Query 025482
Match_columns 252
No_of_seqs 166 out of 1250
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 06:18:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025482.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025482hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02065 ECX1 archaeal exosom 100.0 5.1E-54 1.1E-58 366.6 30.4 228 3-231 2-229 (230)
2 PRK03983 exosome complex exonu 100.0 1.9E-53 4.1E-58 366.1 30.5 231 2-233 7-237 (244)
3 KOG1068 Exosomal 3'-5' exoribo 100.0 3.5E-51 7.7E-56 340.8 21.4 234 1-234 5-238 (245)
4 PRK00173 rph ribonuclease PH; 100.0 2E-49 4.4E-54 339.7 27.8 219 9-229 1-237 (238)
5 TIGR01966 RNasePH ribonuclease 100.0 2E-48 4.4E-53 333.2 28.4 217 10-228 1-235 (236)
6 COG0689 Rph RNase PH [Translat 100.0 6.7E-48 1.5E-52 322.5 24.9 225 3-228 2-229 (230)
7 PRK04282 exosome complex RNA-b 100.0 3E-46 6.4E-51 326.1 25.7 221 5-229 20-270 (271)
8 COG2123 RNase PH-related exori 100.0 2.6E-45 5.5E-50 309.9 25.7 222 4-229 18-271 (272)
9 TIGR03591 polynuc_phos polyrib 100.0 1.6E-41 3.5E-46 327.3 28.8 229 2-233 303-543 (684)
10 KOG1614 Exosomal 3'-5' exoribo 100.0 2.9E-41 6.3E-46 279.0 24.1 226 4-236 17-277 (291)
11 PRK11824 polynucleotide phosph 100.0 4.1E-41 9E-46 325.1 28.1 227 2-231 307-544 (693)
12 KOG1069 Exosomal 3'-5' exoribo 100.0 7.8E-40 1.7E-44 263.7 19.3 204 18-231 4-211 (217)
13 TIGR02696 pppGpp_PNP guanosine 100.0 3.5E-39 7.7E-44 306.7 24.9 227 2-231 328-569 (719)
14 PLN00207 polyribonucleotide nu 100.0 3.1E-38 6.7E-43 305.8 28.3 229 2-233 431-677 (891)
15 KOG1612 Exosomal 3'-5' exoribo 100.0 6.9E-34 1.5E-38 236.5 24.8 230 6-239 18-285 (288)
16 TIGR03591 polynuc_phos polyrib 100.0 9.1E-33 2E-37 266.7 27.1 201 20-231 5-217 (684)
17 KOG1613 Exosomal 3'-5' exoribo 100.0 1.3E-33 2.9E-38 233.2 14.6 219 3-225 30-297 (298)
18 PRK11824 polynucleotide phosph 100.0 7.2E-32 1.6E-36 261.0 26.3 206 19-232 13-227 (693)
19 PF01138 RNase_PH: 3' exoribon 100.0 9.4E-30 2E-34 199.0 16.3 130 18-148 1-132 (132)
20 PLN00207 polyribonucleotide nu 100.0 3.3E-28 7.1E-33 236.3 22.8 204 20-231 89-301 (891)
21 KOG1067 Predicted RNA-binding 99.9 9.7E-24 2.1E-28 192.3 14.9 221 3-231 352-587 (760)
22 TIGR02696 pppGpp_PNP guanosine 99.9 8.4E-22 1.8E-26 188.3 22.1 202 20-231 17-247 (719)
23 COG1185 Pnp Polyribonucleotide 99.9 1.9E-21 4.1E-26 182.3 16.0 227 3-232 306-543 (692)
24 COG1185 Pnp Polyribonucleotide 99.8 7.4E-20 1.6E-24 171.6 19.2 207 20-238 14-233 (692)
25 KOG1067 Predicted RNA-binding 99.7 1.1E-16 2.5E-21 146.4 12.3 202 18-231 54-267 (760)
26 PF03725 RNase_PH_C: 3' exorib 99.3 2.9E-11 6.2E-16 83.6 7.8 65 151-216 1-68 (68)
27 PF09695 YtfJ_HI0045: Bacteria 50.3 63 0.0014 26.0 6.1 29 185-214 130-158 (160)
28 PF06519 TolA: TolA C-terminal 45.7 81 0.0018 23.0 5.7 59 90-149 11-79 (96)
29 PF12651 RHH_3: Ribbon-helix-h 36.7 75 0.0016 19.5 3.7 35 200-234 8-42 (44)
30 PRK14628 hypothetical protein; 34.7 2E+02 0.0044 21.8 6.6 64 175-239 50-116 (118)
31 PF02575 YbaB_DNA_bd: YbaB/Ebf 34.5 1.7E+02 0.0036 20.7 8.1 57 175-232 26-87 (93)
32 PRK00153 hypothetical protein; 33.9 1.9E+02 0.0041 21.2 8.0 66 174-240 33-103 (104)
33 PRK14627 hypothetical protein; 32.4 2E+02 0.0044 21.0 7.2 60 174-234 31-95 (100)
34 PF01402 RHH_1: Ribbon-helix-h 28.2 80 0.0017 18.2 2.8 32 201-232 6-37 (39)
35 PF03333 PapB: Adhesin biosynt 27.6 86 0.0019 22.7 3.2 32 198-229 20-51 (91)
36 PHA01623 hypothetical protein 26.1 1.1E+02 0.0024 19.9 3.3 35 200-234 19-53 (56)
37 PRK14622 hypothetical protein; 25.5 2.8E+02 0.0061 20.4 7.2 66 174-240 31-101 (103)
38 PRK14624 hypothetical protein; 25.4 3E+02 0.0065 20.8 7.0 67 175-242 37-108 (115)
39 COG3625 PhnH Uncharacterized e 23.2 4.3E+02 0.0093 21.8 7.7 97 101-199 19-145 (196)
40 KOG2925 Predicted translation 23.0 28 0.00061 27.6 0.0 41 162-202 64-104 (167)
No 1
>TIGR02065 ECX1 archaeal exosome-like complex exonuclease 1. This family contains the archaeal protein orthologous to the eukaryotic exosome protein Rrp41. It is somewhat more distantly related to the bacterial protein ribonuclease PH. An exosome-like complex has been demonstrated experimentally for the Archaea in Sulfolobus solfataricus, so members of this family are designated exosome complex exonuclease 1, after usage in SwissProt.
Probab=100.00 E-value=5.1e-54 Score=366.58 Aligned_cols=228 Identities=46% Similarity=0.770 Sum_probs=215.7
Q ss_pred ccCCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcccc
Q 025482 3 FVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDR 82 (252)
Q Consensus 3 ~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~~ 82 (252)
+++++|.|+|||.++|+|++++++|++++++|||++++|+|+|+|+|+||.+...+....|++|.++|+|++.||++.++
T Consensus 2 ~~~~~~~R~DGR~~~e~R~~~~~~g~~~~a~GSa~~~~G~T~Vl~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~a~~~~ 81 (230)
T TIGR02065 2 LILEDGVRLDGRKPDELRPIKIEAGVLKNADGSAYVEFGGTKIIAAVYGPREMHPRHLQLPDRAVLRVRYHMAPFSTDER 81 (230)
T ss_pred cccCCCcCCCCCCcccccCeEEEECCCCCCCeEEEEEECCcEEEEEEeCCCccccccccCCCceEEEEEEEeCCcccCCc
Confidence 67889999999999999999999999999999999999999999999999988766666789999999999999998765
Q ss_pred cCCCCCCchHHHHHHHHHHHHHHhhccccCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCCeeceeeEEEeeeeC
Q 025482 83 MRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLN 162 (252)
Q Consensus 83 ~~~~~~~~~~~~l~~~l~~~l~~~i~l~~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp~~~~~~avs~~~~~ 162 (252)
++ +++++++.+++++|++++++++.++.||++.|+|.++||++||++++|++||+++||.|+||||+++|+++++++++
T Consensus 82 ~~-~~~~~~~~~~s~~l~~~l~~~i~~~~~p~~~i~i~v~vl~~DG~~~~aai~aa~lAL~dagIp~~~~v~avtv~~~~ 160 (230)
T TIGR02065 82 KR-PGPSRREIEISKVIREALEPAILLEQFPRTAIDVFIEVLQADAGTRCAGLTAASLALADAGIPMRDLVVGVAVGKVD 160 (230)
T ss_pred cC-CCCCccHHHHHHHHHHHHHHHhChhhcCCeEEEEEEEEEEcCCCHHHHHHHHHHHHHHHcCCccccceeeEEEEEEC
Confidence 53 45788889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CeeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEeecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 163 STPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDAKLPTNTFEDVMQLAIEGCKAVANYIREVRKFL 231 (252)
Q Consensus 163 ~~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~ 231 (252)
+.+++|||.+||+.+.+.++|++++..++|+++++.|.++++++.++++.|.+.|+++.++|++++++.
T Consensus 161 ~~~v~Dpt~~Ee~~~~~~l~va~~~~~~~i~~i~~~g~~~~e~~~~~l~~a~~~~~~l~~~~~~~l~~~ 229 (230)
T TIGR02065 161 GVVVLDLNEEEDMYGEADMPVAMMPKLGEITLLQLDGDMTPDEFRQALDLAVKGIKIIYQIQREALKNK 229 (230)
T ss_pred CeEEECCCHHHhhcCCCceEEEEeCCCCCEEEEEEecCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 999999999999999999999987888999999999999999999999999999999999999998764
No 2
>PRK03983 exosome complex exonuclease Rrp41; Provisional
Probab=100.00 E-value=1.9e-53 Score=366.08 Aligned_cols=231 Identities=48% Similarity=0.789 Sum_probs=217.4
Q ss_pred cccCCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCccc
Q 025482 2 EFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGD 81 (252)
Q Consensus 2 e~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~ 81 (252)
++++++|+|+|||+++|+|++++++|++++++|||++++|+|+|+|+|+||.|+..+....|++|.+.|++++.|+++.+
T Consensus 7 ~~~~~~~~R~DGR~~~~~R~i~i~~G~l~~a~GSa~v~~G~T~Vl~~V~gp~e~~~~~~~~~~~~~l~v~~~~~p~~~~~ 86 (244)
T PRK03983 7 KLILEDGLRLDGRKPDELRPIKIEVGVLKNADGSAYLEWGNNKIIAAVYGPREMHPRHLQLPDRAVLRVRYNMAPFSVDE 86 (244)
T ss_pred hhhccCCCCCCCCCcCcccceEEEeCCCCCCCeEEEEEECCeEEEEEEecCCccccccccCCCcEEEEEEEEcCCCcccc
Confidence 46788999999999999999999999999999999999999999999999999877766779999999999999999876
Q ss_pred ccCCCCCCchHHHHHHHHHHHHHHhhccccCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCCeeceeeEEEeeee
Q 025482 82 RMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYL 161 (252)
Q Consensus 82 ~~~~~~~~~~~~~l~~~l~~~l~~~i~l~~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp~~~~~~avs~~~~ 161 (252)
++ .+++++++.+++++|+++|++++.++.||++.|+|.++||++|||+++|++||+++||+|+||||+++|++++++++
T Consensus 87 ~~-~~~~~~~~~~~s~~l~~~l~~~i~~~~~p~~~I~I~i~VL~~DG~~~~aai~Aa~lAL~dagIp~~~~v~avtv~~~ 165 (244)
T PRK03983 87 RK-RPGPDRRSIEISKVIREALEPAIMLELFPRTVIDVFIEVLQADAGTRVAGITAASLALADAGIPMRDLVAGCAVGKV 165 (244)
T ss_pred cc-CCCCChhHHHHHHHHHHHHHHhccHHhCCCeEEEEEEEEEECCCCHHHHHHHHHHHHHHhcCCccccceeEEEEEEE
Confidence 54 34577888899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEeecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 025482 162 NSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDAKLPTNTFEDVMQLAIEGCKAVANYIREVRKFLLI 233 (252)
Q Consensus 162 ~~~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~ 233 (252)
++.+++|||.+||+.+++.++|+++++.++|+++++.|.++.+++.++++.|.+.|+++.++|++++++...
T Consensus 166 ~~~~i~DPt~~Ee~~~~~~l~va~~~~~~~I~~l~~~G~~~~~~~~~~i~~A~~~~~~i~~~i~~~l~~~~~ 237 (244)
T PRK03983 166 DGVIVLDLNKEEDNYGEADMPVAIMPRLGEITLLQLDGNLTREEFLEALELAKKGIKRIYQLQREALKSKYG 237 (244)
T ss_pred CCEEEECCCHHHhccCCceEEEEEECCCCCEEEEEEecCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999998767899999999999999999999999999999999999999987643
No 3
>KOG1068 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp41 and related exoribonucleases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.5e-51 Score=340.77 Aligned_cols=234 Identities=54% Similarity=0.857 Sum_probs=224.0
Q ss_pred CcccCCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcc
Q 025482 1 MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTG 80 (252)
Q Consensus 1 ~e~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~ 80 (252)
+|+++++|.|.|||.++|.|+|..++|++++++||||+++|+|||+|.|+||+|++..+..+++++.++|.|.+.+|++.
T Consensus 5 ~~~~seeg~r~dgRr~~elR~i~~~~g~~~~a~GSay~E~GnTKVl~aV~GPre~~~~~~~~~~~a~lnc~~~~a~Fst~ 84 (245)
T KOG1068|consen 5 YETLSEEGLRTDGRRPNELRRIYARIGVLTQADGSAYMEQGNTKVLCAVYGPREIRGKSARRPDKAVLNCEVSSAQFSTG 84 (245)
T ss_pred ccccCccccccCCCChhHhhhhhhhcCccccCCccchhhcCCeEEEEEEeCCcccccccccccccceEEEEEeeeccccc
Confidence 57899999999999999999999999999999999999999999999999999988876667899999999999999999
Q ss_pred cccCCCCCCchHHHHHHHHHHHHHHhhccccCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCCeeceeeEEEeee
Q 025482 81 DRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGY 160 (252)
Q Consensus 81 ~~~~~~~~~~~~~~l~~~l~~~l~~~i~l~~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp~~~~~~avs~~~ 160 (252)
+++++++.+.++++++.+|+++|+++|.+++||+++|+|.|+||++||+.+++|+||+.+||.|+||||+|+++++|+++
T Consensus 85 ~r~~~~~~~rr~~e~s~~L~~afe~~I~~~lyPrsqIDI~v~VleddG~~laa~inaatlAL~daGI~m~D~i~~~t~~l 164 (245)
T KOG1068|consen 85 DRKKRPKGDRREKELSLMLQQAFEPVILLELYPRSQIDIYVQVLEDDGSNLAAAINAATLALADAGIPMYDLITACTAGL 164 (245)
T ss_pred hhccCCCccHHHHHHHHHHHHHHHHHHHhhhCccccceEEEEEEECCCccHHHHHHHHHHHHHHcCCChhhhhhhceeee
Confidence 98877788899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eCCeeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEeecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025482 161 LNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDAKLPTNTFEDVMQLAIEGCKAVANYIREVRKFLLIA 234 (252)
Q Consensus 161 ~~~~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~ 234 (252)
.++..++||+..||......++|+++...++|..+|+.+.++.+.++..++.|...|+++.+.++..+...+.+
T Consensus 165 ~~~~~l~Dl~~~eesa~~~~ltVa~l~~~~~i~~l~~~~~~~~d~l~~vl~~a~~~c~~v~~~l~~~l~~~l~~ 238 (245)
T KOG1068|consen 165 ADGTPLLDLTSLEESARAPGLTVAALPNREEIALLQLDERLHCDHLETVLELAIAGCKRVYERLRLVLREHLKN 238 (245)
T ss_pred cCCccccccccchhhccCCceEEEEecCcceEEEEEecCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999889999999999999999999999999999999999999999999999998877554
No 4
>PRK00173 rph ribonuclease PH; Reviewed
Probab=100.00 E-value=2e-49 Score=339.74 Aligned_cols=219 Identities=30% Similarity=0.418 Sum_probs=201.8
Q ss_pred CCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcccccC----
Q 025482 9 LRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMR---- 84 (252)
Q Consensus 9 ~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~~~~---- 84 (252)
+|+|||+++|+|++++++|++++++|||++++|+|+|+|+|++|.+.+.. ...+++|.++|+|.+.||++.++.+
T Consensus 1 ~R~DGR~~~e~R~i~~~~g~~~~a~GSa~v~~G~T~Vla~V~~~~~~p~~-~~~~~~g~l~v~~~~~p~a~~~~~~~~~~ 79 (238)
T PRK00173 1 MRPDGRAADQLRPVTITRNFTKHAEGSVLVEFGDTKVLCTASVEEGVPRF-LKGQGQGWVTAEYGMLPRATHTRNDREAA 79 (238)
T ss_pred CCCCCCCcccccCeEEEeCCCCCCCeeEEEEecCcEEEEEEEcCCCCCCc-cCCCCcEEEEEEEecCCCCCccccccccc
Confidence 59999999999999999999999999999999999999999987664432 2346889999999999999987632
Q ss_pred CCCCCchHHHHHHHHHHHHHHhhccccCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhC-----------CCCeecee
Q 025482 85 KPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDA-----------GIPMRDIV 153 (252)
Q Consensus 85 ~~~~~~~~~~l~~~l~~~l~~~i~l~~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~-----------gIp~~~~~ 153 (252)
.|++++++.+++++|+++|+++++++.||++.++|+++||++|||+++||++|+++||+|+ ++||+++|
T Consensus 80 ~g~~~~~~~~~sr~i~r~lr~~i~l~~l~~~~i~v~v~VL~~DG~~~~aai~Aa~~AL~da~~~~~~~~~~~~ip~~~~~ 159 (238)
T PRK00173 80 KGKQGGRTQEIQRLIGRSLRAVVDLKALGERTITIDCDVIQADGGTRTASITGAYVALADALNKLVARGKLKKNPLKDQV 159 (238)
T ss_pred CCCCCccHHHHHHHHHHHHHHhcCHHHcCCeEEEEEEEEEeCCCCHHHHHHHHHHHHHHHhhhhhhccCcccCCcccCce
Confidence 3467788899999999999999999999999999999999999999999999999999999 99999999
Q ss_pred eEEEeeeeCCeeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEeec---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 154 TSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDA---KLPTNTFEDVMQLAIEGCKAVANYIREVRK 229 (252)
Q Consensus 154 ~avs~~~~~~~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g---~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~ 229 (252)
+++|++++++.+++|||.+||+.+.+.++|++ ++.++||++++.| +++.+++.++++.|.+.++++.++++++++
T Consensus 160 ~~vt~~~~~~~~lvDpt~~Ee~~~~~~l~v~~-~~~~~i~~v~~~g~g~~~~~e~l~~~i~~A~~~~~~l~~~~~~~l~ 237 (238)
T PRK00173 160 AAVSVGIVDGEPVLDLDYEEDSAAETDMNVVM-TGSGGFVEVQGTAEGAPFSREELDALLDLAEKGIAELVALQKAALA 237 (238)
T ss_pred eEEEEEEECCEEEECCCHHHHhcCCceEEEEE-CCCCCEEEEEccCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 99999999999999999999999999999985 7889999999954 699999999999999999999999999875
No 5
>TIGR01966 RNasePH ribonuclease PH. This bacterial enzyme, ribonuclease PH, performs the final 3'-trimming and modification of tRNA precursors. This model is restricted absolutely to bacteria. Related families outside the model include proteins described as probable exosome complex exonucleases (rRNA processing) and polyribonucleotide nucleotidyltransferases (mRNA degradation). The most divergent member within the family is RNase PH from Deinococcus radiodurans.
Probab=100.00 E-value=2e-48 Score=333.21 Aligned_cols=217 Identities=31% Similarity=0.455 Sum_probs=198.0
Q ss_pred CCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcccccC----C
Q 025482 10 RLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMR----K 85 (252)
Q Consensus 10 R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~~~~----~ 85 (252)
|+|||+++|+|++++++|++++++|||++++|+|+|+|+|+++.+.+.+ ...+++|.++|++++.|+++..+++ .
T Consensus 1 R~DGR~~~e~R~i~i~~G~~~~A~GSa~v~~G~T~Vla~V~~~~~~p~~-~~~~~~g~l~v~~~~~p~a~~~~~~r~~~~ 79 (236)
T TIGR01966 1 RPDGRKPDQLRPVSITRDFLKHAEGSVLIEFGNTKVLCTASVEEKVPPF-LRGSGEGWITAEYGMLPRATQTRNRRESAK 79 (236)
T ss_pred CCCCCCCCCccCeEEEeCCcCCCCceEEEEecCCEEEEEEEccCccCCc-ccCCCcEEEEEEEecCCCCCCCCccccccC
Confidence 8999999999999999999999999999999999999999976543322 2236889999999999999876522 2
Q ss_pred CCCCchHHHHHHHHHHHHHHhhccccCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhC-----------CCCeeceee
Q 025482 86 PKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDA-----------GIPMRDIVT 154 (252)
Q Consensus 86 ~~~~~~~~~l~~~l~~~l~~~i~l~~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~-----------gIp~~~~~~ 154 (252)
|++++++.+++++|+++|+++++++.||++.|+|+++||++|||+++||+||+++||+|+ ++||+++|+
T Consensus 80 g~~~~~~~e~~~~i~r~lr~~i~l~~l~~~~i~I~v~VL~~DG~~~~aai~Aa~aAL~da~~~~~~~~~~~~ip~~~~~~ 159 (236)
T TIGR01966 80 GKQSGRTQEIQRLIGRALRAVVDLEALGERTIWIDCDVIQADGGTRTASITGAFVALADAISKLHKRGILKESPIRDFVA 159 (236)
T ss_pred CCCCccHHHHHHHHHHHHHHhcCHhhcCCeEEEEEEEEEeCCCCHHHHHHHHHHHHHHHHHHhhhhcCcccCCCccCcee
Confidence 456667889999999999999999999999999999999999999999999999999999 999999999
Q ss_pred EEEeeeeCCeeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEee---cCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 155 SCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMD---AKLPTNTFEDVMQLAIEGCKAVANYIREVR 228 (252)
Q Consensus 155 avs~~~~~~~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~---g~~~~~~l~~~l~~A~~~~~~i~~~i~~~l 228 (252)
++|++++++.+++|||.+||+++++.+++++ +..++||++++. ++++++++.+++++|.++++++.++|++++
T Consensus 160 ~vt~~~~~~~~v~Dpt~~Ee~~~~~~l~l~~-~~~~~i~~i~~~g~~~~~~~~~l~~~i~~a~~~~~~l~~~~~~~l 235 (236)
T TIGR01966 160 AVSVGIVDGEPVLDLDYEEDSAADVDMNVVM-TGSGGFVEVQGTAEEGPFSRDELNKLLDLAKKGIRELIELQKQAL 235 (236)
T ss_pred EEEEEEECCEEEECCChhHHhccCceEEEEE-cCCCCEEEEEecCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999985 778999999995 369999999999999999999999999986
No 6
>COG0689 Rph RNase PH [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.7e-48 Score=322.51 Aligned_cols=225 Identities=40% Similarity=0.635 Sum_probs=210.1
Q ss_pred ccCCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcccc
Q 025482 3 FVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDR 82 (252)
Q Consensus 3 ~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~~ 82 (252)
...+.+.|+|||.++|.|+|+++.|++++++||+++++|+|+|+|+|+||.|...+....+++|+++++|.+.|+++.++
T Consensus 2 ~~~~~~~R~dgR~~delR~i~~~~~~~~~a~GS~~~~~G~tkVic~vsGp~e~~p~~l~~~~~g~~t~ey~m~p~sT~~R 81 (230)
T COG0689 2 LESEDGMRPDGRKPDELRPIKITRGVLKHAEGSSLIEFGNTKVICTVSGPREPVPRFLRGTGKGWLTAEYGMLPRSTDER 81 (230)
T ss_pred CCcccCcCCCCCCcccccceEEEeccccCCCccEEEEeCCeEEEEEEecCCCCCChhhcCCCceEEEEEEeccccccccc
Confidence 45678999999999999999999999999999999999999999999999988777766678899999999999999665
Q ss_pred cCCCCCCc-hHHHHHHHHHHHHHHhhccccCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCCeeceeeEEEeeee
Q 025482 83 MRKPKGDR-RSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYL 161 (252)
Q Consensus 83 ~~~~~~~~-~~~~l~~~l~~~l~~~i~l~~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp~~~~~~avs~~~~ 161 (252)
..+ .++. ++++++++|.++|++++++++||++.|+|++.|+++||+.+.|++||+++||+|+|+||.++++++|+|++
T Consensus 82 ~~~-~~~~gR~~eisrli~~al~~~i~L~~~p~~~I~i~~dVlqaDggTrta~It~A~lAL~DAgipl~~~vaaiSvgi~ 160 (230)
T COG0689 82 KKR-EADRGRTKEISRLIGRALRAVIDLELLPESTIDIDCDVLQADGGTRTASITGASLALADAGIPLRDLVAAISVGIV 160 (230)
T ss_pred ccc-cccccchhHHHHHHHHHHHHHhhhhhcCccEEEEEEEEEECCCCeeeehhhHHHHHHHHcCCchhhheeEeEEEEE
Confidence 433 2333 78999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeeEEeCCchhhhcCCCeEEEEEcCCCC--cEEEEEeecCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 162 NSTPLLDLNYVEDSAGGPDVTVGILPTLD--KVTLLQMDAKLPTNTFEDVMQLAIEGCKAVANYIREVR 228 (252)
Q Consensus 162 ~~~~l~DPt~~Ee~~~~~~l~v~~~~~~~--~i~~i~~~g~~~~~~l~~~l~~A~~~~~~i~~~i~~~l 228 (252)
++.+++|+++.|++.+...++|+++.+.+ +|.+++.+|+++++++.+++++|.+.|+++++.++++|
T Consensus 161 ~~~~~lDl~~~Eds~~~~d~~v~~~~~~~~~ei~~~~~~~~~~~del~~lL~la~~g~~~~~~~~~~al 229 (230)
T COG0689 161 DGVIVLDLDYEEDSAAEADMNVVMTGNGGLVEIQGLAEDGPFTEDELLELLDLAIKGCNELRELQREAL 229 (230)
T ss_pred CCceEecCcchhhcccccCceEEEEecCCeEEEEEEeccCCcCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999877777 89999999999999999999999999999999999986
No 7
>PRK04282 exosome complex RNA-binding protein Rrp42; Provisional
Probab=100.00 E-value=3e-46 Score=326.10 Aligned_cols=221 Identities=21% Similarity=0.314 Sum_probs=199.0
Q ss_pred CCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcccccC
Q 025482 5 SPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMR 84 (252)
Q Consensus 5 ~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~~~~ 84 (252)
.++|+|+|||+++|+|++++++|++++++|||++++|+|+|+|+|+++ +..|..++|++|.++|+|++.|++++.+ +
T Consensus 20 l~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~vl~~V~~~--~~~p~~~~~~~g~i~~~v~~~~~a~~~~-~ 96 (271)
T PRK04282 20 LKKGKRIDGRKLDEYRPIEIETGVIKKAEGSALVKLGNTQVLAGVKLE--IGEPFPDTPNEGVLIVNAELLPLASPTF-E 96 (271)
T ss_pred HhcCCCCCCCCCccccCeEEEeCCccCCCcEEEEEECCCEEEEEEEEE--EecCCCCCCCCCEEEEEEEECCCcCccc-c
Confidence 368999999999999999999999999999999999999999999953 3334455789999999999999998764 3
Q ss_pred CCCCCchHHHHHHHHHHHHHHh--hccccC---CC---ceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCC--------
Q 025482 85 KPKGDRRSTEISLVIRQTMEAC--ILTHLM---PR---SQIDIFVQVLQADGGTRSACINAATLALQDAGIP-------- 148 (252)
Q Consensus 85 ~~~~~~~~~~l~~~l~~~l~~~--i~l~~~---p~---~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp-------- 148 (252)
.+++++++.+++++|+++|+++ ++++.+ |+ |.|+|+++||++|||++||+++|+++||+|+++|
T Consensus 97 ~~~~~~~~~~l~~~l~r~l~~~~~~dl~~L~I~~g~~~w~i~Vdv~VL~~dG~~~daa~~Aa~aAL~~~~iP~~~~~~~~ 176 (271)
T PRK04282 97 PGPPDENAIELARVVDRGIRESKAIDLEKLVIEPGKKVWVVFIDVYVLDHDGNLLDASMLAAVAALLNTKVPAVEEGEDG 176 (271)
T ss_pred CCCCCHHHHHHHHHHHHHHhccCCccHHHcEEecCcEEEEEEEEEEEECCCCCHHHHHHHHHHHHHHhCCCCcEEEcCCc
Confidence 5677888899999999999986 444443 65 4899999999999999999999999999999995
Q ss_pred ------------eeceeeEEEeeeeCCeeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEeec--CCCHHHHHHHHHHHH
Q 025482 149 ------------MRDIVTSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDA--KLPTNTFEDVMQLAI 214 (252)
Q Consensus 149 ------------~~~~~~avs~~~~~~~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g--~~~~~~l~~~l~~A~ 214 (252)
|+++|+++|++++++.+++|||.+||+.+++.++|++ ++.|+|+++++.| +++.+++.++++.|.
T Consensus 177 ~~~~~~~~~~l~~~~~p~~vt~~~~~~~~v~Dpt~~Ee~~~~~~l~va~-~~~g~i~~l~~~g~~~~~~~~l~~~i~~A~ 255 (271)
T PRK04282 177 VVDKLGEDFPLPVNDKPVTVTFAKIGNYLIVDPTLEEESVMDARITITT-DEDGNIVAIQKSGIGSFTEEEVDKAIDIAL 255 (271)
T ss_pred eeccCCCcccCCCCCeeEEEEEEEECCEEEECCCHHHHhhcCceEEEEE-CCCCcEEEEEcCCCCCCCHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999996 7788999999974 599999999999999
Q ss_pred HHHHHHHHHHHHHHH
Q 025482 215 EGCKAVANYIREVRK 229 (252)
Q Consensus 215 ~~~~~i~~~i~~~l~ 229 (252)
+.++++++.++++++
T Consensus 256 ~~~~~l~~~~~~~l~ 270 (271)
T PRK04282 256 EKAKELREKLKEALG 270 (271)
T ss_pred HHHHHHHHHHHHHhc
Confidence 999999999999874
No 8
>COG2123 RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.6e-45 Score=309.90 Aligned_cols=222 Identities=21% Similarity=0.304 Sum_probs=203.9
Q ss_pred cCCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCccccc
Q 025482 4 VSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRM 83 (252)
Q Consensus 4 ~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~~~ 83 (252)
++++|.|+|||.++|+|++++++|+++.++|||+|++|+|+|+|+|+. ++.+|++++|++|.+.+++++.|++++...
T Consensus 18 ll~~g~R~DGR~~~efR~ieI~~~vi~ka~GSa~VklG~Tqvv~gvK~--eig~Pf~DtP~eG~~~~n~El~Plas~~fE 95 (272)
T COG2123 18 LLKKGIRIDGRSFDEFRPLEIETGVIPKANGSALVKLGNTQVVVGVKA--EIGEPFPDTPNEGVLVVNVELSPLASPSFE 95 (272)
T ss_pred HhccCcccCCCCcccccceEEEeCceecCCCcEEEEecCeEEEEEEEc--ccCCCCCCCCCCceEEeeeeeecccccccc
Confidence 467999999999999999999999999999999999999999999994 678899999999999999999999987653
Q ss_pred CCCCCCchHHHHHHHHHHHHHHh--hccccC---CC---ceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCC-------
Q 025482 84 RKPKGDRRSTEISLVIRQTMEAC--ILTHLM---PR---SQIDIFVQVLQADGGTRSACINAATLALQDAGIP------- 148 (252)
Q Consensus 84 ~~~~~~~~~~~l~~~l~~~l~~~--i~l~~~---p~---~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp------- 148 (252)
.|++++.+.++++.++|.++.+ ++++.+ ++ |.+++|++||++|||++||++.|+++||+++++|
T Consensus 96 -~Gppde~aielsrvvdr~lr~s~aiDlekL~I~~g~kvwvv~vDv~vld~DGnl~Da~~lA~~aAL~~t~vP~~~~~~~ 174 (272)
T COG2123 96 -PGPPDELAIELSRVVDRGLRESKAIDLEKLCIEEGKKVWVVFVDVHVLDYDGNLIDAASLAAVAALLNTRVPKAVEVGD 174 (272)
T ss_pred -CCCCchhHHHHHHHHHHHHHhccCcchhheeEecCCEEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCceeecCC
Confidence 6788888899999999999986 666553 33 5899999999999999999999999999999988
Q ss_pred ---------------eeceeeEEEeeeeCCeeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEeec--CCCHHHHHHHHH
Q 025482 149 ---------------MRDIVTSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDA--KLPTNTFEDVMQ 211 (252)
Q Consensus 149 ---------------~~~~~~avs~~~~~~~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g--~~~~~~l~~~l~ 211 (252)
+.++|+++|++++++.+++|||.+||..+++.++|. +++.++|++++|.| .++.+.+.+|++
T Consensus 175 ~~~v~~~~~~~~pl~~~~~pi~vt~a~ig~~lvvDPsleEe~v~d~~ltit-~~~~~~Iv~iqK~g~~~~~~~~~~~~~~ 253 (272)
T COG2123 175 GEIVIEVEEEPVPLPVSNPPISVTFAKIGNVLVVDPSLEEELVADGRLTIT-VNEDGEIVAIQKVGGGSITESDLEKALK 253 (272)
T ss_pred cceeecccCCCcccccCCCceEEEEEEECCEEEeCCCcchhhhcCceEEEE-ECCCCcEEEEEEcCCCcCCHHHHHHHHH
Confidence 468899999999999999999999999999999998 59999999999975 599999999999
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 025482 212 LAIEGCKAVANYIREVRK 229 (252)
Q Consensus 212 ~A~~~~~~i~~~i~~~l~ 229 (252)
.|.+.+.++.+.+.++|+
T Consensus 254 ~A~~~~~kl~~~~~~~L~ 271 (272)
T COG2123 254 TALSKAEKLREALKEALK 271 (272)
T ss_pred HHHHHHHHHHHHHHHhhc
Confidence 999999999999998875
No 9
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase. Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
Probab=100.00 E-value=1.6e-41 Score=327.31 Aligned_cols=229 Identities=24% Similarity=0.370 Sum_probs=205.1
Q ss_pred cccCCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEE-EcCccccccccc--CCCceEEEEEEeecCCC
Q 025482 2 EFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAV-YGPREVQNKSQQ--MSDQALVRCEYSMANFS 78 (252)
Q Consensus 2 e~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V-~gp~e~~~~~~~--~~~~g~l~v~v~~~~~~ 78 (252)
++++++|.|+|||+++|+||+++++|++++++|||++++|+|+|+|+| .||.+..++.+. ..+++.+.++|+++|||
T Consensus 303 ~~il~~g~R~DGR~~~e~Rpi~~~~g~l~~a~GSa~~~~G~Tqvl~~vt~g~~~~~~~~~~~~~~~~~~~~~~y~~~pfs 382 (684)
T TIGR03591 303 ERILKEGKRIDGRDLDTIRPISIEVGVLPRTHGSALFTRGETQALVVTTLGTERDEQIIDDLEGEYRKRFMLHYNFPPYS 382 (684)
T ss_pred HHHhcCCCCCCCCCCCCcCceEEEeCCCCCCCceEEEEeCCeEEEEEEecCCcccccCCcccCCCccEEEEEEEEcCCCC
Confidence 468899999999999999999999999999999999999999999999 488764433211 13578999999999999
Q ss_pred cccccCCCCCCchHHHHHHHHHHHHHHhhcc-ccCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCCeeceeeEEE
Q 025482 79 TGDRMRKPKGDRRSTEISLVIRQTMEACILT-HLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCS 157 (252)
Q Consensus 79 ~~~~~~~~~~~~~~~~l~~~l~~~l~~~i~l-~~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp~~~~~~avs 157 (252)
++++++.+.+++++.+++++++++|+++++. +.||+ +|+|+++||++|||..+|+++|+++||+|+||||+++|++++
T Consensus 383 ~~e~~~~g~~~rrei~~~~l~~ral~~~i~~~~~~p~-tI~v~~~VLesdGs~~~Aai~aaslAL~dAgvP~~~~Vagvs 461 (684)
T TIGR03591 383 VGEVGRVGGPGRREIGHGALAERALKAVLPSEEEFPY-TIRVVSEILESNGSSSMASVCGGSLALMDAGVPIKAPVAGIA 461 (684)
T ss_pred CCCcCCCCCCChHHHHHHHHHHHHHHHhcCccccCCe-EEEEEEEEEeCCCChHHHHHHHHHHHHHhcCCCCcCCEEEEE
Confidence 9988767778899999999999999999986 78995 699999999999999999999999999999999999999999
Q ss_pred eeeeC-C----eeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEeecC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 158 AGYLN-S----TPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDAK---LPTNTFEDVMQLAIEGCKAVANYIREVRK 229 (252)
Q Consensus 158 ~~~~~-~----~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g~---~~~~~l~~~l~~A~~~~~~i~~~i~~~l~ 229 (252)
+++++ + .+++||+..|+..++..++|+. +.+| |++++++++ ++.+.+.++++.|.+++.++.+.|++++.
T Consensus 462 ~gli~~~~~~~~il~D~~~~Ed~~~d~d~~va~-t~~g-I~~lq~d~k~~~i~~~~l~~al~~a~~~~~~I~~~m~~~l~ 539 (684)
T TIGR03591 462 MGLIKEGDERFAVLSDILGDEDHLGDMDFKVAG-TRDG-ITALQMDIKIDGITREIMEQALEQAKEGRLHILGEMNKVIS 539 (684)
T ss_pred EEEEcCCCcceEEEeCCChHHHhcCCceEEEEE-cCCc-eEEEEEEcCcCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99994 2 4899999999999999999983 5554 999999754 79999999999999999999999999999
Q ss_pred HHHh
Q 025482 230 FLLI 233 (252)
Q Consensus 230 ~~~~ 233 (252)
+...
T Consensus 540 ~~~~ 543 (684)
T TIGR03591 540 EPRA 543 (684)
T ss_pred hhhc
Confidence 7743
No 10
>KOG1614 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp45 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.9e-41 Score=278.98 Aligned_cols=226 Identities=22% Similarity=0.259 Sum_probs=203.4
Q ss_pred cCCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCccccc
Q 025482 4 VSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRM 83 (252)
Q Consensus 4 ~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~~~ 83 (252)
.++.|.|.|||++.|+|.+++++|. ..||+.+++|+|+|+|.|+. ++.+|+.++|.+|.+++..+++|++++...
T Consensus 17 alk~g~R~DgR~l~efR~lei~fGk---e~gs~~vt~G~Tkvm~~vt~--~ia~Py~dRP~eG~~~I~telsPmA~~sfE 91 (291)
T KOG1614|consen 17 ALKAGLRFDGRSLEEFRDLEIEFGK---EYGSVLVTMGNTKVMARVTA--QIAQPYIDRPHEGSFSIFTELSPMASPSFE 91 (291)
T ss_pred HHHhcccccccchhhhhceEEEecc---ccccEEEEecCeeEEEEeeh--hhcCcccCCCCCCeeeeeeccccccccccC
Confidence 3568999999999999999999995 78999999999999999995 678899999999999999999999987653
Q ss_pred CCCCCCchHHHHHHHHHHHHHHh--hccccC----CC--ceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCC-------
Q 025482 84 RKPKGDRRSTEISLVIRQTMEAC--ILTHLM----PR--SQIDIFVQVLQADGGTRSACINAATLALQDAGIP------- 148 (252)
Q Consensus 84 ~~~~~~~~~~~l~~~l~~~l~~~--i~l~~~----p~--~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp------- 148 (252)
.|+.++.+.++.++|+++++.+ ||+|.+ ++ |.|++|+++|+.|||++|||+.|+.+||++++-|
T Consensus 92 -~Gr~~~~~v~l~Rliek~~R~S~aiD~EsLCI~aG~kvW~IRiDlhiLd~DGnlvDaA~iAviaaL~hFrrPdvTv~g~ 170 (291)
T KOG1614|consen 92 -PGRKGESEVELSRLIEKALRRSKAIDTESLCIRAGEKVWLIRIDLHILDHDGNLVDAACIAVIAALMHFRRPDVTVGGE 170 (291)
T ss_pred -CCCccchHHHHHHHHHHHHHhccccchHHHHhhhCCeEEEEEEEEEEEcCCCCeehhHHHHHHHHHHhcCCCCcccccc
Confidence 5567778889999999999985 666643 33 6999999999999999999999999999999943
Q ss_pred ----------------eeceeeEEEeeeeC--CeeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEeecC--CCHHHHHH
Q 025482 149 ----------------MRDIVTSCSAGYLN--STPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDAK--LPTNTFED 208 (252)
Q Consensus 149 ----------------~~~~~~avs~~~~~--~~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g~--~~~~~l~~ 208 (252)
|+|+|+|+||++++ +..++|||..||...+++++|+ +|++++||.+++.|. ++.+++..
T Consensus 171 ev~ihp~eEr~PvPL~I~HmPIC~tf~ffnkG~ivviDpt~~Ee~~~dGs~vVt-~Nk~rEVc~i~k~G~~~~~~~~i~~ 249 (291)
T KOG1614|consen 171 EVIIHPVEEREPVPLSIHHMPICFTFGFFNKGEIVVIDPTEKEEAVMDGSMVVT-MNKNREVCAIQKSGGEILDESVIER 249 (291)
T ss_pred eeEecChhccCCcceeeeeccceEEEEEecCceEEEeCCcHHHHhccCceEEEE-EcCCccEEEEecCCCccccHHHHHH
Confidence 88999999999996 5678999999999999999998 799999999999985 68899999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 025482 209 VMQLAIEGCKAVANYIREVRKFLLIAVD 236 (252)
Q Consensus 209 ~l~~A~~~~~~i~~~i~~~l~~~~~~~~ 236 (252)
|.+.|...+.++...+.+++++.+..++
T Consensus 250 C~k~A~~~a~~vt~ii~e~l~~d~~~r~ 277 (291)
T KOG1614|consen 250 CYKLAKDRAVEVTGIILEALEEDQRERS 277 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 9999999999999999999998866554
No 11
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=100.00 E-value=4.1e-41 Score=325.15 Aligned_cols=227 Identities=24% Similarity=0.384 Sum_probs=202.7
Q ss_pred cccCCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEE-cCccccccccc--CCCceEEEEEEeecCCC
Q 025482 2 EFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVY-GPREVQNKSQQ--MSDQALVRCEYSMANFS 78 (252)
Q Consensus 2 e~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~-gp~e~~~~~~~--~~~~g~l~v~v~~~~~~ 78 (252)
++++++|.|+|||+++|+||+++++|++++++|||++++|+|+|+|+|+ ||....++.+. ..+++.+.++|+++|||
T Consensus 307 ~~il~~g~R~DGR~~~e~Rpi~~~~g~l~~a~GSal~~~G~T~Vl~~vt~g~~~~~~~~~~~~~~~~~~~~~~y~~~pfs 386 (693)
T PRK11824 307 RRILEEGIRIDGRKLDEIRPISIEVGVLPRTHGSALFTRGETQALVVATLGTLRDEQIIDGLEGEYKKRFMLHYNFPPYS 386 (693)
T ss_pred HHHhcCCCCCCCCCcCcccceEEEeCCCCCCCceEEEEECCeEEEEEEecCCCcccccccccCCCCcEEEEEEEEcCCCC
Confidence 5788999999999999999999999999999999999999999999995 77433222111 12679999999999999
Q ss_pred cccccCCCCCCchHHHHHHHHHHHHHHhhcc-ccCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCCeeceeeEEE
Q 025482 79 TGDRMRKPKGDRRSTEISLVIRQTMEACILT-HLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCS 157 (252)
Q Consensus 79 ~~~~~~~~~~~~~~~~l~~~l~~~l~~~i~l-~~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp~~~~~~avs 157 (252)
++++++.+.+++++.+++++++++|++++++ +.||. +|+|+++||++|||..+|+++|+++||+|+||||++++++++
T Consensus 387 ~~e~~~~~~~~rre~~~~~li~ral~~vi~~~~~~p~-~I~v~~~VLe~dGs~~~Aai~aaslAL~dAgvP~~~~Va~vs 465 (693)
T PRK11824 387 VGETGRVGSPGRREIGHGALAERALEPVLPSEEEFPY-TIRVVSEILESNGSSSMASVCGSSLALMDAGVPIKAPVAGIA 465 (693)
T ss_pred CCCcCCCCCCChhHHHHHHHHHHHHHHhcCcccCCCE-EEEEEEEEEecCCCHHHHHHHHHHHHHHhcCCCccCceeEEE
Confidence 9988767778899999999999999999988 68995 899999999999999999999999999999999999999999
Q ss_pred eeeeCC----eeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEeec---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 158 AGYLNS----TPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDA---KLPTNTFEDVMQLAIEGCKAVANYIREVRKF 230 (252)
Q Consensus 158 ~~~~~~----~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g---~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~ 230 (252)
++++++ .+++||+..|+..++..++|+. +.+| |+++++++ +++.+.+.++++.|.+++.++.+.|++++.+
T Consensus 466 ~gli~~~~~~~il~D~~~~Ed~~~d~d~~va~-t~~g-i~~lq~d~k~~~i~~~~l~~al~~a~~g~~~I~~~M~~aI~~ 543 (693)
T PRK11824 466 MGLIKEGDKYAVLTDILGDEDHLGDMDFKVAG-TRDG-ITALQMDIKIDGITREILEEALEQAKEGRLHILGKMNEAISE 543 (693)
T ss_pred EEEEcCCCceEEEcCCChhhHhhCCceEEEEe-cCCc-eEEEEEecccCCcCHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 999953 3789999999999999999983 5555 99999775 4799999999999999999999999999875
Q ss_pred H
Q 025482 231 L 231 (252)
Q Consensus 231 ~ 231 (252)
.
T Consensus 544 ~ 544 (693)
T PRK11824 544 P 544 (693)
T ss_pred C
Confidence 5
No 12
>KOG1069 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp46 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.8e-40 Score=263.67 Aligned_cols=204 Identities=28% Similarity=0.431 Sum_probs=185.0
Q ss_pred CCcceEEEECCCCCCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcccccCCCCCCchHHHHHH
Q 025482 18 EMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISL 97 (252)
Q Consensus 18 e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~~~~~~~~~~~~~~l~~ 97 (252)
..|++.++.|+++++|||+.|++|+|+|+|+|+||.+++.++ +.|+++.++|.++ |.+ |.+...++.+++
T Consensus 4 ~lr~~~cei~iLsr~dGSs~fsqgdT~V~c~V~GP~dvk~r~-E~~~katleVi~r--p~~-------G~~~~~eK~~e~ 73 (217)
T KOG1069|consen 4 RLRGIACEISILSRPDGSSEFSQGDTKVICSVYGPIDVKARQ-EDPEKATLEVIWR--PKS-------GVNGTVEKVLER 73 (217)
T ss_pred hhhhhhhhhceecCCCCccceecCCcEEEEEeeCCcchhhcc-cCchhceEEEEEe--ccc-------CcchHHHHHHHH
Confidence 789999999999999999999999999999999999988764 6689999988876 433 355667789999
Q ss_pred HHHHHHHHhhccccCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCCeeceeeEEEeeeeCC-eeEEeCCchhhhc
Q 025482 98 VIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNS-TPLLDLNYVEDSA 176 (252)
Q Consensus 98 ~l~~~l~~~i~l~~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp~~~~~~avs~~~~~~-~~l~DPt~~Ee~~ 176 (252)
.|+++|++.|.++.||++.|+|.+||+++||+.+++|+|||++||.|+||||+++++++.+++.++ .+++|||..+|+.
T Consensus 74 iI~~tl~~~I~l~l~Prt~iqVsiqvv~ddgs~LacaINaAclALvDaGIpl~~mfcai~~~~~~d~~lv~Dpt~~qek~ 153 (217)
T KOG1069|consen 74 IIRKTLSKAIILELYPRTTIQVSIQVVEDDGSTLACAINAACLALVDAGIPLRSMFCAISCALHEDGVLVLDPTAKQEKI 153 (217)
T ss_pred HHHHHHHHhheeeecCCceEEEEEEEEecCCcchHHHHHHHHHHHHhcCCchHHhhhhceEEEecCccEEECCcHHhhhh
Confidence 999999999999999999999999999999999999999999999999999999999999999865 8899999999998
Q ss_pred CCCeEEEEEc---CCCCcEEEEEeecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 177 GGPDVTVGIL---PTLDKVTLLQMDAKLPTNTFEDVMQLAIEGCKAVANYIREVRKFL 231 (252)
Q Consensus 177 ~~~~l~v~~~---~~~~~i~~i~~~g~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~ 231 (252)
+.+..++++. ....+++..+..|.++.+++..+++.|...+++++.++|+.++.-
T Consensus 154 ~~~~~~lsf~~~~~~~~~vi~s~t~G~~~~d~lf~~le~a~~~~~~~f~f~r~~~q~~ 211 (217)
T KOG1069|consen 154 STARATLSFEGGSLGEPKVIISETNGEKSEDQLFYVLELAQAAAQSLFPFYREVLQRK 211 (217)
T ss_pred hhceEEEEEecCCCCCcceEEEeccCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHHhh
Confidence 7777666652 235699999999999999999999999999999999999988754
No 13
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase. Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.
Probab=100.00 E-value=3.5e-39 Score=306.69 Aligned_cols=227 Identities=26% Similarity=0.404 Sum_probs=203.2
Q ss_pred cccCCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEE-cCcccccccc--cCCCceEEEEEEeecCCC
Q 025482 2 EFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVY-GPREVQNKSQ--QMSDQALVRCEYSMANFS 78 (252)
Q Consensus 2 e~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~-gp~e~~~~~~--~~~~~g~l~v~v~~~~~~ 78 (252)
|+++++|.|+|||+++++||+.+++|++++++|||+++.|+|+|+|.++ ||.+..+..+ ...+++.+.|+|+++|||
T Consensus 328 ~~il~~g~R~DGR~~~eiR~i~~~~g~l~~a~GSa~~~~G~Tqvl~~~tlG~~~~~q~~~~l~~~~~~~~~~~YnfpPFS 407 (719)
T TIGR02696 328 ERVLTEGVRIDGRGVTDIRPLDAEVQVIPRVHGSALFERGETQILGVTTLNMLKMEQQIDSLSPETSKRYMHHYNFPPYS 407 (719)
T ss_pred HHHhcCCCCCCCCCccccccceeecCCCCCCCceEEEEecCcEEEEEEeCCCchhhhhcccccccccceEEEEEeCCCCc
Confidence 6788999999999999999999999999999999999999999999987 4443222111 124568889999999999
Q ss_pred cccccCCCCCCchHHHHHHHHHHHHHHhhc-cccCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCCeeceeeEEE
Q 025482 79 TGDRMRKPKGDRRSTEISLVIRQTMEACIL-THLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCS 157 (252)
Q Consensus 79 ~~~~~~~~~~~~~~~~l~~~l~~~l~~~i~-l~~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp~~~~~~avs 157 (252)
++++++.+.++.++.+++++++++|+++|+ ++.||++ |++.++||++||+...|+++|+++||+|+||||++++++++
T Consensus 408 t~er~~~~~~~RReighg~La~rALe~vI~~~e~fP~T-IrvvseVLeSdGSss~AsIcaasLALmDAGVPmkd~VAgis 486 (719)
T TIGR02696 408 TGETGRVGSPKRREIGHGALAERALVPVLPSREEFPYA-IRQVSEALGSNGSTSMGSVCASTLSLLNAGVPLKAPVAGIA 486 (719)
T ss_pred ccCCCCCCCCCccHHHHHHHHHHHHHHhhCcHhhCCCE-EEEEEEeeccCCcHHHHHHHHHHHHHHHcCcchhheeeEEE
Confidence 999887777888999999999999999997 6999977 89999999999999999999999999999999999999999
Q ss_pred eeeeCC----e----eEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEeecCC---CHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 158 AGYLNS----T----PLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDAKL---PTNTFEDVMQLAIEGCKAVANYIRE 226 (252)
Q Consensus 158 ~~~~~~----~----~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g~~---~~~~l~~~l~~A~~~~~~i~~~i~~ 226 (252)
+|++++ . +++||+..|+..++..+.++ +..+.|++++.+|++ +.+.+.++++.|.++|.++++.|++
T Consensus 487 ~Gli~e~~~~~~~~~iL~Di~g~ED~~Gdmdfkva--gt~~gIt~lQmd~ki~gi~~e~l~~aL~~A~~g~~~Il~~m~~ 564 (719)
T TIGR02696 487 MGLISDEVDGETRYVALTDILGAEDAFGDMDFKVA--GTSEFVTALQLDTKLDGIPASVLASALKQARDARLAILDVMAE 564 (719)
T ss_pred EEEeccccCCCcceeEEeCCCchhhhcCCceEEEE--ecCCCEEEEEEEeeECCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999943 2 79999999999998888886 567999999999864 8999999999999999999999999
Q ss_pred HHHHH
Q 025482 227 VRKFL 231 (252)
Q Consensus 227 ~l~~~ 231 (252)
++.+.
T Consensus 565 al~~p 569 (719)
T TIGR02696 565 AIDTP 569 (719)
T ss_pred HHhCc
Confidence 99877
No 14
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=100.00 E-value=3.1e-38 Score=305.79 Aligned_cols=229 Identities=24% Similarity=0.381 Sum_probs=204.1
Q ss_pred cccCCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEE-cCccccccccc---CCCceEEEEEEeecCC
Q 025482 2 EFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVY-GPREVQNKSQQ---MSDQALVRCEYSMANF 77 (252)
Q Consensus 2 e~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~-gp~e~~~~~~~---~~~~g~l~v~v~~~~~ 77 (252)
++++++|.|+|||+++|.||+.+++|.+++++|||++++|+|+|+|+|+ ||.+..+..+. .+..+.+.++|+++||
T Consensus 431 ~~i~~~g~R~DGR~~~eiRpI~~e~G~Lp~A~GSAlf~~G~TqVLatVtlGp~~~~q~~d~l~~~~~~~~f~~~y~fPPf 510 (891)
T PLN00207 431 RRIVEGGKRSDGRTPDEIRPINSSCGLLPRAHGSALFTRGETQALAVVTLGDKQMAQRIDNLVDADEVKRFYLQYSFPPS 510 (891)
T ss_pred HHHhcCCCCCCCCCcCccceEEEEeCCcCCCCceEEEEECCeEEEEEEEecCccccccccccccccceeeEEEEEEcCCC
Confidence 4688899999999999999999999999999999999999999999996 88765543221 1356788899999999
Q ss_pred CcccccCCCCCCchHHHHHHHHHHHHHHhhccc-cCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCCeeceeeEE
Q 025482 78 STGDRMRKPKGDRRSTEISLVIRQTMEACILTH-LMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSC 156 (252)
Q Consensus 78 ~~~~~~~~~~~~~~~~~l~~~l~~~l~~~i~l~-~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp~~~~~~av 156 (252)
+.+++++.+++++++.+++++++++|++++..+ .|| +.|+|+++||++||+...|+++|+++||+|+||||++++.++
T Consensus 511 s~ge~~r~g~psrREi~hg~L~eRALrpvip~~~~fP-~tIrV~~~VLesDGSssmAaV~aaSLALmDAGIPmk~~VAGv 589 (891)
T PLN00207 511 CVGEVGRIGAPSRREIGHGMLAERALEPILPSEDDFP-YTIRVESTITESNGSSSMASVCGGCLALQDAGVPVKCPIAGI 589 (891)
T ss_pred CCccccCCCCCCHHHHHHHHHHHHHHHHhCCcccCCC-EEEEEEEEEEeCCCChHHHHHHHHHHHHHhcCCCccCceeEE
Confidence 998887777889999999999999999999885 799 589999999999999999999999999999999999999999
Q ss_pred Eeeee-C-------Ce--eEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEeecC---CCHHHHHHHHHHHHHHHHHHHHH
Q 025482 157 SAGYL-N-------ST--PLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDAK---LPTNTFEDVMQLAIEGCKAVANY 223 (252)
Q Consensus 157 s~~~~-~-------~~--~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g~---~~~~~l~~~l~~A~~~~~~i~~~ 223 (252)
++|++ + +. +++||+..|+..++..+.|+ ...+.|++++.+++ ++.+.+.++++.|.+++.++.+.
T Consensus 590 svGli~d~~~~~~~g~~~IL~Dp~g~Ed~~gdmDfkVA--gT~~gIt~iqmd~k~~gis~e~l~eAL~~A~~g~~~Il~~ 667 (891)
T PLN00207 590 AMGMVLDTEEFGGDGSPLILSDITGSEDASGDMDFKVA--GNEDGITAFQMDIKVGGITLPIMERALLQAKDGRKHILAE 667 (891)
T ss_pred EEEEEecccccCCCCcEEEEeCCCHHHHhcCCceEEEE--ecccceEEEEEecccCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 99999 2 23 55799999999999999988 46689999999764 69999999999999999999999
Q ss_pred HHHHHHHHHh
Q 025482 224 IREVRKFLLI 233 (252)
Q Consensus 224 i~~~l~~~~~ 233 (252)
|++++.+...
T Consensus 668 M~~~i~~pr~ 677 (891)
T PLN00207 668 MSKCSPPPSK 677 (891)
T ss_pred HHHHHhhhhh
Confidence 9999987743
No 15
>KOG1612 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp42 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.9e-34 Score=236.52 Aligned_cols=230 Identities=16% Similarity=0.208 Sum_probs=196.7
Q ss_pred CCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCC-eEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcccccC
Q 025482 6 PEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGN-TKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMR 84 (252)
Q Consensus 6 ~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~-T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~~~~ 84 (252)
++.+|+|||.++++|||.+++|+++++||||+|++|+ |.|+++|+. |+..|..+.|++|.+.+.|+++|.+++++.+
T Consensus 18 e~~iR~DGR~~~~~Rpi~vetdVlp~tNGSaRVk~g~~tdiivgVKa--Evg~~~~~~p~egk~~~~VD~S~sasp~f~g 95 (288)
T KOG1612|consen 18 EPDIRNDGRSCHQFRPIEVETDVLPGTNGSARVKLGDGTDIIVGVKA--EVGSPDDETPVEGKYLFFVDCSPSASPQFQG 95 (288)
T ss_pred CcccccCCcCccccceEEEEeccccCCCCcEEEEecCCceEEEEEee--eccCccccCCCCCeEEEEEEecCCcCccccC
Confidence 5789999999999999999999999999999999999 999999995 6667778889999999999999998877643
Q ss_pred CCCCCchHHHHHHHHHHHHHH--h-hcccc---CCC--ceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCC--------
Q 025482 85 KPKGDRRSTEISLVIRQTMEA--C-ILTHL---MPR--SQIDIFVQVLQADGGTRSACINAATLALQDAGIP-------- 148 (252)
Q Consensus 85 ~~~~~~~~~~l~~~l~~~l~~--~-i~l~~---~p~--~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp-------- 148 (252)
+ ..++...+|+..|+++|++ + +++.. -|+ |.|+||+.|++.|||++||...|+.+||.++.+|
T Consensus 96 R-ggde~~~eltsaLq~~l~~~~sgv~ls~L~lt~~~~W~i~VDvlVi~s~gn~~dAiS~Ai~~AL~~T~lPkv~v~~dd 174 (288)
T KOG1612|consen 96 R-GGDELVEELTSALQRVLNSLGSGVDLSKLQLTPGYCWKIYVDVLVISSDGNLLDAISIAIYAALNNTRLPKVIVAFDD 174 (288)
T ss_pred C-ChhhHHHHHHHHHHHHHhCcCcccchhheeccCCeeEEEEEeEEEEecCCCHHHHHHHHHHHHHhcccCCcccccccc
Confidence 3 2345566788889999887 1 34332 354 5899999999999999999999999999999988
Q ss_pred -------------------eeceeeEEEeeeeCCeeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEee--cCCCHHHHH
Q 025482 149 -------------------MRDIVTSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMD--AKLPTNTFE 207 (252)
Q Consensus 149 -------------------~~~~~~avs~~~~~~~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~--g~~~~~~l~ 207 (252)
...+|+-++++.++..+++|||.+||.++...+.|++ +..|-+.++.+- |.+.++-+.
T Consensus 175 ~~~~~i~~s~~~Yd~~~~~~~~~P~ivtlskIG~~~lVD~T~eEe~~a~s~l~Isv-~a~givs~~r~VG~G~l~~s~i~ 253 (288)
T KOG1612|consen 175 DGEVEILLSDEEYDLMVKLVENVPLIVTLSKIGTNMLVDPTAEEESVANSGLLISV-SAGGIVSCTRSVGLGDLDPSSIP 253 (288)
T ss_pred CCceeeccCcccchhhhhhcccCCEEEEEEeecceEEccCCccHHHhhhcceEEEE-ecCcceEEEEEecCCCCChhhHH
Confidence 1257889999999999999999999999999999996 666755556554 458999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q 025482 208 DVMQLAIEGCKAVANYIREVRKFLLIAVDIVG 239 (252)
Q Consensus 208 ~~l~~A~~~~~~i~~~i~~~l~~~~~~~~~~~ 239 (252)
++++.+.+..+.++..+.+.|++.....++-|
T Consensus 254 ~mle~~~~~~e~l~~~l~k~L~~~e~~~~~~~ 285 (288)
T KOG1612|consen 254 EMLEQGKAVVETLAPDLVKSLENEEDILSFKG 285 (288)
T ss_pred HHHHHHHHHHHhhhHHHHHHhhhhhhccCccc
Confidence 99999999999999999999988877666655
No 16
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase. Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
Probab=100.00 E-value=9.1e-33 Score=266.69 Aligned_cols=201 Identities=24% Similarity=0.364 Sum_probs=178.8
Q ss_pred cceEEEECCC-CCCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcc-----cccCCCCCCchHH
Q 025482 20 RQLRAEIGNV-AKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTG-----DRMRKPKGDRRST 93 (252)
Q Consensus 20 R~i~i~~g~l-~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~-----~~~~~~~~~~~~~ 93 (252)
|++.+++|.+ ++|+|||++++|+|+|+|+|++|.+.+. ..+...++|+|...+++.+ ..++.|++++++.
T Consensus 5 R~i~ie~G~la~~AdGSa~v~~G~T~VlatV~~~~~~~~----~~df~pL~vey~e~~~A~gkipg~f~kReg~p~~~ei 80 (684)
T TIGR03591 5 RTLTLETGKIARQADGAVVVRYGDTVVLVTVVAAKEAKE----GQDFFPLTVNYQEKFYAAGKIPGGFFKREGRPSEKET 80 (684)
T ss_pred ccEEEEECCcCCCCCeEEEEEECCeEEEEEEEcCCCCCC----CCceEeEEEEEEehhhhccCCCCCcccCCCCCCHHHH
Confidence 8999999999 5799999999999999999999976432 1356788999987776554 3345678999999
Q ss_pred HHHHHHHHHHHHhhccccCCC---ceEEEEEEEEecCCChh-h-HHHHHHHHHHHhCCCCeeceeeEEEeeeeCCeeEEe
Q 025482 94 EISLVIRQTMEACILTHLMPR---SQIDIFVQVLQADGGTR-S-ACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLD 168 (252)
Q Consensus 94 ~l~~~l~~~l~~~i~l~~~p~---~~I~i~v~VL~~dG~ll-~-a~i~Aa~~AL~~~gIp~~~~~~avs~~~~~~~~l~D 168 (252)
+++++|+|.|++ +||+ +.++|+++||++||+.. + ||+||+++||++++||+++++.+++++++++.+++|
T Consensus 81 l~srlIdR~lrp-----lfp~~~~~~i~V~~~VLs~Dg~~~~d~aai~aAsaAL~~s~IP~~~~v~av~vg~idg~~ild 155 (684)
T TIGR03591 81 LTSRLIDRPIRP-----LFPKGFRNEVQVVATVLSYDPENDPDILAIIGASAALAISGIPFNGPIAAVRVGYIDGQYVLN 155 (684)
T ss_pred HHHHHHhhHHHH-----hcCCCCCceEEEEEEEEecCcCCchHHHHHHHHHHHHHhcCCCcCCCeEEEEEEEECCEEEEc
Confidence 999999999998 4777 78999999999999975 5 999999999999999999999999999999999999
Q ss_pred CCchhhhcCCCeEEEEEcCCCCcEEEEEeecC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 169 LNYVEDSAGGPDVTVGILPTLDKVTLLQMDAK-LPTNTFEDVMQLAIEGCKAVANYIREVRKFL 231 (252)
Q Consensus 169 Pt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g~-~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~ 231 (252)
||.+|++.++..++|+ ...+.+++++..+. ++.+++.++++.|.+.++++.+++++.+++.
T Consensus 156 Pt~~E~~~s~~~l~va--~t~~~i~mie~~~~~i~e~~l~~al~~a~~~~~~i~~~~~~~~~~~ 217 (684)
T TIGR03591 156 PTVDELEKSDLDLVVA--GTKDAVLMVESEAKELSEEVMLGAIEFGHEEIQPVIEAIEELAEEA 217 (684)
T ss_pred CCHHHHhhCCceEEEE--ccCCcEEEEEcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999987 45678999998765 9999999999999999999999999998876
No 17
>KOG1613 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp43 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-33 Score=233.17 Aligned_cols=219 Identities=21% Similarity=0.257 Sum_probs=184.0
Q ss_pred ccCCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcccc
Q 025482 3 FVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDR 82 (252)
Q Consensus 3 ~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~~ 82 (252)
.++.+++|+|||+..|+|.+.++.|.++++|||+.++.|+|.|+|+|++ |+..|+.+.|++|.+..+|.++|.+++..
T Consensus 30 rhLse~~RpdgR~lgefRdt~in~g~IsTangSal~K~G~ttvi~~Ik~--ei~epstdapdeg~Iv~n~~lpplcs~r~ 107 (298)
T KOG1613|consen 30 RHLSEGIRPDGRKLGEFRDTAINAGNISTANGSALLKSGKTTVICGIKA--EIAEPSTDAPDEGDIVPNYALPPLCSSRF 107 (298)
T ss_pred HHhhcccCcchhhhhHHhhhheecCceeccCcHHHHhcCCcEEEEEeee--eecccccCCCCCcceeecccCCcccccCC
Confidence 4567999999999999999999999999999999999999999999997 56677788899999999999999998654
Q ss_pred cCCCCCCchHHHHHHHHHHHHHHhhc--ccc---CCC---ceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCCee----
Q 025482 83 MRKPKGDRRSTEISLVIRQTMEACIL--THL---MPR---SQIDIFVQVLQADGGTRSACINAATLALQDAGIPMR---- 150 (252)
Q Consensus 83 ~~~~~~~~~~~~l~~~l~~~l~~~i~--l~~---~p~---~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp~~---- 150 (252)
+.|++.+.++-+++.|...+.++-. ++. .++ |.++.++.+|++||+++|+|++|.++||.+..+|..
T Consensus 108 -RpG~p~dea~viSq~LhdtIl~S~ii~~k~Lci~~gKaawvlYadIicLd~dG~~fDa~w~al~aAlknvklP~a~ide 186 (298)
T KOG1613|consen 108 -RPGPPTDEAQVISQKLHDTILHSRIIPKKALCIKAGKAAWVLYADIICLDYDGPVFDACWNALMAALKNVKLPRAFIDE 186 (298)
T ss_pred -CCCCCchHHHHHHHHHHHHHHhcCCcchhhheeeccceeeEEEEEEEEEcCCCcHHHHHHHHHHHHHhcCCCceeeecc
Confidence 4788899999999999888887633 332 344 478999999999999999999999999999999932
Q ss_pred ---------------------------ceee-----EEEee-eeCCe-eEEeCCchhhhcCCCeEEEEEcCCCCcEEEEE
Q 025482 151 ---------------------------DIVT-----SCSAG-YLNST-PLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQ 196 (252)
Q Consensus 151 ---------------------------~~~~-----avs~~-~~~~~-~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~ 196 (252)
..+. ..|.. ++++. ++.|||.+||....+.++|. +++.|+++.+.
T Consensus 187 ~~~~~~~t~e~~ic~~tlt~p~~ln~e~r~~~~~n~~fS~~~vl~~~li~adpT~eEE~l~~~~lTIv-ldss~n~v~l~ 265 (298)
T KOG1613|consen 187 RASDLRMTIEEIICDQTLTVPLMLNAENRAFASQNSDFSEEEVLDDVLIAADPTEEEETLITSTLTIV-LDSSGNYVQLT 265 (298)
T ss_pred cchhhhhhHHHHHHhhhhcchhhhccccccccccCCCccHHHhhcceeEecCCCchhhhhhhceEEEE-EcCCCCEEEEE
Confidence 0111 12222 34444 45999999999999999997 68999999999
Q ss_pred eecC---CCHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 197 MDAK---LPTNTFEDVMQLAIEGCKAVANYIR 225 (252)
Q Consensus 197 ~~g~---~~~~~l~~~l~~A~~~~~~i~~~i~ 225 (252)
+.|+ .+++.+++|+++|..+++++.+.+.
T Consensus 266 k~GG~al~~~~~iK~c~elar~Rakelk~~~~ 297 (298)
T KOG1613|consen 266 KVGGGALITPEMIKRCLELARVRAKELKTRFN 297 (298)
T ss_pred ecCcccccCHHHHHHHHHHHHHHHHHHHHHhc
Confidence 9753 5779999999999999999987653
No 18
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=100.00 E-value=7.2e-32 Score=260.98 Aligned_cols=206 Identities=20% Similarity=0.290 Sum_probs=177.8
Q ss_pred CcceEEEECCCC-CCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcc-----cccCCCCCCchH
Q 025482 19 MRQLRAEIGNVA-KADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTG-----DRMRKPKGDRRS 92 (252)
Q Consensus 19 ~R~i~i~~g~l~-~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~-----~~~~~~~~~~~~ 92 (252)
-|++.+++|.+. +|+|||++++|+|+|+|+|++|.+.+ + ..+...++|+|...+|+.+ ..++.|+|++++
T Consensus 13 ~r~i~~e~G~ia~qAdGSa~v~~G~T~VlatV~~~~~~~-~---~~df~pL~v~y~e~~~A~gkiP~~f~kreg~pse~e 88 (693)
T PRK11824 13 GRTLTLETGKLARQANGAVLVRYGDTVVLVTVVASKEPK-E---GQDFFPLTVDYEEKTYAAGKIPGGFFKREGRPSEKE 88 (693)
T ss_pred CccEEEEECCcCCCCCeEEEEEECCeEEEEEEEcCCCCC-C---CCCeeeeEEEEEehhhhccCCCcccccCCCCCChHH
Confidence 379999999995 79999999999999999999998732 2 1356788999988777654 234567899999
Q ss_pred HHHHHHHHHHHHHhhccccCCCceEEEEEEEEecCCCh-hh-HHHHHHHHHHHhCCCCeeceeeEEEeeeeCCeeEEeCC
Q 025482 93 TEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGT-RS-ACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLN 170 (252)
Q Consensus 93 ~~l~~~l~~~l~~~i~l~~~p~~~I~i~v~VL~~dG~l-l~-a~i~Aa~~AL~~~gIp~~~~~~avs~~~~~~~~l~DPt 170 (252)
.+++++|+|.|++++. ..+++.++|+++||++||+. .| +|+||+++||++++||+++++.+++++++++.+++|||
T Consensus 89 il~srlIdR~lrplfp--~~~~~~i~I~~~VL~~Dg~~~~d~aai~aAsaAL~~s~IP~~~~v~av~vg~i~g~~ivdPt 166 (693)
T PRK11824 89 TLTSRLIDRPIRPLFP--KGFRNEVQVVATVLSVDPENDPDILAMIGASAALSISGIPFNGPIAAVRVGYIDGEFVLNPT 166 (693)
T ss_pred HHHHHHHhhhHHHhCC--CCCCeEEEEEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCcCCCeEEEEEEEECCEEEEcCC
Confidence 9999999999999522 11257999999999999976 55 89999999999999999999999999999999999999
Q ss_pred chhhhcCCCeEEEEEcCCCCcEEEEEeec-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 171 YVEDSAGGPDVTVGILPTLDKVTLLQMDA-KLPTNTFEDVMQLAIEGCKAVANYIREVRKFLL 232 (252)
Q Consensus 171 ~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g-~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~ 232 (252)
.+|++.++..++|+. + .+.+++++..| .++++++.++++.|.+.++++.+++++.+++.-
T Consensus 167 ~~E~~~s~~~l~va~-t-~~~i~mie~~~~~l~e~~l~~al~~a~~~~~~i~~~~~~~~~~~~ 227 (693)
T PRK11824 167 VEELEESDLDLVVAG-T-KDAVLMVESEAKELSEEVMLEAIEFGHEAIQELIDAQEELAAEAG 227 (693)
T ss_pred HHHHhhCcceEEEEE-c-cCceEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 999999999999884 3 45899999876 499999999999999999999999999887654
No 19
>PF01138 RNase_PH: 3' exoribonuclease family, domain 1 This Prosite family only includes Ribonuclease PH; InterPro: IPR001247 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function. An active PH domain uses inorganic phosphate as a nucleophile, adding it across the phosphodiester bond between the end two nucleotides in order to release ribonucleoside 5'-diphosphate (rNDP) from the 3' end of the RNA substrate. PH domains can be found in bacterial/organelle RNases and PNPases (polynucleotide phosphorylases) [], as well as in archaeal and eukaryotic RNA exosomes [, ], the later acting as nano-compartments for the degradation or processing of RNA (including mRNA, rRNA, snRNA and snoRNA). Bacterial/organelle PNPases share a common barrel structure with RNA exosomes, consisting of a hexameric ring of PH domains that act as a degradation chamber, and an S1-domain/KH-domain containing cap that binds the RNA substrate (and sometimes accessory proteins) in order to regulate and restrict entry into the degradation chamber []. Unstructured RNA substrates feed in through the pore made by the S1 domains, are degraded by the PH domain ring, and exit as nucleotides via the PH pore at the opposite end of the barrel [, ]. This entry represents the phosphorolytic (PH) domain 1, which has a core 2-layer alpha/beta structure with a left-handed crossover, similar to that found in ribosomal protein S5. This domain is found in bacterial/organelle PNPases and in archaeal/eukaryotic exosomes []. More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; PDB: 2C38_G 2BR2_O 2C37_M 3L7Z_A 2JEB_A 2C39_A 2JEA_A 2JE6_A 3U1K_A 4AM3_B ....
Probab=99.97 E-value=9.4e-30 Score=199.02 Aligned_cols=130 Identities=39% Similarity=0.542 Sum_probs=117.7
Q ss_pred CCcceEEEECCCCCCCeeEEEEeCCeEEEEEEEcCcccccccccCC-CceEEEEEEeecCCCcccccCCCCCCchHHHHH
Q 025482 18 EMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMS-DQALVRCEYSMANFSTGDRMRKPKGDRRSTEIS 96 (252)
Q Consensus 18 e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~-~~g~l~v~v~~~~~~~~~~~~~~~~~~~~~~l~ 96 (252)
|+|++.+++|++++++|||+|++|+|+|+|+|++|.+.+. ..+.+ .+|.++++|++.|++..+.++.+.++..+.+++
T Consensus 1 e~R~i~i~~~~~~~a~GSa~v~~G~T~V~~~V~~~~~~~~-~~~~~~~~g~~~v~v~~~~~~~~~~~~~~~~~~~~~~l~ 79 (132)
T PF01138_consen 1 ELRPISIETGVLPRADGSARVSLGNTKVICSVKGPIEPPP-SNERDDAEGRLTVEVEFSPFASPSFRRGGRPDEEERELS 79 (132)
T ss_dssp CBEEEEEEESSSSSSSEEEEEEETTEEEEEEEEEEEEGCS-CSTTSSSSEEEEEEEEECCCGSTSSSSSSSTHHHHHHHH
T ss_pred CCccEEEEeCCCCCCCeEEEEEECCeEEEEEEEecccccc-hhcccCCCceEEEEEEeccccccccccccccchhHHHHH
Confidence 7899999999999999999999999999999999987632 22323 358999999999999877665567888889999
Q ss_pred HHHHHHHHHhhccccCCCceEEEEEEEEecCC-ChhhHHHHHHHHHHHhCCCC
Q 025482 97 LVIRQTMEACILTHLMPRSQIDIFVQVLQADG-GTRSACINAATLALQDAGIP 148 (252)
Q Consensus 97 ~~l~~~l~~~i~l~~~p~~~I~i~v~VL~~dG-~ll~a~i~Aa~~AL~~~gIp 148 (252)
++|+++|++++.++.||+|.|+|+++||++|| |++|+++||+++||+|+|||
T Consensus 80 ~~l~~~l~~~~~~~~~~~~~i~v~v~vl~~dG~~~~~a~~~A~~~AL~~~~iP 132 (132)
T PF01138_consen 80 SLLERALRSSILLEGYPRWQIHVDVQVLSDDGGNLLDAAINAACLALLDAGIP 132 (132)
T ss_dssp HHHHHHHHHTBSTTTTSSEEEEEEEEEEECSSSSHHHHHHHHHHHHHHHHTCS
T ss_pred HHHhhhccccccccccCceEEEEEEEEEecCCCCHHHHHHHHHHHHHHhcCCC
Confidence 99999999999999999999999999999999 99999999999999999998
No 20
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=99.96 E-value=3.3e-28 Score=236.29 Aligned_cols=204 Identities=18% Similarity=0.218 Sum_probs=180.1
Q ss_pred cceEEEECCCC-CCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCccc-----ccCCCCCCchHH
Q 025482 20 RQLRAEIGNVA-KADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGD-----RMRKPKGDRRST 93 (252)
Q Consensus 20 R~i~i~~g~l~-~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~-----~~~~~~~~~~~~ 93 (252)
|++.+++|.+. +|+||+.+++|+|.|+|+|....+.+. ..+...|+|+|....++.+. .+|.|++++++.
T Consensus 89 ~~~~~etG~~a~qA~gav~v~~g~t~vl~t~~~~~~~~~----~~dF~PLtV~y~Ek~~AaGkipggf~kREgrp~d~ei 164 (891)
T PLN00207 89 RHILVETGHIGRQASGSVTVTDGETIVYTSVCLADVPSE----PSDFFPLSVHYQERFSAAGRTSGGFFKREGRTKDHEV 164 (891)
T ss_pred EEEEEEhhHHHHhCCCcEEEEECCeEEEEEEEeccCCCC----CCCccceeEeeeeehhhcCccCCceeccCCCCChHHH
Confidence 47999999995 899999999999999999986443222 13667899999877776554 356789999999
Q ss_pred HHHHHHHHHHHHhhccccCCCceEEEEEEEEecCCC--hhhHHHHHHHHHHHhCCCCeeceeeEEEeeeeCCeeEEeCCc
Q 025482 94 EISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGG--TRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLDLNY 171 (252)
Q Consensus 94 ~l~~~l~~~l~~~i~l~~~p~~~I~i~v~VL~~dG~--ll~a~i~Aa~~AL~~~gIp~~~~~~avs~~~~~~~~l~DPt~ 171 (252)
.++++|+|.|++++..+.||+.+|.+ +||++||+ ...+|+||+++||+++||||++++.++++++++|.+++|||.
T Consensus 165 L~sRlIdR~lRPlfp~~~~~etQI~i--~VLsaDg~~~pd~~AInAASaAL~~SgIP~~gpVaAVrVG~idg~~VlnPt~ 242 (891)
T PLN00207 165 LICRLIDRPLRPTMPKGFYHETQILS--WVLSYDGLHSPDSLAVTAAGIAVALSEVPNLKAIAGVRVGLIGGKFIVNPTT 242 (891)
T ss_pred HHHHHHCccchhhccccCCCCcEEEE--EEEeeCCCCChhhHHHHHHHHHHHhhCCCccCceEEEEEEEECCEEEECCCH
Confidence 99999999999999999999887755 89999998 669999999999999999999999999999999999999999
Q ss_pred hhhhcCCCeEEEEEcCCCCcEEEEEeecC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 172 VEDSAGGPDVTVGILPTLDKVTLLQMDAK-LPTNTFEDVMQLAIEGCKAVANYIREVRKFL 231 (252)
Q Consensus 172 ~Ee~~~~~~l~v~~~~~~~~i~~i~~~g~-~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~ 231 (252)
.|++.++..+.|+. ..+.|++++..|. ++++++.++++.|.+.++++.+++++..++.
T Consensus 243 ~E~~~s~ldLvvag--t~~~IvMIE~~a~e~see~l~~Al~~a~~aik~i~~~~~el~~~~ 301 (891)
T PLN00207 243 KEMEESELDLIMAG--TDSAILMIEGYCNFLPEEKLLEAVEVGQDAVRAICKEIEVLVKKC 301 (891)
T ss_pred HHHhcCCeeEEEEE--cCCeEEEEEcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999998874 4568999999886 6999999999999999999999999988776
No 21
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Probab=99.91 E-value=9.7e-24 Score=192.26 Aligned_cols=221 Identities=24% Similarity=0.339 Sum_probs=189.1
Q ss_pred ccCCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEE-cCcccccccc--cCCCce-EEEEEEeecCCC
Q 025482 3 FVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVY-GPREVQNKSQ--QMSDQA-LVRCEYSMANFS 78 (252)
Q Consensus 3 ~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~-gp~e~~~~~~--~~~~~g-~l~v~v~~~~~~ 78 (252)
.+.+.|.|.|||..+|.|+|+|+.+.++..+||+.|+-|+|+|+|+|+ +..+..++.+ ..++++ .+-.+|.|.|++
T Consensus 352 ~i~~~gkR~DGR~ldelR~I~ce~~m~~~lHGSaLFqRGqTQvlctVtl~s~e~a~klD~l~~~~~~~~FmLhY~FPPya 431 (760)
T KOG1067|consen 352 RILEEGKRCDGRDLDELRNISCEVDMLKTLHGSALFQRGQTQVLCTVTLDSLESAQKLDSLIGPDNGINFMLHYEFPPYA 431 (760)
T ss_pred HHHhcccccCCcchhhhcccceecCccccccchhhhhcCceeEEEEEEcCCHHHhhhhhhhccCccCceEEEEeccCCcc
Confidence 456789999999999999999999999999999999999999999998 3333332211 124444 888999999999
Q ss_pred cccccCCCCCCchHHHHHHHHHHHHHHhhccccCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCCeeceeeEEEe
Q 025482 79 TGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSA 158 (252)
Q Consensus 79 ~~~~~~~~~~~~~~~~l~~~l~~~l~~~i~l~~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp~~~~~~avs~ 158 (252)
+++..+.|..+.++.--..+-+++|.+++. +.|| .+|+|.-.||+.||+.-.|.+.+.++||+|+|+|+..-+.++.+
T Consensus 432 t~Evgkig~~nRRE~GhgaLAEkaL~~vlP-~dfP-ftIRv~SeVleSnGSsSMASvCGGslALmDaGvPv~a~vAGvai 509 (760)
T KOG1067|consen 432 TNEVGKIGGLNRRELGHGALAEKALLPVLP-EDFP-FTIRVTSEVLESNGSSSMASVCGGSLALMDAGVPVSAHVAGVAI 509 (760)
T ss_pred ccccccccCCcccccCchhHhhhhhhccCc-ccCc-eEEEEeeeeeecCCcchHHhhhcchhhhhhcCCccccccceeEE
Confidence 999877788888887778888999999776 6788 57999999999999999999999999999999999999999999
Q ss_pred eeeCC-----------eeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEeecCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 159 GYLNS-----------TPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDAKLPTNTFEDVMQLAIEGCKAVANYIREV 227 (252)
Q Consensus 159 ~~~~~-----------~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g~~~~~~l~~~l~~A~~~~~~i~~~i~~~ 227 (252)
|++-+ .++.|-...|....+.++-|+ ..++-|.++ .++.+-+.++++.|..+-.+|.+.|.+.
T Consensus 510 Glvt~td~e~g~i~dyriltDIlGiEd~~GDMDFKiA--Gt~dGvTA~----gi~l~Iv~eal~~a~~ar~~Il~~m~k~ 583 (760)
T KOG1067|consen 510 GLVTKTDPEKGEIEDYRILTDILGIEDYNGDMDFKIA--GTNDGVTAL----GIPLKIVMEALQKAREARLQILDIMEKN 583 (760)
T ss_pred EeEeccCcccCCcccceeehhhcchhhhcCCcceeec--cccCcceec----CCcHHHHHHHHHhhhHHHHHHHHHHHhh
Confidence 98621 468899999999999999998 566677776 7899999999999999999999999987
Q ss_pred HHHH
Q 025482 228 RKFL 231 (252)
Q Consensus 228 l~~~ 231 (252)
+...
T Consensus 584 i~~P 587 (760)
T KOG1067|consen 584 INSP 587 (760)
T ss_pred cCCc
Confidence 6644
No 22
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase. Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.
Probab=99.89 E-value=8.4e-22 Score=188.28 Aligned_cols=202 Identities=15% Similarity=0.174 Sum_probs=172.5
Q ss_pred cceEEEECCCC-CCCeeEEEEe-CCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcccc-----cCCCCCCchH
Q 025482 20 RQLRAEIGNVA-KADGSAVFEM-GNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDR-----MRKPKGDRRS 92 (252)
Q Consensus 20 R~i~i~~g~l~-~a~GSa~v~~-G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~~-----~~~~~~~~~~ 92 (252)
|++.+++|.+. +||||+.+++ |+|.|+|+|....+.+. ..+..+|+|+|....++.+.. +|.|+|++++
T Consensus 17 ~~~~~etG~~A~qA~Gav~v~~~G~t~vl~t~~~~~~~~~----~~dF~PLtV~y~Ek~yA~GkiPggf~kREgrps~~e 92 (719)
T TIGR02696 17 RTIRFETGRLARQAAGSVVAYLDDETMLLSATTASKQPKD----QFDFFPLTVDVEERMYAAGRIPGSFFRREGRPSTDA 92 (719)
T ss_pred EEEEEEcchhHhhCCceEEEEecCCeEEEEEEEecCCCCC----CCCCcceeEeeeehhhhcCccCCceeccCCCCChhh
Confidence 47999999995 8999999999 99999999985443221 136678999998877766543 5678999999
Q ss_pred HHHHHHHHHHHHHhhccccCCC---ceEEEEEEEEecCCCh--hhHHHHHHHHHHHhCCCCeeceeeEEEeeeeCCeeEE
Q 025482 93 TEISLVIRQTMEACILTHLMPR---SQIDIFVQVLQADGGT--RSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLL 167 (252)
Q Consensus 93 ~~l~~~l~~~l~~~i~l~~~p~---~~I~i~v~VL~~dG~l--l~a~i~Aa~~AL~~~gIp~~~~~~avs~~~~~~~~l~ 167 (252)
...+|+|+|.+|| +||+ ..++|.++||+.|+.. --.++||+++||.-++||+..++.++.+|.++|.+++
T Consensus 93 iL~sRliDR~iRP-----LFp~~~~~e~qi~~~vls~D~~~~pdvla~~~ASaAl~iSdiPf~gPv~~vrVg~i~g~~vi 167 (719)
T TIGR02696 93 ILTCRLIDRPLRP-----SFVKGLRNEVQVVVTVLSLNPDHLYDVVAINAASASTQLAGLPFSGPIGGVRVALIDGQWVA 167 (719)
T ss_pred hHHHHhhCCCCcc-----CCCCCCCcceEEEEEEEEcCCCCChHHHHHHHHHHHHHhcCCCCCCceEEEEEEEECCEEEE
Confidence 9999999999999 5666 3788999999999864 4578999999999999999999999999999999999
Q ss_pred eCCchhhhcCCCeEEEEEcCC----CCcEEEEEe------------ec-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 168 DLNYVEDSAGGPDVTVGILPT----LDKVTLLQM------------DA-KLPTNTFEDVMQLAIEGCKAVANYIREVRKF 230 (252)
Q Consensus 168 DPt~~Ee~~~~~~l~v~~~~~----~~~i~~i~~------------~g-~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~ 230 (252)
+||.+|.+.++..++|+. +. .+.|+|++. .+ .++++++.+++..|.+..+.+.+++++..++
T Consensus 168 NPt~~~~~~s~ldLvvag-t~~~~~~~~i~MiE~~a~~~~~~~~~~~a~e~~e~~~~~Ai~~a~~~i~~~~~~~~~l~~~ 246 (719)
T TIGR02696 168 FPTHEQLEGAVFDMVVAG-RVLENGDVAIMMVEAEATEKTWDLVKGGAEAPTEEVVAEGLEAAKPFIKVLCRAQADLAEK 246 (719)
T ss_pred CcCHHHHhhCeeeEEEEe-eecCCCCccEEEEecCCccccccccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999984 33 349999997 33 3899999999999999999999999996655
Q ss_pred H
Q 025482 231 L 231 (252)
Q Consensus 231 ~ 231 (252)
.
T Consensus 247 ~ 247 (719)
T TIGR02696 247 A 247 (719)
T ss_pred h
Confidence 4
No 23
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=99.87 E-value=1.9e-21 Score=182.29 Aligned_cols=227 Identities=23% Similarity=0.352 Sum_probs=193.5
Q ss_pred ccCCCCCCCCCCCCCCCcceEEEECCCCCCCeeEEEEeCCeEEEEEEE-cCcccccccccC-C-CceEEEEEEeecCCCc
Q 025482 3 FVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVY-GPREVQNKSQQM-S-DQALVRCEYSMANFST 79 (252)
Q Consensus 3 ~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~V~~~V~-gp~e~~~~~~~~-~-~~g~l~v~v~~~~~~~ 79 (252)
.|++.++|+|||..++.||+.++.|++++++||+.+..|.|+.++.++ |+....+-.+.. + ..-.+-.+|++.|||.
T Consensus 306 ~Il~~~vR~DGR~~~~VRpi~~ev~~lpr~HGS~LFtRGeTQal~v~TLG~~~d~Qvid~l~~e~~krfm~hYNFPp~Sv 385 (692)
T COG1185 306 LILEGKVRIDGRFGDEVRPIGIEVGVLPRTHGSALFTRGETQALVVVTLGTPRDAQVIDILEGEYKKRFLLHYNFPPFSV 385 (692)
T ss_pred HHhcCCcccCCCCcceeeeeeEEecCCCCccchhhhccCCCcceEEEEcCCcchhhhhhhccchhhhheeeeccCCCCCc
Confidence 567889999999999999999999999999999999999999998886 433222211111 1 2345677999999999
Q ss_pred ccccCCCCCCchHHHHHHHHHHHHHHhhc-cccCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCCeeceeeEEEe
Q 025482 80 GDRMRKPKGDRRSTEISLVIRQTMEACIL-THLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSA 158 (252)
Q Consensus 80 ~~~~~~~~~~~~~~~l~~~l~~~l~~~i~-l~~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp~~~~~~avs~ 158 (252)
++..+-+.|..++.--.++-++++.+++. .+.|| +.|++.-.|++.+|+--.|.+.+.++||+++|+|++..+.++..
T Consensus 386 GE~g~~g~p~RREiGHG~LA~Ral~~vlp~~e~fp-ytiRvVsEi~eSNGSsSmaSVCg~sLaLmdAGVPIk~pVAGIAM 464 (692)
T COG1185 386 GETGRMGSPGRREIGHGALAERALAPVLPSEEEFP-YTIRVVSEILESNGSSSMASVCGGSLALMDAGVPIKAPVAGIAM 464 (692)
T ss_pred cccCCCCCCCcccccCchhhHHHHhhhCCchhcCC-ceeeeeehhhcccCcccchhhhhhHHHHHhCCCcccccccchhc
Confidence 99877778888887778888999999876 46688 67999999999999999999999999999999999999999999
Q ss_pred eeeCC----eeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEee---cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 159 GYLNS----TPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMD---AKLPTNTFEDVMQLAIEGCKAVANYIREVRKFL 231 (252)
Q Consensus 159 ~~~~~----~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~---g~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~ 231 (252)
|++.+ .++-|-...|....+.++-|+ ...+-|.++|++ ..++.+.+.+++..|..+..++...|.+++.+.
T Consensus 465 GLI~eg~~~~vLsDI~G~EDhlGDMDFKVA--GT~~GiTAlQMDiKi~Git~eim~~AL~QAk~aRlhIL~~M~~ai~~p 542 (692)
T COG1185 465 GLIKEGDKYAVLSDILGDEDHLGDMDFKVA--GTDDGITALQMDIKIKGITKEIMKKALEQAKGARLHILIVMNEAISEP 542 (692)
T ss_pred cceecCCceEeeccccccccccCCceeEEe--cCCCcceeeeeeeeecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 98842 467899999988899999998 677889999997 468999999999999999999999999999877
Q ss_pred H
Q 025482 232 L 232 (252)
Q Consensus 232 ~ 232 (252)
.
T Consensus 543 r 543 (692)
T COG1185 543 R 543 (692)
T ss_pred h
Confidence 4
No 24
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=99.85 E-value=7.4e-20 Score=171.63 Aligned_cols=207 Identities=22% Similarity=0.335 Sum_probs=179.2
Q ss_pred cceEEEECCCC-CCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcccc-----cCCCCCCchHH
Q 025482 20 RQLRAEIGNVA-KADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDR-----MRKPKGDRRST 93 (252)
Q Consensus 20 R~i~i~~g~l~-~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~~~-----~~~~~~~~~~~ 93 (252)
|++.+++|.+. +|+|++.+++|+|.|++++.+.. .+. .-|..+|+|+|.-..++.+.. +|.|+|++++.
T Consensus 14 ~~l~~etg~~A~qa~gav~~~~gdt~vl~t~~~~~-~~~----~~dF~PLtV~y~Ek~yaaGkiPGgf~kREGrpse~e~ 88 (692)
T COG1185 14 RTLTLETGKIARQANGAVLVRYGDTVVLATVVASK-PKE----GQDFFPLTVNYEEKTYAAGKIPGGFFKREGRPSEKEI 88 (692)
T ss_pred eeEEEEcchhhhhcCccEEEEECCeEEEEEEeecC-CCC----CCCccceeEeeeeehhccCcCCCcccccCCCCCccch
Confidence 88999999995 89999999999999999999764 221 246788999998877776543 46789999999
Q ss_pred HHHHHHHHHHHHhhccccCCCc---eEEEEEEEEecCCCh--hhHHHHHHHHHHHhCCCCeeceeeEEEeeeeCCeeEEe
Q 025482 94 EISLVIRQTMEACILTHLMPRS---QIDIFVQVLQADGGT--RSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLD 168 (252)
Q Consensus 94 ~l~~~l~~~l~~~i~l~~~p~~---~I~i~v~VL~~dG~l--l~a~i~Aa~~AL~~~gIp~~~~~~avs~~~~~~~~l~D 168 (252)
..+|+|+|-++| +||+. -++|..+|++.|+.. --.+++++++||.-++||+.....++.+|+++|.++++
T Consensus 89 L~sRLIDRpiRP-----lFp~g~~~evqIv~tvls~D~~~~pdi~a~~gaSaAl~is~iPf~gpi~~vrvg~idg~~vlN 163 (692)
T COG1185 89 LTSRLIDRPIRP-----LFPKGFRNEVQIVNTVLSVDPENDPDILAMVGASAALSLSGIPFLGPIGAVRVGYIDGIFVLN 163 (692)
T ss_pred hhhhhccccccc-----ccchhhccceEEEEEEEEECCCCCHHHHHHHHHHHHHhccCCCccCccceEEEEEECCEEEEC
Confidence 999999999998 56653 689999999999875 35789999999999999999999999999999999999
Q ss_pred CCchhhhcCCCeEEEEEcCCCCcEEEEEeec-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhccc
Q 025482 169 LNYVEDSAGGPDVTVGILPTLDKVTLLQMDA-KLPTNTFEDVMQLAIEGCKAVANYIREVRKFLL-IAVDIV 238 (252)
Q Consensus 169 Pt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g-~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~-~~~~~~ 238 (252)
||.+|.+.+..+++|+ .....|.+++... .++++++.+++..+.+..+.+.+++.+.....- ..++|.
T Consensus 164 Pt~~e~~~s~lDlvVA--GT~~aV~MVE~~a~~l~E~~ml~Av~fg~~~~~~~~~~qe~l~~~~g~~~~~~~ 233 (692)
T COG1185 164 PTLEELEESKLDLVVA--GTKDAVNMVESEADELDEEVMLEAVEFGHEAIQSVINAQEELALEVGKKKWELE 233 (692)
T ss_pred CChHHhhhcceeeEec--CChhhhheeecccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccccc
Confidence 9999999999999987 5667899999876 489999999999999999999999999877663 445554
No 25
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Probab=99.70 E-value=1.1e-16 Score=146.39 Aligned_cols=202 Identities=19% Similarity=0.276 Sum_probs=165.9
Q ss_pred CCcceEEEECCCC-CCCeeEEEEeCCeEEEEEEEcCcccccccccCCCceEEEEEEeecCCCcc-----cccCCCCCCch
Q 025482 18 EMRQLRAEIGNVA-KADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTG-----DRMRKPKGDRR 91 (252)
Q Consensus 18 e~R~i~i~~g~l~-~a~GSa~v~~G~T~V~~~V~gp~e~~~~~~~~~~~g~l~v~v~~~~~~~~-----~~~~~~~~~~~ 91 (252)
--|.+.+++|.+. .||||+.+..|+|+|+++|.... .+.| |+.-.+.|+|.....+.+ ..++.+.+.++
T Consensus 54 GnR~i~~etGklaRfAngsvvv~~GeT~Vm~Tv~~a~-~PSp----~qFlPL~VdYqeK~aAvGRip~~fmRREg~tkdk 128 (760)
T KOG1067|consen 54 GNREILFETGKLARFANGSVVVQMGETAVMTTVVLAD-KPSP----PQFLPLVVDYQEKFAAVGRIPGNFMRREGRTKDK 128 (760)
T ss_pred CCeEEEEecchhhhhcCCcEEEccCCeEEEEEEEecC-CCCc----cccceEEEehhhhhhhhccCCCcccccccCCcch
Confidence 4699999999996 69999999999999999998532 2222 356788999976555443 23456778888
Q ss_pred HHHHHHHHHHHHHHhhccccCCCc---eEEEEEEEEecCCCh--hhHHHHHHHHHHHhCCCCeeceeeEEEeeeeCCeeE
Q 025482 92 STEISLVIRQTMEACILTHLMPRS---QIDIFVQVLQADGGT--RSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPL 166 (252)
Q Consensus 92 ~~~l~~~l~~~l~~~i~l~~~p~~---~I~i~v~VL~~dG~l--l~a~i~Aa~~AL~~~gIp~~~~~~avs~~~~~~~~l 166 (252)
+....++|++.+++ .||+- ..++-+.+|..||-. ---++|++++||..+.+|+.....++.+|+++|+++
T Consensus 129 EiL~~rLidrsirp-----lfp~g~~~etqi~~n~Ls~dG~~~pdvlainaas~Al~lsdvpw~gpig~vRigLi~Ge~v 203 (760)
T KOG1067|consen 129 EILTGRLIDRPIRP-----LFPKGFYHETQILCNVLSSDGVHDPDVLAINAASAALSLSDVPWNGPIGAVRIGLIDGEFV 203 (760)
T ss_pred hheeeecccccccc-----CCcccchhHHHHHhhheecccccCchHHHHhHHHHHhhhccCCCCCceeeeEeeeecceEE
Confidence 87888999999888 45542 345666688888854 346899999999999999999999999999999999
Q ss_pred EeCCchhhhcCCCeEEEEEcCCCCcEEEEEeecC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 167 LDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDAK-LPTNTFEDVMQLAIEGCKAVANYIREVRKFL 231 (252)
Q Consensus 167 ~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g~-~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~ 231 (252)
++||..|.+.+.-.+.++. .+.++++++..+. +..+++.++++.+.+.++.+.+.|...-++.
T Consensus 204 VNPT~kEmssS~Lnlvvag--t~~~~vmle~~s~~i~qqdl~~Aikvg~~~~q~~i~~i~~L~k~~ 267 (760)
T KOG1067|consen 204 VNPTRKEMSSSQLNLVVAG--TKSQTVMLEGSSNNILQQDLLHAIKVGVKEAQQIIQGIERLAKKY 267 (760)
T ss_pred eCcchhhhhhccceeEEEe--ccceEEEEEcccccccHHHHHHHHHhccHHHHHHHHHHHHHHHHh
Confidence 9999999999999999884 4889999998775 8999999999999999999999988776654
No 26
>PF03725 RNase_PH_C: 3' exoribonuclease family, domain 2 This Prosite family only includes Ribonuclease PH; InterPro: IPR015847 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function. An active PH domain uses inorganic phosphate as a nucleophile, adding it across the phosphodiester bond between the end two nucleotides in order to release ribonucleoside 5'-diphosphate (rNDP) from the 3' end of the RNA substrate. PH domains can be found in bacterial/organelle RNases and PNPases (polynucleotide phosphorylases) [], as well as in archaeal and eukaryotic RNA exosomes [, ], the later acting as nano-compartments for the degradation or processing of RNA (including mRNA, rRNA, snRNA and snoRNA). Bacterial/organelle PNPases share a common barrel structure with RNA exosomes, consisting of a hexameric ring of PH domains that act as a degradation chamber, and an S1-domain/KH-domain containing cap that binds the RNA substrate (and sometimes accessory proteins) in order to regulate and restrict entry into the degradation chamber []. Unstructured RNA substrates feed in through the pore made by the S1 domains, are degraded by the PH domain ring, and exit as nucleotides via the PH pore at the opposite end of the barrel [, ]. This entry represents the phosphorolytic (PH) domain 2, which has a core 3-layer alpha/beta/alpha structure. This domain is found in bacterial/organelle PNPases and in archaeal/eukaryotic exosomes []. More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding, 0006396 RNA processing; PDB: 1E3H_A 1E3P_A 2NN6_E 2WNR_A 3U1K_B 2BA0_H 2BA1_H 3M85_G 3M7N_H 3H1C_K ....
Probab=99.26 E-value=2.9e-11 Score=83.55 Aligned_cols=65 Identities=18% Similarity=0.318 Sum_probs=54.4
Q ss_pred ceeeEEEeeeeCCeeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEe-ecC--CCHHHHHHHHHHHHHH
Q 025482 151 DIVTSCSAGYLNSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQM-DAK--LPTNTFEDVMQLAIEG 216 (252)
Q Consensus 151 ~~~~avs~~~~~~~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~-~g~--~~~~~l~~~l~~A~~~ 216 (252)
++|+++|++++++.+++|||.+||+.+++.+++++ +..++++.+.+ .|. ++++++.+++++|.++
T Consensus 1 ~~~~avt~~~i~~~~v~Dpt~~Ee~~~~~~l~~~~-~~~~~~~~~~~~~g~~~~~~~~l~~~i~~A~~~ 68 (68)
T PF03725_consen 1 DPPVAVTVGIIDGELVVDPTAEEESLSDSSLTLAV-DGTGNICTLQKSGGGSELSEDQLEEAIELAKKA 68 (68)
T ss_dssp SEEEEEEEEEETTEEEES--HHHHHHSSEEEEEEE-ETTSSEEEEEEEEESSEEEHHHHHHHHHHHHHH
T ss_pred CCeEEEEEEEECCEEEECCCHHHHhhcCCcEEEEE-ECCCCEEEEEEcCCCCCCCHHHHHHHHHHHhcC
Confidence 68999999999999999999999999999999997 56666655555 454 9999999999999874
No 27
>PF09695 YtfJ_HI0045: Bacterial protein of unknown function (YtfJ_HI0045); InterPro: IPR006513 These are sequences from gammaproteobacteria that are related to the Escherichia coli protein, YtfJ.
Probab=50.26 E-value=63 Score=25.97 Aligned_cols=29 Identities=21% Similarity=0.346 Sum_probs=24.1
Q ss_pred EcCCCCcEEEEEeecCCCHHHHHHHHHHHH
Q 025482 185 ILPTLDKVTLLQMDAKLPTNTFEDVMQLAI 214 (252)
Q Consensus 185 ~~~~~~~i~~i~~~g~~~~~~l~~~l~~A~ 214 (252)
++++.|.|.+. ++|.++++++++.+++-.
T Consensus 130 VlDK~G~V~F~-k~G~Ls~~Ev~qVi~Ll~ 158 (160)
T PF09695_consen 130 VLDKQGKVQFV-KEGALSPAEVQQVIALLK 158 (160)
T ss_pred EEcCCccEEEE-ECCCCCHHHHHHHHHHHh
Confidence 35888888886 689999999999988754
No 28
>PF06519 TolA: TolA C-terminal; InterPro: IPR014161 TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cut-offs are based largely on conserved operon structure. The Tol-Pal complex is required for maintaining outer membrane integrity, and is also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins OmpC, PhoE and LamB.; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2X9A_D 3QDP_A 3QDR_A 1TOL_A 1S62_A.
Probab=45.68 E-value=81 Score=22.97 Aligned_cols=59 Identities=19% Similarity=0.185 Sum_probs=31.2
Q ss_pred chHHHHHHHHHHHHHHh-hccccCCCceEEEEEEEEecCCChh--------hHHHHHHHHHHHh-CCCCe
Q 025482 90 RRSTEISLVIRQTMEAC-ILTHLMPRSQIDIFVQVLQADGGTR--------SACINAATLALQD-AGIPM 149 (252)
Q Consensus 90 ~~~~~l~~~l~~~l~~~-i~l~~~p~~~I~i~v~VL~~dG~ll--------~a~i~Aa~~AL~~-~gIp~ 149 (252)
.+-......|.+.+++- .+-+.|-++...|.+. |..||.+. .+.+.|+..|+.. +.+|+
T Consensus 11 ~ev~~Y~~~I~~~Iq~~l~~~~~y~GK~C~v~i~-l~~dG~v~~v~~~~GD~~lC~aa~~Ai~k~~~~P~ 79 (96)
T PF06519_consen 11 SEVSRYAAQIKQAIQRNLYDDESYKGKECRVRIR-LAPDGLVLSVTVESGDPALCRAAKSAIAKAAKFPP 79 (96)
T ss_dssp HHHHHHHHHHHHHHHTTTTTGGGGTT--EEEEEE-EETTSEEEEEEEEEE-HHHHHHHHHH-HCCS----
T ss_pred HHHHHHHHHHHHHHHHhcCCccccCCCEEEEEEE-ECCCCcEEEeeecCCCHHHHHHHHHHHHHhcCCCC
Confidence 33345566677777653 3345576665666555 66777653 3567777777555 45663
No 29
>PF12651 RHH_3: Ribbon-helix-helix domain
Probab=36.70 E-value=75 Score=19.47 Aligned_cols=35 Identities=20% Similarity=0.214 Sum_probs=30.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025482 200 KLPTNTFEDVMQLAIEGCKAVANYIREVRKFLLIA 234 (252)
Q Consensus 200 ~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~ 234 (252)
.++.+.+.++-++|.+......+.++++++..+..
T Consensus 8 ~l~~el~~~L~~ls~~t~i~~S~Ll~eAle~~l~k 42 (44)
T PF12651_consen 8 SLDKELYEKLKELSEETGIPKSKLLREALEDYLEK 42 (44)
T ss_pred ecCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh
Confidence 57888999999999999999999999999987643
No 30
>PRK14628 hypothetical protein; Provisional
Probab=34.72 E-value=2e+02 Score=21.79 Aligned_cols=64 Identities=19% Similarity=0.202 Sum_probs=42.1
Q ss_pred hcCCCeEEEEEcCCCCcEEEEEeecC-C-CHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhhcccc
Q 025482 175 SAGGPDVTVGILPTLDKVTLLQMDAK-L-PTNTFEDVMQLAIEGCKAVANYIR-EVRKFLLIAVDIVG 239 (252)
Q Consensus 175 ~~~~~~l~v~~~~~~~~i~~i~~~g~-~-~~~~l~~~l~~A~~~~~~i~~~i~-~~l~~~~~~~~~~~ 239 (252)
....+.++|. ++-+++|..++-+-. + +.+.+++++-.|...+.+-.+... +.+.+.+....+-|
T Consensus 50 ~sggG~VkV~-~nG~~ei~~I~Idp~~l~D~E~LeDLIiaA~NdA~~ka~~~~~~~m~~~tggm~lPG 116 (118)
T PRK14628 50 SVGGGAVRIV-ATCDRRVKDIEIDEDLKEDFETLKDLLIAGMNEVMEKIEKRREEEMSKITQQFGIPG 116 (118)
T ss_pred EecCceEEEE-EEcCceEEEEEECHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCC
Confidence 3456778887 488899999988643 3 677888888888777766555543 33555554444334
No 31
>PF02575 YbaB_DNA_bd: YbaB/EbfC DNA-binding family; InterPro: IPR004401 The function of this protein is unknown. It is restricted to bacteria and a few plants, such as Arabidopsis. The plant form contains an additional N-terminal region that may serve as a transit peptide and shows a close relationship to the cyanobacterial member, suggesting that it is a chloroplast protein. Members of this family are found in a single copy per bacterial genome, but are broadly distributed. A crystal structure of one member, YbaB from Haemophilus influenzae, revealed a core structure consisting of two layers, alpha/beta; YbaB forms a tight dimer with a 3-layer structure, beta/alpha/beta []. YbaB is co-transcribed with RecR, which appears to protect DNA strands of the replilcation fork when it is blocked by DNA damage. A deletion of the YbaB operon resulted in increased sensitivity to DNA-damaging agents compared with the wild-type strain.; PDB: 1PUG_B 3F42_B 1YBX_B 1J8B_A.
Probab=34.48 E-value=1.7e+02 Score=20.67 Aligned_cols=57 Identities=23% Similarity=0.247 Sum_probs=35.8
Q ss_pred hcCCCeEEEEEcCCCCcEEEEEeec----CCCHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Q 025482 175 SAGGPDVTVGILPTLDKVTLLQMDA----KLPTNTFEDVMQLAIEGCKAVA-NYIREVRKFLL 232 (252)
Q Consensus 175 ~~~~~~l~v~~~~~~~~i~~i~~~g----~~~~~~l~~~l~~A~~~~~~i~-~~i~~~l~~~~ 232 (252)
...++.++|. ++..|++..++.+- +.+++.+.+++-.|...+.+-. +..++.+.++.
T Consensus 26 ~s~~g~V~V~-v~g~g~v~~i~i~~~~~~~~~~~~L~~~I~~A~n~A~~~a~~~~~~~~~~~~ 87 (93)
T PF02575_consen 26 TSGDGLVTVT-VNGNGEVVDIEIDPSALRPLDPEELEDLIVEAVNDAQKKAREKAQEEMAELT 87 (93)
T ss_dssp EETCCTEEEE-EETTS-EEEEEE-GGGGCTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred EECCCEEEEE-EecCceEEEEEEehHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3456778887 48999999999963 3677888888777766655433 33444444443
No 32
>PRK00153 hypothetical protein; Validated
Probab=33.88 E-value=1.9e+02 Score=21.16 Aligned_cols=66 Identities=21% Similarity=0.210 Sum_probs=41.9
Q ss_pred hhcCCCeEEEEEcCCCCcEEEEEeec----CCCHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhhcccce
Q 025482 174 DSAGGPDVTVGILPTLDKVTLLQMDA----KLPTNTFEDVMQLAIEGCKAVA-NYIREVRKFLLIAVDIVGL 240 (252)
Q Consensus 174 e~~~~~~l~v~~~~~~~~i~~i~~~g----~~~~~~l~~~l~~A~~~~~~i~-~~i~~~l~~~~~~~~~~~~ 240 (252)
.+..++.++|. ++..++|..++-+- +-+.+.+.+++-.|...+.+=. +...+...+..-...+-||
T Consensus 33 ~~s~~G~V~V~-v~G~~~v~~i~Id~~ll~~~d~e~LedlI~~A~n~A~~~~~~~~~e~m~~~~gg~~~pgl 103 (104)
T PRK00153 33 GEAGGGLVKVT-MTGKKEVKRVKIDPSLVDPEDVEMLEDLILAAFNDALRKAEETMKEKMGKLTGGLLPPGF 103 (104)
T ss_pred EEECCCeEEEE-EecCceEEEEEECHHHcCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCC
Confidence 34557788887 58899999998863 2367778888877776665433 3344445555443333343
No 33
>PRK14627 hypothetical protein; Provisional
Probab=32.41 E-value=2e+02 Score=21.05 Aligned_cols=60 Identities=20% Similarity=0.275 Sum_probs=39.6
Q ss_pred hhcCCCeEEEEEcCCCCcEEEEEeecC-C---CHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhh
Q 025482 174 DSAGGPDVTVGILPTLDKVTLLQMDAK-L---PTNTFEDVMQLAIEGCKAVANY-IREVRKFLLIA 234 (252)
Q Consensus 174 e~~~~~~l~v~~~~~~~~i~~i~~~g~-~---~~~~l~~~l~~A~~~~~~i~~~-i~~~l~~~~~~ 234 (252)
-....+.+.|. ++-.+++..++-+-. + +.+.+++++-.|...+.+=.+. ..+.+.+.+..
T Consensus 31 g~sggG~VkV~-~~G~~~v~~i~Idp~ll~~ed~e~LeDLI~aA~N~A~~k~~~~~~~~m~~~tgg 95 (100)
T PRK14627 31 GTAGGGAITVK-MNGHREVQSITISPEVVDPDDVEMLQDLLLVAINDASRKAQQLAEERMQPLTGG 95 (100)
T ss_pred EEEcCCeEEEE-EEcCccEEEEEECHHHcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 34456778887 588899999988643 3 4567888888887776654444 33445555544
No 34
>PF01402 RHH_1: Ribbon-helix-helix protein, copG family; InterPro: IPR002145 CopG, also known as RepA, is responsible for the regulation of plasmid copy number. It binds to the repAB promoter and controls synthesis of the plasmid replication initiator protein RepB. Many bacterial transcription regulation proteins bind DNA through a 'helix-turn-helix' motif, nevertheless CopG displays a fully defined HTH-motif structure that is involved not in DNA-binding, but in the maintenance of the intrinsic dimeric functional structure and cooperativity [, ].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2BJ3_B 2BJ8_A 2BJ1_A 2BJ9_A 2BJ7_B 1EA4_L 2CPG_C 1B01_B 2BA3_A 2K9I_B ....
Probab=28.23 E-value=80 Score=18.25 Aligned_cols=32 Identities=31% Similarity=0.399 Sum_probs=26.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 201 LPTNTFEDVMQLAIEGCKAVANYIREVRKFLL 232 (252)
Q Consensus 201 ~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~ 232 (252)
++.+....+=+.|.+......++|+.++.+..
T Consensus 6 l~~~~~~~l~~~a~~~g~s~s~~ir~ai~~~l 37 (39)
T PF01402_consen 6 LPDELYERLDELAKELGRSRSELIREAIREYL 37 (39)
T ss_dssp EEHHHHHHHHHHHHHHTSSHHHHHHHHHHHHH
T ss_pred eCHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 56778888888899999999999999987754
No 35
>PF03333 PapB: Adhesin biosynthesis transcription regulatory protein; InterPro: IPR004356 P pili, or fimbriae, are ~68A in diameter and 1 micron in length, the bulk of which is a fibre composed of the main structural protein PapA []. At its tip, the pilus is terminated by a fibrillum consisting of repeating units of the PapE protein. This, in turn, is topped by the adhesins, PapF and PapG, both of which are needed for receptor binding. The tip fibrillum is anchored to the main PapA fibre by the PapK pilus-adaptor protein. PapH, an outer membrane protein, then anchors the entire rod in the bacterial envelope []. A cytoplasmic chaperone (PapD) assists in assembling the monomers of the macromolecule in the membrane. All of the functional pap genes are arranged in a cluster (operon) on the Escherichia coli genome. It is believed that selective pressure exerted by the host's urinal and intestinal tract isoreceptors forced the spread of this operon to other strains via lateral transfer []. PapB, encoded within the cluster, acts as a transcriptional regulator of the functional pap genes and is located in the bacterial cytoplasm []. Its mechanism involves differential binding to separate sites in the cluster, suggesting that this protein is both an activator and repressor of pilus-adhesion transcription. The protein shares similarity with other E. coli fimbrial- adhesion transcription regulators, such as AfaA, DaaA and FanB. ; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 3M8J_A.
Probab=27.56 E-value=86 Score=22.72 Aligned_cols=32 Identities=13% Similarity=0.171 Sum_probs=23.1
Q ss_pred ecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025482 198 DAKLPTNTFEDVMQLAIEGCKAVANYIREVRK 229 (252)
Q Consensus 198 ~g~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~ 229 (252)
.|.++++++.-+++++.-..+++..++++.|=
T Consensus 20 pG~vs~e~F~lLl~ls~IrS~kiI~AL~dyLV 51 (91)
T PF03333_consen 20 PGKVSEEHFWLLLELSSIRSEKIIAALRDYLV 51 (91)
T ss_dssp TT-S-HHHHHHHHHHS----HHHHHHHHHHHT
T ss_pred CCCcCHHHHHHHHHHCCCCcHHHHHHHHHHHH
Confidence 47899999999999999999999999998753
No 36
>PHA01623 hypothetical protein
Probab=26.13 E-value=1.1e+02 Score=19.86 Aligned_cols=35 Identities=11% Similarity=0.012 Sum_probs=28.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025482 200 KLPTNTFEDVMQLAIEGCKAVANYIREVRKFLLIA 234 (252)
Q Consensus 200 ~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~ 234 (252)
.++.+...++-..|.+......++|++++.+.+..
T Consensus 19 rldeel~~~Ld~y~~~~g~~rSe~IreAI~~yL~~ 53 (56)
T PHA01623 19 YMDKDLKTRLKVYCAKNNLQLTQAIEEAIKEYLQK 53 (56)
T ss_pred EeCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 46788888888899888888999999998877654
No 37
>PRK14622 hypothetical protein; Provisional
Probab=25.47 E-value=2.8e+02 Score=20.44 Aligned_cols=66 Identities=24% Similarity=0.270 Sum_probs=42.2
Q ss_pred hhcCCCeEEEEEcCCCCcEEEEEeecC-C---CHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhhcccce
Q 025482 174 DSAGGPDVTVGILPTLDKVTLLQMDAK-L---PTNTFEDVMQLAIEGCKAVANY-IREVRKFLLIAVDIVGL 240 (252)
Q Consensus 174 e~~~~~~l~v~~~~~~~~i~~i~~~g~-~---~~~~l~~~l~~A~~~~~~i~~~-i~~~l~~~~~~~~~~~~ 240 (252)
.....+.++|. ++-.++|..++-+-. + +.+.+++++-.|...+.+=.+. ..+.++..+....+-|+
T Consensus 31 g~sggG~VkV~-~nG~~~v~~i~Idp~~l~~ed~e~LeDLI~aA~N~A~~k~~~~~~~~m~~~tgg~~lPG~ 101 (103)
T PRK14622 31 AESGGGLVKVA-MNGKCEVTRLTVDPKAVDPNDKAMLEDLVTAAVNAAVEKARTAADESMSKATGGIKIPGI 101 (103)
T ss_pred EEECCceEEEE-EEcCceEEEEEECHHHcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCC
Confidence 34456778887 588899999988643 3 4667888887777665543333 34446666555554444
No 38
>PRK14624 hypothetical protein; Provisional
Probab=25.39 E-value=3e+02 Score=20.79 Aligned_cols=67 Identities=16% Similarity=0.099 Sum_probs=44.2
Q ss_pred hcCCCeEEEEEcCCCCcEEEEEeecC-C---CHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhhcccceee
Q 025482 175 SAGGPDVTVGILPTLDKVTLLQMDAK-L---PTNTFEDVMQLAIEGCKAVANY-IREVRKFLLIAVDIVGLCL 242 (252)
Q Consensus 175 ~~~~~~l~v~~~~~~~~i~~i~~~g~-~---~~~~l~~~l~~A~~~~~~i~~~-i~~~l~~~~~~~~~~~~~~ 242 (252)
....+.++|. ++-.+++..++-+-. + +.+.+++++-.|...+.+=.+. ..+.++..+....+-||+.
T Consensus 37 ~sGgG~VkV~-~nG~~~i~~i~Idp~lld~eD~E~LeDLI~aAvNdA~~k~~e~~~e~m~~~tgGm~lPGl~~ 108 (115)
T PRK14624 37 DAGAGMVTVT-ATGEGQITNVFINKQLFDADDNKMLEDLVMAATNDALKKAKEATAYEFQNASGGLDFSEISK 108 (115)
T ss_pred EECCcEEEEE-EEcCccEEEEEECHHHcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCchHH
Confidence 3456677876 588899999988643 3 4667888888777766554433 4445666666666667654
No 39
>COG3625 PhnH Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=23.24 E-value=4.3e+02 Score=21.83 Aligned_cols=97 Identities=10% Similarity=0.064 Sum_probs=55.5
Q ss_pred HHHHHhhccccCCCceEEEEEEEEecCCChhhHHHHHHHHHHHhCCCC-----------------------eeceeeEEE
Q 025482 101 QTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIP-----------------------MRDIVTSCS 157 (252)
Q Consensus 101 ~~l~~~i~l~~~p~~~I~i~v~VL~~dG~ll~a~i~Aa~~AL~~~gIp-----------------------~~~~~~avs 157 (252)
++|+.+.+--.+|+....++ -.-..-..+..+..|++++|+|..-| +...|--..
T Consensus 19 ~~FR~ll~a~A~PG~v~~l~--~~~~~p~pL~~At~Av~LtL~D~dTpvWL~~~l~~~~v~~wL~FHtgaplt~~~~~A~ 96 (196)
T COG3625 19 RVFRALLDAMARPGVVVPLD--RAAAPPAPLNPATGAVCLTLCDNDTPVWLDPALSSSAVRAWLRFHTGAPLTETPEEAR 96 (196)
T ss_pred HHHHHHHHhhcCCCceeecc--cccCCCcCCCHHHHHHHHHHhcCCCceeecccccchhhhhhhhhccCCcccCCcccce
Confidence 45666555456888654444 22223345888999999999999765 334555566
Q ss_pred eeeeCCe------eEEeCCchhhhcCCCeEEEEEcC-CCCcEEEEEeec
Q 025482 158 AGYLNST------PLLDLNYVEDSAGGPDVTVGILP-TLDKVTLLQMDA 199 (252)
Q Consensus 158 ~~~~~~~------~l~DPt~~Ee~~~~~~l~v~~~~-~~~~i~~i~~~g 199 (252)
|+++++. -..+|-..|--..+..+.|=+.+ +.|.-+.+...|
T Consensus 97 FAv~~~~~~~~~l~~f~~Gt~eyPdrStTLiiQV~sl~~G~~l~l~GPG 145 (196)
T COG3625 97 FAVVDDGAALPQLSGFAPGTAEYPDRSTTLIIQVASLEGGRPLRLTGPG 145 (196)
T ss_pred EEEecCcccchhhcccCCCcccCCCcceEEEEEecccCCCCceEeECCC
Confidence 6766532 23455555555555556554322 345555544433
No 40
>KOG2925 consensus Predicted translation initiation factor related to eIF-1A [Translation, ribosomal structure and biogenesis]
Probab=23.01 E-value=28 Score=27.61 Aligned_cols=41 Identities=24% Similarity=0.214 Sum_probs=24.8
Q ss_pred CCeeEEeCCchhhhcCCCeEEEEEcCCCCcEEEEEeecCCC
Q 025482 162 NSTPLLDLNYVEDSAGGPDVTVGILPTLDKVTLLQMDAKLP 202 (252)
Q Consensus 162 ~~~~l~DPt~~Ee~~~~~~l~v~~~~~~~~i~~i~~~g~~~ 202 (252)
++.+++||+.+|++...-.-.|.+.=...++-.+++.|..+
T Consensus 64 g~FvvVdpiee~~~g~KVkgeI~yVl~~d~vr~lqk~g~WP 104 (167)
T KOG2925|consen 64 GSFVVVDPIEEEKSGSKVKGEICYVLFFDQVRLLQKSGEWP 104 (167)
T ss_pred CCEEEEccccccccCCccceEEEEEEccHHHHHHHHcCCcc
Confidence 46789999998886554333333322445666666666443
Done!