Query 030402
Match_columns 178
No_of_seqs 107 out of 1045
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 13:11:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030402.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030402hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd07181 RNaseH_typeII_eukaryot 100.0 4.7E-50 1E-54 327.2 15.6 161 17-177 1-162 (216)
2 cd07180 RNaseH_typeII_Archaea_ 100.0 4.3E-48 9.4E-53 313.1 14.8 154 17-177 1-156 (204)
3 KOG2299 Ribonuclease HI [Repli 100.0 8E-48 1.7E-52 314.7 14.7 174 3-176 14-194 (301)
4 cd06590 RNaseH_typeII_bacteria 100.0 2.7E-47 5.9E-52 309.2 15.3 157 17-177 1-159 (208)
5 cd06266 RNaseH_typeII Ribonucl 100.0 5.5E-47 1.2E-51 304.0 13.5 149 17-177 1-149 (193)
6 TIGR00729 ribonuclease H, mamm 100.0 3.3E-46 7.2E-51 302.5 15.0 154 16-177 1-157 (206)
7 PRK14551 rnhB ribonuclease HII 100.0 1.6E-45 3.4E-50 299.7 15.3 151 15-177 1-153 (212)
8 PRK00996 ribonuclease HIII; Pr 100.0 3.9E-44 8.5E-49 305.2 16.9 160 14-177 87-250 (304)
9 PRK13925 rnhB ribonuclease HII 100.0 1.5E-44 3.3E-49 291.0 13.2 145 13-177 7-151 (198)
10 cd07182 RNaseH_typeII_bacteria 100.0 3.1E-44 6.6E-49 285.4 13.2 136 17-177 1-136 (179)
11 PRK14550 rnhB ribonuclease HII 100.0 2.7E-44 5.8E-49 290.6 12.6 146 15-177 1-146 (204)
12 PRK00015 rnhB ribonuclease HII 100.0 5.3E-44 1.1E-48 287.8 14.0 138 14-177 18-155 (197)
13 PF01351 RNase_HII: Ribonuclea 100.0 4E-44 8.7E-49 288.4 13.1 153 17-177 1-153 (198)
14 COG0164 RnhB Ribonuclease HII 100.0 3.3E-44 7.1E-49 287.3 12.5 141 15-177 1-141 (199)
15 TIGR00716 rnhC ribonuclease HI 100.0 5.9E-43 1.3E-47 295.4 15.0 159 14-177 81-240 (284)
16 PRK13926 ribonuclease HII; Pro 100.0 5.4E-42 1.2E-46 277.7 15.5 136 14-177 22-157 (207)
17 COG1039 RnhC Ribonuclease HIII 100.0 9.3E-40 2E-44 272.0 14.2 160 14-177 83-245 (297)
18 PF12686 DUF3800: Protein of u 82.6 18 0.00039 28.1 9.7 112 16-127 1-152 (235)
19 PHA03297 envelope glycoprotein 54.0 6.2 0.00013 30.8 0.9 10 24-33 148-157 (185)
20 TIGR01441 GPR GPR endopeptidas 41.5 30 0.00065 30.6 3.3 33 56-91 297-329 (358)
21 PRK12362 germination protease; 40.8 33 0.00072 29.9 3.4 34 55-91 264-297 (318)
22 KOG0179 20S proteasome, regula 28.5 25 0.00054 29.0 0.7 16 14-29 128-143 (235)
23 COG3817 Predicted membrane pro 24.5 21 0.00045 30.4 -0.5 46 26-71 50-95 (313)
24 PHA02762 hypothetical protein; 24.2 48 0.001 21.4 1.2 17 10-26 24-41 (62)
25 KOG3668 Phosphatidylinositol t 22.2 54 0.0012 27.7 1.6 27 14-40 160-197 (269)
26 PF10832 DUF2559: Protein of u 22.0 79 0.0017 20.3 1.9 17 55-71 1-17 (54)
27 KOG1767 40S ribosomal protein 21.9 2E+02 0.0042 21.1 4.2 48 49-105 20-78 (110)
28 PF10150 RNase_E_G: Ribonuclea 21.3 3.3E+02 0.0071 22.9 6.2 36 50-85 15-51 (271)
29 PRK02858 germination protease; 20.7 97 0.0021 27.6 2.9 33 56-91 308-340 (369)
No 1
>cd07181 RNaseH_typeII_eukaryota_like Eukaryotic Ribonuclease HII; putative role in Okazaki fragment removal during replication. Ribonuclease (RNase) HII endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication and repair. RNase H is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, and eukaryotic RNase H2/HII). The enzyme can be found in bacteria, archaea, and eukaryotes. Most prokaryotic and eukaryotic genomes contain multiple RNase H genes. Despite a lack of evidence for homology from sequence comparisons, type I and type II RNase H share a common fold and similar steric configurations of the four acidic active-site residues, suggesting identical or very similar catalytic mechanisms. Eukaryotic RNase HII is a type II RNase H that is active during replication and is believed to play a role in removal
Probab=100.00 E-value=4.7e-50 Score=327.18 Aligned_cols=161 Identities=65% Similarity=1.022 Sum_probs=144.2
Q ss_pred eeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcC-ceeEEEEEEchhchhHHhhhhc
Q 030402 17 MGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVND-SVGWAVDIIDPRELSAKMLNKN 95 (178)
Q Consensus 17 iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~-~~~~~i~~i~~~~id~~~~~~~ 95 (178)
+|||||||||+|||||||||+++++..+.+..+|++|||+||+++|++||++|++.. .+.|.+.+++|++||+.+...+
T Consensus 1 iGiDEaGRG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~L~~~I~~~~~~~~~~i~~i~~~~id~~~~~~~ 80 (216)
T cd07181 1 LGIDEAGRGPVLGPMVYGIAYCPISYEEDLKKLGFADSKTLTEEKREELFKKIKEKSEALGWATRILSPQYISAKMLART 80 (216)
T ss_pred CCCcCCCCCCChhhhEEEEEEEchHhhhhhhhcCCCcCCcCCHHHHHHHHHHHHhccccceEEEEEECHHHHCHHhhhcc
Confidence 699999999999999999999998877778788999999999999999999998732 5689999999999998765444
Q ss_pred cchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccCCCcceEEeecCcchhhHHHHHHHHHHHHhhcc
Q 030402 96 KINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRSNFER 175 (178)
Q Consensus 96 ~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~~~~~~~~~~KgD~~~~sVAAASIiAKv~RD~~ 175 (178)
..|+|+++++++.+++++++..+..+..++||+++++++|.++|+..+++.++++++|||++|++||||||||||+||++
T Consensus 81 ~~nln~~~~~~~~~~i~~~~~~~~~~~~vliD~~~~~~~~~~~L~~~~~~~~~~~~~kaD~~~~~VAAASIvAKV~RD~~ 160 (216)
T cd07181 81 KYNLNEISHDAAIGLIKSVLDKGVNVTEVYVDTVGPPEKYQAKLKKLFPGIKFTVEKKADSLYPIVSAASIVAKVTRDRA 160 (216)
T ss_pred cccHHHHHHHHHHHHHHHHHcCCCCCCEEEECCCCChhHHHHhhhhcCCCCceEEeeCcccccHHHHHHHHHHHHHHHHH
Confidence 67999999999999998877666678899999999989999999766666778899999999999999999999999999
Q ss_pred cc
Q 030402 176 MD 177 (178)
Q Consensus 176 M~ 177 (178)
|.
T Consensus 161 m~ 162 (216)
T cd07181 161 LK 162 (216)
T ss_pred HH
Confidence 85
No 2
>cd07180 RNaseH_typeII_Archaea_like Archaeal ribonuclease HII. Ribonuclease (RNase) H is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, archaeal RNase HII and eukaryotic RNase H2/HII). RNase H endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication or repair. Some archaeal RNase HII show broad divalent cation specificity. It is proposed that three of the four acidic residues at the active site are involved in metal binding and the fourth one involved in the catalytic process in archaea. Most archaeal genomes contain multiple RNase H genes. Despite a lack of evidence for homology from sequence comparisons, type I and type II RNase H share a common fold and similar steric configurations of the four acidic active-site residues, suggesting identical or very similar catalytic mechanisms. It appears tha
Probab=100.00 E-value=4.3e-48 Score=313.10 Aligned_cols=154 Identities=35% Similarity=0.548 Sum_probs=137.9
Q ss_pred eeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhhhcc
Q 030402 17 MGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNK 96 (178)
Q Consensus 17 iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~~~ 96 (178)
+|||||||||+|||||||||+++++....|..+|++|||+||+++|++||++|++. .+.|++.+++|++||+++ ..
T Consensus 1 iGiDEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~-~~~~~i~~i~~~~id~~~---~~ 76 (204)
T cd07180 1 CGIDEAGRGPVIGPMVVAGVAIDEESLKKLKSLGVKDSKKLTPKKREELYNEILKV-ADDVVIVIVSPEEIDERR---EA 76 (204)
T ss_pred CCCCCCCCCCcccceEEEEEEECHHHhhhHhhcCCCcCCCCCHHHHHHHHHHHHhc-CCeEEEEEECHHHhChhh---hh
Confidence 69999999999999999999999987778888999999999999999999999974 678999999999999876 35
Q ss_pred chHHHHHHHHHHHHHHHHHhcCCCccEEEEcCC-CChHHHHHHhhccC-CCcceEEeecCcchhhHHHHHHHHHHHHhhc
Q 030402 97 INLNEISHDSAIGLITRVLNIGILLTEVYLDTV-GDAEKYQAKLSQRF-PSIKFVVSKKADSLYPVVSGASIVAKRSNFE 174 (178)
Q Consensus 97 ~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~-~~~~~~~~~L~~~~-~~~~~~~~~KgD~~~~sVAAASIiAKv~RD~ 174 (178)
.|+|++++.+|.++++++. ..+..++||++ +.+++|.++|++.+ ++.++++++|||+++++||||||||||+||+
T Consensus 77 ~nln~~~~~~~~~~i~~l~---~~~~~iliD~~~~~~~~~~~~l~~~~~~~~~~~~~~KgD~~~~~VAaASIlAKv~Rd~ 153 (204)
T cd07180 77 HNLNELEAEAFAELINRLS---DKPDIVYVDACDVNEERFAEELRERLNSGVEVIAEHKADAKYPVVSAASIIAKVERDR 153 (204)
T ss_pred cCHHHHHHHHHHHHHHHhh---cCCCEEEEeCCCCCHHHHHHHHHHhcCCCCcEEEEeCCcccCchhhHHHHHHHHHHHH
Confidence 7999999999999998875 24678999999 56788988887654 3467888999999999999999999999999
Q ss_pred ccc
Q 030402 175 RMD 177 (178)
Q Consensus 175 ~M~ 177 (178)
+|.
T Consensus 154 ~m~ 156 (204)
T cd07180 154 EIE 156 (204)
T ss_pred HHH
Confidence 995
No 3
>KOG2299 consensus Ribonuclease HI [Replication, recombination and repair]
Probab=100.00 E-value=8e-48 Score=314.73 Aligned_cols=174 Identities=61% Similarity=0.990 Sum_probs=162.1
Q ss_pred CCCCCC---CCCCCCceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhc----Cce
Q 030402 3 SEAALP---KWASNPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVN----DSV 75 (178)
Q Consensus 3 ~~~~~~---~~~~~~~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~----~~~ 75 (178)
+.++.| -|.+.++++|||||||||++||||+|++|+|.++...|..+|+.|||+|++.+|++||+.|++. ..+
T Consensus 14 s~~~s~vp~~~~~~PcvlGIDEAGRGPVLGPMVYa~~ycP~~~~~~l~~lgfaDSK~L~e~kRe~lf~~i~~d~~~~~~v 93 (301)
T KOG2299|consen 14 SIYFSPVPDEQKSEPCVLGIDEAGRGPVLGPMVYAAAYCPLDYLEDLENLGFADSKTLTEAKREELFNKIKEDEELTSNV 93 (301)
T ss_pred ceeccCCcccccCCceEeeccccCCCCcccceeeEEEeccchhhhhhhhcCccchhhccHHHHHHHHHHHhhhhhhhhce
Confidence 344454 3777899999999999999999999999999999888999999999999999999999999752 247
Q ss_pred eEEEEEEchhchhHHhhhhccchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccCCCcceEEeecCc
Q 030402 76 GWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKAD 155 (178)
Q Consensus 76 ~~~i~~i~~~~id~~~~~~~~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~~~~~~~~~~KgD 155 (178)
+|.+.+++|.+|...|+.++..|||+.+|+.++.+|+.+++.+.+...||+|++|+|.+|+.+|++.||++++++..|||
T Consensus 94 gwA~~~isP~~IS~~Ml~r~kynLNevshdsam~LI~~v~~~gvnvteiyVDTVGpp~~Yq~kLek~FP~~k~tV~kKAD 173 (301)
T KOG2299|consen 94 GWATDCISPREISASMLRRNKYNLNEVSHDSAMGLIDEVLDQGVNVTEIYVDTVGPPAKYQEKLEKRFPGIKFTVTKKAD 173 (301)
T ss_pred eeEeeecCHHHHHHHHHHHhcCCchhhhhHHHHHHHHHHHHhCCceEEEEEecCCChHHHHHHHHhhCCCeEEEEeeccc
Confidence 89999999999999999889999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhHHHHHHHHHHHHhhccc
Q 030402 156 SLYPVVSGASIVAKRSNFERM 176 (178)
Q Consensus 156 ~~~~sVAAASIiAKv~RD~~M 176 (178)
+.|+.||+|||+|||+||+.+
T Consensus 174 SlfpiVS~ASI~AKVtRD~al 194 (301)
T KOG2299|consen 174 SLFPIVSAASIVAKVTRDRAL 194 (301)
T ss_pred ccccchhhhhhhhhhhhcccc
Confidence 999999999999999999643
No 4
>cd06590 RNaseH_typeII_bacteria_HIII_like bacterial Ribonuclease HIII-like. Ribonuclease H (RNase H) is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, and eukaryotic RNase H2). RNase H endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication and repair. Several bacteria, such as Bacillus subtilis, have two different type II RNases H, RNases HII and HIII. RNases HIII are distinguished by having a large (70-90 residues) N-terminal extension of unknown function. In addition, the active site of RNase HIII differs from that of other RNases H; replacing the fourth residue (aspartate) of the acidic "DEDD" motif with a glutamate. Most prokaryotic and eukaryotic genomes contain multiple RNase H genes, however, no prokaryotic genomes contain the combination of both RNase HI and HIII. This mutual exclusive gen
Probab=100.00 E-value=2.7e-47 Score=309.20 Aligned_cols=157 Identities=24% Similarity=0.335 Sum_probs=141.3
Q ss_pred eeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhhhcc
Q 030402 17 MGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNK 96 (178)
Q Consensus 17 iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~~~ 96 (178)
+|||||||||+|||||+|||+++++....|..+|++|||+||+++|++||+.|++ .+.|++..++|++||.++. +.
T Consensus 1 iGiDEaGRG~~~GPlVvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~--~~~~~v~~i~~~~in~~~~--~~ 76 (208)
T cd06590 1 IGSDEVGKGDYFGPLVVAAVYVDKENISKLKKLGVKDSKKLTDKKIIRLAPKIKK--KIPYSVLSLGPEKYNELYK--KG 76 (208)
T ss_pred CCCCCCCCCCCcCccEEEEEEEcHHHHHHHHHCCCCcCCcCCHHHHHHHHHHHHh--cCCEEEEecCHHHHHHHHH--cc
Confidence 6999999999999999999999987777788899999999999999999999987 4789999999999998752 26
Q ss_pred chHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccC--CCcceEEeecCcchhhHHHHHHHHHHHHhhc
Q 030402 97 INLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRF--PSIKFVVSKKADSLYPVVSGASIVAKRSNFE 174 (178)
Q Consensus 97 ~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~--~~~~~~~~~KgD~~~~sVAAASIiAKv~RD~ 174 (178)
.|+|.++.++|.++++++...+..+..+++|+++.+++|..+|.+.+ +++++++++|||++|++||||||||||+||+
T Consensus 77 ~nln~l~~~~~~~ai~~l~~~~~~~~~v~vD~~~~~~~~~~~l~~~~~~~~~~~~~~~kaD~~~~~VaAASIlAKv~Rd~ 156 (208)
T cd06590 77 KNLNKLKALLHNKAINNLLEKPKKPVAILIDQFASEKVYKRYLKKEKKIVKEPLIFRTKAESKHLAVAAASILARYAFLE 156 (208)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCCCCEEEecCCCCHHHHHHHHHhhccCCCCceEEEecCcccchHHHHHHHHHHHHHHH
Confidence 79999999999999998875445578999999999999999998765 5678899999999999999999999999999
Q ss_pred ccc
Q 030402 175 RMD 177 (178)
Q Consensus 175 ~M~ 177 (178)
.|.
T Consensus 157 ~m~ 159 (208)
T cd06590 157 KME 159 (208)
T ss_pred HHH
Confidence 985
No 5
>cd06266 RNaseH_typeII Ribonuclease H type II. Ribonuclease H (RNase H) is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, and eukaryotic RNase H2/HII). RNase H endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication and repair. The enzyme can be found in bacteria, archaea, and eukaryotes. Most prokaryotic and eukaryotic genomes contain multiple RNase H genes, however, no prokaryotic genome contained the combination of only RNase HI and HIII. Despite a lack of evidence for homology from sequence comparisons, type I and type II RNase H share a common fold and similar steric configurations of the four acidic active-site residues, suggesting identical or very similar catalytic mechanisms. It appears that type I and type II RNases H also have overlapping functions in cells, as over-expression of Escheri
Probab=100.00 E-value=5.5e-47 Score=304.04 Aligned_cols=149 Identities=38% Similarity=0.552 Sum_probs=135.2
Q ss_pred eeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhhhcc
Q 030402 17 MGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNK 96 (178)
Q Consensus 17 iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~~~ 96 (178)
+|||||||||+|||||||||+++.+..+.|..+||+|||+||+++|++|++.|++ ..+.|.+.+++|++||+
T Consensus 1 iGiDEaGrG~~~GPlvva~v~~~~~~~~~l~~~gv~DSK~Lt~~~r~~l~~~I~~-~~~~~~v~~~~p~~id~------- 72 (193)
T cd06266 1 AGIDEAGRGPLAGPVVAAAVILPKENIEILKILGVKDSKKLSEKKREELFEEIKE-EALAYAIGIISPEEIDE------- 72 (193)
T ss_pred CCCcccCcCCcchheEEEEEEEchhhcccccccCCCCcccCCHHHHHHHHHHHHh-hCCeEEEEEECHHHHCH-------
Confidence 6999999999999999999999999888889999999999999999999999998 46899999999999975
Q ss_pred chHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccCCCcceEEeecCcchhhHHHHHHHHHHHHhhccc
Q 030402 97 INLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRSNFERM 176 (178)
Q Consensus 97 ~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~~~~~~~~~~KgD~~~~sVAAASIiAKv~RD~~M 176 (178)
.|+|+++..+|.+++.++. ..+..++||++++++.|+. +...+++.++++++|||++|++||||||||||+||+.|
T Consensus 73 ~nl~~~~~~~~~~~i~~l~---~~~~~i~iD~~~~~~~~~~-~~~~~~~~~~~~~~kaD~~~~~VaAASIiAKv~rd~~m 148 (193)
T cd06266 73 LNILQATALAMARAILNLG---VKPDEVLVDGNGVPEKYFA-LEKKFLPIPVTAIVKGDSKSPSVAAASILAKVTRDRLM 148 (193)
T ss_pred HHHHHHHHHHHHHHHHhcC---CCCCEEEECCCCChhhhhh-hcccCCCCCeEEEeccccccHhHHHHHHHHHHHHHHHH
Confidence 5999999999988887764 4578999999999998877 44455677899999999999999999999999999998
Q ss_pred c
Q 030402 177 D 177 (178)
Q Consensus 177 ~ 177 (178)
.
T Consensus 149 ~ 149 (193)
T cd06266 149 E 149 (193)
T ss_pred H
Confidence 5
No 6
>TIGR00729 ribonuclease H, mammalian HI/archaeal HII subfamily. Archaeal members of this subfamily of RNase H are designated RNase HII and one has been shown to be active as a monomer. A member from Homo sapiens was characterized as RNase HI, large subunit.
Probab=100.00 E-value=3.3e-46 Score=302.52 Aligned_cols=154 Identities=36% Similarity=0.528 Sum_probs=131.3
Q ss_pred eeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhhhc
Q 030402 16 IMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKN 95 (178)
Q Consensus 16 ~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~~ 95 (178)
++|||||||||+|||||||||+++++..+.|+.+||+|||+||+++|++|+++|++. .+.|.+.+++|++||+.+
T Consensus 1 iiGiDEaGrG~~~GPlvva~v~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~-~~~~~i~~i~p~~id~~~---- 75 (206)
T TIGR00729 1 VAGIDEAGRGPVIGPLVVGVFAIEEKREEELRKLGVKDSKKLTPGRREELFSKIRNK-LGRYEVLKITPEEIDRER---- 75 (206)
T ss_pred CcCccCCCCCCccCceEEEEEEechhhhhhHhhcCCccCCcCCHHHHHHHHHHHHhh-cCcEEEEEEcHHHHChHH----
Confidence 589999999999999999888877766667788999999999999999999999873 578999999999999753
Q ss_pred cchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHh-h--ccCCCcceEEeecCcchhhHHHHHHHHHHHHh
Q 030402 96 KINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKL-S--QRFPSIKFVVSKKADSLYPVVSGASIVAKRSN 172 (178)
Q Consensus 96 ~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L-~--~~~~~~~~~~~~KgD~~~~sVAAASIiAKv~R 172 (178)
..|+|++++.+|.++++++.. .+..++||+++.++.++.+. . ..+|+.++++++|||++|++||||||||||+|
T Consensus 76 ~~nln~~~~~a~~~~i~~l~~---~~~~v~iD~~~~~~~~~~~~~~~~~~~~~~~~~~~~KaD~~~~~VAAASIlAKv~R 152 (206)
T TIGR00729 76 NINLNENEIEKFSKAAIILIE---KPSEVYVDSVDVNPKRFKREIKIKERIEGIKVIAEHKADAKYPVVSAASIIAKVER 152 (206)
T ss_pred HhhHHHHHHHHHHHHHHHHhc---CCcEEEEcCCCCcHHHHHHHHHHhccCCCCcEEEEeccccccchhhHHHHHHHHHH
Confidence 479999999999988887742 35789999998765543332 2 24566778899999999999999999999999
Q ss_pred hcccc
Q 030402 173 FERMD 177 (178)
Q Consensus 173 D~~M~ 177 (178)
|++|.
T Consensus 153 D~~m~ 157 (206)
T TIGR00729 153 DREIE 157 (206)
T ss_pred HHHHH
Confidence 99985
No 7
>PRK14551 rnhB ribonuclease HII; Provisional
Probab=100.00 E-value=1.6e-45 Score=299.72 Aligned_cols=151 Identities=27% Similarity=0.382 Sum_probs=130.0
Q ss_pred ceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhhh
Q 030402 15 CIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNK 94 (178)
Q Consensus 15 ~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~ 94 (178)
.++|||||||||+|||||||||+++++.. ..||+|||+||+++|++||++|++...+.|.+.+++|++||+
T Consensus 1 ~~iGiDEaGRG~v~GPlVvaav~~~~~~~----~~gv~DSK~Ls~~~R~~l~~~I~~~~~~~~~i~~isp~~Id~----- 71 (212)
T PRK14551 1 MRFGVDEAGKGPVLGSMFAAAVRADPAAL----PDGIDDSKRLSPERREELAAELREDDAIAVGVAEIPPARIDD----- 71 (212)
T ss_pred CeeCccCCCCCCccccceEEEEEECcccC----cCCCcCcccCCHHHHHHHHHHHHhccCceEEEEEeCHHHHCc-----
Confidence 37999999999999999999999997642 249999999999999999999997423689999999999985
Q ss_pred ccchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCC-ChHHHHHHhhccC-CCcceEEeecCcchhhHHHHHHHHHHHHh
Q 030402 95 NKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVG-DAEKYQAKLSQRF-PSIKFVVSKKADSLYPVVSGASIVAKRSN 172 (178)
Q Consensus 95 ~~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~-~~~~~~~~L~~~~-~~~~~~~~~KgD~~~~sVAAASIiAKv~R 172 (178)
...|+|+++..+|.+++.++.. .++.++||++. ++++|..++++.+ +++++++++|||++|++||||||||||+|
T Consensus 72 ~~~nln~~~~~a~~~ai~~l~~---~~~~v~iD~~~~~~~~~~~~l~~~~~~~~~~~~~~KaD~~~~~VAAASIlAKv~R 148 (212)
T PRK14551 72 PETDMNTLTVAAHAEALSGVAT---DGITGLCDAGDVDAGRFARRVADRVALDVSVSAEHGADEEDPLVGAASIVAKVAR 148 (212)
T ss_pred cccCHHHHHHHHHHHHHHhhcc---CCCEEEECCCCCchHHHHHhhhhccCCCCceEEEecccchhHHHHHHHHHHHHHH
Confidence 2479999999999999887742 36789999984 6677888887654 34677889999999999999999999999
Q ss_pred hcccc
Q 030402 173 FERMD 177 (178)
Q Consensus 173 D~~M~ 177 (178)
|+.|.
T Consensus 149 D~~m~ 153 (212)
T PRK14551 149 DAHVA 153 (212)
T ss_pred HHHHH
Confidence 99985
No 8
>PRK00996 ribonuclease HIII; Provisional
Probab=100.00 E-value=3.9e-44 Score=305.17 Aligned_cols=160 Identities=25% Similarity=0.340 Sum_probs=140.2
Q ss_pred CceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhh
Q 030402 14 PCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLN 93 (178)
Q Consensus 14 ~~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~ 93 (178)
..++|||||||||+|||||||||+++++..+.|+.+||+|||+||+++|++||++|++. +.|++..++|++||+++.
T Consensus 87 ~~viGiDEaGrG~~fGPlvvaav~v~~~~~~~l~~lgv~DSK~Ls~~kr~~La~~I~~~--~~~~v~~~~p~~~n~l~~- 163 (304)
T PRK00996 87 LSLIGSDEVGKGDYFGPLTVAAVYVDKEQIPFLKKLGVKDSKKLTDTKIRQIAPQLREK--IPHSVLLLSPEKYNELQA- 163 (304)
T ss_pred ceEEeecCCCCCCcccceEEEEEEEchhhcchhhhcCCCccccCCHHHHHHHHHHHHHh--cCEEEEEeCHHHhhhHHH-
Confidence 45899999999999999999999999988888899999999999999999999999973 689999999999998753
Q ss_pred hccchHHHHHHHHHHHHHHHHHhc--CCCccEEEEcCCCChHHHHHHhhcc--CCCcceEEeecCcchhhHHHHHHHHHH
Q 030402 94 KNKINLNEISHDSAIGLITRVLNI--GILLTEVYLDTVGDAEKYQAKLSQR--FPSIKFVVSKKADSLYPVVSGASIVAK 169 (178)
Q Consensus 94 ~~~~Nin~~~~~~~~~~i~~~~~~--~~~~~~i~iD~~~~~~~~~~~L~~~--~~~~~~~~~~KgD~~~~sVAAASIiAK 169 (178)
...|+|.+....|.+++.++++. +..++.++||+|+.+++|+++|... ....++++++|||++|++|||||||||
T Consensus 164 -~~~nln~l~a~~h~~ai~~l~~k~~~~~p~~iliD~f~~~~~y~~~l~~e~~~~~~~~~~~~KaD~~~~~VAAASIiAR 242 (304)
T PRK00996 164 -KGYNQNKLKAWLHNQAIDNLLQKIAGIQPEKIVIDQFASPEVYQKYLKKEKNKFRDNVTFETKAESKHLAVAAASIIAR 242 (304)
T ss_pred -hhhhHHHHHHHHHHHHHHHHHhhccCCCCCEEEECCCCCchHHHHHhhhhccCCCCceEEEeccchhhHHHHHHHHHHH
Confidence 34799999888888888887653 4557899999999999999999752 234568899999999999999999999
Q ss_pred HHhhcccc
Q 030402 170 RSNFERMD 177 (178)
Q Consensus 170 v~RD~~M~ 177 (178)
+.|++.|+
T Consensus 243 ~~~l~~~~ 250 (304)
T PRK00996 243 YAFLENMD 250 (304)
T ss_pred HHHHHHHH
Confidence 99998874
No 9
>PRK13925 rnhB ribonuclease HII; Provisional
Probab=100.00 E-value=1.5e-44 Score=291.03 Aligned_cols=145 Identities=20% Similarity=0.298 Sum_probs=123.2
Q ss_pred CCceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhh
Q 030402 13 NPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKML 92 (178)
Q Consensus 13 ~~~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~ 92 (178)
..+++|||||||||+|||||||||+++++....|..+|++|||+||+++|++||++|++. ...|++.+++|.+||+
T Consensus 7 ~~~iiGiDEAGRGpv~GPmVvaav~~~~~~~~~L~~~gv~DSK~Ls~~~Re~l~~~I~~~-~~~~~i~~i~~~eId~--- 82 (198)
T PRK13925 7 SELIAGVDEVGRGALFGPVFAAAVILSEKAEPQLLQAGLTDSKKLSPKRRAQLVPLILTL-ASDWGIGQASAREIDR--- 82 (198)
T ss_pred CCeEEeecCCCCCCChHHhEEEEEEEchHhhhhhhhcCCCCcccCCHHHHHHHHHHHHhh-CCcEEEEEECHHHhCH---
Confidence 468999999999999999999999999887777888999999999999999999999874 5679999999999964
Q ss_pred hhccchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccCCCcceEEeecCcchhhHHHHHHHHHHHHh
Q 030402 93 NKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRSN 172 (178)
Q Consensus 93 ~~~~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~~~~~~~~~~KgD~~~~sVAAASIiAKv~R 172 (178)
.|||+++..+|.+++.++ ...++.|++|+++... .+++. ...++|||++|++||||||||||+|
T Consensus 83 ----~ni~~~~~~a~~~~i~~l---~~~~~~v~iD~~~~~~--------~~~~~-~~~v~kaD~~~~~VaAASIiAKV~R 146 (198)
T PRK13925 83 ----LGIRQATELAMLRALKKL---KSPPSLCLVDGNLPLR--------LWPGP-QRTIVKGDSKSAAIAAASILAKVWR 146 (198)
T ss_pred ----hhHHHHHHHHHHHHHHhc---CCCCCEEEECCccccC--------cCCCC-ceeecccccccHHHHHHHHHHHHHH
Confidence 699999999887777654 2346789999986321 12222 2345799999999999999999999
Q ss_pred hcccc
Q 030402 173 FERMD 177 (178)
Q Consensus 173 D~~M~ 177 (178)
|++|.
T Consensus 147 D~~m~ 151 (198)
T PRK13925 147 DDLIK 151 (198)
T ss_pred HHHHH
Confidence 99985
No 10
>cd07182 RNaseH_typeII_bacteria_HII_like bacterial Ribonuclease HII-like. Bacterial ribonuclease (RNase) HII has a role in primer removal based on its involvement in ribonucleotide-specific catalytic activity in the presence of RNA/DNA hybrid substrates. RNase H is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, and eukaryotic RNase H2). RNase H endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication and repair. Several bacteria, such as Bacillus subtilis, have two different type II RNases H, RNases HII and HIII- double deletion of these leads to cellular lethality. It appears that type I and type II RNases H also have overlapping functions in cells, as over-expression of Escherichia coli RNase HII can complement an RNase HI deletion phenotype in E. coli.
Probab=100.00 E-value=3.1e-44 Score=285.42 Aligned_cols=136 Identities=30% Similarity=0.440 Sum_probs=118.6
Q ss_pred eeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhhhcc
Q 030402 17 MGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNK 96 (178)
Q Consensus 17 iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~~~ 96 (178)
+|+|||||||+|||||||||+++.+... +|++|||+||+++|++|+++|++. .+.|++.+++|++||+
T Consensus 1 ~GiDEaGRG~~~GPlvvaav~~~~~~~~----~gv~DSK~Ls~~~R~~l~~~I~~~-~~~~~v~~~~~~~Id~------- 68 (179)
T cd07182 1 AGVDEAGRGPLAGPVVAAAVILPPDFEI----EGLNDSKKLSEKKREELYEEIKEK-ALAWGIGIASPEEIDR------- 68 (179)
T ss_pred CCCcCccCCCcccceEEEEEEECcccCc----CCCCCcccCCHHHHHHHHHHHHHh-cccEEEEEECHHHHCH-------
Confidence 6999999999999999999999876433 799999999999999999999974 6789999999999974
Q ss_pred chHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccCCCcceEEeecCcchhhHHHHHHHHHHHHhhccc
Q 030402 97 INLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRSNFERM 176 (178)
Q Consensus 97 ~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~~~~~~~~~~KgD~~~~sVAAASIiAKv~RD~~M 176 (178)
.|+|+++..+|.+++.++ ...+..+++|++..+.. ..++++++|||++|++||||||||||+||++|
T Consensus 69 ~nl~~~~~~a~~~ai~~l---~~~~~~v~iD~~~~~~~----------~~~~~~~~KaD~~~~~VaAASIvAKv~RD~~m 135 (179)
T cd07182 69 INILQATLLAMRRAVEGL---PVKPDYVLVDGNRLPPL----------PIPQEAIVKGDAKSASIAAASILAKVTRDRLM 135 (179)
T ss_pred hhHHHHHHHHHHHHHHhC---CCCCCEEEECCcCCCCC----------CCCeEEEeccccccHHHHHHHHHHHHHHHHHH
Confidence 699999999998877765 23568899999975432 23467899999999999999999999999998
Q ss_pred c
Q 030402 177 D 177 (178)
Q Consensus 177 ~ 177 (178)
.
T Consensus 136 ~ 136 (179)
T cd07182 136 I 136 (179)
T ss_pred H
Confidence 5
No 11
>PRK14550 rnhB ribonuclease HII; Provisional
Probab=100.00 E-value=2.7e-44 Score=290.62 Aligned_cols=146 Identities=24% Similarity=0.296 Sum_probs=120.7
Q ss_pred ceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhhh
Q 030402 15 CIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNK 94 (178)
Q Consensus 15 ~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~ 94 (178)
+++|+|||||||+|||||+|||+++++....+..+|++|||+||+++|++||++|++.....|.+..++|++||+
T Consensus 1 ~~~GiDEAGRGpl~GPvVvaav~~~~~~~~~l~~~gv~DSKkLs~~~Re~L~~~I~~~~~~~~~i~~~~~~eID~----- 75 (204)
T PRK14550 1 MTLGIDEAGRGCLAGSLFVAGVACNEKTALEFLKMGLKDSKKLSPKKRFFLEDKIKTHGEVGFFVVKKSANEIDS----- 75 (204)
T ss_pred CeeCccCcCCCCccchheEEEEEEChhhccchhhcCccChhhCCHHHHHHHHHHHHhccCcEEEEEEECHHHHHH-----
Confidence 479999999999999999999999987655666789999999999999999999987433689999999999964
Q ss_pred ccchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccCCCcceEEeecCcchhhHHHHHHHHHHHHhhc
Q 030402 95 NKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRSNFE 174 (178)
Q Consensus 95 ~~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~~~~~~~~~~KgD~~~~sVAAASIiAKv~RD~ 174 (178)
.|+|+++..+|.+++.++ ...++.+++|++..+..+ ..++ ++.+++|||++|++||||||||||+||+
T Consensus 76 --~ni~~a~~~am~~al~~l---~~~~~~vliDg~~~~~~~-----~~~~--~~~~~~KgD~~~~~VAAASIiAKV~RD~ 143 (204)
T PRK14550 76 --LGLGACLKLAIQEILENG---CSLANEIKIDGNTAFGLN-----KRYP--NIQTIIKGDETIAQIAMASVLAKAFKDR 143 (204)
T ss_pred --HHHHHHHHHHHHHHHHhC---CCCCCEEEECCccCcccc-----ccCc--ceeEEEcccccchhHHHHHHHHHHHHHH
Confidence 699999887776666654 335678999988543211 1122 3567899999999999999999999999
Q ss_pred ccc
Q 030402 175 RMD 177 (178)
Q Consensus 175 ~M~ 177 (178)
+|.
T Consensus 144 ~M~ 146 (204)
T PRK14550 144 EML 146 (204)
T ss_pred HHH
Confidence 993
No 12
>PRK00015 rnhB ribonuclease HII; Validated
Probab=100.00 E-value=5.3e-44 Score=287.81 Aligned_cols=138 Identities=30% Similarity=0.428 Sum_probs=120.0
Q ss_pred CceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhh
Q 030402 14 PCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLN 93 (178)
Q Consensus 14 ~~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~ 93 (178)
.+++|||||||||+|||||||||+++.+.. + +||+|||+||+++|++||+.|++. +..|++.+++|++||+
T Consensus 18 ~~viGiDEaGrG~v~GPlvvaav~~~~~~~--l--~gv~DSK~Ls~~~R~~l~~~I~~~-~~~~~i~~isp~~id~---- 88 (197)
T PRK00015 18 GLIAGVDEAGRGPLAGPVVAAAVILDPDRP--I--EGLNDSKKLSEKKREELYEEIKEK-ALAYSVGIASPEEIDE---- 88 (197)
T ss_pred cEEEeecCcCCCCcccceeEEEEEECcccc--c--CCCCCcccCCHHHHHHHHHHHHHh-CceEEEEEcCHHHHHH----
Confidence 579999999999999999999999997632 2 699999999999999999999974 6789999999999975
Q ss_pred hccchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccCCCcceEEeecCcchhhHHHHHHHHHHHHhh
Q 030402 94 KNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRSNF 173 (178)
Q Consensus 94 ~~~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~~~~~~~~~~KgD~~~~sVAAASIiAKv~RD 173 (178)
.|+|+++..++.++++++ ..+..++||+++.++. . +++++++|||++|++||||||||||+||
T Consensus 89 ---~nln~~~~~a~~~~i~~l----~~~~~i~vD~~~~~~~-------~---~~~~~~~kaD~~~~~VaAASIvAKv~RD 151 (197)
T PRK00015 89 ---LNILEATLLAMRRAVEGL----VKPDYVLVDGNRVPKL-------P---IPQEAIVKGDAKSPSIAAASILAKVTRD 151 (197)
T ss_pred ---hhHHHHHHHHHHHHHHhc----CCCCEEEECCCCCCCC-------C---CCeEEEEcCCcccHHHHHHHHHHHHHHH
Confidence 699999999998888776 2467899999986531 1 2356788999999999999999999999
Q ss_pred cccc
Q 030402 174 ERMD 177 (178)
Q Consensus 174 ~~M~ 177 (178)
++|+
T Consensus 152 ~~m~ 155 (197)
T PRK00015 152 RLME 155 (197)
T ss_pred HHHH
Confidence 9985
No 13
>PF01351 RNase_HII: Ribonuclease HII; InterPro: IPR024567 Ribonuclease HII and HIII are endonucleases that specifically degrade the RNA of RNA-DNA hybrids. Proteins which belong to this family have been found in bacteria, archaea, and eukaryota. The domain represented by this entry is found in ribonucleases HII aand HIII.; PDB: 2ETJ_A 3O3H_A 3O3G_A 3O3F_A 3KIO_A 3P5J_A 1UAX_B 2DFF_A 1IO2_A 2DFH_A ....
Probab=100.00 E-value=4e-44 Score=288.37 Aligned_cols=153 Identities=41% Similarity=0.624 Sum_probs=128.1
Q ss_pred eeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhhhcc
Q 030402 17 MGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNK 96 (178)
Q Consensus 17 iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~~~ 96 (178)
+|||||||||+|||||||||+++.+..+.|+.+||+|||+||+++|++|+++|+ .+.+... .+..+.. .....
T Consensus 1 iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~---~i~~~~~--~~~~~~~--~~~~~ 73 (198)
T PF01351_consen 1 IGIDEAGRGDVFGPLVVAAVYLPEEDIEKLKELGVKDSKKLSDKKREELAEKIK---KISYSEV--SPYPIGY--ISPKE 73 (198)
T ss_dssp EEEEEESSS-SBS-EEEEEEEEEGGGHHHHHHTTGCCGTTS-HHHHHHHHHHHH---EEEEEEE--ECHHHHH--HHTTT
T ss_pred CCCCCCCCCCcccchheEEEEeccccHHHHHhhccCccccCCHHHHHHHHHHHH---hhchhhh--hhccccc--cchHH
Confidence 799999999999999999999999999999999999999999999999999999 2444444 4433332 12256
Q ss_pred chHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccCCCcceEEeecCcchhhHHHHHHHHHHHHhhccc
Q 030402 97 INLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRSNFERM 176 (178)
Q Consensus 97 ~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~~~~~~~~~~KgD~~~~sVAAASIiAKv~RD~~M 176 (178)
+|+|.+++..+.++++.+.+.+..++.++||+|+.++++...+.+.++ .++++++|||++|++||||||||||+||++|
T Consensus 74 in~n~i~~~~~~~~~~~l~~~~~~~~~v~iD~~~~~~~~~~~~~~~~~-~~~~~~~Kad~~~~~VAAASIvAK~~rd~~~ 152 (198)
T PF01351_consen 74 INLNNILAALHNAMIRALLKLGVQPDEVLIDQFGSPEKYYNKLEKIFK-IKVVFEPKADSKYPSVAAASIVAKVTRDEMI 152 (198)
T ss_dssp SCHHHHHHHHHHHHHHHHHHTTSEESEEEEEESSSHHHHHHHHHHHST-SEEEEETTHHHCSHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCCceeecchhhcchhcccchheecC-cceeeecccchhhHHHHHHHHHHHHHHHHHH
Confidence 788888888888888888776677889999999999989998887776 7889999999999999999999999999765
Q ss_pred c
Q 030402 177 D 177 (178)
Q Consensus 177 ~ 177 (178)
+
T Consensus 153 ~ 153 (198)
T PF01351_consen 153 E 153 (198)
T ss_dssp H
T ss_pred H
Confidence 3
No 14
>COG0164 RnhB Ribonuclease HII [DNA replication, recombination, and repair]
Probab=100.00 E-value=3.3e-44 Score=287.33 Aligned_cols=141 Identities=32% Similarity=0.464 Sum_probs=120.7
Q ss_pred ceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhhh
Q 030402 15 CIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNK 94 (178)
Q Consensus 15 ~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~ 94 (178)
.++|+|||||||++||||+|||+++++... ...|++||||||+++|++||++|++ .++.|.+.++++.+||
T Consensus 1 ~vaGIDEAGRGpl~GPvV~Aavil~~~~~~--~~~Gl~DSKkLs~~kRe~L~~~I~~-~a~~~~v~~~~~~~Id------ 71 (199)
T COG0164 1 LVAGVDEAGRGPLAGPVVAAAVILPPDRLP--KKLGLKDSKKLSPKKREELFEEIKE-KALAWGVGIIPAEEID------ 71 (199)
T ss_pred CcCcccCCCcCCcccceeEEEEEECccccc--cccCccccccCCHHHHHHHHHHHHh-hccEEEEEEcCHHHHh------
Confidence 479999999999999999999999997654 5579999999999999999999995 4789999999999996
Q ss_pred ccchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccCCCcceEEeecCcchhhHHHHHHHHHHHHhhc
Q 030402 95 NKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRSNFE 174 (178)
Q Consensus 95 ~~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~~~~~~~~~~KgD~~~~sVAAASIiAKv~RD~ 174 (178)
+.||++++..+|.+.+..+. ..++.++||+++.+. ..+.- .+.++|||++|++||||||||||+||+
T Consensus 72 -~~ni~~a~~~am~~av~~l~---~~~~~vlvD~~~~~~--------~l~~~-~~a~~KgDa~~~~IaAASIvAKV~RDr 138 (199)
T COG0164 72 -ELNILEATKLAMRRAVAGLS---SQPDLVLVDGNDLPL--------GLPQP-AVAIIKGDAKSPSIAAASILAKVTRDR 138 (199)
T ss_pred -hhhHHHHHHHHHHHHHHhcc---ccCCEEEEeCCCccc--------cCCCC-cceeeccchhhHHHHHHHHHHHHHHHH
Confidence 48999999999987777664 345899999997332 11111 278999999999999999999999999
Q ss_pred ccc
Q 030402 175 RMD 177 (178)
Q Consensus 175 ~M~ 177 (178)
+|.
T Consensus 139 ~m~ 141 (199)
T COG0164 139 LME 141 (199)
T ss_pred HHH
Confidence 995
No 15
>TIGR00716 rnhC ribonuclease HIII. Two types of ribonuclease H in Bacillus subtilis, RNase HII (rnhB) and RNase HIII (rnhC), are both known experimentally and are quite similar to each other. The only RNase H homolog in the Mycoplasmas resembles rnhC. Archaeal forms resemble HII more closely than HIII. This model describes bacterial RNase III.
Probab=100.00 E-value=5.9e-43 Score=295.42 Aligned_cols=159 Identities=25% Similarity=0.352 Sum_probs=136.9
Q ss_pred CceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhh
Q 030402 14 PCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLN 93 (178)
Q Consensus 14 ~~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~ 93 (178)
..+||||||||||+|||||||||+++++....|+.+||+|||+||+++|++||++|++. +.|++..++|++||.+..
T Consensus 81 ~~viGiDEaGrG~~fGPlvvaav~v~~~~~~~L~~lGv~DSK~Ls~~kr~~la~~I~~~--~~~~i~~l~p~~~n~~~~- 157 (284)
T TIGR00716 81 RSVIGCDESGKGDIFGPLVLCCVYIPEENYLKVSSLNPRDSKRLSDKRIERLALNLKPL--VKAYCYELKPEKYNKLYR- 157 (284)
T ss_pred ceEEeecCCCCCCcccceEEEEEEEChhhhhhhhhcCCCCcccCCHHHHHHHHHHHHHh--CCEEEEEeCHHHhcHHHH-
Confidence 34899999999999999999999999988788889999999999999999999999973 579999999999997642
Q ss_pred hccchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhc-cCCCcceEEeecCcchhhHHHHHHHHHHHHh
Q 030402 94 KNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQ-RFPSIKFVVSKKADSLYPVVSGASIVAKRSN 172 (178)
Q Consensus 94 ~~~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~-~~~~~~~~~~~KgD~~~~sVAAASIiAKv~R 172 (178)
...|+|++..+.|.++|.+++........|+||+|+.++.|++++.. .+++.++++++|||+ |++|||||||||+.|
T Consensus 158 -~~~nln~l~a~~h~~aI~~l~~~~~~~~~i~ID~f~~~~~y~~~l~~~~~~~~~~~~~~KaE~-~~aVAAASIiAR~~~ 235 (284)
T TIGR00716 158 -KFRNLNKMMAHFHKLLIERLLKEECGVSEVVVDQFAPSNPFFNHLKGRDIVGEDVIFETEAER-NLAVAAASIFARYKF 235 (284)
T ss_pred -HHHHHHHHHHHHHHHHHHHHhhCcCCCcEEEECCCCCchHhhhhcccccccCCceeeeccccc-chhhhHHHHHHHHHH
Confidence 34799999999999999888643222357999999988888777753 234567889999998 999999999999999
Q ss_pred hcccc
Q 030402 173 FERMD 177 (178)
Q Consensus 173 D~~M~ 177 (178)
++.|+
T Consensus 236 l~~l~ 240 (284)
T TIGR00716 236 LQSLK 240 (284)
T ss_pred HHHHH
Confidence 98875
No 16
>PRK13926 ribonuclease HII; Provisional
Probab=100.00 E-value=5.4e-42 Score=277.71 Aligned_cols=136 Identities=30% Similarity=0.446 Sum_probs=116.8
Q ss_pred CceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhh
Q 030402 14 PCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLN 93 (178)
Q Consensus 14 ~~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~ 93 (178)
..++|||||||||+|||||||||+++.+. +|++|||+||+++|++||++|++. ...|++.+++|++||+
T Consensus 22 ~~i~GiDEAGRG~~~GPlVvaav~~~~~~------~~~~DSK~Ls~~~R~~L~~~I~~~-~~~~~i~~isp~~Id~---- 90 (207)
T PRK13926 22 LRVAGVDEAGRGAWAGPVVVAAVILPPGE------YPFRDSKTLSPAAREALAEEVRRV-ALAWAVGHAEAAEIDR---- 90 (207)
T ss_pred cEEEeecCcCCCCccccceEEEEEECccC------CCccccccCCHHHHHHHHHHHHHh-CceEEEEEeCHHHHhH----
Confidence 57999999999999999999999998753 479999999999999999999874 5679999999999975
Q ss_pred hccchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccCCCcceEEeecCcchhhHHHHHHHHHHHHhh
Q 030402 94 KNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRSNF 173 (178)
Q Consensus 94 ~~~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~~~~~~~~~~KgD~~~~sVAAASIiAKv~RD 173 (178)
.|+|+++++++.++++++ ...++.+++|+... .+ ..++++++|||++|++||||||||||+||
T Consensus 91 ---~ni~~a~~~a~~~~l~~l---~~~~~~v~~D~~~~----------~~-~~~~~~~~KgD~~~~~VaAASIvAKv~RD 153 (207)
T PRK13926 91 ---LNVLKATHLAAARALARL---AVAPEALVTDYLRL----------PT-PLPLLAPPKADALSPTVAAASLLAKTERD 153 (207)
T ss_pred ---HHHHHHHHHHHHHHHHhc---CCCCCEEEECcccC----------CC-CCCeEEEecCccccHHHHHHHHHHHHHHH
Confidence 699999999888777654 24467899996421 11 24578899999999999999999999999
Q ss_pred cccc
Q 030402 174 ERMD 177 (178)
Q Consensus 174 ~~M~ 177 (178)
++|.
T Consensus 154 ~~m~ 157 (207)
T PRK13926 154 RLMR 157 (207)
T ss_pred HHHH
Confidence 9985
No 17
>COG1039 RnhC Ribonuclease HIII [DNA replication, recombination, and repair]
Probab=100.00 E-value=9.3e-40 Score=272.05 Aligned_cols=160 Identities=24% Similarity=0.300 Sum_probs=146.0
Q ss_pred CceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhh
Q 030402 14 PCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLN 93 (178)
Q Consensus 14 ~~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~ 93 (178)
..+||+||+|+||+|||++||||+++++.++.|.++||+|||+|+|.++.+||+.|++ .+.+.+..++|++||+++.
T Consensus 83 ~~~IGsDEvG~GDyFGpl~v~av~v~~e~~~~L~~lgV~DSKkL~D~kI~~la~~ik~--~i~~~~l~l~p~kYNel~~- 159 (297)
T COG1039 83 KNLIGSDEVGKGDYFGPLVVCAVYVSKENLPKLKELGVKDSKKLSDKKIQQLAPIIKP--LIPHSVLTLDPKKYNELYK- 159 (297)
T ss_pred ccccCCCCCCCCCccCCceEEEEEcCHHHHHHHHhcCCcccccCCHHHHHHHHHHHHH--hcCceEEEEChHHHHHHHH-
Confidence 5799999999999999999999999999999999999999999999999999999998 5899999999999999875
Q ss_pred hccchHHHHHHHHHHHHHHHHHh-cCCCccEEEEcCCCChHHHHHHhhccC--CCcceEEeecCcchhhHHHHHHHHHHH
Q 030402 94 KNKINLNEISHDSAIGLITRVLN-IGILLTEVYLDTVGDAEKYQAKLSQRF--PSIKFVVSKKADSLYPVVSGASIVAKR 170 (178)
Q Consensus 94 ~~~~Nin~~~~~~~~~~i~~~~~-~~~~~~~i~iD~~~~~~~~~~~L~~~~--~~~~~~~~~KgD~~~~sVAAASIiAKv 170 (178)
+..|.|.+..+.|.++|.+++. .+..++.|+||+|.+.+.|.+||.+.. +..+..+.+|||+++++||+|||+||+
T Consensus 160 -k~~N~n~mkt~lH~~ai~~ll~~~~~~~~~ivIDqFa~~~~~~~yl~k~~~~~~~p~~f~~kaEs~~laVAvASIiAR~ 238 (297)
T COG1039 160 -KFNNANSMKTFLHNQAIQNLLPQKGAQPEFIVIDQFASSENYKNYLQKETNKFSEPVLFLTKAESKSLAVAVASIIARY 238 (297)
T ss_pred -hhhhHHHHHHHHHHHHHHHHHHhccCCCeEEEeccccchhHHHHHHHhhccCCCCceeeeecccccchhHHHHHHHHHH
Confidence 4589999988889999999885 677889999999999999999998752 345678999999999999999999999
Q ss_pred Hhhcccc
Q 030402 171 SNFERMD 177 (178)
Q Consensus 171 ~RD~~M~ 177 (178)
.+...|+
T Consensus 239 ~Fl~~~~ 245 (297)
T COG1039 239 AFLQSLK 245 (297)
T ss_pred HHHHHHH
Confidence 9988775
No 18
>PF12686 DUF3800: Protein of unknown function (DUF3800); InterPro: IPR024524 This family of proteins is functionally uncharacterised. Some family members possess a DE motif at their N terminus and a QXXD motif at their C terminus that may be functionally important.
Probab=82.64 E-value=18 Score=28.09 Aligned_cols=112 Identities=19% Similarity=0.193 Sum_probs=57.7
Q ss_pred eeeeccCCCCCc-----cccee-eEEEEecccCchhh--------hhcCcC------------------CCCCCCHHHH-
Q 030402 16 IMGIDEAGRGPV-----LGPMV-YGCLYCPCSYQQTL--------ATLNFA------------------DSKTLKEEKR- 62 (178)
Q Consensus 16 ~iG~DEaGrG~~-----~GPlv-vaav~~~~~~~~~l--------~~~gv~------------------DSK~Ls~~~r- 62 (178)
++.+||+|.-.. -.|.+ +|+++++.+....+ ...+.. +-..++..+|
T Consensus 1 ~iyiDESG~~~~~~~~~~~~~fvl~gv~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lh~~~i~~~~~~~~~~~~~~~~ 80 (235)
T PF12686_consen 1 IIYIDESGNTGPNYSDKNSPYFVLGGVIIEDEDWKKIINEIRSLKKKYGFKEEVEKSELHASDISNGKKDFSKLSKDERQ 80 (235)
T ss_pred CEEEeCCCCCCCCcCCCCCCEEEEEEEEEcHHHHHHHHHHHHHHHHHhCccccchhhhhhHHHhhhcccccccCCHHHHH
Confidence 378999996544 45554 67777877543211 112221 2123344444
Q ss_pred ---HHHHHHhhhcCceeEEEEEEchhchhHHhhhhc-cchHHHHHHHHHHHHHHHHH---hcCCCccEEEEc
Q 030402 63 ---EELFEDLKVNDSVGWAVDIIDPRELSAKMLNKN-KINLNEISHDSAIGLITRVL---NIGILLTEVYLD 127 (178)
Q Consensus 63 ---~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~~-~~Nin~~~~~~~~~~i~~~~---~~~~~~~~i~iD 127 (178)
+.++..|.+.....+...++....++....... ....+......+..+++++. ........|++|
T Consensus 81 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~ll~~~~~~~~~~~~~~~iv~D 152 (235)
T PF12686_consen 81 EFFKDLFDIISELKFIIFIAVIDDKKLYNRSSLDNNKPRDPNKFYNLALRFLLERINMYLQRPNENIIIVID 152 (235)
T ss_pred HHHHHHHHHHHhCCCceEEEEEEeccccchhhhcccccchhHHHHHHHHHHHHHHHHHhhcCCCceEEEEEe
Confidence 777888876532456666677776665422111 11222223333444455554 122334689999
No 19
>PHA03297 envelope glycoprotein L; Provisional
Probab=54.01 E-value=6.2 Score=30.82 Aligned_cols=10 Identities=30% Similarity=0.534 Sum_probs=8.3
Q ss_pred CCCcccceee
Q 030402 24 RGPVLGPMVY 33 (178)
Q Consensus 24 rG~~~GPlvv 33 (178)
-||++||.+.
T Consensus 148 lGCv~Gpffl 157 (185)
T PHA03297 148 LGCFTGPFFL 157 (185)
T ss_pred CCceecceec
Confidence 5999999885
No 20
>TIGR01441 GPR GPR endopeptidase. This model describes a tetrameric protease that makes the rate-limiting first cut in the small, acid-soluble spore proteins (SASP) of Bacillus subtilis and related species. The enzyme lacks clear homology to other known proteases. It processes its own amino end before becoming active to cleave SASPs.
Probab=41.47 E-value=30 Score=30.58 Aligned_cols=33 Identities=21% Similarity=0.304 Sum_probs=19.9
Q ss_pred CCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHh
Q 030402 56 TLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKM 91 (178)
Q Consensus 56 ~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~ 91 (178)
.|++..+.+|..++.+ +.. .-..++|++||..+
T Consensus 297 ~~~~~Ek~~li~EvL~-P~~--~~L~VTPKeID~~i 329 (358)
T TIGR01441 297 TLDEEEKRQLIYEVLN-PLG--HNLMVTPKEVDMFI 329 (358)
T ss_pred cCCHHHHHHHHHHHhC-ccc--CcceECcHhHHHHH
Confidence 3445555555555544 222 23789999999865
No 21
>PRK12362 germination protease; Provisional
Probab=40.82 E-value=33 Score=29.87 Aligned_cols=34 Identities=24% Similarity=0.486 Sum_probs=25.9
Q ss_pred CCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHh
Q 030402 55 KTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKM 91 (178)
Q Consensus 55 K~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~ 91 (178)
|.|+++.+.+|..++.+ +.. .-..++|++||..+
T Consensus 264 ~~~~~~ek~~li~evl~-p~~--~~l~VTPKeID~~i 297 (318)
T PRK12362 264 KSLNQEEKQQLIKEVLS-PYV--GNLIVTPKEIDELI 297 (318)
T ss_pred hccCHHHHHHHHHHHhC-ccC--CcceECcHhHHHHH
Confidence 56788889888888876 322 23789999999865
No 22
>KOG0179 consensus 20S proteasome, regulatory subunit beta type PSMB1/PRE7 [Posttranslational modification, protein turnover, chaperones]
Probab=28.46 E-value=25 Score=28.98 Aligned_cols=16 Identities=44% Similarity=0.812 Sum_probs=13.8
Q ss_pred CceeeeccCCCCCccc
Q 030402 14 PCIMGIDEAGRGPVLG 29 (178)
Q Consensus 14 ~~~iG~DEaGrG~~~G 29 (178)
..+.|+||=|+|.++-
T Consensus 128 ~ilaGiDeeGKG~VyS 143 (235)
T KOG0179|consen 128 NILAGIDEEGKGAVYS 143 (235)
T ss_pred eeeecccccCceeEEe
Confidence 5689999999999864
No 23
>COG3817 Predicted membrane protein [Function unknown]
Probab=24.51 E-value=21 Score=30.45 Aligned_cols=46 Identities=17% Similarity=0.162 Sum_probs=34.2
Q ss_pred CcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhh
Q 030402 26 PVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKV 71 (178)
Q Consensus 26 ~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~ 71 (178)
+..+++++++.++--..+.-....++.--+++|+++||+.++.+..
T Consensus 50 ~~lp~~viG~ivillAliagf~~v~~G~~~~~~~e~re~~A~rlgn 95 (313)
T COG3817 50 DRLPNIVIGLIVILLALIAGFGQVKIGALPELSPEEREKSANRLGN 95 (313)
T ss_pred ccccchhHhHHHHHHHHHHhcCCcccCCCCCCCHHHHHHHHHHhcC
Confidence 6889999888554433333334556778899999999999998875
No 24
>PHA02762 hypothetical protein; Provisional
Probab=24.21 E-value=48 Score=21.41 Aligned_cols=17 Identities=24% Similarity=0.399 Sum_probs=12.3
Q ss_pred CCCC-CceeeeccCCCCC
Q 030402 10 WASN-PCIMGIDEAGRGP 26 (178)
Q Consensus 10 ~~~~-~~~iG~DEaGrG~ 26 (178)
+++. ...+|+||-||=.
T Consensus 24 ~eg~afvtigide~g~ia 41 (62)
T PHA02762 24 FEGEAFVTIGIDENDKIS 41 (62)
T ss_pred ccccEEEEEeECCCCcEE
Confidence 4543 4679999999843
No 25
>KOG3668 consensus Phosphatidylinositol transfer protein [Lipid transport and metabolism; Signal transduction mechanisms]
Probab=22.19 E-value=54 Score=27.68 Aligned_cols=27 Identities=22% Similarity=0.516 Sum_probs=20.1
Q ss_pred CceeeeccCCCCCccc-----------ceeeEEEEecc
Q 030402 14 PCIMGIDEAGRGPVLG-----------PMVYGCLYCPC 40 (178)
Q Consensus 14 ~~~iG~DEaGrG~~~G-----------Plvvaav~~~~ 40 (178)
+-+.-+.++||||+-+ |+..|==.+.-
T Consensus 160 P~~f~s~kTgRGpL~e~w~~~~~~~~~P~McaYKlvtv 197 (269)
T KOG3668|consen 160 PKLFQSEKTGRGPLDENWWETYKSQGMPVMCAYKLVTV 197 (269)
T ss_pred chhheecccccCCCCcchHHHhhccCCCeEEEeeEEEE
Confidence 5567889999999999 87766544443
No 26
>PF10832 DUF2559: Protein of unknown function (DUF2559); InterPro: IPR022541 This family of proteins appear to be restricted to Proteobacteria. The sequences are annotated as YhfG however currently no function is known.
Probab=22.02 E-value=79 Score=20.26 Aligned_cols=17 Identities=24% Similarity=0.520 Sum_probs=13.7
Q ss_pred CCCCHHHHHHHHHHhhh
Q 030402 55 KTLKEEKREELFEDLKV 71 (178)
Q Consensus 55 K~Ls~~~r~~l~~~I~~ 71 (178)
||||++|-..|.++=..
T Consensus 1 kKLTdKQK~~lw~q~Rn 17 (54)
T PF10832_consen 1 KKLTDKQKSRLWEQRRN 17 (54)
T ss_pred CcccHHHHHHHHHHHHH
Confidence 78999998888877553
No 27
>KOG1767 consensus 40S ribosomal protein S25 [Translation, ribosomal structure and biogenesis]
Probab=21.94 E-value=2e+02 Score=21.14 Aligned_cols=48 Identities=19% Similarity=0.244 Sum_probs=31.5
Q ss_pred cCcCCCCCCCHHHH-----------HHHHHHhhhcCceeEEEEEEchhchhHHhhhhccchHHHHHHH
Q 030402 49 LNFADSKTLKEEKR-----------EELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNKINLNEISHD 105 (178)
Q Consensus 49 ~gv~DSK~Ls~~~r-----------~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~~~~Nin~~~~~ 105 (178)
-|-.++|+-|+.+. +++|..|... ...|. +|+|.-+.+ +++||--+..
T Consensus 20 ggk~~KKKWskGk~kdkvnn~Vlfdqatydkl~ke-vp~~k--~it~svl~d------RlkIngsLAr 78 (110)
T KOG1767|consen 20 GGKAKKKKWSKGKVKDKVNNAVLFDQATYDKLLKE-VPKYK--LITPSVLSD------RLKINGSLAR 78 (110)
T ss_pred CCcccccccccchHHHHhhhheeecHHHHHHHHHh-cccce--eecHHHhhh------hhhhchHHHH
Confidence 36789999998653 3466677653 45555 779988864 4677754443
No 28
>PF10150 RNase_E_G: Ribonuclease E/G family; InterPro: IPR019307 Ribonuclease E and Ribonuclease G are related enzymes that cleave a wide variety of RNAs []. RNA-binding protein AU-1 binds to RNA loop regions that are with AU-rich sequences [].; PDB: 2BX2_L 2VRT_D 2VMK_D 2C4R_L 1SMX_B 1SLJ_A 2C0B_L 1SN8_B.
Probab=21.34 E-value=3.3e+02 Score=22.88 Aligned_cols=36 Identities=25% Similarity=0.193 Sum_probs=20.5
Q ss_pred CcCCCCCCCHH-HHHHHHHHhhhcCceeEEEEEEchh
Q 030402 50 NFADSKTLKEE-KREELFEDLKVNDSVGWAVDIIDPR 85 (178)
Q Consensus 50 gv~DSK~Ls~~-~r~~l~~~I~~~~~~~~~i~~i~~~ 85 (178)
++.=||++++. +|.+|-..+.....-.+.+++=+..
T Consensus 15 ~i~vSrKI~d~~~R~~Lk~i~~~~~~~~~GvIiRT~A 51 (271)
T PF10150_consen 15 GIGVSRKISDEEERERLKKILESLLPEGEGVIIRTAA 51 (271)
T ss_dssp T-EE-TTS-TH-HHHHHHHHHHTS--TT-EEEE-GGG
T ss_pred CceecCCCCCchhHHHHHHHHHHhCCCCCeEEEecCc
Confidence 57779999988 8999887776431224566665544
No 29
>PRK02858 germination protease; Provisional
Probab=20.71 E-value=97 Score=27.58 Aligned_cols=33 Identities=27% Similarity=0.504 Sum_probs=19.6
Q ss_pred CCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHh
Q 030402 56 TLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKM 91 (178)
Q Consensus 56 ~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~ 91 (178)
.|++..+.+|..++.+ + .+ .=..++|++||..+
T Consensus 308 ~~~~~Ek~~li~Evl~-P-~g-~~L~VTPKeID~~I 340 (369)
T PRK02858 308 TLEEEEKRQLIYEVLA-P-LG-HNLMVTPKEVDAFI 340 (369)
T ss_pred cCCHHHHHHHHHHHhc-c-cC-CceeECcHhHHHHH
Confidence 3445555555555544 2 22 22689999999865
Done!