHHHHHHhheEEecCCccchhhccCCCCceeE
Confidence 79999999999999999999999999999999999999999999999999999999999999999999954 34566788
Q ss_pred eCCc-ChHHHHHHHHHHHhCCC-CCCCCceeEEcCeeeeeeecCCCeEEeeHHHHhcCCCCcccHHHHhcccCeEEEcCC
Q 024706 80 FVGK-GSSEVMKQKFRDLIGEH-EAGPQEVEVVMGRKLQVPLGANGCAYFEFEELCDKPLGAADYFGLFKIFHTLALEGI 157 (264)
Q Consensus 80 ~~~~-~~~~~l~~~f~~~~~~~-~~~~~~~~v~~gR~l~v~~~~~~va~f~F~eLC~~p~~~~DYl~La~~f~ti~i~~V 157 (264)
+.++ +.+..|+++|+.+.+.+ ...++.+.+++||++.||+++++||||+|+|||++|+||+|||.||++||||+|+||
T Consensus 283 f~~~~d~~~~l~~~fk~~~~dq~d~~~~~~l~v~GR~l~vpk~cg~VA~ftFeeLC~rPlgAaDYL~lak~fhti~v~dI 362 (467)
T KOG2383|consen 283 FISETDVETVLKEWFKLLAADQNDGTRQRTLVVFGRKLIVPKACGGVADFTFEELCGRPLGAADYLGLAKNFHTIIVRDI 362 (467)
T ss_pred ecChhhHHHHHHHHHHHHhccCCCCCCCcceeeecceEEecccCCCcccccHHHHhCCccchHHHHHHHhhcceeEeecc
Confidence 8877 88889999998877655 333555566799999999999999999999999999999999999999999999999
Q ss_pred CCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhhccccccchhhhhcccccccccc--cccccc---cccCcccc
Q 024706 158 PIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQLFNKIVTISDAQQMAPRTSSRSM--RNDEAD---LCVDNELG 232 (264)
Q Consensus 158 P~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~--~~~~~~---~~~~~e~~ 232 (264)
|+|+.+++|++||||||||+|||++++|++||++|+++||..... +++....+|+++... +.+.++ +|+|+||.
T Consensus 363 P~lsl~~r~~~rRFITliD~lYd~~~rlv~sa~~p~~~Lf~~~~~-~e~ls~s~r~~mddl~iks~~~~~~~mf~g~EE~ 441 (467)
T KOG2383|consen 363 PQLSLENRDQARRFITLIDALYDNHVRLVCSAATPLEELFQFTGH-SEALSDSPRTLMDDLGIKSDSAGGSPMFSGEEEG 441 (467)
T ss_pred chhhhHHHHHHhhHhHHHHHHhhccceEEecCCCCHHHHhcccCc-ccccccCcccchhhhcccccCccccccccchHHH
Confidence 999999999999999999999999999999999999999985432 455666667666554 455555 89999999
Q ss_pred cccccccchHhhhCchhHHHHH
Q 024706 233 FAKDRTISRLTEMNSKEYLEQH 254 (264)
Q Consensus 233 Faf~Rt~SRL~EMqs~~y~~~~ 254 (264)
|||+||+|||+|||+..||+.+
T Consensus 442 FAf~RtlSRL~eMqt~~y~~~~ 463 (467)
T KOG2383|consen 442 FAFDRTLSRLYEMQTELYWEQP 463 (467)
T ss_pred HHHHHHHHHHHHhhcchhcccc
Confidence 9999999999999999999753
No 2
>COG1485 Predicted ATPase [General function prediction only]
Probab=100.00 E-value=4.7e-78 Score=559.06 Aligned_cols=223 Identities=39% Similarity=0.668 Sum_probs=211.6
Q ss_pred CCCChhhHHHHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhccEEEEeCCCCCcCCCCccCcceee
Q 024706 1 MVTDVADALILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERCVVHEIGSSVDYRKMTSAQQGFYF 80 (264)
Q Consensus 1 ~V~DIaDAmiL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~~V~~ld~~~DYR~~~~~~~~~~~ 80 (264)
+|+||||||||+|||++||++||+||||||++|++||+|||||++|||||++||++|+|+++||++|||++...+...|+
T Consensus 140 ~VtDI~DAMiL~rL~~~Lf~~GV~lvaTSN~~P~~LY~dGlqR~~FLP~I~li~~~~~v~~vD~~~DYR~r~l~~a~~y~ 219 (367)
T COG1485 140 EVTDIADAMILGRLLEALFARGVVLVATSNTAPDNLYKDGLQRERFLPAIDLIKSHFEVVNVDGPVDYRLRKLEQAPVYL 219 (367)
T ss_pred eecChHHHHHHHHHHHHHHHCCcEEEEeCCCChHHhcccchhHHhhHHHHHHHHHheEEEEecCCccccccccccCceee
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999887777776
Q ss_pred --CCcChHHHHHHHHHHHhCCCCCCCCceeEEcCeeeeeeecCCCeEEeeHHHHhcCCCCcccHHHHhcccCeEEEcCCC
Q 024706 81 --VGKGSSEVMKQKFRDLIGEHEAGPQEVEVVMGRKLQVPLGANGCAYFEFEELCDKPLGAADYFGLFKIFHTLALEGIP 158 (264)
Q Consensus 81 --~~~~~~~~l~~~f~~~~~~~~~~~~~~~v~~gR~l~v~~~~~~va~f~F~eLC~~p~~~~DYl~La~~f~ti~i~~VP 158 (264)
++..+...|+++|..++++....+..+. +.||+|.+|+.+++++||+|.+||+.|+|+.|||+||++||||+|+|||
T Consensus 220 ~Pl~~~~~~~l~~~~~~ls~~~~~~~~~l~-i~gR~i~~~~~~~~~~~f~f~~Lc~~p~s~~DYl~l~~~f~tv~l~~vp 298 (367)
T COG1485 220 TPLDAEAEAALDKLWAALSDGAPEAAANLE-IKGREIRVPAVAGGLLWFDFAQLCEAPRSASDYLALAERFHTVFLTDVP 298 (367)
T ss_pred cCCcHHHHHHHHHHHHHhccCCccCCchhh-ccCceeecccccCcchhccHHHHhhCcCCHHHHHHHHhhccEEEEcCCC
Confidence 4677788999999999987666777776 4899999999999999999999999999999999999999999999999
Q ss_pred CCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhhccccccchhhhhcccccccccccccccccccCcccccccccc
Q 024706 159 IFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQLFNKIVTISDAQQMAPRTSSRSMRNDEADLCVDNELGFAKDRT 238 (264)
Q Consensus 159 ~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~Faf~Rt 238 (264)
+|+..++|+|||||+|||+|||+++||++||++||++||. |+..+|+|+||
T Consensus 299 ~m~~~~~~~arRFI~lVD~lYD~~vkL~~Sae~~~~~Ly~-----------------------------~~~~afeF~Rt 349 (367)
T COG1485 299 QMDPLDRDEARRFIALVDELYDRGVKLVASAEVPLNELYQ-----------------------------GGRLAFEFQRT 349 (367)
T ss_pred CCChhhhHHHHHHHHHHHHHHhcCCcEEEEccCCHHHhcc-----------------------------CchhhhHHHHH
Confidence 9999999999999999999999999999999999999997 67789999999
Q ss_pred cchHhhhCchhHHHH
Q 024706 239 ISRLTEMNSKEYLEQ 253 (264)
Q Consensus 239 ~SRL~EMqs~~y~~~ 253 (264)
+|||.||||++|+..
T Consensus 350 ~SRL~EMqS~~yl~~ 364 (367)
T COG1485 350 LSRLQEMQSEEYLGI 364 (367)
T ss_pred HHHHHHHHHHHhhcc
Confidence 999999999999974
No 3
>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP. AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding
Probab=100.00 E-value=3e-77 Score=563.88 Aligned_cols=223 Identities=45% Similarity=0.851 Sum_probs=208.5
Q ss_pred CCCChhhHHHHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhccEEEEeCCCCCcCCCCccCcceee
Q 024706 1 MVTDVADALILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERCVVHEIGSSVDYRKMTSAQQGFYF 80 (264)
Q Consensus 1 ~V~DIaDAmiL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~~V~~ld~~~DYR~~~~~~~~~~~ 80 (264)
||+||||||||+|||++||++|||||+|||++|+|||+|||||++|+|||++|+++|+|++|||++|||+........|+
T Consensus 137 ~V~DiaDAmil~rLf~~l~~~gvvlVaTSN~~P~~Ly~~gl~r~~Flp~I~~l~~~~~vv~ld~~~DyR~~~~~~~~~~~ 216 (362)
T PF03969_consen 137 QVTDIADAMILKRLFEALFKRGVVLVATSNRPPEDLYKNGLQRERFLPFIDLLKRRCDVVELDGGVDYRRRGAPPAPVYF 216 (362)
T ss_pred eccchhHHHHHHHHHHHHHHCCCEEEecCCCChHHHcCCcccHHHHHHHHHHHHhceEEEEecCCCchhhhccccccccc
Confidence 69999999999999999999999999999999999999999999999999999999999999999999998776666555
Q ss_pred --CCcChHHHHHHHHHHHhCCCCCCCCceeEEcCeeeeeeecCCCeEEeeHHHHhcCCCCcccHHHHhcccCeEEEcCCC
Q 024706 81 --VGKGSSEVMKQKFRDLIGEHEAGPQEVEVVMGRKLQVPLGANGCAYFEFEELCDKPLGAADYFGLFKIFHTLALEGIP 158 (264)
Q Consensus 81 --~~~~~~~~l~~~f~~~~~~~~~~~~~~~v~~gR~l~v~~~~~~va~f~F~eLC~~p~~~~DYl~La~~f~ti~i~~VP 158 (264)
.+..+.+.++++|..+.+.....+.++. +.||+|.+|+++++++||+|+|||++|+|++||++||++|+||+|+|||
T Consensus 217 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~-v~gR~i~v~~~~~~va~F~F~eLC~~plg~aDYlaLA~~F~ti~I~~VP 295 (362)
T PF03969_consen 217 YPLDEEADAALERLFQRLTGGEPEEPRTLE-VGGREIPVPRACGGVAWFDFDELCERPLGAADYLALAERFHTIFISDVP 295 (362)
T ss_pred CcchHHHHHHHHHHHHHhccccCCCCceeE-EeeeEEeeecccCCEEEecHHHhhccCCCHHHHHHHHHhCCEEEEcCCC
Confidence 4566778899999999886666666676 5899999999999999999999999999999999999999999999999
Q ss_pred CCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhhccccccchhhhhcccccccccccccccccccCcccccccccc
Q 024706 159 IFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQLFNKIVTISDAQQMAPRTSSRSMRNDEADLCVDNELGFAKDRT 238 (264)
Q Consensus 159 ~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~Lf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~Faf~Rt 238 (264)
+|+..++|+|||||+|||+|||++|+|+|+|++||++||. ++...|+|+||
T Consensus 296 ~l~~~~~n~arRFI~LID~LYd~~v~L~~sa~~~~~~L~~-----------------------------~~~~~~~f~RT 346 (362)
T PF03969_consen 296 VLSESDRNEARRFITLIDVLYDRKVKLIISAAAPPDELFQ-----------------------------GGRLAFEFQRT 346 (362)
T ss_pred CcccCChhHHHHHHHHHHHHhhCCCcEEEEcCCCHHHHHh-----------------------------CCCchhhhhHH
Confidence 9999999999999999999999999999999999999997 45668999999
Q ss_pred cchHhhhCchhHHHH
Q 024706 239 ISRLTEMNSKEYLEQ 253 (264)
Q Consensus 239 ~SRL~EMqs~~y~~~ 253 (264)
+|||.||||++|+++
T Consensus 347 ~SRL~Em~~~~y~~~ 361 (362)
T PF03969_consen 347 ASRLSEMQSEEYLAR 361 (362)
T ss_pred HHHHHHHhhHHHHhc
Confidence 999999999999964
No 4
>PRK08116 hypothetical protein; Validated
Probab=96.68 E-value=0.0035 Score=57.31 Aligned_cols=76 Identities=14% Similarity=0.103 Sum_probs=57.0
Q ss_pred CCeEEeeHHHHhcCC---------CCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCC
Q 024706 122 NGCAYFEFEELCDKP---------LGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGS 192 (264)
Q Consensus 122 ~~va~f~F~eLC~~p---------~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~ 192 (264)
..+++.++.+|...- .+..+++....+.+.++|+|+-.-.. .......+..+||..|+.+.++++++..+
T Consensus 143 ~~v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~~l~~~dlLviDDlg~e~~-t~~~~~~l~~iin~r~~~~~~~IiTsN~~ 221 (268)
T PRK08116 143 VPVIFVNFPQLLNRIKSTYKSSGKEDENEIIRSLVNADLLILDDLGAERD-TEWAREKVYNIIDSRYRKGLPTIVTTNLS 221 (268)
T ss_pred CeEEEEEHHHHHHHHHHHHhccccccHHHHHHHhcCCCEEEEecccCCCC-CHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 346788888887542 23346777778899999999943322 22344567899999999999999999999
Q ss_pred hhhhcc
Q 024706 193 PFQLFN 198 (264)
Q Consensus 193 ~~~Lf~ 198 (264)
|++|-.
T Consensus 222 ~~eL~~ 227 (268)
T PRK08116 222 LEELKN 227 (268)
T ss_pred HHHHHH
Confidence 998864
No 5
>PRK06921 hypothetical protein; Provisional
Probab=94.83 E-value=0.051 Score=49.71 Aligned_cols=76 Identities=16% Similarity=0.177 Sum_probs=53.2
Q ss_pred CCeEEeeHHHHhcCCCC----cccHHHHhcccCeEEEcCCCCC---CCCC--hhHHHHHHHHHHHHHhcCCeEEEEecCC
Q 024706 122 NGCAYFEFEELCDKPLG----AADYFGLFKIFHTLALEGIPIF---GLHN--RTAAYRFVTLVDVMYENRARLLCTAEGS 192 (264)
Q Consensus 122 ~~va~f~F~eLC~~p~~----~~DYl~La~~f~ti~i~~VP~l---~~~~--~~~arRFI~LID~lYd~~vkL~~sa~~~ 192 (264)
..|+++++.+|...-.. ..+.+.-....+.++|+|+ .+ +... .....-|-.+||.-|+++.++++++..+
T Consensus 147 ~~v~y~~~~~l~~~l~~~~~~~~~~~~~~~~~dlLiIDDl-~~~~~g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn~~ 225 (266)
T PRK06921 147 VPVLYFPFVEGFGDLKDDFDLLEAKLNRMKKVEVLFIDDL-FKPVNGKPRATEWQIEQMYSVLNYRYLNHKPILISSELT 225 (266)
T ss_pred ceEEEEEHHHHHHHHHHHHHHHHHHHHHhcCCCEEEEecc-ccccCCCccCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 35678887776553111 1234455667899999999 33 2222 2233458899999999999999999999
Q ss_pred hhhhcc
Q 024706 193 PFQLFN 198 (264)
Q Consensus 193 ~~~Lf~ 198 (264)
|++|..
T Consensus 226 ~~el~~ 231 (266)
T PRK06921 226 IDELLD 231 (266)
T ss_pred HHHHhh
Confidence 999885
No 6
>PRK08116 hypothetical protein; Validated
Probab=94.38 E-value=0.077 Score=48.52 Aligned_cols=56 Identities=18% Similarity=0.276 Sum_probs=44.2
Q ss_pred HHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhccEEEEeCCCCCcCCCC
Q 024706 11 LNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERCVVHEIGSSVDYRKMT 72 (264)
Q Consensus 11 L~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~~V~~ld~~~DYR~~~ 72 (264)
|-.++......|..+|.|||.+|++|-.. +. ...++.|.+.|.++++.+ .|||...
T Consensus 200 l~~iin~r~~~~~~~IiTsN~~~~eL~~~-~~----~ri~sRl~e~~~~v~~~g-~d~R~~~ 255 (268)
T PRK08116 200 VYNIIDSRYRKGLPTIVTTNLSLEELKNQ-YG----KRIYDRILEMCTPVENEG-KSYRKEI 255 (268)
T ss_pred HHHHHHHHHHCCCCEEEECCCCHHHHHHH-Hh----HHHHHHHHHcCEEEEeeC-cChhHHH
Confidence 44567777778999999999999998642 11 556788888999999986 9999854
No 7
>PRK08181 transposase; Validated
Probab=94.27 E-value=0.059 Score=49.56 Aligned_cols=64 Identities=14% Similarity=0.220 Sum_probs=47.5
Q ss_pred hHHHHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhh-HHHHHHhccEEEEeCCCCCcCCCCc
Q 024706 7 DALILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLP-FISTLKERCVVHEIGSSVDYRKMTS 73 (264)
Q Consensus 7 DAmiL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlP-fI~~L~~~~~V~~ld~~~DYR~~~~ 73 (264)
.+.+|-.|+....+++ -+|.|||.+|.+++. -+.-...-. .++.|-.+|.+++++| .|||+...
T Consensus 185 ~~~~Lf~lin~R~~~~-s~IiTSN~~~~~w~~-~~~D~~~a~aildRL~h~~~~i~~~g-~s~R~~~~ 249 (269)
T PRK08181 185 ETSVLFELISARYERR-SILITANQPFGEWNR-VFPDPAMTLAAVDRLVHHATIFEMNV-ESYRRRTA 249 (269)
T ss_pred HHHHHHHHHHHHHhCC-CEEEEcCCCHHHHHH-hcCCccchhhHHHhhhcCceEEecCC-ccchhHHH
Confidence 4567777888777764 789999999999986 222222323 4588999999999996 99998643
No 8
>PRK09183 transposase/IS protein; Provisional
Probab=94.21 E-value=0.13 Score=46.74 Aligned_cols=64 Identities=16% Similarity=0.225 Sum_probs=46.5
Q ss_pred hHHHHHHHHHHHHHCCCEEEEcCCCCchhhccCCC-cccch-hhHHHHHHhccEEEEeCCCCCcCCCCc
Q 024706 7 DALILNRLFRHLFNNGVILVSTSNRAPDNLYERGL-QRDLF-LPFISTLKERCVVHEIGSSVDYRKMTS 73 (264)
Q Consensus 7 DAmiL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl-~r~~F-lPfI~~L~~~~~V~~ld~~~DYR~~~~ 73 (264)
.+-+|-.++....++|. +|.|||.+|.+++.- + .-... -.-++.|..+|.+++++| .|||....
T Consensus 182 ~~~~lf~li~~r~~~~s-~iiTsn~~~~~w~~~-~~~d~~~~~ai~dRl~~~~~~i~~~g-~s~R~~~~ 247 (259)
T PRK09183 182 EANLFFQVIAKRYEKGS-MILTSNLPFGQWDQT-FAGDAALTSAMLDRLLHHSHVVQIKG-ESYRLKQK 247 (259)
T ss_pred HHHHHHHHHHHHHhcCc-EEEecCCCHHHHHHH-hcCchhHHHHHHHHHhcceEEEeecC-CCCccccc
Confidence 34456667776667775 788999999999874 2 12222 235688999999999996 99998654
No 9
>PRK06835 DNA replication protein DnaC; Validated
Probab=94.05 E-value=0.095 Score=49.52 Aligned_cols=76 Identities=11% Similarity=0.132 Sum_probs=56.5
Q ss_pred CCeEEeeHHHHhcCCCC--------cccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCCh
Q 024706 122 NGCAYFEFEELCDKPLG--------AADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSP 193 (264)
Q Consensus 122 ~~va~f~F~eLC~~p~~--------~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~ 193 (264)
..|.+++..+|...... ..+.+....+++.++|+|+-... .+.....-|-.+|+..|+++.++++++..+|
T Consensus 212 ~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l~~~DLLIIDDlG~e~-~t~~~~~~Lf~iin~R~~~~k~tIiTSNl~~ 290 (329)
T PRK06835 212 KSVIYRTADELIEILREIRFNNDKELEEVYDLLINCDLLIIDDLGTEK-ITEFSKSELFNLINKRLLRQKKMIISTNLSL 290 (329)
T ss_pred CeEEEEEHHHHHHHHHHHHhccchhHHHHHHHhccCCEEEEeccCCCC-CCHHHHHHHHHHHHHHHHCCCCEEEECCCCH
Confidence 45788888888664211 11125666789999999995542 2334556788999999999999999999999
Q ss_pred hhhcc
Q 024706 194 FQLFN 198 (264)
Q Consensus 194 ~~Lf~ 198 (264)
++|-.
T Consensus 291 ~el~~ 295 (329)
T PRK06835 291 EELLK 295 (329)
T ss_pred HHHHH
Confidence 99864
No 10
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=93.62 E-value=0.2 Score=44.40 Aligned_cols=74 Identities=15% Similarity=0.247 Sum_probs=56.9
Q ss_pred CeEEeeHHHHhcC------CCCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhh
Q 024706 123 GCAYFEFEELCDK------PLGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQL 196 (264)
Q Consensus 123 ~va~f~F~eLC~~------p~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~L 196 (264)
.|.+++-++++.. .-...+|+.--+.++.++|+||-.+... .....-|..++|.+++++.+++++++.+|.+|
T Consensus 66 ~v~y~~~~~f~~~~~~~~~~~~~~~~~~~~~~~DlL~iDDi~~l~~~-~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l 144 (219)
T PF00308_consen 66 RVVYLSAEEFIREFADALRDGEIEEFKDRLRSADLLIIDDIQFLAGK-QRTQEELFHLFNRLIESGKQLILTSDRPPSEL 144 (219)
T ss_dssp -EEEEEHHHHHHHHHHHHHTTSHHHHHHHHCTSSEEEEETGGGGTTH-HHHHHHHHHHHHHHHHTTSEEEEEESS-TTTT
T ss_pred cceeecHHHHHHHHHHHHHcccchhhhhhhhcCCEEEEecchhhcCc-hHHHHHHHHHHHHHHhhCCeEEEEeCCCCccc
Confidence 4667776665532 2445678777889999999999888532 33468899999999999999999999999987
Q ss_pred c
Q 024706 197 F 197 (264)
Q Consensus 197 f 197 (264)
=
T Consensus 145 ~ 145 (219)
T PF00308_consen 145 S 145 (219)
T ss_dssp T
T ss_pred c
Confidence 5
No 11
>PRK08181 transposase; Validated
Probab=93.45 E-value=0.29 Score=44.99 Aligned_cols=75 Identities=16% Similarity=0.175 Sum_probs=57.8
Q ss_pred CCeEEeeHHHHhcCC------CCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhh
Q 024706 122 NGCAYFEFEELCDKP------LGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQ 195 (264)
Q Consensus 122 ~~va~f~F~eLC~~p------~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~ 195 (264)
..|.+++..+|+..- .+....+.-..+.+.++|+|+-.... +...+.-+..+|+..|+. ..+++++..|+.+
T Consensus 135 ~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l~~~dLLIIDDlg~~~~-~~~~~~~Lf~lin~R~~~-~s~IiTSN~~~~~ 212 (269)
T PRK08181 135 WRVLFTRTTDLVQKLQVARRELQLESAIAKLDKFDLLILDDLAYVTK-DQAETSVLFELISARYER-RSILITANQPFGE 212 (269)
T ss_pred CceeeeeHHHHHHHHHHHHhCCcHHHHHHHHhcCCEEEEeccccccC-CHHHHHHHHHHHHHHHhC-CCEEEEcCCCHHH
Confidence 357788888888742 22334556667899999999966544 455677899999999997 5999999999999
Q ss_pred hcc
Q 024706 196 LFN 198 (264)
Q Consensus 196 Lf~ 198 (264)
+..
T Consensus 213 w~~ 215 (269)
T PRK08181 213 WNR 215 (269)
T ss_pred HHH
Confidence 885
No 12
>PRK07952 DNA replication protein DnaC; Validated
Probab=93.35 E-value=0.4 Score=43.49 Aligned_cols=75 Identities=7% Similarity=0.045 Sum_probs=56.5
Q ss_pred CeEEeeHHHHhcC--------CCCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChh
Q 024706 123 GCAYFEFEELCDK--------PLGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPF 194 (264)
Q Consensus 123 ~va~f~F~eLC~~--------p~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~ 194 (264)
.|+..+..+|... ..+..+.+.-..+++.++|+|+.... ....+..-|-.+||.=|+++...++++..+++
T Consensus 129 ~v~~it~~~l~~~l~~~~~~~~~~~~~~l~~l~~~dlLvIDDig~~~-~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl~~~ 207 (244)
T PRK07952 129 SVLIITVADIMSAMKDTFSNSETSEEQLLNDLSNVDLLVIDEIGVQT-ESRYEKVIINQIVDRRSSSKRPTGMLTNSNME 207 (244)
T ss_pred eEEEEEHHHHHHHHHHHHhhccccHHHHHHHhccCCEEEEeCCCCCC-CCHHHHHHHHHHHHHHHhCCCCEEEeCCCCHH
Confidence 4566677777642 22334566666789999999998865 33345566777999999999999999999999
Q ss_pred hhcc
Q 024706 195 QLFN 198 (264)
Q Consensus 195 ~Lf~ 198 (264)
+|..
T Consensus 208 ~l~~ 211 (244)
T PRK07952 208 EMTK 211 (244)
T ss_pred HHHH
Confidence 9875
No 13
>PRK06526 transposase; Provisional
Probab=93.26 E-value=0.22 Score=45.31 Aligned_cols=62 Identities=19% Similarity=0.220 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccch-hhHHHHHHhccEEEEeCCCCCcCCCCc
Q 024706 9 LILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLF-LPFISTLKERCVVHEIGSSVDYRKMTS 73 (264)
Q Consensus 9 miL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~F-lPfI~~L~~~~~V~~ld~~~DYR~~~~ 73 (264)
-+|-.++..-.+++ .+|.|||.+|.+++. .+.-... -.-++.|-.+|.+++++| .|||....
T Consensus 179 ~~L~~li~~r~~~~-s~IitSn~~~~~w~~-~~~d~~~a~ai~dRl~~~~~~i~~~g-~s~R~~~~ 241 (254)
T PRK06526 179 NLFFQLVSSRYERA-SLIVTSNKPFGRWGE-VFGDDVVAAAMIDRLVHHAEVISLKG-DSYRLKDR 241 (254)
T ss_pred HHHHHHHHHHHhcC-CEEEEcCCCHHHHHH-HcCChHHHHHHHHHHhcCceEEeecC-CCcchhhh
Confidence 35666776666776 488899999999875 2222111 134689999999999996 99998643
No 14
>PRK05642 DNA replication initiation factor; Validated
Probab=92.95 E-value=0.37 Score=42.95 Aligned_cols=73 Identities=18% Similarity=0.300 Sum_probs=56.4
Q ss_pred CCeEEeeHHHHhcCCCCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhhcc
Q 024706 122 NGCAYFEFEELCDKPLGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQLFN 198 (264)
Q Consensus 122 ~~va~f~F~eLC~~p~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~Lf~ 198 (264)
.++.+++.+++... ..+.+.-.+.++.++|+||-.+..... ...-|-++++.+|+++..+++++..+|.++-.
T Consensus 74 ~~v~y~~~~~~~~~---~~~~~~~~~~~d~LiiDDi~~~~~~~~-~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~ 146 (234)
T PRK05642 74 EPAVYLPLAELLDR---GPELLDNLEQYELVCLDDLDVIAGKAD-WEEALFHLFNRLRDSGRRLLLAASKSPRELPI 146 (234)
T ss_pred CcEEEeeHHHHHhh---hHHHHHhhhhCCEEEEechhhhcCChH-HHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCc
Confidence 35678888888753 245666667789999999987754433 34569999999999999999999998887753
No 15
>PRK08939 primosomal protein DnaI; Reviewed
Probab=92.76 E-value=0.34 Score=45.28 Aligned_cols=61 Identities=13% Similarity=0.055 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHCCCEEEEcCCCCchhhccC------C-CcccchhhHHHHHHhccEEEEeCCCCCcCC
Q 024706 9 LILNRLFRHLFNNGVILVSTSNRAPDNLYER------G-LQRDLFLPFISTLKERCVVHEIGSSVDYRK 70 (264)
Q Consensus 9 miL~rLf~~Lf~~GvvlVaTSN~~P~dLy~n------g-l~r~~FlPfI~~L~~~~~V~~ld~~~DYR~ 70 (264)
.+|..+++.=...+...|.|||.+|++|... | .....=-..++.|..+|.++++.| .|||.
T Consensus 238 ~ll~~Il~~R~~~~~~ti~TSNl~~~el~~~~~~~~~g~~e~~~a~ri~dRI~~~~~~i~l~G-~s~R~ 305 (306)
T PRK08939 238 EVLGVILQYRMQEELPTFFTSNFDFDELEHHLAYTQRGEDETWKAARIMERIRYLAKEVHLEG-KNRRN 305 (306)
T ss_pred HHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHhhhccCcchhhHHHHHHHHHHHhcEEEEeec-CCCCC
Confidence 4566666665667899999999999999862 1 111112347789999999999988 99995
No 16
>PRK12377 putative replication protein; Provisional
Probab=92.27 E-value=0.48 Score=43.04 Aligned_cols=75 Identities=7% Similarity=0.035 Sum_probs=58.7
Q ss_pred CeEEeeHHHHhcCC-------CCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhh
Q 024706 123 GCAYFEFEELCDKP-------LGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQ 195 (264)
Q Consensus 123 ~va~f~F~eLC~~p-------~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~ 195 (264)
.|..++..+|...- -...+++.-..+.+.++|+||-... .+..+..-|-.+||.-|+++..+++++..++++
T Consensus 131 ~v~~i~~~~l~~~l~~~~~~~~~~~~~l~~l~~~dLLiIDDlg~~~-~s~~~~~~l~~ii~~R~~~~~ptiitSNl~~~~ 209 (248)
T PRK12377 131 SVIVVTVPDVMSRLHESYDNGQSGEKFLQELCKVDLLVLDEIGIQR-ETKNEQVVLNQIIDRRTASMRSVGMLTNLNHEA 209 (248)
T ss_pred CeEEEEHHHHHHHHHHHHhccchHHHHHHHhcCCCEEEEcCCCCCC-CCHHHHHHHHHHHHHHHhcCCCEEEEcCCCHHH
Confidence 46778888887631 1234677778999999999994432 245577899999999999999999999999988
Q ss_pred hcc
Q 024706 196 LFN 198 (264)
Q Consensus 196 Lf~ 198 (264)
|-.
T Consensus 210 l~~ 212 (248)
T PRK12377 210 MST 212 (248)
T ss_pred HHH
Confidence 864
No 17
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=91.15 E-value=0.58 Score=40.11 Aligned_cols=75 Identities=17% Similarity=0.181 Sum_probs=55.8
Q ss_pred CCeEEeeHHHHhcC------CCCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhh
Q 024706 122 NGCAYFEFEELCDK------PLGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQ 195 (264)
Q Consensus 122 ~~va~f~F~eLC~~------p~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~ 195 (264)
..|.++++.+|+.. .-...+++.-..+.+.++|+|+-... .+..++.-|-.+||.-|+++ +.++++..++++
T Consensus 76 ~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~~~dlLilDDlG~~~-~~~~~~~~l~~ii~~R~~~~-~tIiTSN~~~~~ 153 (178)
T PF01695_consen 76 YSVLFITASDLLDELKQSRSDGSYEELLKRLKRVDLLILDDLGYEP-LSEWEAELLFEIIDERYERK-PTIITSNLSPSE 153 (178)
T ss_dssp --EEEEEHHHHHHHHHCCHCCTTHCHHHHHHHTSSCEEEETCTSS----HHHHHCTHHHHHHHHHT--EEEEEESS-HHH
T ss_pred cceeEeecCceeccccccccccchhhhcCccccccEecccccceee-ecccccccchhhhhHhhccc-CeEeeCCCchhh
Confidence 35788999999854 22344677777889999999996543 34567788999999999975 899999999999
Q ss_pred hcc
Q 024706 196 LFN 198 (264)
Q Consensus 196 Lf~ 198 (264)
|..
T Consensus 154 l~~ 156 (178)
T PF01695_consen 154 LEE 156 (178)
T ss_dssp HHT
T ss_pred Hhh
Confidence 886
No 18
>PRK08727 hypothetical protein; Validated
Probab=90.84 E-value=0.81 Score=40.71 Aligned_cols=72 Identities=17% Similarity=0.159 Sum_probs=52.9
Q ss_pred CeEEeeHHHHhcCCCCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhhcc
Q 024706 123 GCAYFEFEELCDKPLGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQLFN 198 (264)
Q Consensus 123 ~va~f~F~eLC~~p~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~Lf~ 198 (264)
.+.+++..+++.... +.+.-..+.+.++|+|+-.+...... ..-+..+++.+|+++..+++++..+|.++-.
T Consensus 71 ~~~y~~~~~~~~~~~---~~~~~l~~~dlLiIDDi~~l~~~~~~-~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~ 142 (233)
T PRK08727 71 SSAYLPLQAAAGRLR---DALEALEGRSLVALDGLESIAGQRED-EVALFDFHNRARAAGITLLYTARQMPDGLAL 142 (233)
T ss_pred cEEEEeHHHhhhhHH---HHHHHHhcCCEEEEeCcccccCChHH-HHHHHHHHHHHHHcCCeEEEECCCChhhhhh
Confidence 456677777765422 33444567889999999877654443 3455689999999999999999999998853
No 19
>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP. AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding
Probab=90.34 E-value=0.42 Score=45.78 Aligned_cols=54 Identities=17% Similarity=0.275 Sum_probs=45.9
Q ss_pred HHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhhcccc
Q 024706 144 GLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQLFNKI 200 (264)
Q Consensus 144 ~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~Lf~~~ 200 (264)
+|++..+.++++..-+ .+...|.-.-.|...|+++||-||+++..+|++||.+.
T Consensus 123 ~l~~~~~lLcfDEF~V---~DiaDAmil~rLf~~l~~~gvvlVaTSN~~P~~Ly~~g 176 (362)
T PF03969_consen 123 ELAKESRLLCFDEFQV---TDIADAMILKRLFEALFKRGVVLVATSNRPPEDLYKNG 176 (362)
T ss_pred HHHhcCCEEEEeeeec---cchhHHHHHHHHHHHHHHCCCEEEecCCCChHHHcCCc
Confidence 6788999999997755 45556777777899999999999999999999999753
No 20
>PRK06526 transposase; Provisional
Probab=87.87 E-value=0.57 Score=42.60 Aligned_cols=74 Identities=14% Similarity=0.101 Sum_probs=52.9
Q ss_pred CeEEeeHHHHhcCC-----C-CcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhh
Q 024706 123 GCAYFEFEELCDKP-----L-GAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQL 196 (264)
Q Consensus 123 ~va~f~F~eLC~~p-----~-~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~L 196 (264)
.|.+++..+|+..- . ...+.+.-..+++.++|+++..+.. +...+.-|-.+||.-|+++ .+++++..|+.++
T Consensus 128 ~v~f~t~~~l~~~l~~~~~~~~~~~~l~~l~~~dlLIIDD~g~~~~-~~~~~~~L~~li~~r~~~~-s~IitSn~~~~~w 205 (254)
T PRK06526 128 RVLFATAAQWVARLAAAHHAGRLQAELVKLGRYPLLIVDEVGYIPF-EPEAANLFFQLVSSRYERA-SLIVTSNKPFGRW 205 (254)
T ss_pred chhhhhHHHHHHHHHHHHhcCcHHHHHHHhccCCEEEEcccccCCC-CHHHHHHHHHHHHHHHhcC-CEEEEcCCCHHHH
Confidence 45567777776531 1 1123444446789999999987643 3455677999999999986 5999999999988
Q ss_pred cc
Q 024706 197 FN 198 (264)
Q Consensus 197 f~ 198 (264)
..
T Consensus 206 ~~ 207 (254)
T PRK06526 206 GE 207 (254)
T ss_pred HH
Confidence 75
No 21
>PRK09183 transposase/IS protein; Provisional
Probab=86.42 E-value=1.5 Score=39.74 Aligned_cols=74 Identities=12% Similarity=0.015 Sum_probs=51.5
Q ss_pred CeEEeeHHHHhcCC------CCcccHH-HHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhh
Q 024706 123 GCAYFEFEELCDKP------LGAADYF-GLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQ 195 (264)
Q Consensus 123 ~va~f~F~eLC~~p------~~~~DYl-~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~ 195 (264)
.|..++..+|...- -+....+ ......+.++|+++-.. ..+..++.-|..+||..|+++ .+++++..++.+
T Consensus 132 ~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~~~~~dlLiiDdlg~~-~~~~~~~~~lf~li~~r~~~~-s~iiTsn~~~~~ 209 (259)
T PRK09183 132 KVRFTTAADLLLQLSTAQRQGRYKTTLQRGVMAPRLLIIDEIGYL-PFSQEEANLFFQVIAKRYEKG-SMILTSNLPFGQ 209 (259)
T ss_pred eEEEEeHHHHHHHHHHHHHCCcHHHHHHHHhcCCCEEEEcccccC-CCChHHHHHHHHHHHHHHhcC-cEEEecCCCHHH
Confidence 45666777776321 1111222 22456789999999543 334567778999999999987 589999999999
Q ss_pred hcc
Q 024706 196 LFN 198 (264)
Q Consensus 196 Lf~ 198 (264)
+..
T Consensus 210 w~~ 212 (259)
T PRK09183 210 WDQ 212 (259)
T ss_pred HHH
Confidence 875
No 22
>PRK06835 DNA replication protein DnaC; Validated
Probab=86.08 E-value=1.4 Score=41.61 Aligned_cols=56 Identities=14% Similarity=0.079 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhccEEEEeCCCCCcCCC
Q 024706 10 ILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERCVVHEIGSSVDYRKM 71 (264)
Q Consensus 10 iL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~~V~~ld~~~DYR~~ 71 (264)
.|-.++.....+|--+|.|||.+|++|... +. .+....|...|.++.+.| .|+|..
T Consensus 267 ~Lf~iin~R~~~~k~tIiTSNl~~~el~~~-~~----eri~SRL~~~~~~i~~~G-~d~R~~ 322 (329)
T PRK06835 267 ELFNLINKRLLRQKKMIISTNLSLEELLKT-YS----ERISSRLLGNFTLLKFYG-EDIRIK 322 (329)
T ss_pred HHHHHHHHHHHCCCCEEEECCCCHHHHHHH-Hh----HHHHHHHHcCCEEEEecC-cChhhH
Confidence 455667777777888999999999998541 11 245678889999999975 999974
No 23
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=85.50 E-value=2 Score=44.16 Aligned_cols=74 Identities=12% Similarity=0.262 Sum_probs=55.0
Q ss_pred CeEEeeHHHHhcCCC------CcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhh
Q 024706 123 GCAYFEFEELCDKPL------GAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQL 196 (264)
Q Consensus 123 ~va~f~F~eLC~~p~------~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~L 196 (264)
.|.+++.++++..-. ....|..--++++.++|+||-.+..... ...-|.++++.+|+++..+++++..+|.+|
T Consensus 346 ~V~Yitaeef~~el~~al~~~~~~~f~~~y~~~DLLlIDDIq~l~gke~-tqeeLF~l~N~l~e~gk~IIITSd~~P~eL 424 (617)
T PRK14086 346 RVRYVSSEEFTNEFINSIRDGKGDSFRRRYREMDILLVDDIQFLEDKES-TQEEFFHTFNTLHNANKQIVLSSDRPPKQL 424 (617)
T ss_pred eEEEeeHHHHHHHHHHHHHhccHHHHHHHhhcCCEEEEehhccccCCHH-HHHHHHHHHHHHHhcCCCEEEecCCChHhh
Confidence 567888888774311 1224555556789999999988754332 346688999999999999999999999887
Q ss_pred c
Q 024706 197 F 197 (264)
Q Consensus 197 f 197 (264)
=
T Consensus 425 ~ 425 (617)
T PRK14086 425 V 425 (617)
T ss_pred h
Confidence 3
No 24
>PRK08084 DNA replication initiation factor; Provisional
Probab=85.38 E-value=3 Score=37.09 Aligned_cols=70 Identities=16% Similarity=0.205 Sum_probs=50.0
Q ss_pred eEEeeHHHHhcCCCCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcC-CeEEEEecCChhhhc
Q 024706 124 CAYFEFEELCDKPLGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENR-ARLLCTAEGSPFQLF 197 (264)
Q Consensus 124 va~f~F~eLC~~p~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~-vkL~~sa~~~~~~Lf 197 (264)
+.+.++++.... ..+.+.--++++.++|++|-.+.... ....-|-++++.+||.+ +++++++..||.++-
T Consensus 76 v~y~~~~~~~~~---~~~~~~~~~~~dlliiDdi~~~~~~~-~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~ 146 (235)
T PRK08084 76 VGYVPLDKRAWF---VPEVLEGMEQLSLVCIDNIECIAGDE-LWEMAIFDLYNRILESGRTRLLITGDRPPRQLN 146 (235)
T ss_pred EEEEEHHHHhhh---hHHHHHHhhhCCEEEEeChhhhcCCH-HHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcC
Confidence 556666664332 23445555667899999998875433 33445889999999987 589999999998864
No 25
>PRK12377 putative replication protein; Provisional
Probab=84.25 E-value=2.5 Score=38.35 Aligned_cols=60 Identities=8% Similarity=0.039 Sum_probs=45.6
Q ss_pred hHHHHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhc-cEEEEeCCCCCcCCCC
Q 024706 7 DALILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKER-CVVHEIGSSVDYRKMT 72 (264)
Q Consensus 7 DAmiL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~-~~V~~ld~~~DYR~~~ 72 (264)
..-+|-.+++.-...+.-+|.|||..+++|.+. +. -+.++.|..+ |.++++++ .+||..-
T Consensus 181 ~~~~l~~ii~~R~~~~~ptiitSNl~~~~l~~~-~~----~ri~dRl~~~~~~~v~~~g-~s~R~~~ 241 (248)
T PRK12377 181 EQVVLNQIIDRRTASMRSVGMLTNLNHEAMSTL-LG----ERVMDRMTMNGGRWVNFNW-ESWRPNV 241 (248)
T ss_pred HHHHHHHHHHHHHhcCCCEEEEcCCCHHHHHHH-hh----HHHHHHHhhCCCeEEEeCC-cCccccc
Confidence 344677777777777788899999999999752 22 2467888754 79999998 9999864
No 26
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=83.95 E-value=3.9 Score=35.23 Aligned_cols=70 Identities=17% Similarity=0.246 Sum_probs=50.8
Q ss_pred CeEEeeHHHHhcCCCCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhh
Q 024706 123 GCAYFEFEELCDKPLGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQL 196 (264)
Q Consensus 123 ~va~f~F~eLC~~p~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~L 196 (264)
.+.+++..+++..+ .+.+...+...+++|++|..++... +....+..++|.+++.+..+++++..++.++
T Consensus 68 ~~~~i~~~~~~~~~---~~~~~~~~~~~lLvIDdi~~l~~~~-~~~~~L~~~l~~~~~~~~~iIits~~~~~~~ 137 (226)
T TIGR03420 68 SAIYLPLAELAQAD---PEVLEGLEQADLVCLDDVEAIAGQP-EWQEALFHLYNRVREAGGRLLIAGRAAPAQL 137 (226)
T ss_pred cEEEEeHHHHHHhH---HHHHhhcccCCEEEEeChhhhcCCh-HHHHHHHHHHHHHHHcCCeEEEECCCChHHC
Confidence 35677777776543 3444555677899999998875432 2356777889999999889999998877654
No 27
>PRK08727 hypothetical protein; Validated
Probab=83.87 E-value=2.5 Score=37.54 Aligned_cols=48 Identities=23% Similarity=0.405 Sum_probs=36.7
Q ss_pred hHHHHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhc---cEEEEeCC
Q 024706 7 DALILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKER---CVVHEIGS 64 (264)
Q Consensus 7 DAmiL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~---~~V~~ld~ 64 (264)
+...|-+++..+.++|.-||.|||.+|+++.. ..+-|+.+ |.++++..
T Consensus 111 ~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~----------~~~dL~SRl~~~~~~~l~~ 161 (233)
T PRK08727 111 DEVALFDFHNRARAAGITLLYTARQMPDGLAL----------VLPDLRSRLAQCIRIGLPV 161 (233)
T ss_pred HHHHHHHHHHHHHHcCCeEEEECCCChhhhhh----------hhHHHHHHHhcCceEEecC
Confidence 44556678888888899999999999999864 23455556 78888875
No 28
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=83.17 E-value=1.5 Score=39.73 Aligned_cols=100 Identities=15% Similarity=0.142 Sum_probs=69.7
Q ss_pred CCCeEEeeHHHHhcCCCCccc-------HHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCCh
Q 024706 121 ANGCAYFEFEELCDKPLGAAD-------YFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSP 193 (264)
Q Consensus 121 ~~~va~f~F~eLC~~p~~~~D-------Yl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~ 193 (264)
.-.|..++..||-..-..+-+ .+..-++++.++|+|+=.... +..++-=|..+|+..|+++.. ++++..|+
T Consensus 133 g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~l~~~dlLIiDDlG~~~~-~~~~~~~~~q~I~~r~~~~~~-~~tsN~~~ 210 (254)
T COG1484 133 GISVLFITAPDLLSKLKAAFDEGRLEEKLLRELKKVDLLIIDDIGYEPF-SQEEADLLFQLISRRYESRSL-IITSNLSF 210 (254)
T ss_pred CCeEEEEEHHHHHHHHHHHHhcCchHHHHHHHhhcCCEEEEecccCccC-CHHHHHHHHHHHHHHHhhccc-eeecCCCh
Confidence 456788999998876333333 355678999999998855422 233455566699999999999 99999888
Q ss_pred hhhccccccchhhhhcccccccccccccccccccCcccccccccccchHhhhCchhHH
Q 024706 194 FQLFNKIVTISDAQQMAPRTSSRSMRNDEADLCVDNELGFAKDRTISRLTEMNSKEYL 251 (264)
Q Consensus 194 ~~Lf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~Faf~Rt~SRL~EMqs~~y~ 251 (264)
+++-..- +.. . --+|.+|||.+|...-++
T Consensus 211 ~~~~~~~---------------------------~~~-~-~~e~~~dRi~~~~~~~~~ 239 (254)
T COG1484 211 GEWDELF---------------------------GDD-A-LTEALLDRILHHSHVIVI 239 (254)
T ss_pred HHHHhhc---------------------------cCc-h-hHHHHHHHHHhcceeeEe
Confidence 7766410 000 0 125999999999977664
No 29
>PRK08939 primosomal protein DnaI; Reviewed
Probab=82.36 E-value=2.5 Score=39.54 Aligned_cols=102 Identities=10% Similarity=0.083 Sum_probs=66.8
Q ss_pred CeEEeeHHHHhcCC------CCcccHHHHhcccCeEEEcCCCCCCCCChhHHH-HHH-HHHHHHHhcCCeEEEEecCChh
Q 024706 123 GCAYFEFEELCDKP------LGAADYFGLFKIFHTLALEGIPIFGLHNRTAAY-RFV-TLVDVMYENRARLLCTAEGSPF 194 (264)
Q Consensus 123 ~va~f~F~eLC~~p------~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~ar-RFI-~LID~lYd~~vkL~~sa~~~~~ 194 (264)
.|.++++.+|...- -+..+.+.-.++.+.++|+|+=.-. ..+..+ -++ .++|.-|..+...++++..+++
T Consensus 186 ~v~~~~~~~l~~~lk~~~~~~~~~~~l~~l~~~dlLiIDDiG~e~--~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl~~~ 263 (306)
T PRK08939 186 SSTLLHFPEFIRELKNSISDGSVKEKIDAVKEAPVLMLDDIGAEQ--MSSWVRDEVLGVILQYRMQEELPTFFTSNFDFD 263 (306)
T ss_pred CEEEEEHHHHHHHHHHHHhcCcHHHHHHHhcCCCEEEEecCCCcc--ccHHHHHHHHHHHHHHHHHCCCeEEEECCCCHH
Confidence 46778887765431 1335678888999999999994432 222333 243 4568889999999999999999
Q ss_pred hhccccccchhhhhcccccccccccccccccccCcccccccccccchHhhhCch
Q 024706 195 QLFNKIVTISDAQQMAPRTSSRSMRNDEADLCVDNELGFAKDRTISRLTEMNSK 248 (264)
Q Consensus 195 ~Lf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~Faf~Rt~SRL~EMqs~ 248 (264)
+|...-.. . . .|+.+.-.-+|.++||.+++..
T Consensus 264 el~~~~~~---~----~---------------~g~~e~~~a~ri~dRI~~~~~~ 295 (306)
T PRK08939 264 ELEHHLAY---T----Q---------------RGEDETWKAARIMERIRYLAKE 295 (306)
T ss_pred HHHHHHhh---h----c---------------cCcchhhHHHHHHHHHHHhcEE
Confidence 98852100 0 0 0222334456999999887643
No 30
>COG1485 Predicted ATPase [General function prediction only]
Probab=82.05 E-value=3 Score=40.04 Aligned_cols=56 Identities=14% Similarity=0.208 Sum_probs=46.5
Q ss_pred cHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhhccc
Q 024706 141 DYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQLFNK 199 (264)
Q Consensus 141 DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~Lf~~ 199 (264)
.=.+|+++++.++++..-+ .+-..|.=.-.|..+|..+||-|++++..+|++||.+
T Consensus 123 iA~~~~~~~~vLCfDEF~V---tDI~DAMiL~rL~~~Lf~~GV~lvaTSN~~P~~LY~d 178 (367)
T COG1485 123 IADELAAETRVLCFDEFEV---TDIADAMILGRLLEALFARGVVLVATSNTAPDNLYKD 178 (367)
T ss_pred HHHHHHhcCCEEEeeeeee---cChHHHHHHHHHHHHHHHCCcEEEEeCCCChHHhccc
Confidence 3457889999999885533 5666677777899999999999999999999999975
No 31
>PRK06921 hypothetical protein; Provisional
Probab=81.26 E-value=2.7 Score=38.42 Aligned_cols=55 Identities=15% Similarity=0.137 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhcc--EEEEeCCCCCcCC
Q 024706 9 LILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERC--VVHEIGSSVDYRK 70 (264)
Q Consensus 9 miL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~--~V~~ld~~~DYR~ 70 (264)
..|-.++..-..+|..+|.|||.+|++|..- . ......|.++| .++.++| .-||.
T Consensus 202 ~~lf~iin~R~~~~k~tIitsn~~~~el~~~--~----~~l~sRi~~r~~~~~i~~~g-~s~r~ 258 (266)
T PRK06921 202 EQMYSVLNYRYLNHKPILISSELTIDELLDI--D----EALGSRIVEMCKDYLVIIKG-DSFEL 258 (266)
T ss_pred HHHHHHHHHHHHCCCCEEEECCCCHHHHhhh--h----hHHHHHHHHhccCeEEEecC-ccccc
Confidence 3566777777777888899999999999863 2 13334555555 4888876 43443
No 32
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=77.70 E-value=4.6 Score=38.74 Aligned_cols=75 Identities=13% Similarity=0.237 Sum_probs=55.1
Q ss_pred CCeEEeeHHHHhcCC------CCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhh
Q 024706 122 NGCAYFEFEELCDKP------LGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQ 195 (264)
Q Consensus 122 ~~va~f~F~eLC~~p------~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~ 195 (264)
..+.+.+.+++...- -...++....++.+.++|+||-.+.... ....-|..+++.+|+.+..+++++..+|.+
T Consensus 167 ~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~-~~~~~l~~~~n~~~~~~~~iiits~~~p~~ 245 (405)
T TIGR00362 167 AKVVYVSSEKFTNDFVNALRNNKMEEFKEKYRSVDLLLIDDIQFLAGKE-RTQEEFFHTFNALHENGKQIVLTSDRPPKE 245 (405)
T ss_pred CcEEEEEHHHHHHHHHHHHHcCCHHHHHHHHHhCCEEEEehhhhhcCCH-HHHHHHHHHHHHHHHCCCCEEEecCCCHHH
Confidence 346778877765321 1233565556678999999998875432 233569999999999999999999999988
Q ss_pred hc
Q 024706 196 LF 197 (264)
Q Consensus 196 Lf 197 (264)
|-
T Consensus 246 l~ 247 (405)
T TIGR00362 246 LP 247 (405)
T ss_pred Hh
Confidence 75
No 33
>PRK05642 DNA replication initiation factor; Validated
Probab=76.38 E-value=3.6 Score=36.60 Aligned_cols=30 Identities=27% Similarity=0.391 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHCCCEEEEcCCCCchhhc
Q 024706 8 ALILNRLFRHLFNNGVILVSTSNRAPDNLY 37 (264)
Q Consensus 8 AmiL~rLf~~Lf~~GvvlVaTSN~~P~dLy 37 (264)
...|-.+|..+.+.|..+|.|||++|.++.
T Consensus 116 ~~~Lf~l~n~~~~~g~~ilits~~~p~~l~ 145 (234)
T PRK05642 116 EEALFHLFNRLRDSGRRLLLAASKSPRELP 145 (234)
T ss_pred HHHHHHHHHHHHhcCCEEEEeCCCCHHHcC
Confidence 567888999999999999999999998765
No 34
>PRK06893 DNA replication initiation factor; Validated
Probab=73.69 E-value=9.9 Score=33.56 Aligned_cols=70 Identities=14% Similarity=0.133 Sum_probs=47.0
Q ss_pred eEEeeHHHHhcCCCCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeE-EEEecCChhhhc
Q 024706 124 CAYFEFEELCDKPLGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARL-LCTAEGSPFQLF 197 (264)
Q Consensus 124 va~f~F~eLC~~p~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL-~~sa~~~~~~Lf 197 (264)
+.+++..+.+.. ..+.+.-.++++.++|++|-.+.... ....-+-.+++.+|+.+..+ ++++..+|.++-
T Consensus 70 ~~y~~~~~~~~~---~~~~~~~~~~~dlLilDDi~~~~~~~-~~~~~l~~l~n~~~~~~~~illits~~~p~~l~ 140 (229)
T PRK06893 70 AIYIPLSKSQYF---SPAVLENLEQQDLVCLDDLQAVIGNE-EWELAIFDLFNRIKEQGKTLLLISADCSPHALS 140 (229)
T ss_pred eEEeeHHHhhhh---hHHHHhhcccCCEEEEeChhhhcCCh-HHHHHHHHHHHHHHHcCCcEEEEeCCCChHHcc
Confidence 445555443322 12344445678999999998775433 33456999999999988664 678888888765
No 35
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=73.16 E-value=10 Score=37.34 Aligned_cols=76 Identities=12% Similarity=0.186 Sum_probs=55.6
Q ss_pred CCeEEeeHHHHhcCC------CCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhh
Q 024706 122 NGCAYFEFEELCDKP------LGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQ 195 (264)
Q Consensus 122 ~~va~f~F~eLC~~p------~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~ 195 (264)
..+..++.+++...- -....+...-+..+.++|+||-.++... ....-|..+++.+|+.+..+++++..+|.+
T Consensus 170 ~~v~yi~~~~f~~~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq~l~~k~-~~qeelf~l~N~l~~~~k~IIlts~~~p~~ 248 (445)
T PRK12422 170 GKILYVRSELFTEHLVSAIRSGEMQRFRQFYRNVDALFIEDIEVFSGKG-ATQEEFFHTFNSLHTEGKLIVISSTCAPQD 248 (445)
T ss_pred CCEEEeeHHHHHHHHHHHHhcchHHHHHHHcccCCEEEEcchhhhcCCh-hhHHHHHHHHHHHHHCCCcEEEecCCCHHH
Confidence 456778877765321 1122455566788999999998875432 235678899999999999999999999988
Q ss_pred hcc
Q 024706 196 LFN 198 (264)
Q Consensus 196 Lf~ 198 (264)
|..
T Consensus 249 l~~ 251 (445)
T PRK12422 249 LKA 251 (445)
T ss_pred Hhh
Confidence 864
No 36
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=72.87 E-value=6.6 Score=38.32 Aligned_cols=74 Identities=12% Similarity=0.240 Sum_probs=54.6
Q ss_pred CeEEeeHHHHhcC------CCCcccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhh
Q 024706 123 GCAYFEFEELCDK------PLGAADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQL 196 (264)
Q Consensus 123 ~va~f~F~eLC~~------p~~~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~L 196 (264)
.+.+++..++... .-...++..--++.+.++|++|-.+.... ....-|..++|.+|+.+..+++++..+|.+|
T Consensus 180 ~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~-~~~~~l~~~~n~l~~~~~~iiits~~~p~~l 258 (450)
T PRK00149 180 KVVYVTSEKFTNDFVNALRNNTMEEFKEKYRSVDVLLIDDIQFLAGKE-RTQEEFFHTFNALHEAGKQIVLTSDRPPKEL 258 (450)
T ss_pred eEEEEEHHHHHHHHHHHHHcCcHHHHHHHHhcCCEEEEehhhhhcCCH-HHHHHHHHHHHHHHHCCCcEEEECCCCHHHH
Confidence 3667777766542 12234566555678999999998875432 2456799999999999999999999999887
Q ss_pred c
Q 024706 197 F 197 (264)
Q Consensus 197 f 197 (264)
-
T Consensus 259 ~ 259 (450)
T PRK00149 259 P 259 (450)
T ss_pred H
Confidence 4
No 37
>PRK09087 hypothetical protein; Validated
Probab=72.23 E-value=8.5 Score=34.16 Aligned_cols=45 Identities=18% Similarity=0.183 Sum_probs=36.2
Q ss_pred CeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhhcc
Q 024706 150 HTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQLFN 198 (264)
Q Consensus 150 ~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~Lf~ 198 (264)
+.++|+||..+.. +. .-|-++++.+|++++.+++++..+|..+-.
T Consensus 89 ~~l~iDDi~~~~~-~~---~~lf~l~n~~~~~g~~ilits~~~p~~~~~ 133 (226)
T PRK09087 89 GPVLIEDIDAGGF-DE---TGLFHLINSVRQAGTSLLMTSRLWPSSWNV 133 (226)
T ss_pred CeEEEECCCCCCC-CH---HHHHHHHHHHHhCCCeEEEECCCChHHhcc
Confidence 5799999987632 22 239999999999999999999988887643
No 38
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=71.94 E-value=6.7 Score=31.58 Aligned_cols=55 Identities=20% Similarity=0.198 Sum_probs=41.7
Q ss_pred ccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhhcc
Q 024706 140 ADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQLFN 198 (264)
Q Consensus 140 ~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~Lf~ 198 (264)
.|.++=+ .=.|++|.+|..+ +.+..+++..+++..=..+++|++++..+++++..
T Consensus 62 ~~~l~~a-~~gtL~l~~i~~L---~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~l~~l~~ 116 (138)
T PF14532_consen 62 AELLEQA-KGGTLYLKNIDRL---SPEAQRRLLDLLKRQERSNVRLIASSSQDLEELVE 116 (138)
T ss_dssp HHHHHHC-TTSEEEEECGCCS----HHHHHHHHHHHHHCTTTTSEEEEEECC-CCCHHH
T ss_pred HHHHHHc-CCCEEEECChHHC---CHHHHHHHHHHHHhcCCCCeEEEEEeCCCHHHHhh
Confidence 4544444 5669999999998 66777778888876446789999999999999875
No 39
>PRK07952 DNA replication protein DnaC; Validated
Probab=71.74 E-value=9.4 Score=34.58 Aligned_cols=58 Identities=10% Similarity=0.077 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHH-hccEEEEeCCCCCcCCCC
Q 024706 9 LILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLK-ERCVVHEIGSSVDYRKMT 72 (264)
Q Consensus 9 miL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~-~~~~V~~ld~~~DYR~~~ 72 (264)
-+|-.++..=....-..|.|||..|++|.+ .+. -+.++.|. .++.++.+++ .+||...
T Consensus 182 ~~l~~Ii~~Ry~~~~~tiitSNl~~~~l~~-~~g----~ri~sRl~~~~~~~i~f~~-~s~R~~~ 240 (244)
T PRK07952 182 VIINQIVDRRSSSKRPTGMLTNSNMEEMTK-LLG----ERVMDRMRLGNSLWVIFNW-DSYRSRV 240 (244)
T ss_pred HHHHHHHHHHHhCCCCEEEeCCCCHHHHHH-HhC----hHHHHHHHHCCceEEEeeC-Ccccccc
Confidence 356666666666678899999999999975 222 14568885 6889999995 9999753
No 40
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=70.30 E-value=6.6 Score=35.63 Aligned_cols=57 Identities=18% Similarity=0.113 Sum_probs=42.2
Q ss_pred HHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhccEEEEeCCCCCcCCCC
Q 024706 14 LFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERCVVHEIGSSVDYRKMT 72 (264)
Q Consensus 14 Lf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~~V~~ld~~~DYR~~~ 72 (264)
+...-..+.-. +.|||.+++++..---....=..-++.|..+|.++.+.| ..||...
T Consensus 192 ~I~~r~~~~~~-~~tsN~~~~~~~~~~~~~~~~e~~~dRi~~~~~~~~~~g-~s~rl~~ 248 (254)
T COG1484 192 LISRRYESRSL-IITSNLSFGEWDELFGDDALTEALLDRILHHSHVIVIKG-ESYRLNV 248 (254)
T ss_pred HHHHHHhhccc-eeecCCChHHHHhhccCchhHHHHHHHHHhcceeeEecc-hHhhhhc
Confidence 55555566666 999999999987743333344667899999999999765 7799754
No 41
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=69.03 E-value=4.8 Score=35.53 Aligned_cols=48 Identities=31% Similarity=0.433 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhccEEEEeCC
Q 024706 10 ILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERCVVHEIGS 64 (264)
Q Consensus 10 iL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~~V~~ld~ 64 (264)
-|-.+|..+.++|..+|.||+++|.+|-. +.|-+.---..+-+++|..
T Consensus 118 ~lf~l~n~~~~~~k~li~ts~~~P~~l~~-------~~~~L~SRl~~Gl~~~l~~ 165 (219)
T PF00308_consen 118 ELFHLFNRLIESGKQLILTSDRPPSELSG-------LLPDLRSRLSWGLVVELQP 165 (219)
T ss_dssp HHHHHHHHHHHTTSEEEEEESS-TTTTTT-------S-HHHHHHHHCSEEEEE--
T ss_pred HHHHHHHHHHhhCCeEEEEeCCCCccccc-------cChhhhhhHhhcchhhcCC
Confidence 56788999999999999999999999842 2332222224566777765
No 42
>PRK09087 hypothetical protein; Validated
Probab=66.48 E-value=7.1 Score=34.69 Aligned_cols=46 Identities=30% Similarity=0.331 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhcc---EEEEeCC
Q 024706 9 LILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERC---VVHEIGS 64 (264)
Q Consensus 9 miL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~---~V~~ld~ 64 (264)
--|-.+|..+.+.|..+|.|||++|.++-.- .+-|+.++ .++++..
T Consensus 104 ~~lf~l~n~~~~~g~~ilits~~~p~~~~~~----------~~dL~SRl~~gl~~~l~~ 152 (226)
T PRK09087 104 TGLFHLINSVRQAGTSLLMTSRLWPSSWNVK----------LPDLKSRLKAATVVEIGE 152 (226)
T ss_pred HHHHHHHHHHHhCCCeEEEECCCChHHhccc----------cccHHHHHhCCceeecCC
Confidence 3467788888999999999999999988641 22345444 7888865
No 43
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=64.44 E-value=17 Score=35.70 Aligned_cols=74 Identities=16% Similarity=0.268 Sum_probs=52.8
Q ss_pred CCeEEeeHHHHhcCCCC--------cccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCCh
Q 024706 122 NGCAYFEFEELCDKPLG--------AADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSP 193 (264)
Q Consensus 122 ~~va~f~F~eLC~~p~~--------~~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~ 193 (264)
..|+.++.+++...... ..++..-..+.+.++|+||-.+... .....-|-++++.+|+++..+++++..+|
T Consensus 172 ~~v~yv~~~~f~~~~~~~l~~~~~~~~~~~~~~~~~dvLiIDDiq~l~~k-~~~~e~lf~l~N~~~~~~k~iIltsd~~P 250 (450)
T PRK14087 172 LKVSYMSGDEFARKAVDILQKTHKEIEQFKNEICQNDVLIIDDVQFLSYK-EKTNEIFFTIFNNFIENDKQLFFSSDKSP 250 (450)
T ss_pred CeEEEEEHHHHHHHHHHHHHHhhhHHHHHHHHhccCCEEEEeccccccCC-HHHHHHHHHHHHHHHHcCCcEEEECCCCH
Confidence 35677877776644211 1223344567899999999777432 22345699999999999999999999999
Q ss_pred hhh
Q 024706 194 FQL 196 (264)
Q Consensus 194 ~~L 196 (264)
+.+
T Consensus 251 ~~l 253 (450)
T PRK14087 251 ELL 253 (450)
T ss_pred HHH
Confidence 877
No 44
>PRK08084 DNA replication initiation factor; Provisional
Probab=63.37 E-value=15 Score=32.63 Aligned_cols=47 Identities=19% Similarity=0.369 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHCC-CEEEEcCCCCchhhccCCCcccchhhHHHHHHhcc---EEEEeCC
Q 024706 8 ALILNRLFRHLFNNG-VILVSTSNRAPDNLYERGLQRDLFLPFISTLKERC---VVHEIGS 64 (264)
Q Consensus 8 AmiL~rLf~~Lf~~G-vvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~---~V~~ld~ 64 (264)
..-|-.+|..+.+.| +.+|.|||.+|.++.. ..+-|..+| .|+++..
T Consensus 116 ~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~----------~~~~L~SRl~~g~~~~l~~ 166 (235)
T PRK08084 116 EMAIFDLYNRILESGRTRLLITGDRPPRQLNL----------GLPDLASRLDWGQIYKLQP 166 (235)
T ss_pred HHHHHHHHHHHHHcCCCeEEEeCCCChHHcCc----------ccHHHHHHHhCCceeeecC
Confidence 455677888888887 4789999999998764 135677777 7888876
No 45
>PRK06620 hypothetical protein; Validated
Probab=60.57 E-value=18 Score=31.85 Aligned_cols=44 Identities=14% Similarity=0.312 Sum_probs=36.0
Q ss_pred cccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhh
Q 024706 147 KIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQL 196 (264)
Q Consensus 147 ~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~L 196 (264)
+..+.++|+||-.+ +-.-|-++++.++|.|..+++++..+|..+
T Consensus 84 ~~~d~lliDdi~~~------~~~~lf~l~N~~~e~g~~ilits~~~p~~l 127 (214)
T PRK06620 84 EKYNAFIIEDIENW------QEPALLHIFNIINEKQKYLLLTSSDKSRNF 127 (214)
T ss_pred hcCCEEEEeccccc------hHHHHHHHHHHHHhcCCEEEEEcCCCcccc
Confidence 46689999999754 113577999999999999999999988864
No 46
>PRK06893 DNA replication initiation factor; Validated
Probab=59.63 E-value=14 Score=32.69 Aligned_cols=31 Identities=23% Similarity=0.411 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHCCC-EEEEcCCCCchhhcc
Q 024706 8 ALILNRLFRHLFNNGV-ILVSTSNRAPDNLYE 38 (264)
Q Consensus 8 AmiL~rLf~~Lf~~Gv-vlVaTSN~~P~dLy~ 38 (264)
...|-.+|..+.+.|. ++|.|||.+|.+|..
T Consensus 110 ~~~l~~l~n~~~~~~~~illits~~~p~~l~~ 141 (229)
T PRK06893 110 ELAIFDLFNRIKEQGKTLLLISADCSPHALSI 141 (229)
T ss_pred HHHHHHHHHHHHHcCCcEEEEeCCCChHHccc
Confidence 4567788888888765 678999999999763
No 47
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=53.85 E-value=21 Score=34.96 Aligned_cols=50 Identities=20% Similarity=0.342 Sum_probs=43.4
Q ss_pred ccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhhcc
Q 024706 148 IFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQLFN 198 (264)
Q Consensus 148 ~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~Lf~ 198 (264)
+.+.++|+||-.+.....- ..-|-++...+++.+-.|+++++.+|.+|=.
T Consensus 175 ~~dlllIDDiq~l~gk~~~-qeefFh~FN~l~~~~kqIvltsdr~P~~l~~ 224 (408)
T COG0593 175 SLDLLLIDDIQFLAGKERT-QEEFFHTFNALLENGKQIVLTSDRPPKELNG 224 (408)
T ss_pred ccCeeeechHhHhcCChhH-HHHHHHHHHHHHhcCCEEEEEcCCCchhhcc
Confidence 7899999999888665544 5678899999999999999999999998874
No 48
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=52.61 E-value=25 Score=34.43 Aligned_cols=73 Identities=8% Similarity=0.198 Sum_probs=49.2
Q ss_pred CeEEeeHHHHhcCCC------CcccHHHHh-cccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhh
Q 024706 123 GCAYFEFEELCDKPL------GAADYFGLF-KIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQ 195 (264)
Q Consensus 123 ~va~f~F~eLC~~p~------~~~DYl~La-~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~ 195 (264)
.+.+++.+++..... ...++..-- ...+.++|+++-.+.... .....|..+++.+|+.+..+++++..+|.+
T Consensus 162 ~v~yi~~~~f~~~~~~~~~~~~~~~f~~~~~~~~dvLlIDDi~~l~~~~-~~q~elf~~~n~l~~~~k~iIitsd~~p~~ 240 (440)
T PRK14088 162 RVMYITSEKFLNDLVDSMKEGKLNEFREKYRKKVDVLLIDDVQFLIGKT-GVQTELFHTFNELHDSGKQIVICSDREPQK 240 (440)
T ss_pred eEEEEEHHHHHHHHHHHHhcccHHHHHHHHHhcCCEEEEechhhhcCcH-HHHHHHHHHHHHHHHcCCeEEEECCCCHHH
Confidence 567777777653311 122333322 257899999997663322 123568899999999999999999888887
Q ss_pred h
Q 024706 196 L 196 (264)
Q Consensus 196 L 196 (264)
|
T Consensus 241 l 241 (440)
T PRK14088 241 L 241 (440)
T ss_pred H
Confidence 6
No 49
>PF10298 WhiA_N: WhiA N-terminal LAGLIDADG-like domain; InterPro: IPR018478 This entry represents the N-terminal domain of sporulation factor WhiA []. This domain is related to the LAGLIDADG homing endonuclease domain while the C-terminal domain of WhiA is predicted to be a DNA binding helix-turn-helix domain [].; PDB: 3HYI_A 3HYJ_D.
Probab=47.95 E-value=13 Score=27.95 Aligned_cols=35 Identities=11% Similarity=0.176 Sum_probs=24.8
Q ss_pred CCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChh
Q 024706 160 FGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPF 194 (264)
Q Consensus 160 l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~ 194 (264)
+..++...|||+.+||-.+|+-++.+.+.-...+.
T Consensus 29 ~~ten~~vARri~~llk~~f~i~~ei~v~~~~~l~ 63 (86)
T PF10298_consen 29 ISTENAAVARRIYSLLKKLFDIDPEISVRRSRNLK 63 (86)
T ss_dssp -EES-HHHHHHHHHHHHHTT--EEEEEEEE-SSSB
T ss_pred EEeCCHHHHHHHHHHHHHHhCCCeEEEEecCCCCC
Confidence 34578889999999999999999999887654443
No 50
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=47.50 E-value=7.8 Score=33.12 Aligned_cols=49 Identities=27% Similarity=0.238 Sum_probs=17.8
Q ss_pred HHHHHHHHHC--CCEEEEcCCCCchhhccCCCcccchhhHHHHHHhccEEE
Q 024706 12 NRLFRHLFNN--GVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERCVVH 60 (264)
Q Consensus 12 ~rLf~~Lf~~--GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~~V~ 60 (264)
.-||+-+-.+ +--.|.|||..|++|.+-=-.+..=.+.++.|..+|+||
T Consensus 128 ~~l~~ii~~R~~~~~tIiTSN~~~~~l~~~~~d~~~a~aildRl~~~~~~i 178 (178)
T PF01695_consen 128 ELLFEIIDERYERKPTIITSNLSPSELEEVLGDRALAEAILDRLLHHCHVI 178 (178)
T ss_dssp HCTHHHHHHHHHT-EEEEEESS-HHHHHT----------------------
T ss_pred ccchhhhhHhhcccCeEeeCCCchhhHhhccccccccccccccccccccCC
Confidence 3455544443 567899999999999864334455556778888888875
No 51
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=45.87 E-value=21 Score=35.11 Aligned_cols=28 Identities=25% Similarity=0.450 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHCCCEEEEcCCCCchhh
Q 024706 9 LILNRLFRHLFNNGVILVSTSNRAPDNL 36 (264)
Q Consensus 9 miL~rLf~~Lf~~GvvlVaTSN~~P~dL 36 (264)
-.|-.+|..+.+.|-.+|.|||.+|++|
T Consensus 226 e~lf~l~N~~~~~~k~iIltsd~~P~~l 253 (450)
T PRK14087 226 EIFFTIFNNFIENDKQLFFSSDKSPELL 253 (450)
T ss_pred HHHHHHHHHHHHcCCcEEEECCCCHHHH
Confidence 3578889999999999999999999988
No 52
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=45.30 E-value=17 Score=30.73 Aligned_cols=29 Identities=17% Similarity=0.316 Sum_probs=21.9
Q ss_pred CCEEEEcCCCCchhhccCCCcccchhhHH
Q 024706 22 GVILVSTSNRAPDNLYERGLQRDLFLPFI 50 (264)
Q Consensus 22 GvvlVaTSN~~P~dLy~ngl~r~~FlPfI 50 (264)
.+.+|+|||..++++-..|..|+.+.=-|
T Consensus 134 ~~RiI~st~~~l~~~v~~g~fr~dLy~rL 162 (168)
T PF00158_consen 134 DVRIIASTSKDLEELVEQGRFREDLYYRL 162 (168)
T ss_dssp -EEEEEEESS-HHHHHHTTSS-HHHHHHH
T ss_pred cceEEeecCcCHHHHHHcCCChHHHHHHh
Confidence 57799999999999999999887765433
No 53
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=42.06 E-value=24 Score=33.76 Aligned_cols=29 Identities=34% Similarity=0.423 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHCCCEEEEcCCCCchhhc
Q 024706 9 LILNRLFRHLFNNGVILVSTSNRAPDNLY 37 (264)
Q Consensus 9 miL~rLf~~Lf~~GvvlVaTSN~~P~dLy 37 (264)
..|-.+|..+.+.|..+|.|||.+|.+|-
T Consensus 219 ~~l~~~~n~~~~~~~~iiits~~~p~~l~ 247 (405)
T TIGR00362 219 EEFFHTFNALHENGKQIVLTSDRPPKELP 247 (405)
T ss_pred HHHHHHHHHHHHCCCCEEEecCCCHHHHh
Confidence 34667888888999999999999999874
No 54
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=42.05 E-value=43 Score=32.78 Aligned_cols=44 Identities=32% Similarity=0.474 Sum_probs=31.3
Q ss_pred HHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhccE---EEEeCC
Q 024706 11 LNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERCV---VHEIGS 64 (264)
Q Consensus 11 L~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~~---V~~ld~ 64 (264)
|-.+|..+.+.|..+|.|||.+|.+|-. +.+.|..++. ++++..
T Consensus 216 lf~~~n~l~~~~k~iIitsd~~p~~l~~----------l~~rL~SR~~~gl~v~i~~ 262 (440)
T PRK14088 216 LFHTFNELHDSGKQIVICSDREPQKLSE----------FQDRLVSRFQMGLVAKLEP 262 (440)
T ss_pred HHHHHHHHHHcCCeEEEECCCCHHHHHH----------HHHHHhhHHhcCceEeeCC
Confidence 4567888889999999999999998721 2345555554 666654
No 55
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=39.90 E-value=14 Score=28.35 Aligned_cols=16 Identities=38% Similarity=0.679 Sum_probs=13.9
Q ss_pred CCEEEEcCCCCchhhcc
Q 024706 22 GVILVSTSNRAPDNLYE 38 (264)
Q Consensus 22 GvvlVaTSN~~P~dLy~ 38 (264)
++++|+|||+ |+.+.+
T Consensus 102 ~~~vI~ttn~-~~~i~~ 117 (132)
T PF00004_consen 102 RVIVIATTNS-PDKIDP 117 (132)
T ss_dssp SEEEEEEESS-GGGSCH
T ss_pred cceeEEeeCC-hhhCCH
Confidence 5899999999 888776
No 56
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=39.11 E-value=29 Score=33.84 Aligned_cols=29 Identities=31% Similarity=0.376 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHCCCEEEEcCCCCchhhc
Q 024706 9 LILNRLFRHLFNNGVILVSTSNRAPDNLY 37 (264)
Q Consensus 9 miL~rLf~~Lf~~GvvlVaTSN~~P~dLy 37 (264)
..|-.+|..+.+.|..+|.|||++|.+|-
T Consensus 231 ~~l~~~~n~l~~~~~~iiits~~~p~~l~ 259 (450)
T PRK00149 231 EEFFHTFNALHEAGKQIVLTSDRPPKELP 259 (450)
T ss_pred HHHHHHHHHHHHCCCcEEEECCCCHHHHH
Confidence 35667788999999999999999999975
No 57
>PRK06620 hypothetical protein; Validated
Probab=38.73 E-value=47 Score=29.16 Aligned_cols=43 Identities=21% Similarity=0.235 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhccE---EEEeCC
Q 024706 10 ILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERCV---VHEIGS 64 (264)
Q Consensus 10 iL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~~---V~~ld~ 64 (264)
.|-.+|..+.+.|..+|.||.++|.++ + ++-|..++. |+++..
T Consensus 101 ~lf~l~N~~~e~g~~ilits~~~p~~l-----------~-l~~L~SRl~~gl~~~l~~ 146 (214)
T PRK06620 101 ALLHIFNIINEKQKYLLLTSSDKSRNF-----------T-LPDLSSRIKSVLSILLNS 146 (214)
T ss_pred HHHHHHHHHHhcCCEEEEEcCCCcccc-----------c-hHHHHHHHhCCceEeeCC
Confidence 455788888899999999999999953 1 245666666 888876
No 58
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=36.92 E-value=32 Score=33.84 Aligned_cols=44 Identities=23% Similarity=0.357 Sum_probs=31.8
Q ss_pred HHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhcc---EEEEeCC
Q 024706 11 LNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERC---VVHEIGS 64 (264)
Q Consensus 11 L~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~---~V~~ld~ 64 (264)
+-.+|..+...|..+|.|||++|.+|-. .-+.|..+| .++.+..
T Consensus 224 lf~l~N~l~~~~k~IIlts~~~p~~l~~----------l~~rL~SR~~~Gl~~~l~~ 270 (445)
T PRK12422 224 FFHTFNSLHTEGKLIVISSTCAPQDLKA----------MEERLISRFEWGIAIPLHP 270 (445)
T ss_pred HHHHHHHHHHCCCcEEEecCCCHHHHhh----------hHHHHHhhhcCCeEEecCC
Confidence 4467777888999999999999999742 224555565 5666654
No 59
>KOG1783 consensus Small nuclear ribonucleoprotein F [RNA processing and modification]
Probab=36.84 E-value=32 Score=25.69 Aligned_cols=25 Identities=36% Similarity=0.574 Sum_probs=20.6
Q ss_pred HHHHHHhccEEEEeCCCCCcCCCCc
Q 024706 49 FISTLKERCVVHEIGSSVDYRKMTS 73 (264)
Q Consensus 49 fI~~L~~~~~V~~ld~~~DYR~~~~ 73 (264)
|+..|--+..+|.|.++.|||-...
T Consensus 10 fl~~iiGr~V~VKl~sgvdyrG~l~ 34 (77)
T KOG1783|consen 10 FLKAIIGRTVVVKLNSGVDYRGTLV 34 (77)
T ss_pred HHHHHhCCeEEEEecCCccccceeh
Confidence 6667777889999999999997543
No 60
>PF05862 IceA2: Helicobacter pylori IceA2 protein; InterPro: IPR008655 This family consists of several Helicobacter pylori specific IceA2 proteins. The function of this family is unknown.
Probab=36.75 E-value=21 Score=25.34 Aligned_cols=25 Identities=24% Similarity=0.524 Sum_probs=20.2
Q ss_pred HCCCEEEEcCCCCchhhccCCCcccc
Q 024706 20 NNGVILVSTSNRAPDNLYERGLQRDL 45 (264)
Q Consensus 20 ~~GvvlVaTSN~~P~dLy~ngl~r~~ 45 (264)
+-|+|-+.|||-.-++ |+||.+|..
T Consensus 34 ~g~~VA~~ta~Gkvee-Y~ng~~~rt 58 (59)
T PF05862_consen 34 DGGIVAAVTANGKVEE-YKNGSHRRT 58 (59)
T ss_pred CCCEEEEEecCCceee-eecceeecc
Confidence 3478889999988776 899998864
No 61
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=36.63 E-value=59 Score=29.02 Aligned_cols=48 Identities=15% Similarity=0.239 Sum_probs=35.9
Q ss_pred cccCeEEEcCCCCCCC---------------C--C-hhHHHHHHHHHHHHHhcCCeEEEEecCChh
Q 024706 147 KIFHTLALEGIPIFGL---------------H--N-RTAAYRFVTLVDVMYENRARLLCTAEGSPF 194 (264)
Q Consensus 147 ~~f~ti~i~~VP~l~~---------------~--~-~~~arRFI~LID~lYd~~vkL~~sa~~~~~ 194 (264)
..|+||+|+.|-.|.. . . .....+|+.++..|++.+..++++|-..-.
T Consensus 80 ~~ydtVVIDsI~~l~~~~~~~~~r~~k~~~~~~~~yg~~~~~fl~~l~~L~~~g~nII~tAhe~~~ 145 (220)
T TIGR01618 80 VKYDNIVIDNISALQNLWLENIGRAAKNGQPELQHYQKLDLWFLDLLTVLKESNKNIYATAWELTN 145 (220)
T ss_pred ccCCEEEEecHHHHHHHHHHHHhhhcCCCCcccccHHHHHHHHHHHHHHHHhCCCcEEEEEeeccc
Confidence 4599999998866532 0 0 114578999999999999999999976443
No 62
>PLN02237 glyceraldehyde-3-phosphate dehydrogenase B
Probab=34.58 E-value=1.2e+02 Score=30.12 Aligned_cols=101 Identities=20% Similarity=0.291 Sum_probs=58.4
Q ss_pred HHHHHHHHCCCEEEEcCCCCchh----hccCCCcccch------------------hhHHHHHHhccEEEE---------
Q 024706 13 RLFRHLFNNGVILVSTSNRAPDN----LYERGLQRDLF------------------LPFISTLKERCVVHE--------- 61 (264)
Q Consensus 13 rLf~~Lf~~GvvlVaTSN~~P~d----Ly~ngl~r~~F------------------lPfI~~L~~~~~V~~--------- 61 (264)
.....-.+.|+..|.-| .++.+ ++==|+|++.+ .|.+..|.+++.|.+
T Consensus 180 e~a~~hl~aGAkkV~iS-AP~~d~dvptvV~GVN~~~~~~~~~~IISnaSCTTNcLAPvlkvL~d~fGI~~g~mTTvHs~ 258 (442)
T PLN02237 180 PGAGKHIQAGAKKVIIT-APAKGADIPTYVVGVNEDDYDHEVANIVSNASCTTNCLAPFVKVLDEEFGIVKGTMTTTHSY 258 (442)
T ss_pred HHHHHHHhCCCEEEEEC-CCCCCCCCceEecccCHHHhCcCCCCEEECCchHHHHHHHHHHHHHHhcCeeEEEEEEEEec
Confidence 34455668899888888 33222 33345565444 688999998887766
Q ss_pred ------eCCC-CCcCCCCccCcceeeCCcChHHHHHHHHHHHhCCCCCCCCceeEEcCeeeeeeecCCCe
Q 024706 62 ------IGSS-VDYRKMTSAQQGFYFVGKGSSEVMKQKFRDLIGEHEAGPQEVEVVMGRKLQVPLGANGC 124 (264)
Q Consensus 62 ------ld~~-~DYR~~~~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~~~v~~gR~l~v~~~~~~v 124 (264)
+|+. .|+|+..+...+..+..-++.+.+.+.+-.+.|. +.|-.++||-....+
T Consensus 259 T~dQ~~~D~~h~D~Rr~Raaa~nIIPtsTGAAkAv~~VlP~L~GK----------l~g~A~RVPt~nvS~ 318 (442)
T PLN02237 259 TGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAVSLVLPQLKGK----------LNGIALRVPTPNVSV 318 (442)
T ss_pred cCCcccccCCCcccccccccccccccCCcchhhhhceecccCCCc----------eeeEEEecccCCceE
Confidence 4543 5899876666555544444444444434333321 245556666555443
No 63
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=34.34 E-value=36 Score=35.18 Aligned_cols=28 Identities=29% Similarity=0.379 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHCCCEEEEcCCCCchhh
Q 024706 9 LILNRLFRHLFNNGVILVSTSNRAPDNL 36 (264)
Q Consensus 9 miL~rLf~~Lf~~GvvlVaTSN~~P~dL 36 (264)
-.|-.+|..+.+.|..||.|||++|.+|
T Consensus 397 eeLF~l~N~l~e~gk~IIITSd~~P~eL 424 (617)
T PRK14086 397 EEFFHTFNTLHNANKQIVLSSDRPPKQL 424 (617)
T ss_pred HHHHHHHHHHHhcCCCEEEecCCChHhh
Confidence 3455789999999988999999999998
No 64
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=33.46 E-value=89 Score=26.99 Aligned_cols=45 Identities=11% Similarity=0.126 Sum_probs=33.3
Q ss_pred hcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCe-EEEEecCCh
Q 024706 146 FKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRAR-LLCTAEGSP 193 (264)
Q Consensus 146 a~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vk-L~~sa~~~~ 193 (264)
....++++|++|..++. .....+..+++.+++.+.. +++++..++
T Consensus 88 ~~~~~~liiDdi~~l~~---~~~~~L~~~~~~~~~~~~~~vl~~~~~~~ 133 (227)
T PRK08903 88 DPEAELYAVDDVERLDD---AQQIALFNLFNRVRAHGQGALLVAGPAAP 133 (227)
T ss_pred cccCCEEEEeChhhcCc---hHHHHHHHHHHHHHHcCCcEEEEeCCCCH
Confidence 45688999999988743 4456778899999998764 666665554
No 65
>PTZ00315 2'-phosphotransferase; Provisional
Probab=32.49 E-value=55 Score=33.59 Aligned_cols=32 Identities=19% Similarity=0.320 Sum_probs=28.3
Q ss_pred hhhHHHHHHHHHHHHHCCCEEEEcCCCCchhh
Q 024706 5 VADALILNRLFRHLFNNGVILVSTSNRAPDNL 36 (264)
Q Consensus 5 IaDAmiL~rLf~~Lf~~GvvlVaTSN~~P~dL 36 (264)
+.||..+.+||..|+++|+++-+|+-..|..=
T Consensus 238 lDDA~ntA~L~~~Ll~~g~~~~~t~~~~~~~~ 269 (582)
T PTZ00315 238 IDDCRNIAAVLCELLRRGLVIDPTFDTAPFRR 269 (582)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEecCCCChhhh
Confidence 57999999999999999999999997777543
No 66
>cd00223 TOPRIM_TopoIIB_SPO TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) and Saccharomyces cerevisiae meiotic recombination factor: Spo11. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. TopoVI enzymes are heterotetramers found in archaea and plants. Spo11 plays a role in generating the double strand breaks that initiate homologous recombination during meiosis. S. shibatae TopoVI relaxes both positive and negative supercoils, and in addition has a strong decatenase activity. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspart
Probab=30.67 E-value=1.4e+02 Score=24.83 Aligned_cols=54 Identities=17% Similarity=0.339 Sum_probs=38.4
Q ss_pred eHHHHhcCCCCcccHHHHhcccCeEEEc--CCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhhc
Q 024706 128 EFEELCDKPLGAADYFGLFKIFHTLALE--GIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQLF 197 (264)
Q Consensus 128 ~F~eLC~~p~~~~DYl~La~~f~ti~i~--~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~Lf 197 (264)
.|..||...... ..++++|+ |-| ....|+|+..+.... +++++...+.+|.-+-
T Consensus 11 vf~~L~~~~~~~--------~~~~ilit~kG~P------~~~tr~~l~~L~~~~--~~~~~~l~D~DP~Gi~ 66 (160)
T cd00223 11 VFQRLIEEGFHE--------RNNCILITGKGYP------DRATRRFLRRLHEEL--DLPVYILVDGDPYGIS 66 (160)
T ss_pred HHHHHHHcCccc--------cCCEEEEEcCCcC------CHHHHHHHHHHHHhh--CCCEEEEECCCcchhh
Confidence 478888764221 44566665 555 347899999887665 8999999999887754
No 67
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=30.32 E-value=41 Score=35.05 Aligned_cols=62 Identities=21% Similarity=0.362 Sum_probs=39.2
Q ss_pred HHHHHHHHHH----HCCCEEEEcCCCC----chhhccCCCcccchhhH------HHHHHhccEEEEeCCCCCcCCC
Q 024706 10 ILNRLFRHLF----NNGVILVSTSNRA----PDNLYERGLQRDLFLPF------ISTLKERCVVHEIGSSVDYRKM 71 (264)
Q Consensus 10 iL~rLf~~Lf----~~GvvlVaTSN~~----P~dLy~ngl~r~~FlPf------I~~L~~~~~V~~ld~~~DYR~~ 71 (264)
++..|+..|- ..+++||+|+|++ |.-|-++.+.+..++|. .++++.+..-..++...|+...
T Consensus 574 ~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~l~~l 649 (733)
T TIGR01243 574 IVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEEL 649 (733)
T ss_pred HHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCCHHHH
Confidence 4455555553 3588999999996 45555577777777763 4556655555555555665543
No 68
>TIGR02463 MPGP_rel mannosyl-3-phosphoglycerate phosphatase-related protein. This family consists of members of the HAD superfamily, subfamily IIB. All members are closely related to mannosyl-3-phosphoglycerate phosphatase, the second enzyme in a two-step pathway for biosynthesis of mannosylglycerate, a compatible solute present in some thermophiles and in Dehalococcoides ethenogenes. However, members of this family are separable in a neighbor-joining tree constructed from a multiple sequence alignment and are found only in mesophiles that lack the companion mannosyl-3-phosphoglycerate synthase (TIGR02460). Members of this family are like to act on a compound related to yet distinct from mannosyl-3-phosphoglycerate.
Probab=28.56 E-value=1e+02 Score=26.31 Aligned_cols=48 Identities=6% Similarity=-0.008 Sum_probs=33.9
Q ss_pred HHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhc-cEEEEeCCCCCcC
Q 024706 12 NRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKER-CVVHEIGSSVDYR 69 (264)
Q Consensus 12 ~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~-~~V~~ld~~~DYR 69 (264)
...++.|-++|+.++..|||++..+.+ +++.+.-. +.++..+|+.=|.
T Consensus 22 ~~~l~~l~~~gi~~~i~TgR~~~~~~~----------~~~~l~~~~~~~I~~NGa~i~~ 70 (221)
T TIGR02463 22 APWLTRLQEAGIPVILCTSKTAAEVEY----------LQKALGLTGDPYIAENGAAIHL 70 (221)
T ss_pred HHHHHHHHHCCCeEEEEcCCCHHHHHH----------HHHHcCCCCCcEEEeCCcEEEc
Confidence 477888899999999999999987644 33333323 5577777765444
No 69
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=28.22 E-value=53 Score=27.73 Aligned_cols=65 Identities=15% Similarity=0.145 Sum_probs=43.8
Q ss_pred HHHhcCCCCc--------ccHHHHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHH----------HhcCCeEEEEecC
Q 024706 130 EELCDKPLGA--------ADYFGLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVM----------YENRARLLCTAEG 191 (264)
Q Consensus 130 ~eLC~~p~~~--------~DYl~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~l----------Yd~~vkL~~sa~~ 191 (264)
.+|.|...++ .-.++.|+ --|+||++|-.| ..+...++..+|+.= ...+|+|++++..
T Consensus 68 ~~LFG~~~~~~~~~~~~~~G~l~~A~-~GtL~Ld~I~~L---~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~ 143 (168)
T PF00158_consen 68 SELFGHEKGAFTGARSDKKGLLEQAN-GGTLFLDEIEDL---PPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSK 143 (168)
T ss_dssp HHHHEBCSSSSTTTSSEBEHHHHHTT-TSEEEEETGGGS----HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS
T ss_pred hhhhccccccccccccccCCceeecc-ceEEeecchhhh---HHHHHHHHHHHHhhchhccccccccccccceEEeecCc
Confidence 5677664332 24666665 469999999998 555666777777753 2348999999999
Q ss_pred Chhhhcc
Q 024706 192 SPFQLFN 198 (264)
Q Consensus 192 ~~~~Lf~ 198 (264)
+++++..
T Consensus 144 ~l~~~v~ 150 (168)
T PF00158_consen 144 DLEELVE 150 (168)
T ss_dssp -HHHHHH
T ss_pred CHHHHHH
Confidence 9999875
No 70
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=28.16 E-value=65 Score=27.51 Aligned_cols=28 Identities=25% Similarity=0.324 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHCCCEEEEcCCCCchhh
Q 024706 9 LILNRLFRHLFNNGVILVSTSNRAPDNL 36 (264)
Q Consensus 9 miL~rLf~~Lf~~GvvlVaTSN~~P~dL 36 (264)
-.|..+++.+.+.|..+|.|||..|.++
T Consensus 110 ~~L~~~l~~~~~~~~~iIits~~~~~~~ 137 (226)
T TIGR03420 110 EALFHLYNRVREAGGRLLIAGRAAPAQL 137 (226)
T ss_pred HHHHHHHHHHHHcCCeEEEECCCChHHC
Confidence 3566777777778889999999998765
No 71
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=26.87 E-value=51 Score=26.34 Aligned_cols=38 Identities=24% Similarity=0.247 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHH---CCCEEEEcCCCCchhhccCCCcccch
Q 024706 9 LILNRLFRHLFN---NGVILVSTSNRAPDNLYERGLQRDLF 46 (264)
Q Consensus 9 miL~rLf~~Lf~---~GvvlVaTSN~~P~dLy~ngl~r~~F 46 (264)
-.-.+|++.|-+ ..+.+|+||..++++|.+.|..+..+
T Consensus 84 ~~Q~~L~~~l~~~~~~~~RlI~ss~~~l~~l~~~~~~~~~L 124 (138)
T PF14532_consen 84 EAQRRLLDLLKRQERSNVRLIASSSQDLEELVEEGRFSPDL 124 (138)
T ss_dssp HHHHHHHHHHHHCTTTTSEEEEEECC-CCCHHHHSTHHHHH
T ss_pred HHHHHHHHHHHhcCCCCeEEEEEeCCCHHHHhhccchhHHH
Confidence 344566666654 47999999999999998876655444
No 72
>PF07082 DUF1350: Protein of unknown function (DUF1350); InterPro: IPR010765 This family consists of several hypothetical proteins from both cyanobacteria and plants. Members of this family are typically around 250 residues in length. The function of this family is unknown but the species distribution indicates that the family may be involved in photosynthesis.
Probab=26.42 E-value=56 Score=29.97 Aligned_cols=40 Identities=20% Similarity=0.378 Sum_probs=31.0
Q ss_pred HHHHHHHHHHCCCEEEEcCCCCchhhccCCCcc--------cchhhHHHHHHhcc
Q 024706 11 LNRLFRHLFNNGVILVSTSNRAPDNLYERGLQR--------DLFLPFISTLKERC 57 (264)
Q Consensus 11 L~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r--------~~FlPfI~~L~~~~ 57 (264)
=++|++.|+++|.+||||. |.+|+.| +.|.-..+.|.++.
T Consensus 36 Yr~lLe~La~~Gy~ViAtP-------y~~tfDH~~~A~~~~~~f~~~~~~L~~~~ 83 (250)
T PF07082_consen 36 YRYLLERLADRGYAVIATP-------YVVTFDHQAIAREVWERFERCLRALQKRG 83 (250)
T ss_pred HHHHHHHHHhCCcEEEEEe-------cCCCCcHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3689999999999999996 6778887 45666666666544
No 73
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=26.12 E-value=55 Score=32.11 Aligned_cols=49 Identities=29% Similarity=0.309 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHCCCEEEEcCCCCchhhccCCCcccchhhHHHHHHhccEEEEeCC
Q 024706 9 LILNRLFRHLFNNGVILVSTSNRAPDNLYERGLQRDLFLPFISTLKERCVVHEIGS 64 (264)
Q Consensus 9 miL~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl~r~~FlPfI~~L~~~~~V~~ld~ 64 (264)
.-+=.+|.+|.+.|--||.||.++|.+|-. ++|-+.-=-+.+.++++..
T Consensus 195 eefFh~FN~l~~~~kqIvltsdr~P~~l~~-------~~~rL~SR~~~Gl~~~I~~ 243 (408)
T COG0593 195 EEFFHTFNALLENGKQIVLTSDRPPKELNG-------LEDRLRSRLEWGLVVEIEP 243 (408)
T ss_pred HHHHHHHHHHHhcCCEEEEEcCCCchhhcc-------ccHHHHHHHhceeEEeeCC
Confidence 344568899999999999999999999853 2233332233446777765
No 74
>PF13524 Glyco_trans_1_2: Glycosyl transferases group 1
Probab=24.06 E-value=69 Score=23.33 Aligned_cols=29 Identities=21% Similarity=0.438 Sum_probs=23.1
Q ss_pred HHHHHHHHHCCCEEEEcCCCCchhhccCCC
Q 024706 12 NRLFRHLFNNGVILVSTSNRAPDNLYERGL 41 (264)
Q Consensus 12 ~rLf~~Lf~~GvvlVaTSN~~P~dLy~ngl 41 (264)
.|+|+.+ ..|+++|.+.+....+++++|-
T Consensus 13 ~r~~E~~-a~G~~vi~~~~~~~~~~~~~~~ 41 (92)
T PF13524_consen 13 MRIFEAM-ACGTPVISDDSPGLREIFEDGE 41 (92)
T ss_pred hHHHHHH-HCCCeEEECChHHHHHHcCCCC
Confidence 4778777 7899999999977777787764
No 75
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=23.59 E-value=82 Score=27.27 Aligned_cols=50 Identities=10% Similarity=0.086 Sum_probs=40.9
Q ss_pred cccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhhc
Q 024706 147 KIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQLF 197 (264)
Q Consensus 147 ~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~Lf 197 (264)
++++.|+|+ .|-.+..+.+....+-.+++.+....+-|+++|....+++-
T Consensus 82 ~~~D~vlID-T~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~ 131 (196)
T PF00448_consen 82 KGYDLVLID-TAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLE 131 (196)
T ss_dssp TTSSEEEEE-E-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHH
T ss_pred cCCCEEEEe-cCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHH
Confidence 458999995 67777777788889999999998889999999988777764
No 76
>KOG2383 consensus Predicted ATPase [General function prediction only]
Probab=22.44 E-value=1.4e+02 Score=29.69 Aligned_cols=53 Identities=15% Similarity=0.292 Sum_probs=37.0
Q ss_pred HHhcccCeEEEcCCCCCCCCChhHHHHHHHHHHHHHhcCCeEEEEecCChhhhccc
Q 024706 144 GLFKIFHTLALEGIPIFGLHNRTAAYRFVTLVDVMYENRARLLCTAEGSPFQLFNK 199 (264)
Q Consensus 144 ~La~~f~ti~i~~VP~l~~~~~~~arRFI~LID~lYd~~vkL~~sa~~~~~~Lf~~ 199 (264)
+||+.-..+..+..-+-+.++.-..+| |.-.|..+||-|++++.-+|++||..
T Consensus 189 eIa~ea~lLCFDEfQVTDVADAmiL~r---Lf~~Lf~~GvVlvATSNR~P~dLYkn 241 (467)
T KOG2383|consen 189 EIAEEAILLCFDEFQVTDVADAMILKR---LFEHLFKNGVVLVATSNRAPEDLYKN 241 (467)
T ss_pred HHhhhceeeeechhhhhhHHHHHHHHH---HHHHHHhCCeEEEEeCCCChHHHhhc
Confidence 466776666666554432233333344 55678899999999999999999975
No 77
>PF12149 HSV_VP16_C: Herpes simplex virus virion protein 16 C terminal; InterPro: IPR021051 This domain is about 30 amino acids in length. It is found in association with PF02232 from PFAM. This domain is found in the C-terminal region of the HSV virion protein 16 (alpha-TIF). This protein is a transcription promoter. The C-terminal domain is the carboxyl subdomain of the acidic transcriptional activation domain. The protein binds to DNA binding proteins to carry out its function. Such proteins include TATA binding protein, CBP, TBP-binding protein, etc. Alpha-TIF (VP16) from Herpes Simplex virus is an essential tegument protein involved in the transcriptional activation of viral immediate early (IE) promoters (alpha genes) during the lytic phase of viral infection. VP16 associates with cellular transcription factors to enhance transcription rates, including the general transcription factor TFIIB and the transcriptional coactivator PC4. The N-terminal residues of VP16 confer specificity for the IE genes, while the C-terminal residues are responsible for transcriptional activation. Within the C-terminal region are two activation regions that can independently and cooperatively activate transcription []. VP16 forms a transcriptional regulatory complex with two cellular proteins, the POU-domain transcription factor Oct-1 and the cell-proliferation factor HCF-1 []. VP16 is an alpha/beta protein with an unusual fold. Other transcription factors may have a similar topology.; PDB: 2K2U_B 2PHG_B 2PHE_C.
Probab=22.18 E-value=29 Score=21.08 Aligned_cols=25 Identities=40% Similarity=0.739 Sum_probs=19.8
Q ss_pred eecCCCeEEeeHHHHhcCCCCcccH
Q 024706 118 PLGANGCAYFEFEELCDKPLGAADY 142 (264)
Q Consensus 118 ~~~~~~va~f~F~eLC~~p~~~~DY 142 (264)
|-.+-.++-|.|++.....+|..||
T Consensus 4 ~ygald~adfefeqmftdalgid~f 28 (30)
T PF12149_consen 4 PYGALDMADFEFEQMFTDALGIDEF 28 (30)
T ss_dssp TTCCCTCCCCCHHCCCCCCCCTCCC
T ss_pred ccccchhhhHHHHHHHhhhhCcccc
Confidence 3344567889999999999998876
No 78
>PF09984 DUF2222: Uncharacterized signal transduction histidine kinase domain (DUF2222); InterPro: IPR019247 This entry is found at the N terminus of various BarA-like signal transduction histidine kinases. These proteins are involved in the regulation of carbon metabolism via the csrA/csrB regulatory system. The role of this domain has not, as yet, been established. ; GO: 0004673 protein histidine kinase activity
Probab=21.23 E-value=1e+02 Score=25.83 Aligned_cols=25 Identities=32% Similarity=0.373 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHC--CCE-----------EEEcCCCCch
Q 024706 10 ILNRLFRHLFNN--GVI-----------LVSTSNRAPD 34 (264)
Q Consensus 10 iL~rLf~~Lf~~--Gvv-----------lVaTSN~~P~ 34 (264)
.|+||...+-.+ ..| |++|||++++
T Consensus 37 ~l~rLi~~~hr~~S~~VrsIaiFD~~n~L~vTSn~h~~ 74 (146)
T PF09984_consen 37 SLRRLISAAHRRHSPIVRSIAIFDANNQLFVTSNYHRD 74 (146)
T ss_pred HHHHHHHHHHHhCCCceEEEEEEcCCCcEEEECCCcCC
Confidence 467788877765 343 8999999987
No 79
>COG4138 BtuD ABC-type cobalamin transport system, ATPase component [Coenzyme metabolism]
Probab=21.10 E-value=1.2e+02 Score=27.04 Aligned_cols=27 Identities=37% Similarity=0.570 Sum_probs=25.0
Q ss_pred ChhhHHHHHHHHHHHHHCCCEEEEcCC
Q 024706 4 DVADALILNRLFRHLFNNGVILVSTSN 30 (264)
Q Consensus 4 DIaDAmiL~rLf~~Lf~~GvvlVaTSN 30 (264)
|||--..|.||+.+|...|..+|+.|-
T Consensus 164 DvAQ~~aLdrll~~~c~~G~~vims~H 190 (248)
T COG4138 164 DVAQQSALDRLLSALCQQGLAIVMSSH 190 (248)
T ss_pred hHHHHHHHHHHHHHHHhCCcEEEEecc
Confidence 899999999999999999999999763
No 80
>PLN02358 glyceraldehyde-3-phosphate dehydrogenase
Probab=20.49 E-value=4.2e+02 Score=25.27 Aligned_cols=125 Identities=15% Similarity=0.208 Sum_probs=67.3
Q ss_pred HHHHHHHHCCCEEEEcCCCCch-hhccCCCcccch-----------------hhHHHHHHhccEEEE-------------
Q 024706 13 RLFRHLFNNGVILVSTSNRAPD-NLYERGLQRDLF-----------------LPFISTLKERCVVHE------------- 61 (264)
Q Consensus 13 rLf~~Lf~~GvvlVaTSN~~P~-dLy~ngl~r~~F-----------------lPfI~~L~~~~~V~~------------- 61 (264)
..-....+.|+..|.-|+-.|+ .|.==|+|.+.+ .|.+..|.+++-|.+
T Consensus 110 ~~a~~hl~aGak~ViiSap~~dvp~iV~gVN~~~~~~~~~IISnasCTTn~Lap~lk~L~~~fgI~~~~mTTiha~T~~q 189 (338)
T PLN02358 110 DKAAAHLKGGAKKVVISAPSKDAPMFVVGVNEHEYKSDLDIVSNASCTTNCLAPLAKVINDRFGIVEGLMTTVHSITATQ 189 (338)
T ss_pred HHHHHHHHCCCEEEEeCCCCCCCCeEecCcCHHHhCCCCCEEECCCchHHHHHHHHHHHHHhcCeeEEEEEEEEeecCcc
Confidence 3445566899988888877665 255556676555 567888888776655
Q ss_pred --eCCC--CCcCCCCccCcceeeCCcChHHHHHHHHHHHhCCCCCCCCceeEEcCeeeeeeecCCCeEEeeHHHHhcCCC
Q 024706 62 --IGSS--VDYRKMTSAQQGFYFVGKGSSEVMKQKFRDLIGEHEAGPQEVEVVMGRKLQVPLGANGCAYFEFEELCDKPL 137 (264)
Q Consensus 62 --ld~~--~DYR~~~~~~~~~~~~~~~~~~~l~~~f~~~~~~~~~~~~~~~v~~gR~l~v~~~~~~va~f~F~eLC~~p~ 137 (264)
+|+. .|+|+..+...+..+...++...+.+++-.+.+ + +.|-.++||-..+...-+++. ..+|.
T Consensus 190 ~l~d~~~~~d~r~~ra~a~NiIP~~tGaaka~~kIlP~l~g---------k-l~g~avRVPv~~gs~~dl~v~--~~~~~ 257 (338)
T PLN02358 190 KTVDGPSMKDWRGGRAASFNIIPSSTGAAKAVGKVLPSLNG---------K-LTGMSFRVPTVDVSVVDLTVR--LEKAA 257 (338)
T ss_pred cccCCCCCccccCccccccccccCCcchhhhhhhccccCCC---------c-EEEEEEEeeEcCeeEEEEEEE--ECCCC
Confidence 3443 466654433333322222222333333311111 1 357788888877665433322 23455
Q ss_pred CcccHHHHhccc
Q 024706 138 GAADYFGLFKIF 149 (264)
Q Consensus 138 ~~~DYl~La~~f 149 (264)
+..+=.++-+..
T Consensus 258 t~eev~~~l~~a 269 (338)
T PLN02358 258 TYDEIKKAIKEE 269 (338)
T ss_pred CHHHHHHHHHHH
Confidence 555554444444
No 81
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=20.37 E-value=1.2e+02 Score=22.50 Aligned_cols=25 Identities=16% Similarity=0.379 Sum_probs=19.2
Q ss_pred HHHHHHHHHCCCEEEEcCCCCchhh
Q 024706 12 NRLFRHLFNNGVILVSTSNRAPDNL 36 (264)
Q Consensus 12 ~rLf~~Lf~~GvvlVaTSN~~P~dL 36 (264)
..+++.|-++|+.++.-||+.+..+
T Consensus 30 ~~~l~~l~~~g~~i~ivS~~~~~~~ 54 (139)
T cd01427 30 KEALKELKEKGIKLALATNKSRREV 54 (139)
T ss_pred HHHHHHHHHCCCeEEEEeCchHHHH
Confidence 4678889999988888888875444
No 82
>COG5440 Uncharacterized conserved protein [Function unknown]
Probab=20.21 E-value=1.7e+02 Score=25.07 Aligned_cols=44 Identities=23% Similarity=0.331 Sum_probs=33.7
Q ss_pred HHHHHHHHHCCCEEEEcCCCC-------chhhccCCCcccchhhHHHHHHh
Q 024706 12 NRLFRHLFNNGVILVSTSNRA-------PDNLYERGLQRDLFLPFISTLKE 55 (264)
Q Consensus 12 ~rLf~~Lf~~GvvlVaTSN~~-------P~dLy~ngl~r~~FlPfI~~L~~ 55 (264)
-.|=..|...||-.+++=|-. -.+||-+||.+..|+-.|..+.+
T Consensus 85 ~~l~~dLlr~~v~F~~~Pn~~~pqsiqvsrelf~DGLtkn~~idai~~V~n 135 (161)
T COG5440 85 WKLRRDLLRLGVDFQALPNPRDPQSIQVSRELFFDGLTKNELIDAIKNVVN 135 (161)
T ss_pred HHHHHHHHhcCCceEecCCccCCceeEeehhhhhccccHHHHHHHHHHHHh
Confidence 345567888999999999921 13578899999999998886643
Done!