Query 026672
Match_columns 235
No_of_seqs 132 out of 1294
Neff 8.3
Searched_HMMs 46136
Date Fri Mar 29 11:06:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026672.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026672hhsearch_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 2.5E-53 5.5E-58 355.1 29.5 223 3-226 2-230 (230)
2 PRK03983 exosome complex exonu 100.0 9.6E-53 2.1E-57 354.5 30.1 228 2-230 7-240 (244)
3 KOG1068 Exosomal 3'-5' exoribo 100.0 1.2E-52 2.5E-57 342.6 21.7 234 1-234 5-244 (245)
4 COG0689 Rph RNase PH [Translat 100.0 8.8E-49 1.9E-53 321.2 24.1 218 4-222 3-229 (230)
5 PRK00173 rph ribonuclease PH; 100.0 4.1E-46 8.9E-51 312.9 27.0 213 9-223 1-237 (238)
6 TIGR01966 RNasePH ribonuclease 100.0 1.3E-45 2.7E-50 309.7 27.6 211 10-222 1-235 (236)
7 TIGR03591 polynuc_phos polyrib 100.0 1E-42 2.3E-47 328.7 27.5 226 2-228 303-544 (684)
8 PRK04282 exosome complex RNA-b 100.0 3E-42 6.5E-47 294.9 25.2 216 4-223 19-270 (271)
9 PRK11824 polynucleotide phosph 100.0 5.3E-42 1.1E-46 324.6 27.1 226 2-228 307-547 (693)
10 TIGR02696 pppGpp_PNP guanosine 100.0 1.1E-41 2.5E-46 317.1 24.6 224 1-225 327-569 (719)
11 KOG1069 Exosomal 3'-5' exoribo 100.0 7.9E-41 1.7E-45 264.0 18.0 201 18-228 4-214 (217)
12 PLN00207 polyribonucleotide nu 100.0 6.2E-40 1.3E-44 311.1 27.3 225 2-227 431-677 (891)
13 COG2123 RNase PH-related exori 100.0 3.5E-39 7.7E-44 267.1 24.9 216 4-223 18-271 (272)
14 KOG1614 Exosomal 3'-5' exoribo 100.0 2.7E-34 5.9E-39 232.9 22.0 220 5-231 18-278 (291)
15 TIGR03591 polynuc_phos polyrib 100.0 2.5E-32 5.4E-37 258.3 24.8 203 20-228 5-220 (684)
16 PRK11824 polynucleotide phosph 100.0 1.7E-31 3.6E-36 253.2 24.6 202 19-226 13-227 (693)
17 PF01138 RNase_PH: 3' exoribon 100.0 4.4E-31 9.6E-36 202.6 16.5 131 18-148 1-132 (132)
18 PLN00207 polyribonucleotide nu 100.0 4.5E-29 9.7E-34 237.4 21.0 203 20-228 89-304 (891)
19 KOG1612 Exosomal 3'-5' exoribo 100.0 1.8E-27 3.9E-32 194.3 23.8 216 6-225 18-277 (288)
20 KOG1067 Predicted RNA-binding 100.0 8.8E-28 1.9E-32 214.2 14.7 218 2-225 351-587 (760)
21 KOG1613 Exosomal 3'-5' exoribo 100.0 1.5E-27 3.2E-32 193.5 14.5 214 2-219 29-297 (298)
22 COG1185 Pnp Polyribonucleotide 99.9 1.5E-25 3.3E-30 205.3 15.6 227 2-229 305-546 (692)
23 TIGR02696 pppGpp_PNP guanosine 99.9 3.4E-22 7.3E-27 187.1 20.3 202 20-227 17-249 (719)
24 COG1185 Pnp Polyribonucleotide 99.8 1.5E-19 3.4E-24 166.1 18.6 200 20-226 14-226 (692)
25 KOG1067 Predicted RNA-binding 99.7 3.4E-17 7.4E-22 146.9 10.5 205 18-229 54-271 (760)
26 PF03725 RNase_PH_C: 3' exorib 98.6 1.6E-07 3.5E-12 63.4 7.1 60 151-210 1-68 (68)
27 PF01402 RHH_1: Ribbon-helix-h 63.0 11 0.00023 21.7 2.8 35 194-228 5-39 (39)
28 PF12651 RHH_3: Ribbon-helix-h 52.4 32 0.0007 20.7 3.7 36 193-228 7-42 (44)
29 PF06519 TolA: TolA C-terminal 51.6 67 0.0015 22.9 5.9 60 89-149 10-79 (96)
30 PF09695 YtfJ_HI0045: Bacteria 41.6 78 0.0017 24.9 5.3 29 179-208 130-158 (160)
31 COG3625 PhnH Uncharacterized e 35.0 1.9E+02 0.0041 23.4 6.5 48 100-149 18-65 (196)
32 PF03333 PapB: Adhesin biosynt 33.5 55 0.0012 23.2 3.0 34 193-226 21-54 (91)
33 PF03670 UPF0184: Uncharacteri 32.2 1.7E+02 0.0036 20.4 5.1 38 196-233 34-71 (83)
34 PHA01748 hypothetical protein 30.7 1.2E+02 0.0026 19.5 4.1 37 194-230 8-44 (60)
35 PHA01623 hypothetical protein 30.3 87 0.0019 19.9 3.3 36 194-229 19-54 (56)
36 PF13974 YebO: YebO-like prote 28.5 1.1E+02 0.0023 21.2 3.7 31 204-234 18-48 (80)
37 PF02962 CHMI: 5-carboxymethyl 28.0 2.5E+02 0.0054 21.1 6.0 55 63-127 56-110 (124)
38 cd07207 Pat_ExoU_VipD_like Exo 24.8 76 0.0016 25.0 2.9 34 126-160 5-38 (194)
39 cd07198 Patatin Patatin-like p 24.0 82 0.0018 24.5 2.9 34 126-160 4-37 (172)
40 COG3054 Predicted transcriptio 23.7 2.2E+02 0.0049 22.4 5.0 35 172-208 146-180 (184)
41 PF03727 Hexokinase_2: Hexokin 23.4 2.1E+02 0.0045 23.9 5.4 40 95-140 202-241 (243)
42 PF03869 Arc: Arc-like DNA bin 22.3 1.5E+02 0.0032 18.3 3.2 35 194-228 10-44 (50)
43 PRK15215 fimbriae biosynthesis 20.9 1.4E+02 0.0029 21.6 3.1 33 193-225 29-61 (100)
44 PF09107 SelB-wing_3: Elongati 20.8 1E+02 0.0022 19.2 2.2 29 192-220 8-36 (50)
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=2.5e-53 Score=355.14 Aligned_cols=223 Identities=46% Similarity=0.779 Sum_probs=208.4
Q ss_pred ccCCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCcccc
Q 026672 3 FVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDR 82 (235)
Q Consensus 3 ~~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~ 82 (235)
+++++|+|+|||+++|+|++++++|+++++||||++++|+|+|+|+|+||+|.+.+....|+++.|+|+|++.||++.++
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 57899999999999999999999999999999999999999999999999988766667799999999999999999765
Q ss_pred CCCCCCCchhHHHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCCccceeEEEEEEeec
Q 026672 83 MRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLN 162 (235)
Q Consensus 83 ~~~~~~~~~~~~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip~~~~~~a~s~~~~~ 162 (235)
++ +.+++++++++++|+++|+++++++.||++.|+|+++||++||++++|++||+++||.|+||||+++++++++++++
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 44 45788899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Ccceee------cCCCCeEEEEEcCCCCcEEEEEEeecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 163 STPLLD------SAGGPDVTVGILPTLDKVTLLQMDAKLPTNTFEDVMQLAIEGCKAVANYIREVLLENT 226 (235)
Q Consensus 163 ~~~l~D------~~~~~~~~v~~~~~~~~i~~~~~~g~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~ 226 (235)
+.+++| ..+..++++++++..++|++++++|.++++++.++++.|.++|+++.+++++.|+++.
T Consensus 161 ~~~v~Dpt~~Ee~~~~~~l~va~~~~~~~i~~i~~~g~~~~e~~~~~l~~a~~~~~~l~~~~~~~l~~~~ 230 (230)
T TIGR02065 161 GVVVLDLNEEEDMYGEADMPVAMMPKLGEITLLQLDGDMTPDEFRQALDLAVKGIKIIYQIQREALKNKY 230 (230)
T ss_pred CeEEECCCHHHhhcCCCceEEEEeCCCCCEEEEEEecCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 999999 2345779999888889999999999999999999999999999999999999998863
No 2
>PRK03983 exosome complex exonuclease Rrp41; Provisional
Probab=100.00 E-value=9.6e-53 Score=354.53 Aligned_cols=228 Identities=47% Similarity=0.804 Sum_probs=212.6
Q ss_pred cccCCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCccc
Q 026672 2 EFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGD 81 (235)
Q Consensus 2 e~~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~ 81 (235)
++++++|+|+|||+++|+|++++++|++++++|||++++|+|+|+|+|+||.|.+.+....|+++.++|++++.||++.+
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 57899999999999999999999999999999999999999999999999999877777789999999999999999876
Q ss_pred cCCCCCCCchhHHHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCCccceeEEEEEEee
Q 026672 82 RMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYL 161 (235)
Q Consensus 82 ~~~~~~~~~~~~~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip~~~~~~a~s~~~~ 161 (235)
+++ +.+++++.+++++|+++|+++++++.||++.|+|+++||++|||+++||+||+++||+|+||||++++++++++++
T Consensus 87 ~~~-~~~~~~~~~~s~~l~~~l~~~i~~~~~p~~~I~I~i~VL~~DG~~~~aai~Aa~lAL~dagIp~~~~v~avtv~~~ 165 (244)
T PRK03983 87 RKR-PGPDRRSIEISKVIREALEPAIMLELFPRTVIDVFIEVLQADAGTRVAGITAASLALADAGIPMRDLVAGCAVGKV 165 (244)
T ss_pred ccC-CCCChhHHHHHHHHHHHHHHhccHHhCCCeEEEEEEEEEECCCCHHHHHHHHHHHHHHhcCCccccceeEEEEEEE
Confidence 543 3578888999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCcceee------cCCCCeEEEEEcCCCCcEEEEEEeecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 026672 162 NSTPLLD------SAGGPDVTVGILPTLDKVTLLQMDAKLPTNTFEDVMQLAIEGCKAVANYIREVLLENTKQLE 230 (235)
Q Consensus 162 ~~~~l~D------~~~~~~~~v~~~~~~~~i~~~~~~g~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~~~~~ 230 (235)
++.+++| ..+.+.++|+++++.++|+++++.|.++++++.++++.|.++|++++++|+++|+++..+..
T Consensus 166 ~~~~i~DPt~~Ee~~~~~~l~va~~~~~~~I~~l~~~G~~~~~~~~~~i~~A~~~~~~i~~~i~~~l~~~~~~~~ 240 (244)
T PRK03983 166 DGVIVLDLNKEEDNYGEADMPVAIMPRLGEITLLQLDGNLTREEFLEALELAKKGIKRIYQLQREALKSKYGEIA 240 (244)
T ss_pred CCEEEECCCHHHhccCCceEEEEEECCCCCEEEEEEecCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 9999999 33567899999888899999999999999999999999999999999999999999877543
No 3
>KOG1068 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp41 and related exoribonucleases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-52 Score=342.62 Aligned_cols=234 Identities=54% Similarity=0.860 Sum_probs=220.1
Q ss_pred CcccCCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCcc
Q 026672 1 MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTG 80 (235)
Q Consensus 1 ~e~~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~ 80 (235)
+|++.++|.|.|||.++|+|+|..+.|++++++||||+++|||||+|.|+||+|.+..+...|+++.++|+|..++|+++
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 57899999999999999999999999999999999999999999999999999998766667999999999999999999
Q ss_pred ccCCCCCCCchhHHHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCCccceeEEEEEEe
Q 026672 81 DRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGY 160 (235)
Q Consensus 81 ~~~~~~~~~~~~~~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip~~~~~~a~s~~~ 160 (235)
+++++.+.+.++++++.+|+++|+++|.++.||+++|+|+|+||++||+.+++|+||+.+||.|+||||+|+++++|+++
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 98776778889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCcceee------cCCCCeEEEEEcCCCCcEEEEEEeecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhC
Q 026672 161 LNSTPLLD------SAGGPDVTVGILPTLDKVTLLQMDAKLPTNTFEDVMQLAIEGCKAVANYIREVLLENTKQLECRRG 234 (235)
Q Consensus 161 ~~~~~l~D------~~~~~~~~v~~~~~~~~i~~~~~~g~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~~~~~~~~~ 234 (235)
.++.+++| +.....++|++.++.++|..+|+++.++.+.|...++.|.+.|+++.+.++.++.++++++....+
T Consensus 165 ~~~~~l~Dl~~~eesa~~~~ltVa~l~~~~~i~~l~~~~~~~~d~l~~vl~~a~~~c~~v~~~l~~~l~~~l~~~~~~~~ 244 (245)
T KOG1068|consen 165 ADGTPLLDLTSLEESARAPGLTVAALPNREEIALLQLDERLHCDHLETVLELAIAGCKRVYERLRLVLREHLKNAESALS 244 (245)
T ss_pred cCCccccccccchhhccCCceEEEEecCcceEEEEEecCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Confidence 99999999 223447899999999999999999999999999999999999999999999999999998876543
No 4
>COG0689 Rph RNase PH [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.8e-49 Score=321.19 Aligned_cols=218 Identities=40% Similarity=0.628 Sum_probs=203.0
Q ss_pred cCCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCccccC
Q 026672 4 VSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRM 83 (235)
Q Consensus 4 ~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~~ 83 (235)
..+++.|+|||.++|+|+|+++.|++++++||+++++|+|||+|+|+||+|..++....++.|+++++|.+.|+++.++.
T Consensus 3 ~~~~~~R~dgR~~delR~i~~~~~~~~~a~GS~~~~~G~tkVic~vsGp~e~~p~~l~~~~~g~~t~ey~m~p~sT~~R~ 82 (230)
T COG0689 3 ESEDGMRPDGRKPDELRPIKITRGVLKHAEGSSLIEFGNTKVICTVSGPREPVPRFLRGTGKGWLTAEYGMLPRSTDERK 82 (230)
T ss_pred CcccCcCCCCCCcccccceEEEeccccCCCccEEEEeCCeEEEEEEecCCCCCChhhcCCCceEEEEEEecccccccccc
Confidence 45789999999999999999999999999999999999999999999999998888888889999999999999997764
Q ss_pred CCCCCCc-hhHHHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCCccceeEEEEEEeec
Q 026672 84 RKPKGDR-RSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLN 162 (235)
Q Consensus 84 ~~~~~~~-~~~~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip~~~~~~a~s~~~~~ 162 (235)
++. +++ ++++++++|.++|+++|+++.||++.|+|+|+|+++||+.+.|+|||+++||.|||+||+++++|+|+|+++
T Consensus 83 ~~~-~~~gR~~eisrli~~al~~~i~L~~~p~~~I~i~~dVlqaDggTrta~It~A~lAL~DAgipl~~~vaaiSvgi~~ 161 (230)
T COG0689 83 KRE-ADRGRTKEISRLIGRALRAVIDLELLPESTIDIDCDVLQADGGTRTASITGASLALADAGIPLRDLVAAISVGIVD 161 (230)
T ss_pred ccc-ccccchhHHHHHHHHHHHHHhhhhhcCccEEEEEEEEEECCCCeeeehhhHHHHHHHHcCCchhhheeEeEEEEEC
Confidence 443 333 789999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Ccceee------cCCCCeEEEEEcCCCC--cEEEEEEeecCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 163 STPLLD------SAGGPDVTVGILPTLD--KVTLLQMDAKLPTNTFEDVMQLAIEGCKAVANYIREVL 222 (235)
Q Consensus 163 ~~~l~D------~~~~~~~~v~~~~~~~--~i~~~~~~g~~~~~~~~~~l~~a~~~~~~i~~~i~~~l 222 (235)
+.+++| +.+.++++|+++++.+ +|..++.+|+|+++++.++++.|++.|+++++.++++|
T Consensus 162 ~~~~lDl~~~Eds~~~~d~~v~~~~~~~~~ei~~~~~~~~~~~del~~lL~la~~g~~~~~~~~~~al 229 (230)
T COG0689 162 GVIVLDLDYEEDSAAEADMNVVMTGNGGLVEIQGLAEDGPFTEDELLELLDLAIKGCNELRELQREAL 229 (230)
T ss_pred CceEecCcchhhcccccCceEEEEecCCeEEEEEEeccCCcCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 999999 4456788898888777 89999999999999999999999999999999999987
No 5
>PRK00173 rph ribonuclease PH; Reviewed
Probab=100.00 E-value=4.1e-46 Score=312.92 Aligned_cols=213 Identities=30% Similarity=0.411 Sum_probs=192.1
Q ss_pred CCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCccccCC----
Q 026672 9 LRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMR---- 84 (235)
Q Consensus 9 ~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~~~---- 84 (235)
+|+|||+++|+|++++++|++++++|||++++|+|+|+|+|++|.+.. +....+++|.|+|+|.++||++.++.+
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 MRPDGRAADQLRPVTITRNFTKHAEGSVLVEFGDTKVLCTASVEEGVP-RFLKGQGQGWVTAEYGMLPRATHTRNDREAA 79 (238)
T ss_pred CCCCCCCcccccCeEEEeCCCCCCCeeEEEEecCcEEEEEEEcCCCCC-CccCCCCcEEEEEEEecCCCCCccccccccc
Confidence 599999999999999999999999999999999999999999876532 222457899999999999999987632
Q ss_pred CCCCCchhHHHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhC-----------CCCcccee
Q 026672 85 KPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDA-----------GIPMRDIV 153 (235)
Q Consensus 85 ~~~~~~~~~~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~a-----------gip~~~~~ 153 (235)
.|++++++++++++|+++|+++++++.||++.++|+++||++|||+++||+||+++||.|+ ++||+++|
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 3567888999999999999999999999998999999999999999999999999999999 99999999
Q ss_pred EEEEEEeecCcceee------cCCCCeEEEEEcCCCCcEEEEEEee---cCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 154 TSCSAGYLNSTPLLD------SAGGPDVTVGILPTLDKVTLLQMDA---KLPTNTFEDVMQLAIEGCKAVANYIREVLL 223 (235)
Q Consensus 154 ~a~s~~~~~~~~l~D------~~~~~~~~v~~~~~~~~i~~~~~~g---~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~ 223 (235)
+++|++++++.+++| +.+.+.++|++ +..++|+++++.| .++++++.++++.|++.++++++++++.|.
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 999999999999999 34567889865 5578999999953 699999999999999999999999999875
No 6
>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=1.3e-45 Score=309.68 Aligned_cols=211 Identities=31% Similarity=0.444 Sum_probs=188.6
Q ss_pred CCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCccccC-C---C
Q 026672 10 RLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRM-R---K 85 (235)
Q Consensus 10 R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~~-~---~ 85 (235)
|+|||+++|+|++++++|++++++|||+|++|+|+|+|+|+++.+... ....+++|.++|++.+.|+++..+. + .
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 RPDGRKPDQLRPVSITRDFLKHAEGSVLIEFGNTKVLCTASVEEKVPP-FLRGSGEGWITAEYGMLPRATQTRNRRESAK 79 (236)
T ss_pred CCCCCCCCCccCeEEEeCCcCCCCceEEEEecCCEEEEEEEccCccCC-cccCCCcEEEEEEEecCCCCCCCCccccccC
Confidence 899999999999999999999999999999999999999997554222 2234688999999999999998652 2 2
Q ss_pred CCCCchhHHHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhC-----------CCCccceeE
Q 026672 86 PKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDA-----------GIPMRDIVT 154 (235)
Q Consensus 86 ~~~~~~~~~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~a-----------gip~~~~~~ 154 (235)
|++++++.+++++|+++|+++|+++.||++.|+|+++||++|||+++||+||+++||.|+ ||||+++|+
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 566667889999999999999999999999999999999999999999999999999999 999999999
Q ss_pred EEEEEeecCcceee------cCCCCeEEEEEcCCCCcEEEEEEe---ecCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 155 SCSAGYLNSTPLLD------SAGGPDVTVGILPTLDKVTLLQMD---AKLPTNTFEDVMQLAIEGCKAVANYIREVL 222 (235)
Q Consensus 155 a~s~~~~~~~~l~D------~~~~~~~~v~~~~~~~~i~~~~~~---g~~~~~~~~~~l~~a~~~~~~i~~~i~~~l 222 (235)
++|++++++.+++| ..+.+.+++++. ..++|+++++. +.++++++.++++.|.++++++++.++++|
T Consensus 160 ~vt~~~~~~~~v~Dpt~~Ee~~~~~~l~l~~~-~~~~i~~i~~~g~~~~~~~~~l~~~i~~a~~~~~~l~~~~~~~l 235 (236)
T TIGR01966 160 AVSVGIVDGEPVLDLDYEEDSAADVDMNVVMT-GSGGFVEVQGTAEEGPFSRDELNKLLDLAKKGIRELIELQKQAL 235 (236)
T ss_pred EEEEEEECCEEEECCChhHHhccCceEEEEEc-CCCCEEEEEecCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999 234568999765 47899999995 369999999999999999999999999886
No 7
>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=1e-42 Score=328.66 Aligned_cols=226 Identities=24% Similarity=0.396 Sum_probs=197.6
Q ss_pred cccCCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEE-ECCcccccccc--CCCCceEEEEEEeeCCCC
Q 026672 2 EFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAV-YGPREVQNKSQ--QMSDQALVRCEYSMANFS 78 (235)
Q Consensus 2 e~~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V-~gp~e~~~~~~--~~~~~~~l~v~~~~~~~~ 78 (235)
++++++|.|+|||+++|+||+++++|+++++||||+|++|+|+|+|+| .||.+..++.+ ...+++.+.++|+++||+
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 578999999999999999999999999999999999999999999999 58876533221 124578999999999999
Q ss_pred ccccCCCCCCCchhHHHHHHHHHHHHhhhhc-CCCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCCccceeEEEE
Q 026672 79 TGDRMRKPKGDRRSTEISLVIRQTMEACILT-HLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCS 157 (235)
Q Consensus 79 ~~~~~~~~~~~~~~~~l~~~l~~~l~~~i~~-~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip~~~~~~a~s 157 (235)
++++++.+.|++++.+++++++++|+++++. +.||+ .|+|+++||++|||..+|+++|+++||+||||||++++++++
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 9998777888999999999999999999986 78997 699999999999999999999999999999999999999999
Q ss_pred EEeec-C----cceee----cCCCCeEEEEEcCCCCcEEEEEEeec---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 158 AGYLN-S----TPLLD----SAGGPDVTVGILPTLDKVTLLQMDAK---LPTNTFEDVMQLAIEGCKAVANYIREVLLEN 225 (235)
Q Consensus 158 ~~~~~-~----~~l~D----~~~~~~~~v~~~~~~~~i~~~~~~g~---~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~ 225 (235)
+|+++ + .+++| +...+++.+.+..+.+.|++++++++ ++.+.+.++++.|.+++.+|.+.|++++.++
T Consensus 462 ~gli~~~~~~~~il~D~~~~Ed~~~d~d~~va~t~~gI~~lq~d~k~~~i~~~~l~~al~~a~~~~~~I~~~m~~~l~~~ 541 (684)
T TIGR03591 462 MGLIKEGDERFAVLSDILGDEDHLGDMDFKVAGTRDGITALQMDIKIDGITREIMEQALEQAKEGRLHILGEMNKVISEP 541 (684)
T ss_pred EEEEcCCCcceEEEeCCChHHHhcCCceEEEEEcCCceEEEEEEcCcCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 99995 2 37889 22234444444555666999999754 6999999999999999999999999999998
Q ss_pred HHH
Q 026672 226 TKQ 228 (235)
Q Consensus 226 ~~~ 228 (235)
.+.
T Consensus 542 ~~~ 544 (684)
T TIGR03591 542 RAE 544 (684)
T ss_pred hcc
Confidence 653
No 8
>PRK04282 exosome complex RNA-binding protein Rrp42; Provisional
Probab=100.00 E-value=3e-42 Score=294.89 Aligned_cols=216 Identities=21% Similarity=0.301 Sum_probs=189.1
Q ss_pred cCCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCccccC
Q 026672 4 VSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRM 83 (235)
Q Consensus 4 ~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~~ 83 (235)
.+++|+|+|||+++|+|++++++|.+++++|||+|++|+|+|+|+|+++. ..+....|++|.++|++++.|+++..+
T Consensus 19 ~l~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~vl~~V~~~~--~~p~~~~~~~g~i~~~v~~~~~a~~~~- 95 (271)
T PRK04282 19 LLKKGKRIDGRKLDEYRPIEIETGVIKKAEGSALVKLGNTQVLAGVKLEI--GEPFPDTPNEGVLIVNAELLPLASPTF- 95 (271)
T ss_pred HHhcCCCCCCCCCccccCeEEEeCCccCCCcEEEEEECCCEEEEEEEEEE--ecCCCCCCCCCEEEEEEEECCCcCccc-
Confidence 35789999999999999999999999999999999999999999999532 222334689999999999999988654
Q ss_pred CCCCCCchhHHHHHHHHHHHHhhh--hcCCC---Cc---cEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCC-------
Q 026672 84 RKPKGDRRSTEISLVIRQTMEACI--LTHLM---PR---SQIDIFVQVLQADGGTRSACINAATLALQDAGIP------- 148 (235)
Q Consensus 84 ~~~~~~~~~~~l~~~l~~~l~~~i--~~~~~---p~---~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip------- 148 (235)
+.+.+++++.+++++|+++|+++. +++.| |+ |.|+|+++||++|||++||+++|+++||.|+++|
T Consensus 96 ~~~~~~~~~~~l~~~l~r~l~~~~~~dl~~L~I~~g~~~w~i~Vdv~VL~~dG~~~daa~~Aa~aAL~~~~iP~~~~~~~ 175 (271)
T PRK04282 96 EPGPPDENAIELARVVDRGIRESKAIDLEKLVIEPGKKVWVVFIDVYVLDHDGNLLDASMLAAVAALLNTKVPAVEEGED 175 (271)
T ss_pred cCCCCCHHHHHHHHHHHHHHhccCCccHHHcEEecCcEEEEEEEEEEEECCCCCHHHHHHHHHHHHHHhCCCCcEEEcCC
Confidence 456788889999999999999864 44433 54 5899999999999999999999999999999995
Q ss_pred -------------ccceeEEEEEEeecCcceee------cCCCCeEEEEEcCCCCcEEEEEEe--ecCCHHHHHHHHHHH
Q 026672 149 -------------MRDIVTSCSAGYLNSTPLLD------SAGGPDVTVGILPTLDKVTLLQMD--AKLPTNTFEDVMQLA 207 (235)
Q Consensus 149 -------------~~~~~~a~s~~~~~~~~l~D------~~~~~~~~v~~~~~~~~i~~~~~~--g~~~~~~~~~~l~~a 207 (235)
|+++|+++|++++++.+++| +.+.+.++|++.+ .++|+++++. |+++++++.++++.|
T Consensus 176 ~~~~~~~~~~~l~~~~~p~~vt~~~~~~~~v~Dpt~~Ee~~~~~~l~va~~~-~g~i~~l~~~g~~~~~~~~l~~~i~~A 254 (271)
T PRK04282 176 GVVDKLGEDFPLPVNDKPVTVTFAKIGNYLIVDPTLEEESVMDARITITTDE-DGNIVAIQKSGIGSFTEEEVDKAIDIA 254 (271)
T ss_pred ceeccCCCcccCCCCCeeEEEEEEEECCEEEECCCHHHHhhcCceEEEEECC-CCcEEEEEcCCCCCCCHHHHHHHHHHH
Confidence 99999999999999999999 3467789998764 6799999986 469999999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q 026672 208 IEGCKAVANYIREVLL 223 (235)
Q Consensus 208 ~~~~~~i~~~i~~~l~ 223 (235)
.+.++++++.++++|+
T Consensus 255 ~~~~~~l~~~~~~~l~ 270 (271)
T PRK04282 255 LEKAKELREKLKEALG 270 (271)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 9999999999999874
No 9
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=100.00 E-value=5.3e-42 Score=324.56 Aligned_cols=226 Identities=24% Similarity=0.411 Sum_probs=194.9
Q ss_pred cccCCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEE-ECCccccccccC--CCCceEEEEEEeeCCCC
Q 026672 2 EFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAV-YGPREVQNKSQQ--MSDQALVRCEYSMANFS 78 (235)
Q Consensus 2 e~~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V-~gp~e~~~~~~~--~~~~~~l~v~~~~~~~~ 78 (235)
++|+++|.|+|||.++|+||+++++|+++++||||+|++|+|+|+|+| .||....++.+. ..+++.+.++|+++||+
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 589999999999999999999999999999999999999999999999 587433222111 23689999999999999
Q ss_pred ccccCCCCCCCchhHHHHHHHHHHHHhhhhc-CCCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCCccceeEEEE
Q 026672 79 TGDRMRKPKGDRRSTEISLVIRQTMEACILT-HLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCS 157 (235)
Q Consensus 79 ~~~~~~~~~~~~~~~~l~~~l~~~l~~~i~~-~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip~~~~~~a~s 157 (235)
++++++.+.+++++.+++++++++|+++++. +.||+ .|+|+++||++|||.++|+++|+++||+||||||++++++++
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 9998777788999999999999999999998 68996 899999999999999999999999999999999999999999
Q ss_pred EEeecC----cceee----cCCCCeEEEEEcCCCCcEEEEEEeec---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 158 AGYLNS----TPLLD----SAGGPDVTVGILPTLDKVTLLQMDAK---LPTNTFEDVMQLAIEGCKAVANYIREVLLENT 226 (235)
Q Consensus 158 ~~~~~~----~~l~D----~~~~~~~~v~~~~~~~~i~~~~~~g~---~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~ 226 (235)
+|++++ .+++| +...+++.+.+..+.+.|+++|++++ ++.+.+.++++.|.+++.+|.+.|++++.+..
T Consensus 466 ~gli~~~~~~~il~D~~~~Ed~~~d~d~~va~t~~gi~~lq~d~k~~~i~~~~l~~al~~a~~g~~~I~~~M~~aI~~~r 545 (693)
T PRK11824 466 MGLIKEGDKYAVLTDILGDEDHLGDMDFKVAGTRDGITALQMDIKIDGITREILEEALEQAKEGRLHILGKMNEAISEPR 545 (693)
T ss_pred EEEEcCCCceEEEcCCChhhHhhCCceEEEEecCCceEEEEEecccCCcCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCh
Confidence 999953 26789 22234444444445555999998865 69999999999999999999999999997665
Q ss_pred HH
Q 026672 227 KQ 228 (235)
Q Consensus 227 ~~ 228 (235)
+.
T Consensus 546 ~~ 547 (693)
T PRK11824 546 AE 547 (693)
T ss_pred hh
Confidence 43
No 10
>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=1.1e-41 Score=317.10 Aligned_cols=224 Identities=25% Similarity=0.390 Sum_probs=199.1
Q ss_pred CcccCCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEE-CCcccccccc--CCCCceEEEEEEeeCCC
Q 026672 1 MEFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVY-GPREVQNKSQ--QMSDQALVRCEYSMANF 77 (235)
Q Consensus 1 ~e~~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~-gp~e~~~~~~--~~~~~~~l~v~~~~~~~ 77 (235)
+|+++.+|.|+|||.++|+|++++++|+++++||||+|+.|+|+|+|++. ||.+..+..+ ..++.+.+.|+|+++||
T Consensus 327 r~~il~~g~R~DGR~~~eiR~i~~~~g~l~~a~GSa~~~~G~Tqvl~~~tlG~~~~~q~~~~l~~~~~~~~~~~YnfpPF 406 (719)
T TIGR02696 327 RERVLTEGVRIDGRGVTDIRPLDAEVQVIPRVHGSALFERGETQILGVTTLNMLKMEQQIDSLSPETSKRYMHHYNFPPY 406 (719)
T ss_pred HHHHhcCCCCCCCCCccccccceeecCCCCCCCceEEEEecCcEEEEEEeCCCchhhhhcccccccccceEEEEEeCCCC
Confidence 36899999999999999999999999999999999999999999999987 4544333211 13457889999999999
Q ss_pred CccccCCCCCCCchhHHHHHHHHHHHHhhhh-cCCCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCCccceeEEE
Q 026672 78 STGDRMRKPKGDRRSTEISLVIRQTMEACIL-THLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSC 156 (235)
Q Consensus 78 ~~~~~~~~~~~~~~~~~l~~~l~~~l~~~i~-~~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip~~~~~~a~ 156 (235)
+++++++.+.+++++++++++++++|+++|+ ++.||++ |.+.++||++||+...|++||+++||+||||||+++++++
T Consensus 407 St~er~~~~~~~RReighg~La~rALe~vI~~~e~fP~T-IrvvseVLeSdGSss~AsIcaasLALmDAGVPmkd~VAgi 485 (719)
T TIGR02696 407 STGETGRVGSPKRREIGHGALAERALVPVLPSREEFPYA-IRQVSEALGSNGSTSMGSVCASTLSLLNAGVPLKAPVAGI 485 (719)
T ss_pred cccCCCCCCCCCccHHHHHHHHHHHHHHhhCcHhhCCCE-EEEEEEeeccCCcHHHHHHHHHHHHHHHcCcchhheeeEE
Confidence 9999988778889999999999999999998 6999996 8889999999999999999999999999999999999999
Q ss_pred EEEeecC----c----ceee----cCCCCeEEEEEcCCCCcEEEEEEeecC---CHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 157 SAGYLNS----T----PLLD----SAGGPDVTVGILPTLDKVTLLQMDAKL---PTNTFEDVMQLAIEGCKAVANYIREV 221 (235)
Q Consensus 157 s~~~~~~----~----~l~D----~~~~~~~~v~~~~~~~~i~~~~~~g~~---~~~~~~~~l~~a~~~~~~i~~~i~~~ 221 (235)
++|++++ . +++| +...+++.+.+++..+.|+++|++|++ +.+.+.+++++|.++|..|++.|+++
T Consensus 486 s~Gli~e~~~~~~~~~iL~Di~g~ED~~Gdmdfkvagt~~gIt~lQmd~ki~gi~~e~l~~aL~~A~~g~~~Il~~m~~a 565 (719)
T TIGR02696 486 AMGLISDEVDGETRYVALTDILGAEDAFGDMDFKVAGTSEFVTALQLDTKLDGIPASVLASALKQARDARLAILDVMAEA 565 (719)
T ss_pred EEEEeccccCCCcceeEEeCCCchhhhcCCceEEEEecCCCEEEEEEEeeECCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999943 2 6899 344567777778888999999999875 89999999999999999999999999
Q ss_pred HHHH
Q 026672 222 LLEN 225 (235)
Q Consensus 222 l~~~ 225 (235)
|.+.
T Consensus 566 l~~p 569 (719)
T TIGR02696 566 IDTP 569 (719)
T ss_pred HhCc
Confidence 9876
No 11
>KOG1069 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp46 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.9e-41 Score=264.01 Aligned_cols=201 Identities=28% Similarity=0.451 Sum_probs=177.5
Q ss_pred CCcceEEEECCcCCCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCccccCCCCCCCchhHHHHH
Q 026672 18 EMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISL 97 (235)
Q Consensus 18 e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~l~~ 97 (235)
.+|++.++.|+|+++|||+.|++|+|+|+|+||||.+++.+ ++.|+++.++|-|++.. |.++..++.+++
T Consensus 4 ~lr~~~cei~iLsr~dGSs~fsqgdT~V~c~V~GP~dvk~r-~E~~~katleVi~rp~~---------G~~~~~eK~~e~ 73 (217)
T KOG1069|consen 4 RLRGIACEISILSRPDGSSEFSQGDTKVICSVYGPIDVKAR-QEDPEKATLEVIWRPKS---------GVNGTVEKVLER 73 (217)
T ss_pred hhhhhhhhhceecCCCCccceecCCcEEEEEeeCCcchhhc-ccCchhceEEEEEeccc---------CcchHHHHHHHH
Confidence 78999999999999999999999999999999999999875 56799999999998642 355678899999
Q ss_pred HHHHHHHhhhhcCCCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCCccceeEEEEEEeecC-cceee------c-
Q 026672 98 VIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCSAGYLNS-TPLLD------S- 169 (235)
Q Consensus 98 ~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip~~~~~~a~s~~~~~~-~~l~D------~- 169 (235)
.|+++|++.|.++.||++.|+|.+||+++||+.+++|||||++||+|+||||+++++++++++.++ .+++| .
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 999999999999999999999999999999999999999999999999999999999999999965 67889 1
Q ss_pred -CCCCeEEEEE-cCCCCcEEEEEEeecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 170 -AGGPDVTVGI-LPTLDKVTLLQMDAKLPTNTFEDVMQLAIEGCKAVANYIREVLLENTKQ 228 (235)
Q Consensus 170 -~~~~~~~v~~-~~~~~~i~~~~~~g~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~~~ 228 (235)
.....+++.. .....+++..+.+|.++.+++..+++.|...+.+++.++++.++....+
T Consensus 154 ~~~~~~lsf~~~~~~~~~vi~s~t~G~~~~d~lf~~le~a~~~~~~~f~f~r~~~q~~~s~ 214 (217)
T KOG1069|consen 154 STARATLSFEGGSLGEPKVIISETNGEKSEDQLFYVLELAQAAAQSLFPFYREVLQRKYSK 214 (217)
T ss_pred hhceEEEEEecCCCCCcceEEEeccCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHHhhcCc
Confidence 1222334422 2236679999999999999999999999999999999999999987654
No 12
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=100.00 E-value=6.2e-40 Score=311.12 Aligned_cols=225 Identities=24% Similarity=0.385 Sum_probs=199.2
Q ss_pred cccCCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEE-CCccccccccCC---CCceEEEEEEeeCCC
Q 026672 2 EFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVY-GPREVQNKSQQM---SDQALVRCEYSMANF 77 (235)
Q Consensus 2 e~~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~-gp~e~~~~~~~~---~~~~~l~v~~~~~~~ 77 (235)
++|+++|.|+|||.++|.|++++++|+++++||||+|++|+|+|+|+|+ ||.+..++.+.. +....+.++|+++||
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 5789999999999999999999999999999999999999999999996 888655433221 346788899999999
Q ss_pred CccccCCCCCCCchhHHHHHHHHHHHHhhhhcC-CCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCCccceeEEE
Q 026672 78 STGDRMRKPKGDRRSTEISLVIRQTMEACILTH-LMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSC 156 (235)
Q Consensus 78 ~~~~~~~~~~~~~~~~~l~~~l~~~l~~~i~~~-~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip~~~~~~a~ 156 (235)
+++++++.+.+++++++++++++|+|+++++.+ .||+ .|+|+++||++||+..+|++||+++||.||||||+++++++
T Consensus 511 s~ge~~r~g~psrREi~hg~L~eRALrpvip~~~~fP~-tIrV~~~VLesDGSssmAaV~aaSLALmDAGIPmk~~VAGv 589 (891)
T PLN00207 511 CVGEVGRIGAPSRREIGHGMLAERALEPILPSEDDFPY-TIRVESTITESNGSSSMASVCGGCLALQDAGVPVKCPIAGI 589 (891)
T ss_pred CCccccCCCCCCHHHHHHHHHHHHHHHHhCCcccCCCE-EEEEEEEEEeCCCChHHHHHHHHHHHHHhcCCCccCceeEE
Confidence 998888888899999999999999999999985 7996 89999999999999999999999999999999999999999
Q ss_pred EEEee-c-------Cc--ceee----cCCCCeEEEEEcCCCCcEEEEEEeec---CCHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 157 SAGYL-N-------ST--PLLD----SAGGPDVTVGILPTLDKVTLLQMDAK---LPTNTFEDVMQLAIEGCKAVANYIR 219 (235)
Q Consensus 157 s~~~~-~-------~~--~l~D----~~~~~~~~v~~~~~~~~i~~~~~~g~---~~~~~~~~~l~~a~~~~~~i~~~i~ 219 (235)
++|++ + ++ +++| +...+++.+.+.++.+.|+++|++++ ++.+.+.++++.|.+++..+.+.|+
T Consensus 590 svGli~d~~~~~~~g~~~IL~Dp~g~Ed~~gdmDfkVAgT~~gIt~iqmd~k~~gis~e~l~eAL~~A~~g~~~Il~~M~ 669 (891)
T PLN00207 590 AMGMVLDTEEFGGDGSPLILSDITGSEDASGDMDFKVAGNEDGITAFQMDIKVGGITLPIMERALLQAKDGRKHILAEMS 669 (891)
T ss_pred EEEEEecccccCCCCcEEEEeCCCHHHHhcCCceEEEEecccceEEEEEecccCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999 3 24 4568 34456666767777899999999865 5999999999999999999999999
Q ss_pred HHHHHHHH
Q 026672 220 EVLLENTK 227 (235)
Q Consensus 220 ~~l~~~~~ 227 (235)
+++.+...
T Consensus 670 ~~i~~pr~ 677 (891)
T PLN00207 670 KCSPPPSK 677 (891)
T ss_pred HHHhhhhh
Confidence 99987754
No 13
>COG2123 RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.5e-39 Score=267.12 Aligned_cols=216 Identities=21% Similarity=0.313 Sum_probs=191.2
Q ss_pred cCCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCccccC
Q 026672 4 VSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRM 83 (235)
Q Consensus 4 ~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~~ 83 (235)
.++.|+|+|||.++|+|++++++|+++.++|||+|++|+|+|+|+|+. +..+|..+.|++|.+.+++...|.+...+
T Consensus 18 ll~~g~R~DGR~~~efR~ieI~~~vi~ka~GSa~VklG~Tqvv~gvK~--eig~Pf~DtP~eG~~~~n~El~Plas~~f- 94 (272)
T COG2123 18 LLKKGIRIDGRSFDEFRPLEIETGVIPKANGSALVKLGNTQVVVGVKA--EIGEPFPDTPNEGVLVVNVELSPLASPSF- 94 (272)
T ss_pred HhccCcccCCCCcccccceEEEeCceecCCCcEEEEecCeEEEEEEEc--ccCCCCCCCCCCceEEeeeeeeccccccc-
Confidence 357899999999999999999999999999999999999999999997 45566777899999999999988887654
Q ss_pred CCCCCCchhHHHHHHHHHHHHhh--hhcCCC---Cc---cEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCC-------
Q 026672 84 RKPKGDRRSTEISLVIRQTMEAC--ILTHLM---PR---SQIDIFVQVLQADGGTRSACINAATLALQDAGIP------- 148 (235)
Q Consensus 84 ~~~~~~~~~~~l~~~l~~~l~~~--i~~~~~---p~---~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip------- 148 (235)
..|+|++.+.+++++++|.++.+ ++++++ ++ |.+++++++|++|||++||+..|+++||.++++|
T Consensus 95 E~Gppde~aielsrvvdr~lr~s~aiDlekL~I~~g~kvwvv~vDv~vld~DGnl~Da~~lA~~aAL~~t~vP~~~~~~~ 174 (272)
T COG2123 95 EPGPPDELAIELSRVVDRGLRESKAIDLEKLCIEEGKKVWVVFVDVHVLDYDGNLIDAASLAAVAALLNTRVPKAVEVGD 174 (272)
T ss_pred cCCCCchhHHHHHHHHHHHHHhccCcchhheeEecCCEEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCceeecCC
Confidence 35788899999999999999885 666654 22 6889999999999999999999999999999988
Q ss_pred ---------------ccceeEEEEEEeecCcceee------cCCCCeEEEEEcCCCCcEEEEEEee--cCCHHHHHHHHH
Q 026672 149 ---------------MRDIVTSCSAGYLNSTPLLD------SAGGPDVTVGILPTLDKVTLLQMDA--KLPTNTFEDVMQ 205 (235)
Q Consensus 149 ---------------~~~~~~a~s~~~~~~~~l~D------~~~~~~~~v~~~~~~~~i~~~~~~g--~~~~~~~~~~l~ 205 (235)
+.++|.++|++++++.+++| ..+++.++|. .+..++|+.+++.| .++++.+.+|++
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 56899999999999999999 2356778885 46689999999974 699999999999
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 026672 206 LAIEGCKAVANYIREVLL 223 (235)
Q Consensus 206 ~a~~~~~~i~~~i~~~l~ 223 (235)
.|.+.+.++.+.+.+.|+
T Consensus 254 ~A~~~~~kl~~~~~~~L~ 271 (272)
T COG2123 254 TALSKAEKLREALKEALK 271 (272)
T ss_pred HHHHHHHHHHHHHHHhhc
Confidence 999999999999998875
No 14
>KOG1614 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp45 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.7e-34 Score=232.89 Aligned_cols=220 Identities=23% Similarity=0.299 Sum_probs=190.5
Q ss_pred CCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCccccCC
Q 026672 5 SPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMR 84 (235)
Q Consensus 5 ~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~~~ 84 (235)
++.|+|.|||+++|+|.+++++|. -.||+.+++|+|+|+|.|.. +..+|...+|.+|.+++...++|++.+.. .
T Consensus 18 lk~g~R~DgR~l~efR~lei~fGk---e~gs~~vt~G~Tkvm~~vt~--~ia~Py~dRP~eG~~~I~telsPmA~~sf-E 91 (291)
T KOG1614|consen 18 LKAGLRFDGRSLEEFRDLEIEFGK---EYGSVLVTMGNTKVMARVTA--QIAQPYIDRPHEGSFSIFTELSPMASPSF-E 91 (291)
T ss_pred HHhcccccccchhhhhceEEEecc---ccccEEEEecCeeEEEEeeh--hhcCcccCCCCCCeeeeeecccccccccc-C
Confidence 578999999999999999999994 78999999999999999997 44566778899999999999999888654 3
Q ss_pred CCCCCchhHHHHHHHHHHHHh--hhhcCCCC------ccEEEEEEEEEecCCchHHHHHHHHHHHHHhCC----------
Q 026672 85 KPKGDRRSTEISLVIRQTMEA--CILTHLMP------RSQIDIFVQVLQADGGTRSACINAATLALQDAG---------- 146 (235)
Q Consensus 85 ~~~~~~~~~~l~~~l~~~l~~--~i~~~~~p------~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~ag---------- 146 (235)
.|+.++.+.+++++|+++++. +|++|.+. -|.|++++++|+.|||++|||+.|+.+||.+++
T Consensus 92 ~Gr~~~~~v~l~Rliek~~R~S~aiD~EsLCI~aG~kvW~IRiDlhiLd~DGnlvDaA~iAviaaL~hFrrPdvTv~g~e 171 (291)
T KOG1614|consen 92 PGRKGESEVELSRLIEKALRRSKAIDTESLCIRAGEKVWLIRIDLHILDHDGNLVDAACIAVIAALMHFRRPDVTVGGEE 171 (291)
T ss_pred CCCccchHHHHHHHHHHHHHhccccchHHHHhhhCCeEEEEEEEEEEEcCCCCeehhHHHHHHHHHHhcCCCCcccccce
Confidence 466778889999999999987 46666542 279999999999999999999999999999999
Q ss_pred -------------CCccceeEEEEEEeec-Cc-ceee------cCCCCeEEEEEcCCCCcEEEEEEeec--CCHHHHHHH
Q 026672 147 -------------IPMRDIVTSCSAGYLN-ST-PLLD------SAGGPDVTVGILPTLDKVTLLQMDAK--LPTNTFEDV 203 (235)
Q Consensus 147 -------------ip~~~~~~a~s~~~~~-~~-~l~D------~~~~~~~~v~~~~~~~~i~~~~~~g~--~~~~~~~~~ 203 (235)
+.|+++|.++|+++++ |+ .++| ...++.++|+ ++..+++|.+++.|. ++..++..|
T Consensus 172 v~ihp~eEr~PvPL~I~HmPIC~tf~ffnkG~ivviDpt~~Ee~~~dGs~vVt-~Nk~rEVc~i~k~G~~~~~~~~i~~C 250 (291)
T KOG1614|consen 172 VIIHPVEEREPVPLSIHHMPICFTFGFFNKGEIVVIDPTEKEEAVMDGSMVVT-MNKNREVCAIQKSGGEILDESVIERC 250 (291)
T ss_pred eEecChhccCCcceeeeeccceEEEEEecCceEEEeCCcHHHHhccCceEEEE-EcCCccEEEEecCCCccccHHHHHHH
Confidence 3378999999999996 44 5688 2457888884 678999999999874 789999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 026672 204 MQLAIEGCKAVANYIREVLLENTKQLEC 231 (235)
Q Consensus 204 l~~a~~~~~~i~~~i~~~l~~~~~~~~~ 231 (235)
...|...+.++...+.++|+++..++-.
T Consensus 251 ~k~A~~~a~~vt~ii~e~l~~d~~~r~~ 278 (291)
T KOG1614|consen 251 YKLAKDRAVEVTGIILEALEEDQRERSA 278 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 9999999999999999999998876643
No 15
>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=2.5e-32 Score=258.27 Aligned_cols=203 Identities=23% Similarity=0.348 Sum_probs=171.6
Q ss_pred cceEEEECCc-CCCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCccc-----cCCCCCCCchhH
Q 026672 20 RQLRAEIGNV-AKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGD-----RMRKPKGDRRST 93 (235)
Q Consensus 20 R~i~i~~g~l-~~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~-----~~~~~~~~~~~~ 93 (235)
|++++++|.+ ++|||||++++|+|+|+|+|++|.++++ ..+..+++|+|...+++.++ .++.|+|+++++
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 7999999999 5799999999999999999999987543 24678899999987765543 345688999999
Q ss_pred HHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCchH-H-HHHHHHHHHHHhCCCCccceeEEEEEEeecCcceee---
Q 026672 94 EISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTR-S-ACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLD--- 168 (235)
Q Consensus 94 ~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~l-~-a~i~aa~~AL~~agip~~~~~~a~s~~~~~~~~l~D--- 168 (235)
+++++|+|+|+++++. .|. +.|+|+++||++||+.+ + ||+||+++||.++|||++++++|+++++++|++++|
T Consensus 81 l~srlIdR~lrplfp~-~~~-~~i~V~~~VLs~Dg~~~~d~aai~aAsaAL~~s~IP~~~~v~av~vg~idg~~ildPt~ 158 (684)
T TIGR03591 81 LTSRLIDRPIRPLFPK-GFR-NEVQVVATVLSYDPENDPDILAIIGASAALAISGIPFNGPIAAVRVGYIDGQYVLNPTV 158 (684)
T ss_pred HHHHHHhhHHHHhcCC-CCC-ceEEEEEEEEecCcCCchHHHHHHHHHHHHHhcCCCcCCCeEEEEEEEECCEEEEcCCH
Confidence 9999999999997442 222 68999999999999975 4 999999999999999999999999999999999999
Q ss_pred -cCCCCeEEEEEcCCCCcEEEEEEeec-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 169 -SAGGPDVTVGILPTLDKVTLLQMDAK-LPTNTFEDVMQLAIEGCKAVANYIREVLLENTKQ 228 (235)
Q Consensus 169 -~~~~~~~~v~~~~~~~~i~~~~~~g~-~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~~~ 228 (235)
....+++.+.+..+.+.+++++.++. ++++++.++++.|.++++++++++++.++++.+.
T Consensus 159 ~E~~~s~~~l~va~t~~~i~mie~~~~~i~e~~l~~al~~a~~~~~~i~~~~~~~~~~~~~~ 220 (684)
T TIGR03591 159 DELEKSDLDLVVAGTKDAVLMVESEAKELSEEVMLGAIEFGHEEIQPVIEAIEELAEEAGKE 220 (684)
T ss_pred HHHhhCCceEEEEccCCcEEEEEcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 22223344434455678999998765 9999999999999999999999999999888754
No 16
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=100.00 E-value=1.7e-31 Score=253.17 Aligned_cols=202 Identities=20% Similarity=0.335 Sum_probs=170.8
Q ss_pred CcceEEEECCcC-CCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCccc-----cCCCCCCCchh
Q 026672 19 MRQLRAEIGNVA-KADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGD-----RMRKPKGDRRS 92 (235)
Q Consensus 19 ~R~i~i~~g~l~-~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~-----~~~~~~~~~~~ 92 (235)
-|++++++|.+. +|||||++++|+|+|+|+|++|.++++ ..+..+++|+|...+++.++ .++.|+|++++
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 GRTLTLETGKLARQANGAVLVRYGDTVVLVTVVASKEPKE----GQDFFPLTVDYEEKTYAAGKIPGGFFKREGRPSEKE 88 (693)
T ss_pred CccEEEEECCcCCCCCeEEEEEECCeEEEEEEEcCCCCCC----CCCeeeeEEEEEehhhhccCCCcccccCCCCCChHH
Confidence 378999999995 799999999999999999999987532 24678899999988776543 34568899999
Q ss_pred HHHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCch-HH-HHHHHHHHHHHhCCCCccceeEEEEEEeecCcceee--
Q 026672 93 TEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGT-RS-ACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLD-- 168 (235)
Q Consensus 93 ~~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~-l~-a~i~aa~~AL~~agip~~~~~~a~s~~~~~~~~l~D-- 168 (235)
++++++|+|+|+++++- .++|.|+|+++||++||+. .+ +|+||+++||.++||||+++++++++|++++++++|
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 TLTSRLIDRPIRPLFPK--GFRNEVQVVATVLSVDPENDPDILAMIGASAALSISGIPFNGPIAAVRVGYIDGEFVLNPT 166 (693)
T ss_pred HHHHHHHhhhHHHhCCC--CCCeEEEEEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCcCCCeEEEEEEEECCEEEEcCC
Confidence 99999999999997542 2357999999999999976 45 899999999999999999999999999999999999
Q ss_pred --cCCCCeEEEEEcCCCCcEEEEEEee-cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 169 --SAGGPDVTVGILPTLDKVTLLQMDA-KLPTNTFEDVMQLAIEGCKAVANYIREVLLENT 226 (235)
Q Consensus 169 --~~~~~~~~v~~~~~~~~i~~~~~~g-~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~ 226 (235)
....+++.+.+..+.+.+++++..| .++++++.++++.|.++++++++.+++.++++.
T Consensus 167 ~~E~~~s~~~l~va~t~~~i~mie~~~~~l~e~~l~~al~~a~~~~~~i~~~~~~~~~~~~ 227 (693)
T PRK11824 167 VEELEESDLDLVVAGTKDAVLMVESEAKELSEEVMLEAIEFGHEAIQELIDAQEELAAEAG 227 (693)
T ss_pred HHHHhhCcceEEEEEccCceEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 2222334444444556899999876 499999999999999999999999999988776
No 17
>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=4.4e-31 Score=202.60 Aligned_cols=131 Identities=38% Similarity=0.533 Sum_probs=118.3
Q ss_pred CCcceEEEECCcCCCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCccccCCCCCCCchhHHHHH
Q 026672 18 EMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISL 97 (235)
Q Consensus 18 e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~l~~ 97 (235)
|+|++++++|++++++|||+|++|+|+|+|+|++|.+.++..+..+.+|.++|++++.|++..+.++.+.++..+.++++
T Consensus 1 e~R~i~i~~~~~~~a~GSa~v~~G~T~V~~~V~~~~~~~~~~~~~~~~g~~~v~v~~~~~~~~~~~~~~~~~~~~~~l~~ 80 (132)
T PF01138_consen 1 ELRPISIETGVLPRADGSARVSLGNTKVICSVKGPIEPPPSNERDDAEGRLTVEVEFSPFASPSFRRGGRPDEEERELSS 80 (132)
T ss_dssp CBEEEEEEESSSSSSSEEEEEEETTEEEEEEEEEEEEGCSCSTTSSSSEEEEEEEEECCCGSTSSSSSSSTHHHHHHHHH
T ss_pred CCccEEEEeCCCCCCCeEEEEEECCeEEEEEEEecccccchhcccCCCceEEEEEEeccccccccccccccchhHHHHHH
Confidence 78999999999999999999999999999999999876332221223589999999999998877655678888999999
Q ss_pred HHHHHHHhhhhcCCCCccEEEEEEEEEecCC-chHHHHHHHHHHHHHhCCCC
Q 026672 98 VIRQTMEACILTHLMPRSQIDIFVQVLQADG-GTRSACINAATLALQDAGIP 148 (235)
Q Consensus 98 ~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG-~~l~a~i~aa~~AL~~agip 148 (235)
+|+++|++++.++.||+|.|+|+++||++|| |++++++||+++||+|+|||
T Consensus 81 ~l~~~l~~~~~~~~~~~~~i~v~v~vl~~dG~~~~~a~~~A~~~AL~~~~iP 132 (132)
T PF01138_consen 81 LLERALRSSILLEGYPRWQIHVDVQVLSDDGGNLLDAAINAACLALLDAGIP 132 (132)
T ss_dssp HHHHHHHHTBSTTTTSSEEEEEEEEEEECSSSSHHHHHHHHHHHHHHHHTCS
T ss_pred HHhhhccccccccccCceEEEEEEEEEecCCCCHHHHHHHHHHHHHHhcCCC
Confidence 9999999999999999999999999999999 99999999999999999998
No 18
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=99.97 E-value=4.5e-29 Score=237.37 Aligned_cols=203 Identities=17% Similarity=0.238 Sum_probs=174.9
Q ss_pred cceEEEECCcC-CCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCcccc-----CCCCCCCchhH
Q 026672 20 RQLRAEIGNVA-KADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDR-----MRKPKGDRRST 93 (235)
Q Consensus 20 R~i~i~~g~l~-~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~-----~~~~~~~~~~~ 93 (235)
|.+.+++|.+. +|+||+.+++|+|.|+|+|....+.+. ..+..+|+|+|+...++.++. ++.|+|++.++
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 47999999996 899999999999999999997554433 245678999999877766654 56789999999
Q ss_pred HHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCc--hHHHHHHHHHHHHHhCCCCccceeEEEEEEeecCcceee---
Q 026672 94 EISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGG--TRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLD--- 168 (235)
Q Consensus 94 ~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~--~l~a~i~aa~~AL~~agip~~~~~~a~s~~~~~~~~l~D--- 168 (235)
.++++|+|.|+++++.+.||+.+|.+ +||++||+ ...+|+|||++||.++||||+++++||++|+++|++++|
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 99999999999999999999866655 89999998 679999999999999999999999999999999999999
Q ss_pred -cCCCCeEEEEEcCCCCcEEEEEEeec-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 169 -SAGGPDVTVGILPTLDKVTLLQMDAK-LPTNTFEDVMQLAIEGCKAVANYIREVLLENTKQ 228 (235)
Q Consensus 169 -~~~~~~~~v~~~~~~~~i~~~~~~g~-~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~~~ 228 (235)
....+++.+.+....+.|++++..++ ++++++.++++.|.++++.+++++++.++++.+.
T Consensus 243 ~E~~~s~ldLvvagt~~~IvMIE~~a~e~see~l~~Al~~a~~aik~i~~~~~el~~~~gk~ 304 (891)
T PLN00207 243 KEMEESELDLIMAGTDSAILMIEGYCNFLPEEKLLEAVEVGQDAVRAICKEIEVLVKKCGKP 304 (891)
T ss_pred HHHhcCCeeEEEEEcCCeEEEEEcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 22334444445555678999999886 6999999999999999999999999999888754
No 19
>KOG1612 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp42 [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=1.8e-27 Score=194.31 Aligned_cols=216 Identities=17% Similarity=0.233 Sum_probs=174.3
Q ss_pred CCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCC-eEEEEEEECCccccccccCCCCceEEEEEEeeCCCCccccCC
Q 026672 6 PEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGN-TKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDRMR 84 (235)
Q Consensus 6 ~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~-T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~~~ 84 (235)
+..+|.|||.++++|||.+++|++++++|||+|+.|+ |.|+++|+. |+..++++.|+++.+.+.+++.|.++.++..
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 4679999999999999999999999999999999999 999999998 5566677889999999999999888866533
Q ss_pred CCCCCchhHHHHHHHHHHHHh--h-hhcCCC---C--ccEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCC--------
Q 026672 85 KPKGDRRSTEISLVIRQTMEA--C-ILTHLM---P--RSQIDIFVQVLQADGGTRSACINAATLALQDAGIP-------- 148 (235)
Q Consensus 85 ~~~~~~~~~~l~~~l~~~l~~--~-i~~~~~---p--~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip-------- 148 (235)
++ .++...++...++++|.+ + +++..+ | .|.|.|++.|++.|||+++|...|+++||.++.+|
T Consensus 96 Rg-gde~~~eltsaLq~~l~~~~sgv~ls~L~lt~~~~W~i~VDvlVi~s~gn~~dAiS~Ai~~AL~~T~lPkv~v~~dd 174 (288)
T KOG1612|consen 96 RG-GDELVEELTSALQRVLNSLGSGVDLSKLQLTPGYCWKIYVDVLVISSDGNLLDAISIAIYAALNNTRLPKVIVAFDD 174 (288)
T ss_pred CC-hhhHHHHHHHHHHHHHhCcCcccchhheeccCCeeEEEEEeEEEEecCCCHHHHHHHHHHHHHhcccCCcccccccc
Confidence 32 244456788888888876 1 333221 3 37999999999999999999999999999999988
Q ss_pred -------------------ccceeEEEEEEeecCcceee------cCCCCeEEEEEcCCCCcEEEEEEe--ecCCHHHHH
Q 026672 149 -------------------MRDIVTSCSAGYLNSTPLLD------SAGGPDVTVGILPTLDKVTLLQMD--AKLPTNTFE 201 (235)
Q Consensus 149 -------------------~~~~~~a~s~~~~~~~~l~D------~~~~~~~~v~~~~~~~~i~~~~~~--g~~~~~~~~ 201 (235)
...+|+-++++.++..+++| +.....+.|++. +.+-+.++.+- |.+.++.+.
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 DGEVEILLSDEEYDLMVKLVENVPLIVTLSKIGTNMLVDPTAEEESVANSGLLISVS-AGGIVSCTRSVGLGDLDPSSIP 253 (288)
T ss_pred CCceeeccCcccchhhhhhcccCCEEEEEEeecceEEccCCccHHHhhhcceEEEEe-cCcceEEEEEecCCCCChhhHH
Confidence 12467888999999999999 233455667654 35544455443 458999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 202 DVMQLAIEGCKAVANYIREVLLEN 225 (235)
Q Consensus 202 ~~l~~a~~~~~~i~~~i~~~l~~~ 225 (235)
++++++++..+.+...+.+.|++.
T Consensus 254 ~mle~~~~~~e~l~~~l~k~L~~~ 277 (288)
T KOG1612|consen 254 EMLEQGKAVVETLAPDLVKSLENE 277 (288)
T ss_pred HHHHHHHHHHHhhhHHHHHHhhhh
Confidence 999999999999888888887764
No 20
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Probab=99.95 E-value=8.8e-28 Score=214.17 Aligned_cols=218 Identities=24% Similarity=0.323 Sum_probs=189.8
Q ss_pred cccCCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEEC-Ccccccccc--CCCCce-EEEEEEeeCCC
Q 026672 2 EFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYG-PREVQNKSQ--QMSDQA-LVRCEYSMANF 77 (235)
Q Consensus 2 e~~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~g-p~e~~~~~~--~~~~~~-~l~v~~~~~~~ 77 (235)
+.|+++|+|.|||..+|+|+|.++.+.++..|||++|+.|+|+|+|+|+. ..+..++.+ ..++++ .+..+|.|.|+
T Consensus 351 s~i~~~gkR~DGR~ldelR~I~ce~~m~~~lHGSaLFqRGqTQvlctVtl~s~e~a~klD~l~~~~~~~~FmLhY~FPPy 430 (760)
T KOG1067|consen 351 SRILEEGKRCDGRDLDELRNISCEVDMLKTLHGSALFQRGQTQVLCTVTLDSLESAQKLDSLIGPDNGINFMLHYEFPPY 430 (760)
T ss_pred HHHHhcccccCCcchhhhcccceecCccccccchhhhhcCceeEEEEEEcCCHHHhhhhhhhccCccCceEEEEeccCCc
Confidence 35788999999999999999999999999999999999999999999984 333322222 223444 89999999999
Q ss_pred CccccCCCCCCCchhHHHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCCccceeEEEE
Q 026672 78 STGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCS 157 (235)
Q Consensus 78 ~~~~~~~~~~~~~~~~~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip~~~~~~a~s 157 (235)
++++..+.|.+++|+.-...+-+++|.++++ +.||. .|+|.-.||+.||+.-.|.+.+.++||.|||||++..+++++
T Consensus 431 at~Evgkig~~nRRE~GhgaLAEkaL~~vlP-~dfPf-tIRv~SeVleSnGSsSMASvCGGslALmDaGvPv~a~vAGva 508 (760)
T KOG1067|consen 431 ATNEVGKIGGLNRRELGHGALAEKALLPVLP-EDFPF-TIRVTSEVLESNGSSSMASVCGGSLALMDAGVPVSAHVAGVA 508 (760)
T ss_pred cccccccccCCcccccCchhHhhhhhhccCc-ccCce-EEEEeeeeeecCCcchHHhhhcchhhhhhcCCccccccceeE
Confidence 9999988889999999899999999999998 88997 999999999999999999999999999999999999999999
Q ss_pred EEeecC-----------cceee----cCCCCeEEEEEcCCCCcEEEEEEeecCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 158 AGYLNS-----------TPLLD----SAGGPDVTVGILPTLDKVTLLQMDAKLPTNTFEDVMQLAIEGCKAVANYIREVL 222 (235)
Q Consensus 158 ~~~~~~-----------~~l~D----~~~~~~~~v~~~~~~~~i~~~~~~g~~~~~~~~~~l~~a~~~~~~i~~~i~~~l 222 (235)
+|++-+ .++.| +...++|.+.+..+.+.|..+ .++.+-+.++++.|..+-.+|.+.+.+.+
T Consensus 509 iGlvt~td~e~g~i~dyriltDIlGiEd~~GDMDFKiAGt~dGvTA~----gi~l~Iv~eal~~a~~ar~~Il~~m~k~i 584 (760)
T KOG1067|consen 509 IGLVTKTDPEKGEIEDYRILTDILGIEDYNGDMDFKIAGTNDGVTAL----GIPLKIVMEALQKAREARLQILDIMEKNI 584 (760)
T ss_pred EEeEeccCcccCCcccceeehhhcchhhhcCCcceeeccccCcceec----CCcHHHHHHHHHhhhHHHHHHHHHHHhhc
Confidence 998721 35667 566788988888888888887 67889999999999999999999999876
Q ss_pred HHH
Q 026672 223 LEN 225 (235)
Q Consensus 223 ~~~ 225 (235)
.+.
T Consensus 585 ~~P 587 (760)
T KOG1067|consen 585 NSP 587 (760)
T ss_pred CCc
Confidence 544
No 21
>KOG1613 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp43 [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=1.5e-27 Score=193.48 Aligned_cols=214 Identities=21% Similarity=0.286 Sum_probs=169.8
Q ss_pred cccCCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCccc
Q 026672 2 EFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGD 81 (235)
Q Consensus 2 e~~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~ 81 (235)
+.++.+|+|+|||+..|+|.+.++.|.++++|||+.++.|+|.|+|++++ |...++.+.|++|.+..+|...|.++..
T Consensus 29 ~rhLse~~RpdgR~lgefRdt~in~g~IsTangSal~K~G~ttvi~~Ik~--ei~epstdapdeg~Iv~n~~lpplcs~r 106 (298)
T KOG1613|consen 29 QRHLSEGIRPDGRKLGEFRDTAINAGNISTANGSALLKSGKTTVICGIKA--EIAEPSTDAPDEGDIVPNYALPPLCSSR 106 (298)
T ss_pred HHHhhcccCcchhhhhHHhhhheecCceeccCcHHHHhcCCcEEEEEeee--eecccccCCCCCcceeecccCCcccccC
Confidence 46788999999999999999999999999999999999999999999998 5556677789999999999999998865
Q ss_pred cCCCCCCCchhHHHHHHHHHHHHhh--hhcCC---CCc---cEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCCcc---
Q 026672 82 RMRKPKGDRRSTEISLVIRQTMEAC--ILTHL---MPR---SQIDIFVQVLQADGGTRSACINAATLALQDAGIPMR--- 150 (235)
Q Consensus 82 ~~~~~~~~~~~~~l~~~l~~~l~~~--i~~~~---~p~---~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip~~--- 150 (235)
. ++|+|++.+..++..|...+..+ |+++. .++ |....++.+|+.||+++|+|++|..+||.+-.+|..
T Consensus 107 ~-RpG~p~dea~viSq~LhdtIl~S~ii~~k~Lci~~gKaawvlYadIicLd~dG~~fDa~w~al~aAlknvklP~a~id 185 (298)
T KOG1613|consen 107 F-RPGPPTDEAQVISQKLHDTILHSRIIPKKALCIKAGKAAWVLYADIICLDYDGPVFDACWNALMAALKNVKLPRAFID 185 (298)
T ss_pred C-CCCCCchHHHHHHHHHHHHHHhcCCcchhhheeeccceeeEEEEEEEEEcCCCcHHHHHHHHHHHHHhcCCCceeeec
Confidence 4 57889999999999998888765 44433 233 566678889999999999999999999999999921
Q ss_pred -------------------ceeE--------------EEEEE-eecCcce-ee------cCCCCeEEEEEcCCCCcEEEE
Q 026672 151 -------------------DIVT--------------SCSAG-YLNSTPL-LD------SAGGPDVTVGILPTLDKVTLL 189 (235)
Q Consensus 151 -------------------~~~~--------------a~s~~-~~~~~~l-~D------~~~~~~~~v~~~~~~~~i~~~ 189 (235)
..+. ..|.. ++++..+ .| +...+.++| ++.+.++++.+
T Consensus 186 e~~~~~~~t~e~~ic~~tlt~p~~ln~e~r~~~~~n~~fS~~~vl~~~li~adpT~eEE~l~~~~lTI-vldss~n~v~l 264 (298)
T KOG1613|consen 186 ERASDLRMTIEEIICDQTLTVPLMLNAENRAFASQNSDFSEEEVLDDVLIAADPTEEEETLITSTLTI-VLDSSGNYVQL 264 (298)
T ss_pred ccchhhhhhHHHHHHhhhhcchhhhccccccccccCCCccHHHhhcceeEecCCCchhhhhhhceEEE-EEcCCCCEEEE
Confidence 0011 11111 2334444 34 223456787 56779999999
Q ss_pred EEee---cCCHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 190 QMDA---KLPTNTFEDVMQLAIEGCKAVANYIR 219 (235)
Q Consensus 190 ~~~g---~~~~~~~~~~l~~a~~~~~~i~~~i~ 219 (235)
.+-| ..+++.+++|+++|..+++++.+.+.
T Consensus 265 ~k~GG~al~~~~~iK~c~elar~Rakelk~~~~ 297 (298)
T KOG1613|consen 265 TKVGGGALITPEMIKRCLELARVRAKELKTRFN 297 (298)
T ss_pred EecCcccccCHHHHHHHHHHHHHHHHHHHHHhc
Confidence 8853 36789999999999999999887653
No 22
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=99.93 E-value=1.5e-25 Score=205.35 Aligned_cols=227 Identities=23% Similarity=0.372 Sum_probs=197.0
Q ss_pred cccCCCCCCCCCCCCCCCcceEEEECCcCCCCeEEEEEeCCeEEEEEEE-CCccccccccCCC--CceEEEEEEeeCCCC
Q 026672 2 EFVSPEGLRLDGRRPTEMRQLRAEIGNVAKADGSAVFEMGNTKVIAAVY-GPREVQNKSQQMS--DQALVRCEYSMANFS 78 (235)
Q Consensus 2 e~~~~~~~R~DgR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~-gp~e~~~~~~~~~--~~~~l~v~~~~~~~~ 78 (235)
..|+..+.|+|||..++.||+.++.|+++++|||++|..|.|+.++.++ |+....+..+... ..-.+-.+|+|.||+
T Consensus 305 ~~Il~~~vR~DGR~~~~VRpi~~ev~~lpr~HGS~LFtRGeTQal~v~TLG~~~d~Qvid~l~~e~~krfm~hYNFPp~S 384 (692)
T COG1185 305 RLILEGKVRIDGRFGDEVRPIGIEVGVLPRTHGSALFTRGETQALVVVTLGTPRDAQVIDILEGEYKKRFLLHYNFPPFS 384 (692)
T ss_pred HHHhcCCcccCCCCcceeeeeeEEecCCCCccchhhhccCCCcceEEEEcCCcchhhhhhhccchhhhheeeeccCCCCC
Confidence 3578899999999999999999999999999999999999999999997 4322222222222 245677899999999
Q ss_pred ccccCCCCCCCchhHHHHHHHHHHHHhhhh-cCCCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCCccceeEEEE
Q 026672 79 TGDRMRKPKGDRRSTEISLVIRQTMEACIL-THLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPMRDIVTSCS 157 (235)
Q Consensus 79 ~~~~~~~~~~~~~~~~l~~~l~~~l~~~i~-~~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip~~~~~~a~s 157 (235)
.++.++.+.|+++++-..++-+|++.++++ .+.||+ .|.+...|++++|+.-.|.+.+.++||++||+|++.+++++.
T Consensus 385 vGE~g~~g~p~RREiGHG~LA~Ral~~vlp~~e~fpy-tiRvVsEi~eSNGSsSmaSVCg~sLaLmdAGVPIk~pVAGIA 463 (692)
T COG1185 385 VGETGRMGSPGRREIGHGALAERALAPVLPSEEEFPY-TIRVVSEILESNGSSSMASVCGGSLALMDAGVPIKAPVAGIA 463 (692)
T ss_pred ccccCCCCCCCcccccCchhhHHHHhhhCCchhcCCc-eeeeeehhhcccCcccchhhhhhHHHHHhCCCcccccccchh
Confidence 999988899999999999999999999988 678998 899999999999999999999999999999999999999999
Q ss_pred EEeecC--c--ceee----cCCCCeEEEEEcCCCCcEEEEEEeec---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 158 AGYLNS--T--PLLD----SAGGPDVTVGILPTLDKVTLLQMDAK---LPTNTFEDVMQLAIEGCKAVANYIREVLLENT 226 (235)
Q Consensus 158 ~~~~~~--~--~l~D----~~~~~~~~v~~~~~~~~i~~~~~~g~---~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~ 226 (235)
.|++.+ . ++.| ....++|.|-+..+..-|+.+|++-+ ++.+.+.+++..|+.+..++...+.+++.+..
T Consensus 464 MGLI~eg~~~~vLsDI~G~EDhlGDMDFKVAGT~~GiTAlQMDiKi~Git~eim~~AL~QAk~aRlhIL~~M~~ai~~pr 543 (692)
T COG1185 464 MGLIKEGDKYAVLSDILGDEDHLGDMDFKVAGTDDGITALQMDIKIKGITKEIMKKALEQAKGARLHILIVMNEAISEPR 543 (692)
T ss_pred ccceecCCceEeeccccccccccCCceeEEecCCCcceeeeeeeeecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 999843 3 3456 44578899999988999999999853 79999999999999999999999999999887
Q ss_pred HHH
Q 026672 227 KQL 229 (235)
Q Consensus 227 ~~~ 229 (235)
+..
T Consensus 544 ~el 546 (692)
T COG1185 544 KEL 546 (692)
T ss_pred hhh
Confidence 543
No 23
>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=99.90 E-value=3.4e-22 Score=187.13 Aligned_cols=202 Identities=16% Similarity=0.217 Sum_probs=168.2
Q ss_pred cceEEEECCcC-CCCeEEEEEe-CCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCcccc-----CCCCCCCchh
Q 026672 20 RQLRAEIGNVA-KADGSAVFEM-GNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDR-----MRKPKGDRRS 92 (235)
Q Consensus 20 R~i~i~~g~l~-~a~GSa~v~~-G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~-----~~~~~~~~~~ 92 (235)
|++.+++|.+. +|+||+.+++ |+|.|+|+|...++.+. ..+..+|+|+|+....+.++. +|.|+|++.+
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 47999999996 8999999999 99999999987554433 245678999999877776654 5678999999
Q ss_pred HHHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCc--hHHHHHHHHHHHHHhCCCCccceeEEEEEEeecCcceee--
Q 026672 93 TEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGG--TRSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLD-- 168 (235)
Q Consensus 93 ~~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~--~l~a~i~aa~~AL~~agip~~~~~~a~s~~~~~~~~l~D-- 168 (235)
+..+|+|+|.+||+++- .|.+ .++|.+++|+.|+. .--.++|||++||.-++||+.++++++.+|+++|+++++
T Consensus 93 iL~sRliDR~iRPLFp~-~~~~-e~qi~~~vls~D~~~~pdvla~~~ASaAl~iSdiPf~gPv~~vrVg~i~g~~viNPt 170 (719)
T TIGR02696 93 ILTCRLIDRPLRPSFVK-GLRN-EVQVVVTVLSLNPDHLYDVVAINAASASTQLAGLPFSGPIGGVRVALIDGQWVAFPT 170 (719)
T ss_pred hHHHHhhCCCCccCCCC-CCCc-ceEEEEEEEEcCCCCChHHHHHHHHHHHHHhcCCCCCCceEEEEEEEECCEEEECcC
Confidence 99999999999999874 4544 78899999999985 456899999999999999999999999999999999999
Q ss_pred --cCCCCeEEEEEcCCC----C-cEEEEEE------------ee-cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 169 --SAGGPDVTVGILPTL----D-KVTLLQM------------DA-KLPTNTFEDVMQLAIEGCKAVANYIREVLLENTK 227 (235)
Q Consensus 169 --~~~~~~~~v~~~~~~----~-~i~~~~~------------~g-~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~~ 227 (235)
....+++.+.+..+. + .|++++. .+ .++++++.+++..|.+..+.+++.+++..++..+
T Consensus 171 ~~~~~~s~ldLvvagt~~~~~~~~i~MiE~~a~~~~~~~~~~~a~e~~e~~~~~Ai~~a~~~i~~~~~~~~~l~~~~gk 249 (719)
T TIGR02696 171 HEQLEGAVFDMVVAGRVLENGDVAIMMVEAEATEKTWDLVKGGAEAPTEEVVAEGLEAAKPFIKVLCRAQADLAEKAAK 249 (719)
T ss_pred HHHHhhCeeeEEEEeeecCCCCccEEEEecCCccccccccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 234556655555543 4 8999997 43 3899999999999999999999999996655543
No 24
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=99.84 E-value=1.5e-19 Score=166.12 Aligned_cols=200 Identities=21% Similarity=0.327 Sum_probs=171.0
Q ss_pred cceEEEECCcC-CCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCcccc-----CCCCCCCchhH
Q 026672 20 RQLRAEIGNVA-KADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDR-----MRKPKGDRRST 93 (235)
Q Consensus 20 R~i~i~~g~l~-~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~-----~~~~~~~~~~~ 93 (235)
|++.+++|.+. +|+||+++++|+|.|+++|.+.+ .+. ..|..+|+|+|.-..++.++. +|.|+|+++++
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 88999999996 89999999999999999999865 222 356677999998776666654 56789999999
Q ss_pred HHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCch--HHHHHHHHHHHHHhCCCCccceeEEEEEEeecCcceee---
Q 026672 94 EISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGT--RSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLD--- 168 (235)
Q Consensus 94 ~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~--l~a~i~aa~~AL~~agip~~~~~~a~s~~~~~~~~l~D--- 168 (235)
..+|+|+|.++|.++. .|.+ .++|.++|++.|+.. .-.+++++++||.-++||+.++++++.+|+++|+++++
T Consensus 89 L~sRLIDRpiRPlFp~-g~~~-evqIv~tvls~D~~~~pdi~a~~gaSaAl~is~iPf~gpi~~vrvg~idg~~vlNPt~ 166 (692)
T COG1185 89 LTSRLIDRPIRPLFPK-GFRN-EVQIVNTVLSVDPENDPDILAMVGASAALSLSGIPFLGPIGAVRVGYIDGIFVLNPTL 166 (692)
T ss_pred hhhhhcccccccccch-hhcc-ceEEEEEEEEECCCCCHHHHHHHHHHHHHhccCCCccCccceEEEEEECCEEEECCCh
Confidence 9999999999998764 3433 789999999999975 46899999999999999999999999999999999998
Q ss_pred -cCCCCeEEEEEcCCCCcEEEEEEee-cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 169 -SAGGPDVTVGILPTLDKVTLLQMDA-KLPTNTFEDVMQLAIEGCKAVANYIREVLLENT 226 (235)
Q Consensus 169 -~~~~~~~~v~~~~~~~~i~~~~~~g-~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~ 226 (235)
....+.+.+.+.++...|.+++.+. .++++++.+++..+.+..+.+.+++++......
T Consensus 167 ~e~~~s~lDlvVAGT~~aV~MVE~~a~~l~E~~ml~Av~fg~~~~~~~~~~qe~l~~~~g 226 (692)
T COG1185 167 EELEESKLDLVVAGTKDAVNMVESEADELDEEVMLEAVEFGHEAIQSVINAQEELALEVG 226 (692)
T ss_pred HHhhhcceeeEecCChhhhheeecccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3345666666677777799999886 489999999999999999999999998877655
No 25
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Probab=99.71 E-value=3.4e-17 Score=146.87 Aligned_cols=205 Identities=17% Similarity=0.249 Sum_probs=169.0
Q ss_pred CCcceEEEECCcC-CCCeEEEEEeCCeEEEEEEECCccccccccCCCCceEEEEEEeeCCCCcccc-----CCCCCCCch
Q 026672 18 EMRQLRAEIGNVA-KADGSAVFEMGNTKVIAAVYGPREVQNKSQQMSDQALVRCEYSMANFSTGDR-----MRKPKGDRR 91 (235)
Q Consensus 18 e~R~i~i~~g~l~-~a~GSa~v~~G~T~Vi~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~~~~~~-----~~~~~~~~~ 91 (235)
--|.+.+++|.+. .|+||+.+..|+|+|+++|..-..+. .+...++.|+|+....+.+.. ++.+.++++
T Consensus 54 GnR~i~~etGklaRfAngsvvv~~GeT~Vm~Tv~~a~~PS-----p~qFlPL~VdYqeK~aAvGRip~~fmRREg~tkdk 128 (760)
T KOG1067|consen 54 GNREILFETGKLARFANGSVVVQMGETAVMTTVVLADKPS-----PPQFLPLVVDYQEKFAAVGRIPGNFMRREGRTKDK 128 (760)
T ss_pred CCeEEEEecchhhhhcCCcEEEccCCeEEEEEEEecCCCC-----ccccceEEEehhhhhhhhccCCCcccccccCCcch
Confidence 5699999999997 79999999999999999998633221 244778999998765555443 556788889
Q ss_pred hHHHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCch--HHHHHHHHHHHHHhCCCCccceeEEEEEEeecCcceee-
Q 026672 92 STEISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGT--RSACINAATLALQDAGIPMRDIVTSCSAGYLNSTPLLD- 168 (235)
Q Consensus 92 ~~~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~--l~a~i~aa~~AL~~agip~~~~~~a~s~~~~~~~~l~D- 168 (235)
+....++|++.+++...-..|. ..++.+.+|..||-. -.-++||+++||..+.||+...+.++.+|+++|+++++
T Consensus 129 EiL~~rLidrsirplfp~g~~~--etqi~~n~Ls~dG~~~pdvlainaas~Al~lsdvpw~gpig~vRigLi~Ge~vVNP 206 (760)
T KOG1067|consen 129 EILTGRLIDRPIRPLFPKGFYH--ETQILCNVLSSDGVHDPDVLAINAASAALSLSDVPWNGPIGAVRIGLIDGEFVVNP 206 (760)
T ss_pred hheeeeccccccccCCcccchh--HHHHHhhheecccccCchHHHHhHHHHHhhhccCCCCCceeeeEeeeecceEEeCc
Confidence 9889999999998887643343 466777799999953 45789999999999999999999999999999999999
Q ss_pred ---cCCCCeEEEEEcCCCCcEEEEEEee-cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 169 ---SAGGPDVTVGILPTLDKVTLLQMDA-KLPTNTFEDVMQLAIEGCKAVANYIREVLLENTKQL 229 (235)
Q Consensus 169 ---~~~~~~~~v~~~~~~~~i~~~~~~g-~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~~~~ 229 (235)
+.+++.+.+.+.....++++++..+ .+.++++.+++..+.+.+.+++.-|....+++.++.
T Consensus 207 T~kEmssS~Lnlvvagt~~~~vmle~~s~~i~qqdl~~Aikvg~~~~q~~i~~i~~L~k~~Gk~K 271 (760)
T KOG1067|consen 207 TRKEMSSSQLNLVVAGTKSQTVMLEGSSNNILQQDLLHAIKVGVKEAQQIIQGIERLAKKYGKQK 271 (760)
T ss_pred chhhhhhccceeEEEeccceEEEEEcccccccHHHHHHHHHhccHHHHHHHHHHHHHHHHhCccc
Confidence 4455666666666789999999876 489999999999999999999999999888876654
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=98.63 E-value=1.6e-07 Score=63.38 Aligned_cols=60 Identities=20% Similarity=0.304 Sum_probs=49.6
Q ss_pred ceeEEEEEEeecCcceee------cCCCCeEEEEEcCCCCcEEEEEEeec--CCHHHHHHHHHHHHHH
Q 026672 151 DIVTSCSAGYLNSTPLLD------SAGGPDVTVGILPTLDKVTLLQMDAK--LPTNTFEDVMQLAIEG 210 (235)
Q Consensus 151 ~~~~a~s~~~~~~~~l~D------~~~~~~~~v~~~~~~~~i~~~~~~g~--~~~~~~~~~l~~a~~~ 210 (235)
|+|+++|++++++++++| ..+++.+++++.++.+.+..++..|. ++++++.++++.|+++
T Consensus 1 ~~~~avt~~~i~~~~v~Dpt~~Ee~~~~~~l~~~~~~~~~~~~~~~~~g~~~~~~~~l~~~i~~A~~~ 68 (68)
T PF03725_consen 1 DPPVAVTVGIIDGELVVDPTAEEESLSDSSLTLAVDGTGNICTLQKSGGGSELSEDQLEEAIELAKKA 68 (68)
T ss_dssp SEEEEEEEEEETTEEEES--HHHHHHSSEEEEEEEETTSSEEEEEEEEESSEEEHHHHHHHHHHHHHH
T ss_pred CCeEEEEEEEECCEEEECCCHHHHhhcCCcEEEEEECCCCEEEEEEcCCCCCCCHHHHHHHHHHHhcC
Confidence 689999999999999999 24677899988775555566666665 9999999999999874
No 27
>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=63.00 E-value=11 Score=21.73 Aligned_cols=35 Identities=29% Similarity=0.427 Sum_probs=30.6
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 194 KLPTNTFEDVMQLAIEGCKAVANYIREVLLENTKQ 228 (235)
Q Consensus 194 ~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~~~ 228 (235)
.++.+....+=+.|.+......++++.++.++.++
T Consensus 5 ~l~~~~~~~l~~~a~~~g~s~s~~ir~ai~~~l~~ 39 (39)
T PF01402_consen 5 RLPDELYERLDELAKELGRSRSELIREAIREYLER 39 (39)
T ss_dssp EEEHHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHH
T ss_pred EeCHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC
Confidence 35788899999999999999999999999998764
No 28
>PF12651 RHH_3: Ribbon-helix-helix domain
Probab=52.42 E-value=32 Score=20.72 Aligned_cols=36 Identities=19% Similarity=0.266 Sum_probs=31.7
Q ss_pred ecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 193 AKLPTNTFEDVMQLAIEGCKAVANYIREVLLENTKQ 228 (235)
Q Consensus 193 g~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~~~ 228 (235)
-.++.+.+.++-++|.+......+.++++++...++
T Consensus 7 ~~l~~el~~~L~~ls~~t~i~~S~Ll~eAle~~l~k 42 (44)
T PF12651_consen 7 FSLDKELYEKLKELSEETGIPKSKLLREALEDYLEK 42 (44)
T ss_pred EecCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh
Confidence 357899999999999999999999999999988764
No 29
>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=51.56 E-value=67 Score=22.93 Aligned_cols=60 Identities=18% Similarity=0.195 Sum_probs=32.2
Q ss_pred CchhHHHHHHHHHHHHh-hhhcCCCCccEEEEEEEEEecCCch--------HHHHHHHHHHHHHh-CCCCc
Q 026672 89 DRRSTEISLVIRQTMEA-CILTHLMPRSQIDIFVQVLQADGGT--------RSACINAATLALQD-AGIPM 149 (235)
Q Consensus 89 ~~~~~~l~~~l~~~l~~-~i~~~~~p~~~i~I~v~il~~dG~~--------l~a~i~aa~~AL~~-agip~ 149 (235)
...-..+...|+..+++ ....+.|.+..+.|.+. |..||.+ -.+...|+..|+.. +.+|+
T Consensus 10 ~~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 10 GSEVSRYAAQIKQAIQRNLYDDESYKGKECRVRIR-LAPDGLVLSVTVESGDPALCRAAKSAIAKAAKFPP 79 (96)
T ss_dssp CHHHHHHHHHHHHHHHTTTTTGGGGTT--EEEEEE-EETTSEEEEEEEEEE-HHHHHHHHHH-HCCS----
T ss_pred hHHHHHHHHHHHHHHHHhcCCccccCCCEEEEEEE-ECCCCcEEEeeecCCCHHHHHHHHHHHHHhcCCCC
Confidence 33444577788888766 44456677666666665 5566642 24666777777444 46774
No 30
>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=41.57 E-value=78 Score=24.94 Aligned_cols=29 Identities=21% Similarity=0.346 Sum_probs=22.8
Q ss_pred EcCCCCcEEEEEEeecCCHHHHHHHHHHHH
Q 026672 179 ILPTLDKVTLLQMDAKLPTNTFEDVMQLAI 208 (235)
Q Consensus 179 ~~~~~~~i~~~~~~g~~~~~~~~~~l~~a~ 208 (235)
+....|.|.+. ++|.++++++++.+++-.
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 45667777665 799999999999988754
No 31
>COG3625 PhnH Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=34.97 E-value=1.9e+02 Score=23.40 Aligned_cols=48 Identities=17% Similarity=0.167 Sum_probs=32.6
Q ss_pred HHHHHhhhhcCCCCccEEEEEEEEEecCCchHHHHHHHHHHHHHhCCCCc
Q 026672 100 RQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATLALQDAGIPM 149 (235)
Q Consensus 100 ~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~AL~~agip~ 149 (235)
+++|+.+.+--.+|+..+.+. -.-.---.+..+.-|++++|+|...|+
T Consensus 18 Q~~FR~ll~a~A~PG~v~~l~--~~~~~p~pL~~At~Av~LtL~D~dTpv 65 (196)
T COG3625 18 QRVFRALLDAMARPGVVVPLD--RAAAPPAPLNPATGAVCLTLCDNDTPV 65 (196)
T ss_pred HHHHHHHHHhhcCCCceeecc--cccCCCcCCCHHHHHHHHHHhcCCCce
Confidence 566777776667897444443 222223457889999999999997663
No 32
>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=33.52 E-value=55 Score=23.25 Aligned_cols=34 Identities=15% Similarity=0.280 Sum_probs=24.1
Q ss_pred ecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 193 AKLPTNTFEDVMQLAIEGCKAVANYIREVLLENT 226 (235)
Q Consensus 193 g~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~ 226 (235)
|.+++++|.-+++.+.-.+.+++..+++.|..-.
T Consensus 21 G~vs~e~F~lLl~ls~IrS~kiI~AL~dyLV~G~ 54 (91)
T PF03333_consen 21 GKVSEEHFWLLLELSSIRSEKIIAALRDYLVDGL 54 (91)
T ss_dssp T-S-HHHHHHHHHHS----HHHHHHHHHHHTT--
T ss_pred CCcCHHHHHHHHHHCCCCcHHHHHHHHHHHHcCC
Confidence 7789999999999999999999999999886543
No 33
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=32.17 E-value=1.7e+02 Score=20.44 Aligned_cols=38 Identities=8% Similarity=0.020 Sum_probs=32.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 026672 196 PTNTFEDVMQLAIEGCKAVANYIREVLLENTKQLECRR 233 (235)
Q Consensus 196 ~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~~~~~~~~ 233 (235)
..++|..|++.-.+....|+..+++.|+...+.+..++
T Consensus 34 ~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R~e~~ 71 (83)
T PF03670_consen 34 MLDQLNSCLDHLEQRNDHLHAQLQELLESNRQIRLEFQ 71 (83)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 45788899999999999999999999999988876553
No 34
>PHA01748 hypothetical protein
Probab=30.68 E-value=1.2e+02 Score=19.53 Aligned_cols=37 Identities=19% Similarity=0.140 Sum_probs=27.5
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 026672 194 KLPTNTFEDVMQLAIEGCKAVANYIREVLLENTKQLE 230 (235)
Q Consensus 194 ~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~~~~~ 230 (235)
.++.+.+.++=.+|.+....-.++|++++....+...
T Consensus 8 rLp~el~~eld~~a~~~g~~RSE~Ir~Ai~~~~~~~~ 44 (60)
T PHA01748 8 KIEEDLLELLDRYAIKHGLNRSEAIRKAIEKMVKDEL 44 (60)
T ss_pred ECCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 5788888888888877777777777777776665544
No 35
>PHA01623 hypothetical protein
Probab=30.29 E-value=87 Score=19.94 Aligned_cols=36 Identities=8% Similarity=0.047 Sum_probs=30.7
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 194 KLPTNTFEDVMQLAIEGCKAVANYIREVLLENTKQL 229 (235)
Q Consensus 194 ~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~~~~ 229 (235)
.++.+...++-.+|.+......++|++++..+.+..
T Consensus 19 rldeel~~~Ld~y~~~~g~~rSe~IreAI~~yL~~~ 54 (56)
T PHA01623 19 YMDKDLKTRLKVYCAKNNLQLTQAIEEAIKEYLQKR 54 (56)
T ss_pred EeCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHc
Confidence 578899999989999988889999999998887653
No 36
>PF13974 YebO: YebO-like protein
Probab=28.54 E-value=1.1e+02 Score=21.21 Aligned_cols=31 Identities=16% Similarity=0.149 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhC
Q 026672 204 MQLAIEGCKAVANYIREVLLENTKQLECRRG 234 (235)
Q Consensus 204 l~~a~~~~~~i~~~i~~~l~~~~~~~~~~~~ 234 (235)
+..|..++.+..+.+++.++++.++...+|-
T Consensus 18 VnRaSvRANEQI~LL~~ileqQKrQn~LL~r 48 (80)
T PF13974_consen 18 VNRASVRANEQIELLEEILEQQKRQNALLRR 48 (80)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678889999999999999998888777663
No 37
>PF02962 CHMI: 5-carboxymethyl-2-hydroxymuconate isomerase; InterPro: IPR004220 5-carboxymethyl-2-hydroxymuconate isomerase transforms 5-carboxymethyl-2-hydroxy-muconic acid into 5-oxo-pent-3-ene-1,2,5-tricarboxylic acid during the third step of the homoprotocatechuate catabolic pathway []. Homoprotocatechuate (HPC; 3,4-dihydroxyphenylacetate) is catabolized to Krebs cycle intermediates via extradiol (meta-) cleavage and the necessary enzymes are chromosomally encoded in a variety of bacteria []. 5-carboxymethyl-2-hydroxymuconate isomerase is probably a dimer of two identical subunits []. A comparison of the N-terminal half of the isomerase/decarboxylase sequence from the pathway (both encoded by the gene hpcE), with the second half showed significant similarity. This suggests that a duplication may have occurred to produce a bifunctional gene [].; PDB: 3E6Q_H 1OTG_B.
Probab=27.97 E-value=2.5e+02 Score=21.06 Aligned_cols=55 Identities=15% Similarity=0.297 Sum_probs=33.2
Q ss_pred CCceEEEEEEeeCCCCccccCCCCCCCchhHHHHHHHHHHHHhhhhcCCCCccEEEEEEEEEecC
Q 026672 63 SDQALVRCEYSMANFSTGDRMRKPKGDRRSTEISLVIRQTMEACILTHLMPRSQIDIFVQVLQAD 127 (235)
Q Consensus 63 ~~~~~l~v~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~d 127 (235)
++.+.+.+.++..+. +..+.-+.++..|-.+++.-. ...+.+..+.++++|.+-|
T Consensus 56 ~~~~FvHv~l~il~G---------Rs~e~k~~l~~~l~~~l~~~~-~~~~~~~~~~LsvEi~E~~ 110 (124)
T PF02962_consen 56 PDDAFVHVTLRILAG---------RSEEQKKALSEALLAVLKAHL-APLFAQRYLQLSVEIREMD 110 (124)
T ss_dssp S-EEEEEEEEEEETT-----------HHHHHHHHHHHHHHHHHHC-CCHCCHSEEEEEEEEEEE-
T ss_pred CCCcEEEEEeeecCC---------CCHHHHHHHHHHHHHHHHHHh-hHhhcCCeeEEEEEEEEcC
Confidence 567889999887642 333445567777777776643 2235555677777777655
No 38
>cd07207 Pat_ExoU_VipD_like ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2. ExoU, a 74-kDa enzyme, is a potent virulence factor of Pseudomonas aeruginosa. One of the pathogenic mechanisms of P. aeruginosa is to induce cytotoxicity by the injection of effector proteins (e.g. ExoU) using the type III secretion (T3S) system. ExoU is homologus to patatin and also has the conserved catalytic residues of mammalian calcium-independent (iPLA2) and cytosolic (cPLA2) PLA2. In vitro, ExoU cytotoxity is blocked by the inhibitor of cytosolic and Ca2-independent phospholipase A2 (cPLA2 and iPLA2) enzymes, suggesting that phospholipase A2 inhibitors may represent a novel mode of treatment for acute P. aeruginosa infections. ExoU requires eukaryotic superoxide dismutase as a cofactor and cleaves phosphatidylcholine and phosphatidylethanolamine in vitro. VipD, a 69-kDa cytosolic protein, belongs to the members of Legionella pneumophila family and is homologus to ExoU from Pseudomona
Probab=24.82 E-value=76 Score=25.02 Aligned_cols=34 Identities=35% Similarity=0.431 Sum_probs=27.7
Q ss_pred cCCchHHHHHHHHHHHHHhCCCCccceeEEEEEEe
Q 026672 126 ADGGTRSACINAATLALQDAGIPMRDIVTSCSAGY 160 (235)
Q Consensus 126 ~dG~~l~a~i~aa~~AL~~agip~~~~~~a~s~~~ 160 (235)
+.|+...++-.++.-||.+.|++. +.++++|.|-
T Consensus 5 ~GGG~rG~~~~Gvl~~L~e~~~~~-d~i~GtSaGa 38 (194)
T cd07207 5 EGGGAKGIAYIGALKALEEAGILK-KRVAGTSAGA 38 (194)
T ss_pred cCchHHHHHHHHHHHHHHHcCCCc-ceEEEECHHH
Confidence 356778888889999999999887 8888888754
No 39
>cd07198 Patatin Patatin-like phospholipase. Patatin is a storage protein of the potato tuber that shows Phospholipase A2 activity (PLA2; EC 3.1.1.4). Patatin catalyzes the nonspecific hydrolysis of phospholipids, glycolipids, sulfolipids, and mono- and diacylglycerols, thereby showing lipid acyl hydrolase activity. The active site includes an oxyanion hole with a conserved GGxR motif; it is found in almost all the members of this family. The catalytic dyad is formed by a serine and an aspartate. Patatin belongs to the alpha-beta hydrolase family which is identified by a characteristic nucleophile elbow with a consensus sequence of Sm-X-Nu-Sm (Sm = small residue, X = any residue and Nu = nucleophile). Members of this family have been found also in vertebrates. This family includes PNPLA (1-9), TGL (3-5), ExoU-like, and SDP1-like subfamilies. There are some additional hypothetical proteins included in this family.
Probab=23.97 E-value=82 Score=24.49 Aligned_cols=34 Identities=29% Similarity=0.366 Sum_probs=28.1
Q ss_pred cCCchHHHHHHHHHHHHHhCCCCccceeEEEEEEe
Q 026672 126 ADGGTRSACINAATLALQDAGIPMRDIVTSCSAGY 160 (235)
Q Consensus 126 ~dG~~l~a~i~aa~~AL~~agip~~~~~~a~s~~~ 160 (235)
..|+...+.-.++.-||.+.|++ .+.++++|.|-
T Consensus 4 ~GGG~rG~~~~Gvl~aL~e~gi~-~d~v~GtSaGA 37 (172)
T cd07198 4 SGGGALGIYHVGVAKALRERGPL-IDIIAGTSAGA 37 (172)
T ss_pred CCcHHHHHHHHHHHHHHHHcCCC-CCEEEEECHHH
Confidence 35677888899999999999998 77888888764
No 40
>COG3054 Predicted transcriptional regulator [General function prediction only]
Probab=23.69 E-value=2.2e+02 Score=22.38 Aligned_cols=35 Identities=17% Similarity=0.303 Sum_probs=25.4
Q ss_pred CCeEEEEEcCCCCcEEEEEEeecCCHHHHHHHHHHHH
Q 026672 172 GPDVTVGILPTLDKVTLLQMDAKLPTNTFEDVMQLAI 208 (235)
Q Consensus 172 ~~~~~v~~~~~~~~i~~~~~~g~~~~~~~~~~l~~a~ 208 (235)
.++..| +....|++-++ ++|.++..++++.+++-.
T Consensus 146 ~~Saiv-VlDk~G~Vkfv-keGaLt~aevQ~Vi~ll~ 180 (184)
T COG3054 146 ESSAVV-VLDKDGRVKFV-KEGALTQAEVQQVIDLLQ 180 (184)
T ss_pred ccceEE-EEcCCCcEEEE-ecCCccHHHHHHHHHHHH
Confidence 344444 45667887775 689999999999887644
No 41
>PF03727 Hexokinase_2: Hexokinase; InterPro: IPR022673 Hexokinase is an important enzyme that catalyses the ATP-dependent conversion of aldo- and keto-hexose sugars to the hexose-6-phosphate (H6P). The enzyme can catalyse this reaction on glucose, fructose, sorbitol and glucosamine, and as such is the first step in a number of metabolic pathways []. The addition of a phosphate group to the sugar acts to trap it in a cell, since the negatively charged phosphate cannot easily traverse the plasma membrane. The enzyme is widely distributed in eukaryotes. There are three isozymes of hexokinase in yeast (PI, PII and glucokinase): isozymes PI and PII phosphorylate both aldo- and keto-sugars; glucokinase is specific for aldo-hexoses. All three isozymes contain two domains []. Structural studies of yeast hexokinase reveal a well-defined catalytic pocket that binds ATP and hexose, allowing easy transfer of the phosphate from ATP to the sugar []. Vertebrates contain four hexokinase isozymes, designated I to IV, where types I to III contain a duplication of the two-domain yeast-type hexokinases. Both the N- and C-terminal halves bind hexose and H6P, though in types I an III only the C-terminal half supports catalysis, while both halves support catalysis in type II. The N-terminal half is the regulatory region. Type IV hexokinase is similar to the yeast enzyme in containing only the two domains, and is sometimes incorrectly referred to as glucokinase. The different vertebrate isozymes differ in their catalysis, localisation and regulation, thereby contributing to the different patterns of glucose metabolism in different tissues []. Whereas types I to III can phosphorylate a variety of hexose sugars and are inhibited by glucose-6-phosphate (G6P), type IV is specific for glucose and shows no G6P inhibition. Type I enzyme may have a catabolic function, producing H6P for energy production in glycolysis; it is bound to the mitochondrial membrane, which enables the coordination of glycolysis with the TCA cycle. Types II and III enzyme may have anabolic functions, providing H6P for glycogen or lipid synthesis. Type IV enzyme is found in the liver and pancreatic beta-cells, where it is controlled by insulin (activation) and glucagon (inhibition). In pancreatic beta-cells, type IV enzyme acts as a glucose sensor to modify insulin secretion. Mutations in type IV hexokinase have been associated with diabetes mellitus. Hexokinase (2.7.1.1 from EC), a fructose and glucose phosphorylating enzyme, contains two structurally similar domains represented by this family and PF00349 from PFAM. Some members of the family have two copies of each of these domains. This entry represents the more C-terminal domain.; GO: 0005524 ATP binding, 0016773 phosphotransferase activity, alcohol group as acceptor, 0005975 carbohydrate metabolic process; PDB: 4DHY_A 3ID8_A 4DCH_A 3FGU_A 3QIC_A 3A0I_X 3VEY_A 3IDH_A 3VEV_A 3VF6_A ....
Probab=23.40 E-value=2.1e+02 Score=23.89 Aligned_cols=40 Identities=20% Similarity=0.348 Sum_probs=24.6
Q ss_pred HHHHHHHHHHhhhhcCCCCccEEEEEEEEEecCCchHHHHHHHHHH
Q 026672 95 ISLVIRQTMEACILTHLMPRSQIDIFVQVLQADGGTRSACINAATL 140 (235)
Q Consensus 95 l~~~l~~~l~~~i~~~~~p~~~i~I~v~il~~dG~~l~a~i~aa~~ 140 (235)
+...+++.++....-+ ...|.+ .+.+||+..-||+.|+.+
T Consensus 202 f~~~l~~~l~~L~~~~---~~~v~~---~~~~dgsg~GAAi~AA~a 241 (243)
T PF03727_consen 202 FRERLQEALDELLPEE---GCKVEF---VLSEDGSGVGAAIAAAVA 241 (243)
T ss_dssp HHHHHHHHHHHHSTT----CEEEEE---EE-SSTHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcccc---cceEEE---EEecCchHHHHHHHHHHh
Confidence 4556666666644322 223333 467999999999988865
No 42
>PF03869 Arc: Arc-like DNA binding domain; InterPro: IPR005569 Arc repressor act by the cooperative binding of two Arc repressor dimers to a 21-base-pair operator site. Each Arc dimer uses an antiparallel beta-sheet to recognise bases in the major groove [].; GO: 0003677 DNA binding; PDB: 3QOQ_D 1MNT_B 1QTG_B 1BDV_A 1PAR_C 1BDT_C 1ARR_B 1MYL_F 1MYK_A 1NLA_B ....
Probab=22.30 E-value=1.5e+02 Score=18.32 Aligned_cols=35 Identities=26% Similarity=0.279 Sum_probs=28.5
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 194 KLPTNTFEDVMQLAIEGCKAVANYIREVLLENTKQ 228 (235)
Q Consensus 194 ~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~~~~ 228 (235)
.++.+...++-..|...++++...|...|++..++
T Consensus 10 RlP~~l~~~lk~~A~~~gRS~NsEIv~~L~~~l~~ 44 (50)
T PF03869_consen 10 RLPEELKEKLKERAEENGRSMNSEIVQRLEEALKK 44 (50)
T ss_dssp ECEHHHHHHHHHHHHHTTS-HHHHHHHHHHHHHHH
T ss_pred ECCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHhc
Confidence 47788888888899999999999988888887664
No 43
>PRK15215 fimbriae biosynthesis regulatory protein; Provisional
Probab=20.88 E-value=1.4e+02 Score=21.65 Aligned_cols=33 Identities=15% Similarity=0.205 Sum_probs=30.0
Q ss_pred ecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 193 AKLPTNTFEDVMQLAIEGCKAVANYIREVLLEN 225 (235)
Q Consensus 193 g~~~~~~~~~~l~~a~~~~~~i~~~i~~~l~~~ 225 (235)
|.+++++|.=+++.+.-...+++..+++.|-.-
T Consensus 29 G~v~eehF~LLieIS~IrS~KvI~AL~dyLV~G 61 (100)
T PRK15215 29 AKVNEEHFWLLIGISSIHSEKIIQALRDYLVFG 61 (100)
T ss_pred CccCHHHHHHHHHHcccchHHHHHHHHHHHHcC
Confidence 678999999999999999999999999988653
No 44
>PF09107 SelB-wing_3: Elongation factor SelB, winged helix ; InterPro: IPR015191 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 3". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm; PDB: 2PJP_A 2UWM_A 1WSU_B 1LVA_A 2PLY_A.
Probab=20.79 E-value=1e+02 Score=19.17 Aligned_cols=29 Identities=14% Similarity=0.379 Sum_probs=25.2
Q ss_pred eecCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 026672 192 DAKLPTNTFEDVMQLAIEGCKAVANYIRE 220 (235)
Q Consensus 192 ~g~~~~~~~~~~l~~a~~~~~~i~~~i~~ 220 (235)
+|.++..++.+++..+.+.+..+.+++..
T Consensus 8 ~~~itv~~~rd~lg~sRK~ai~lLE~lD~ 36 (50)
T PF09107_consen 8 NGEITVAEFRDLLGLSRKYAIPLLEYLDR 36 (50)
T ss_dssp TSSBEHHHHHHHHTS-HHHHHHHHHHHHH
T ss_pred CCcCcHHHHHHHHCccHHHHHHHHHHHhc
Confidence 57889999999999999999999998865
Done!