Query 024906
Match_columns 260
No_of_seqs 162 out of 1133
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 08:21:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024906.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024906hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK03983 exosome complex exonu 100.0 4.7E-52 1E-56 362.5 30.6 228 33-260 10-241 (244)
2 TIGR02065 ECX1 archaeal exosom 100.0 1.2E-51 2.6E-56 357.0 30.4 222 33-254 4-229 (230)
3 PRK00173 rph ribonuclease PH; 100.0 3.7E-49 8.1E-54 342.9 28.3 215 37-252 1-237 (238)
4 TIGR01966 RNasePH ribonuclease 100.0 5.9E-48 1.3E-52 335.1 28.6 213 38-251 1-235 (236)
5 KOG1068 Exosomal 3'-5' exoribo 100.0 6.6E-48 1.4E-52 326.5 21.2 232 26-258 3-239 (245)
6 COG0689 Rph RNase PH [Translat 100.0 6E-46 1.3E-50 315.7 24.7 219 33-251 4-229 (230)
7 PRK04282 exosome complex RNA-b 100.0 2.7E-45 5.8E-50 324.6 24.4 223 28-252 15-270 (271)
8 COG2123 RNase PH-related exori 100.0 1.2E-44 2.6E-49 310.8 25.4 224 27-252 13-271 (272)
9 KOG1614 Exosomal 3'-5' exoribo 100.0 1.5E-40 3.3E-45 279.3 21.7 226 29-259 14-277 (291)
10 TIGR03591 polynuc_phos polyrib 100.0 2.6E-39 5.7E-44 316.6 29.6 221 33-256 306-543 (684)
11 KOG1069 Exosomal 3'-5' exoribo 100.0 5.9E-40 1.3E-44 268.9 19.6 207 46-258 4-215 (217)
12 PRK11824 polynucleotide phosph 100.0 7.2E-39 1.6E-43 314.1 28.7 219 33-254 310-544 (693)
13 TIGR02696 pppGpp_PNP guanosine 100.0 2.8E-37 6E-42 298.3 26.2 219 33-254 331-569 (719)
14 PLN00207 polyribonucleotide nu 100.0 1.9E-35 4.2E-40 290.8 29.0 218 34-254 435-675 (891)
15 KOG1612 Exosomal 3'-5' exoribo 100.0 2.5E-33 5.4E-38 237.1 24.9 227 28-256 12-279 (288)
16 KOG1613 Exosomal 3'-5' exoribo 100.0 1.9E-35 4.1E-40 248.2 11.9 235 11-248 10-297 (298)
17 TIGR03591 polynuc_phos polyrib 100.0 3.4E-31 7.3E-36 259.6 27.5 203 48-260 5-223 (684)
18 PRK11824 polynucleotide phosph 100.0 5E-30 1.1E-34 251.8 27.1 201 48-255 14-227 (693)
19 PF01138 RNase_PH: 3' exoribon 100.0 8.7E-29 1.9E-33 196.1 16.4 126 46-171 1-132 (132)
20 PLN00207 polyribonucleotide nu 100.0 1.4E-26 3.1E-31 228.3 23.5 205 48-259 89-306 (891)
21 KOG1067 Predicted RNA-binding 99.9 1E-22 2.2E-27 188.6 15.8 212 34-253 355-586 (760)
22 COG1185 Pnp Polyribonucleotide 99.8 4.7E-20 1E-24 175.6 15.8 219 34-255 309-543 (692)
23 TIGR02696 pppGpp_PNP guanosine 99.8 4E-18 8.8E-23 165.7 22.9 206 48-259 17-252 (719)
24 COG1185 Pnp Polyribonucleotide 99.7 3.2E-15 6.9E-20 142.9 20.5 200 48-255 14-226 (692)
25 KOG1067 Predicted RNA-binding 99.7 3E-16 6.4E-21 146.0 12.9 207 46-260 54-273 (760)
26 PF03725 RNase_PH_C: 3' exorib 99.3 2.3E-11 5.1E-16 85.3 9.5 65 174-239 1-68 (68)
27 PF03726 PNPase: Polyribonucle 53.8 6 0.00013 28.3 0.8 10 34-43 74-83 (83)
28 PF02575 YbaB_DNA_bd: YbaB/Ebf 42.5 1.3E+02 0.0027 21.6 7.4 43 199-242 27-73 (93)
29 PF12651 RHH_3: Ribbon-helix-h 37.0 66 0.0014 20.1 3.6 35 223-257 8-42 (44)
30 PF09695 YtfJ_HI0045: Bacteria 32.3 1.5E+02 0.0033 24.2 5.8 29 208-237 130-158 (160)
31 PF01402 RHH_1: Ribbon-helix-h 31.4 59 0.0013 19.2 2.6 33 224-256 6-38 (39)
32 PF03333 PapB: Adhesin biosynt 31.0 56 0.0012 24.1 2.8 38 221-258 20-57 (91)
33 PHA01623 hypothetical protein 24.1 1.2E+02 0.0025 20.1 3.2 36 223-258 19-54 (56)
34 PF06519 TolA: TolA C-terminal 23.3 2.2E+02 0.0047 21.0 4.9 59 113-172 11-79 (96)
35 PRK00153 hypothetical protein; 21.3 3.5E+02 0.0076 20.0 7.4 45 198-243 34-82 (104)
36 PRK14626 hypothetical protein; 20.8 3.8E+02 0.0083 20.3 6.2 46 198-244 36-85 (110)
37 PRK15215 fimbriae biosynthesis 20.6 1.3E+02 0.0028 22.6 3.1 37 221-257 28-64 (100)
38 PF11558 HET-s_218-289: Het-s 20.1 82 0.0018 21.7 1.8 35 29-71 28-63 (65)
No 1
>PRK03983 exosome complex exonuclease Rrp41; Provisional
Probab=100.00 E-value=4.7e-52 Score=362.48 Aligned_cols=228 Identities=34% Similarity=0.501 Sum_probs=214.9
Q ss_pred CCCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEcccccc-cccCCCceeEEEEEEEeecCcccCCC-
Q 024906 33 DVDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRESK-KAMMYSNIGRLNCNVSYTTFATPVRG- 110 (260)
Q Consensus 33 ~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~~-~~~~~~~~g~l~v~v~~~p~~~~~~g- 110 (260)
+.+++|+|||.++|+|++++++|.+++++|||++++|+|+|+|+|+||.+.. +..+.|++|.+.|+++++||++..+.
T Consensus 10 ~~~~~R~DGR~~~~~R~i~i~~G~l~~a~GSa~v~~G~T~Vl~~V~gp~e~~~~~~~~~~~~~l~v~~~~~p~~~~~~~~ 89 (244)
T PRK03983 10 LEDGLRLDGRKPDELRPIKIEVGVLKNADGSAYLEWGNNKIIAAVYGPREMHPRHLQLPDRAVLRVRYNMAPFSVDERKR 89 (244)
T ss_pred ccCCCCCCCCCcCcccceEEEeCCCCCCCeEEEEEECCeEEEEEEecCCccccccccCCCcEEEEEEEEcCCCccccccC
Confidence 7899999999999999999999999999999999999999999999998753 34567999999999999999986532
Q ss_pred --CCccHHHHHHHHHHHHHhhhccCCCCCcEEEEEEEEEcCCCccHhHHHHHHHHHHHHcCCcccCeEEEEEEEEeCCeE
Q 024906 111 --QGSDHKDFSSMLHKALEGAIILETFPKTTVDVFALVLESGGSDLPVVISCASVALADAGIMMYDLVASVSVSCLGKNL 188 (260)
Q Consensus 111 --~~~~~~~l~~~L~~~l~~~i~le~~pk~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip~~~~~~avt~~~~~~~i 188 (260)
+++++.+++++|+++|+++++++.||++.|+|+++||++|||+++|++||+++||+|+||||++++++++++++++.+
T Consensus 90 ~~~~~~~~~~s~~l~~~l~~~i~~~~~p~~~I~I~i~VL~~DG~~~~aai~Aa~lAL~dagIp~~~~v~avtv~~~~~~~ 169 (244)
T PRK03983 90 PGPDRRSIEISKVIREALEPAIMLELFPRTVIDVFIEVLQADAGTRVAGITAASLALADAGIPMRDLVAGCAVGKVDGVI 169 (244)
T ss_pred CCCChhHHHHHHHHHHHHHHhccHHhCCCeEEEEEEEEEECCCCHHHHHHHHHHHHHHhcCCccccceeEEEEEEECCEE
Confidence 566889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q 024906 189 LIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTGEWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAASDEQE 260 (260)
Q Consensus 189 v~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~~~~ 260 (260)
++|||..||+.+++.++|+++++.++|+++++.|.++.+++.+++++|.++|+++.++|+++|+++..+.+|
T Consensus 170 i~DPt~~Ee~~~~~~l~va~~~~~~~I~~l~~~G~~~~~~~~~~i~~A~~~~~~i~~~i~~~l~~~~~~~~~ 241 (244)
T PRK03983 170 VLDLNKEEDNYGEADMPVAIMPRLGEITLLQLDGNLTREEFLEALELAKKGIKRIYQLQREALKSKYGEIAE 241 (244)
T ss_pred EECCCHHHhccCCceEEEEEECCCCCEEEEEEecCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 999999999999999999988778999999999999999999999999999999999999999999887664
No 2
>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=1.2e-51 Score=357.02 Aligned_cols=222 Identities=34% Similarity=0.519 Sum_probs=209.4
Q ss_pred CCCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEcccccc-cccCCCceeEEEEEEEeecCcccCCC-
Q 024906 33 DVDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRESK-KAMMYSNIGRLNCNVSYTTFATPVRG- 110 (260)
Q Consensus 33 ~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~~-~~~~~~~~g~l~v~v~~~p~~~~~~g- 110 (260)
+.+++|+|||.++|+|++++++|++++++|||++++|+|+|+|+|+||.+.. +....|++|.++|+++++||++..+.
T Consensus 4 ~~~~~R~DGR~~~e~R~~~~~~g~~~~a~GSa~~~~G~T~Vl~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~a~~~~~~ 83 (230)
T TIGR02065 4 LEDGVRLDGRKPDELRPIKIEAGVLKNADGSAYVEFGGTKIIAAVYGPREMHPRHLQLPDRAVLRVRYHMAPFSTDERKR 83 (230)
T ss_pred cCCCcCCCCCCcccccCeEEEECCCCCCCeEEEEEECCcEEEEEEeCCCccccccccCCCceEEEEEEEeCCcccCCccC
Confidence 4689999999999999999999999999999999999999999999998753 34467899999999999999986432
Q ss_pred --CCccHHHHHHHHHHHHHhhhccCCCCCcEEEEEEEEEcCCCccHhHHHHHHHHHHHHcCCcccCeEEEEEEEEeCCeE
Q 024906 111 --QGSDHKDFSSMLHKALEGAIILETFPKTTVDVFALVLESGGSDLPVVISCASVALADAGIMMYDLVASVSVSCLGKNL 188 (260)
Q Consensus 111 --~~~~~~~l~~~L~~~l~~~i~le~~pk~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip~~~~~~avt~~~~~~~i 188 (260)
+++++.+++++|+++|++++.++.||++.|+|+++||++||++++|++||+++||.|+||||++++++++++++++.+
T Consensus 84 ~~~~~~~~~~s~~l~~~l~~~i~~~~~p~~~i~i~v~vl~~DG~~~~aai~aa~lAL~dagIp~~~~v~avtv~~~~~~~ 163 (230)
T TIGR02065 84 PGPSRREIEISKVIREALEPAILLEQFPRTAIDVFIEVLQADAGTRCAGLTAASLALADAGIPMRDLVVGVAVGKVDGVV 163 (230)
T ss_pred CCCCccHHHHHHHHHHHHHHHhChhhcCCeEEEEEEEEEEcCCCHHHHHHHHHHHHHHHcCCccccceeeEEEEEECCeE
Confidence 667899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024906 189 LIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTGEWSTPHFNEAMQLCLDASAKLGKIMRSCLKEA 254 (260)
Q Consensus 189 v~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~ 254 (260)
++|||.+||+.+.+.++|+++++.++|+++++.|.++++++.++++.|.++|+++.++|+++|+++
T Consensus 164 v~Dpt~~Ee~~~~~~l~va~~~~~~~i~~i~~~g~~~~e~~~~~l~~a~~~~~~l~~~~~~~l~~~ 229 (230)
T TIGR02065 164 VLDLNEEEDMYGEADMPVAMMPKLGEITLLQLDGDMTPDEFRQALDLAVKGIKIIYQIQREALKNK 229 (230)
T ss_pred EECCCHHHhhcCCCceEEEEeCCCCCEEEEEEecCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 999999999999999999988888999999999999999999999999999999999999999886
No 3
>PRK00173 rph ribonuclease PH; Reviewed
Probab=100.00 E-value=3.7e-49 Score=342.94 Aligned_cols=215 Identities=24% Similarity=0.330 Sum_probs=200.9
Q ss_pred CCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEcccccccccCCCceeEEEEEEEeecCcccCC-------
Q 024906 37 LRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRESKKAMMYSNIGRLNCNVSYTTFATPVR------- 109 (260)
Q Consensus 37 ~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~~~~g~l~v~v~~~p~~~~~~------- 109 (260)
+|+|||.++|+|++++++|++++++|||+|++|+|+|+|+|+++.+.+.....+++|+|+|+|+++||+++++
T Consensus 1 ~R~DGR~~~e~R~i~~~~g~~~~a~GSa~v~~G~T~Vla~V~~~~~~p~~~~~~~~g~l~v~~~~~p~a~~~~~~~~~~~ 80 (238)
T PRK00173 1 MRPDGRAADQLRPVTITRNFTKHAEGSVLVEFGDTKVLCTASVEEGVPRFLKGQGQGWVTAEYGMLPRATHTRNDREAAK 80 (238)
T ss_pred CCCCCCCcccccCeEEEeCCCCCCCeeEEEEecCcEEEEEEEcCCCCCCccCCCCcEEEEEEEecCCCCCcccccccccC
Confidence 5999999999999999999999999999999999999999999987554445678999999999999999865
Q ss_pred C-CCccHHHHHHHHHHHHHhhhccCCCCCcEEEEEEEEEcCCCccHhHHHHHHHHHHHHc-----------CCcccCeEE
Q 024906 110 G-QGSDHKDFSSMLHKALEGAIILETFPKTTVDVFALVLESGGSDLPVVISCASVALADA-----------GIMMYDLVA 177 (260)
Q Consensus 110 g-~~~~~~~l~~~L~~~l~~~i~le~~pk~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~a-----------gip~~~~~~ 177 (260)
| +++++.+++++|++.|+++|+++.||+++|+|+++||++|||+++|++||+++||+|+ ++||+++|+
T Consensus 81 g~~~~~~~~~sr~i~r~lr~~i~l~~l~~~~i~v~v~VL~~DG~~~~aai~Aa~~AL~da~~~~~~~~~~~~ip~~~~~~ 160 (238)
T PRK00173 81 GKQGGRTQEIQRLIGRSLRAVVDLKALGERTITIDCDVIQADGGTRTASITGAYVALADALNKLVARGKLKKNPLKDQVA 160 (238)
T ss_pred CCCCccHHHHHHHHHHHHHHhcCHHHcCCeEEEEEEEEEeCCCCHHHHHHHHHHHHHHHhhhhhhccCcccCCcccCcee
Confidence 3 4567899999999999999999999999999999999999999999999999999999 999999999
Q ss_pred EEEEEEeCCeEEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEec---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024906 178 SVSVSCLGKNLLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTG---EWSTPHFNEAMQLCLDASAKLGKIMRSCLK 252 (260)
Q Consensus 178 avt~~~~~~~iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G---~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~ 252 (260)
++|++++++.+|+|||.+||+.+++.++|++ +..++|+++++.| .++.+++.+|++.|.+.++++.++++++|+
T Consensus 161 ~vt~~~~~~~~lvDpt~~Ee~~~~~~l~v~~-~~~~~i~~v~~~g~g~~~~~e~l~~~i~~A~~~~~~l~~~~~~~l~ 237 (238)
T PRK00173 161 AVSVGIVDGEPVLDLDYEEDSAAETDMNVVM-TGSGGFVEVQGTAEGAPFSREELDALLDLAEKGIAELVALQKAALA 237 (238)
T ss_pred EEEEEEECCEEEECCCHHHHhcCCceEEEEE-CCCCCEEEEEccCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999999999999985 6778999999954 699999999999999999999999999885
No 4
>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=5.9e-48 Score=335.06 Aligned_cols=213 Identities=26% Similarity=0.323 Sum_probs=197.0
Q ss_pred CCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEcccccccccCCCceeEEEEEEEeecCcccCC-------C
Q 024906 38 RPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRESKKAMMYSNIGRLNCNVSYTTFATPVR-------G 110 (260)
Q Consensus 38 R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~~~~g~l~v~v~~~p~~~~~~-------g 110 (260)
|+|||+++|+|++++++|++++|+|||+|++|+|+|+|+|+++.+.++....+++|.++|+++++||+++.+ |
T Consensus 1 R~DGR~~~e~R~i~i~~G~~~~A~GSa~v~~G~T~Vla~V~~~~~~p~~~~~~~~g~l~v~~~~~p~a~~~~~~r~~~~g 80 (236)
T TIGR01966 1 RPDGRKPDQLRPVSITRDFLKHAEGSVLIEFGNTKVLCTASVEEKVPPFLRGSGEGWITAEYGMLPRATQTRNRRESAKG 80 (236)
T ss_pred CCCCCCCCCccCeEEEeCCcCCCCceEEEEecCCEEEEEEEccCccCCcccCCCcEEEEEEEecCCCCCCCCccccccCC
Confidence 899999999999999999999999999999999999999998876443333468999999999999998753 3
Q ss_pred -CCccHHHHHHHHHHHHHhhhccCCCCCcEEEEEEEEEcCCCccHhHHHHHHHHHHHHc-----------CCcccCeEEE
Q 024906 111 -QGSDHKDFSSMLHKALEGAIILETFPKTTVDVFALVLESGGSDLPVVISCASVALADA-----------GIMMYDLVAS 178 (260)
Q Consensus 111 -~~~~~~~l~~~L~~~l~~~i~le~~pk~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~a-----------gip~~~~~~a 178 (260)
++.++.+++++|+++|+++|+++.||+++|+|+++||++|||+++|++||+++||+|+ ||||+++|++
T Consensus 81 ~~~~~~~e~~~~i~r~lr~~i~l~~l~~~~i~I~v~VL~~DG~~~~aai~Aa~aAL~da~~~~~~~~~~~~ip~~~~~~~ 160 (236)
T TIGR01966 81 KQSGRTQEIQRLIGRALRAVVDLEALGERTIWIDCDVIQADGGTRTASITGAFVALADAISKLHKRGILKESPIRDFVAA 160 (236)
T ss_pred CCCccHHHHHHHHHHHHHHhcCHhhcCCeEEEEEEEEEeCCCCHHHHHHHHHHHHHHHHHHhhhhcCcccCCCccCceeE
Confidence 3446889999999999999999999999999999999999999999999999999999 9999999999
Q ss_pred EEEEEeCCeEEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEec---CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024906 179 VSVSCLGKNLLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTG---EWSTPHFNEAMQLCLDASAKLGKIMRSCL 251 (260)
Q Consensus 179 vt~~~~~~~iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G---~~~~~~l~~~l~~A~~~~~~i~~~i~~~l 251 (260)
+|++++++.+|+|||.+||+.+++.+++++ +..++|+++++.| .++++++.+++++|.+++++++++|+++|
T Consensus 161 vt~~~~~~~~v~Dpt~~Ee~~~~~~l~l~~-~~~~~i~~i~~~g~~~~~~~~~l~~~i~~a~~~~~~l~~~~~~~l 235 (236)
T TIGR01966 161 VSVGIVDGEPVLDLDYEEDSAADVDMNVVM-TGSGGFVEVQGTAEEGPFSRDELNKLLDLAKKGIRELIELQKQAL 235 (236)
T ss_pred EEEEEECCEEEECCChhHHhccCceEEEEE-cCCCCEEEEEecCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999999999985 5679999999963 69999999999999999999999999987
No 5
>KOG1068 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp41 and related exoribonucleases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.6e-48 Score=326.46 Aligned_cols=232 Identities=34% Similarity=0.555 Sum_probs=216.8
Q ss_pred CCcccCCCCCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEccccccccc-CCCceeEEEEEEEeecC
Q 024906 26 PPIFSGSDVDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRESKKAM-MYSNIGRLNCNVSYTTF 104 (260)
Q Consensus 26 ~~~~~~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~-~~~~~g~l~v~v~~~p~ 104 (260)
|| |+..+.++.|.|||.++|+|+|..+.|++.+++||||+++|||+|+|.|+||.+..... ..++++.++|.+.+.+|
T Consensus 3 ~~-~~~~seeg~r~dgRr~~elR~i~~~~g~~~~a~GSay~E~GnTKVl~aV~GPre~~~~~~~~~~~a~lnc~~~~a~F 81 (245)
T KOG1068|consen 3 PP-YETLSEEGLRTDGRRPNELRRIYARIGVLTQADGSAYMEQGNTKVLCAVYGPREIRGKSARRPDKAVLNCEVSSAQF 81 (245)
T ss_pred Cc-ccccCccccccCCCChhHhhhhhhhcCccccCCccchhhcCCeEEEEEEeCCcccccccccccccceEEEEEeeecc
Confidence 44 44579999999999999999999999999999999999999999999999999865432 36899999999999999
Q ss_pred cccCCC----CCccHHHHHHHHHHHHHhhhccCCCCCcEEEEEEEEEcCCCccHhHHHHHHHHHHHHcCCcccCeEEEEE
Q 024906 105 ATPVRG----QGSDHKDFSSMLHKALEGAIILETFPKTTVDVFALVLESGGSDLPVVISCASVALADAGIMMYDLVASVS 180 (260)
Q Consensus 105 ~~~~~g----~~~~~~~l~~~L~~~l~~~i~le~~pk~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip~~~~~~avt 180 (260)
++.++. .+.++++++.+|+++|+++|.++.|||++|+|+|+||++||+.+++++||+.+||.|+||||+|+++++|
T Consensus 82 st~~r~~~~~~~rr~~e~s~~L~~afe~~I~~~lyPrsqIDI~v~VleddG~~laa~inaatlAL~daGI~m~D~i~~~t 161 (245)
T KOG1068|consen 82 STGDRKKRPKGDRREKELSLMLQQAFEPVILLELYPRSQIDIYVQVLEDDGSNLAAAINAATLALADAGIPMYDLITACT 161 (245)
T ss_pred ccchhccCCCccHHHHHHHHHHHHHHHHHHHhhhCccccceEEEEEEECCCccHHHHHHHHHHHHHHcCCChhhhhhhce
Confidence 988654 3458999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeCCeEEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 024906 181 VSCLGKNLLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTGEWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAASDE 258 (260)
Q Consensus 181 ~~~~~~~iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~~ 258 (260)
+++.++.+++|||..||......+||+++++.++|..+++.+.++.+.|...++.|..+|+++++.++..+.++++++
T Consensus 162 ~~l~~~~~l~Dl~~~eesa~~~~ltVa~l~~~~~i~~l~~~~~~~~d~l~~vl~~a~~~c~~v~~~l~~~l~~~l~~~ 239 (245)
T KOG1068|consen 162 AGLADGTPLLDLTSLEESARAPGLTVAALPNREEIALLQLDERLHCDHLETVLELAIAGCKRVYERLRLVLREHLKNA 239 (245)
T ss_pred eeecCCccccccccchhhccCCceEEEEecCcceEEEEEecCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999998899999999999999999999999999999999999999999999999999988764
No 6
>COG0689 Rph RNase PH [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6e-46 Score=315.73 Aligned_cols=219 Identities=32% Similarity=0.455 Sum_probs=205.5
Q ss_pred CCCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEcccccc-cccCCCceeEEEEEEEeecCcccCCC-
Q 024906 33 DVDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRESK-KAMMYSNIGRLNCNVSYTTFATPVRG- 110 (260)
Q Consensus 33 ~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~~-~~~~~~~~g~l~v~v~~~p~~~~~~g- 110 (260)
+.++.|+|||.++|+|+|+++.|++++++||+++++|+|+|+|+|+||.+.. ++...+++|++++.+.+.||++..|.
T Consensus 4 ~~~~~R~dgR~~delR~i~~~~~~~~~a~GS~~~~~G~tkVic~vsGp~e~~p~~l~~~~~g~~t~ey~m~p~sT~~R~~ 83 (230)
T COG0689 4 SEDGMRPDGRKPDELRPIKITRGVLKHAEGSSLIEFGNTKVICTVSGPREPVPRFLRGTGKGWLTAEYGMLPRSTDERKK 83 (230)
T ss_pred cccCcCCCCCCcccccceEEEeccccCCCccEEEEeCCeEEEEEEecCCCCCChhhcCCCceEEEEEEeccccccccccc
Confidence 3578999999999999999999999999999999999999999999998754 46677889999999999999997665
Q ss_pred --CCc-cHHHHHHHHHHHHHhhhccCCCCCcEEEEEEEEEcCCCccHhHHHHHHHHHHHHcCCcccCeEEEEEEEEeCCe
Q 024906 111 --QGS-DHKDFSSMLHKALEGAIILETFPKTTVDVFALVLESGGSDLPVVISCASVALADAGIMMYDLVASVSVSCLGKN 187 (260)
Q Consensus 111 --~~~-~~~~l~~~L~~~l~~~i~le~~pk~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip~~~~~~avt~~~~~~~ 187 (260)
... ++++++++|.++|+++|+++.||++.|+|+++|+++||+.+.|++||+++||.|+|+||+++++++|+|+.++.
T Consensus 84 ~~~~~gR~~eisrli~~al~~~i~L~~~p~~~I~i~~dVlqaDggTrta~It~A~lAL~DAgipl~~~vaaiSvgi~~~~ 163 (230)
T COG0689 84 READRGRTKEISRLIGRALRAVIDLELLPESTIDIDCDVLQADGGTRTASITGASLALADAGIPLRDLVAAISVGIVDGV 163 (230)
T ss_pred ccccccchhHHHHHHHHHHHHHhhhhhcCccEEEEEEEEEECCCCeeeehhhHHHHHHHHcCCchhhheeEeEEEEECCc
Confidence 233 78999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeCCChhhhhcCCeeEEEEEcCCCC--cEEEEEEecCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024906 188 LLIDPVLEEESYQDGSLMIACMPSRY--EVTQLTVTGEWSTPHFNEAMQLCLDASAKLGKIMRSCL 251 (260)
Q Consensus 188 iv~DPt~~Ee~~~~~~~~va~~~~~~--~i~~i~~~G~~~~~~l~~~l~~A~~~~~~i~~~i~~~l 251 (260)
+++|++..|++.+...++|+++.+.+ +|.+++..|+|+.++|.+++++|.++|+++++.++++|
T Consensus 164 ~~lDl~~~Eds~~~~d~~v~~~~~~~~~ei~~~~~~~~~~~del~~lL~la~~g~~~~~~~~~~al 229 (230)
T COG0689 164 IVLDLDYEEDSAAEADMNVVMTGNGGLVEIQGLAEDGPFTEDELLELLDLAIKGCNELRELQREAL 229 (230)
T ss_pred eEecCcchhhcccccCceEEEEecCCeEEEEEEeccCCcCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999877777 79999999999999999999999999999999999987
No 7
>PRK04282 exosome complex RNA-binding protein Rrp42; Provisional
Probab=100.00 E-value=2.7e-45 Score=324.61 Aligned_cols=223 Identities=24% Similarity=0.346 Sum_probs=200.1
Q ss_pred cccCCCCCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEcccccccccCCCceeEEEEEEEeecCccc
Q 024906 28 IFSGSDVDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRESKKAMMYSNIGRLNCNVSYTTFATP 107 (260)
Q Consensus 28 ~~~~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~~~~g~l~v~v~~~p~~~~ 107 (260)
++.+..++++|+|||+++|+|++++++|++++++|||+|++|+|+|+|+|+++.. .|....|++|.++|+|+++||+.+
T Consensus 15 ~i~~~l~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~vl~~V~~~~~-~p~~~~~~~g~i~~~v~~~~~a~~ 93 (271)
T PRK04282 15 YILSLLKKGKRIDGRKLDEYRPIEIETGVIKKAEGSALVKLGNTQVLAGVKLEIG-EPFPDTPNEGVLIVNAELLPLASP 93 (271)
T ss_pred HHHHHHhcCCCCCCCCCccccCeEEEeCCccCCCcEEEEEECCCEEEEEEEEEEe-cCCCCCCCCCEEEEEEEECCCcCc
Confidence 3444568899999999999999999999999999999999999999999997653 345567899999999999999987
Q ss_pred CC--C-CCccHHHHHHHHHHHHHhh--hccCCC---CC---cEEEEEEEEEcCCCccHhHHHHHHHHHHHHcCCc-----
Q 024906 108 VR--G-QGSDHKDFSSMLHKALEGA--IILETF---PK---TTVDVFALVLESGGSDLPVVISCASVALADAGIM----- 171 (260)
Q Consensus 108 ~~--g-~~~~~~~l~~~L~~~l~~~--i~le~~---pk---~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip----- 171 (260)
.. | +++++++++++|+++|++. ++++.| |+ |.|+|+++||++|||++||+++|+++||+|+++|
T Consensus 94 ~~~~~~~~~~~~~l~~~l~r~l~~~~~~dl~~L~I~~g~~~w~i~Vdv~VL~~dG~~~daa~~Aa~aAL~~~~iP~~~~~ 173 (271)
T PRK04282 94 TFEPGPPDENAIELARVVDRGIRESKAIDLEKLVIEPGKKVWVVFIDVYVLDHDGNLLDASMLAAVAALLNTKVPAVEEG 173 (271)
T ss_pred cccCCCCCHHHHHHHHHHHHHHhccCCccHHHcEEecCcEEEEEEEEEEEECCCCCHHHHHHHHHHHHHHhCCCCcEEEc
Confidence 53 3 6668899999999999874 788877 43 4677788999999999999999999999999995
Q ss_pred ---------------ccCeEEEEEEEEeCCeEEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEec--CCCHHHHHHHHH
Q 024906 172 ---------------MYDLVASVSVSCLGKNLLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTG--EWSTPHFNEAMQ 234 (260)
Q Consensus 172 ---------------~~~~~~avt~~~~~~~iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G--~~~~~~l~~~l~ 234 (260)
|+++|+++|++++++.+|+|||.+||+.+++.++|++ +..|+|+++++.| +++.+++.++++
T Consensus 174 ~~~~~~~~~~~~~l~~~~~p~~vt~~~~~~~~v~Dpt~~Ee~~~~~~l~va~-~~~g~i~~l~~~g~~~~~~~~l~~~i~ 252 (271)
T PRK04282 174 EDGVVDKLGEDFPLPVNDKPVTVTFAKIGNYLIVDPTLEEESVMDARITITT-DEDGNIVAIQKSGIGSFTEEEVDKAID 252 (271)
T ss_pred CCceeccCCCcccCCCCCeeEEEEEEEECCEEEECCCHHHHhhcCceEEEEE-CCCCcEEEEEcCCCCCCCHHHHHHHHH
Confidence 9999999999999999999999999999999999996 5678999999985 699999999999
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 024906 235 LCLDASAKLGKIMRSCLK 252 (260)
Q Consensus 235 ~A~~~~~~i~~~i~~~l~ 252 (260)
.|.+.++++++.++++|+
T Consensus 253 ~A~~~~~~l~~~~~~~l~ 270 (271)
T PRK04282 253 IALEKAKELREKLKEALG 270 (271)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 999999999999999884
No 8
>COG2123 RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-44 Score=310.80 Aligned_cols=224 Identities=28% Similarity=0.362 Sum_probs=205.0
Q ss_pred CcccCCCCCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEcccccccccCCCceeEEEEEEEeecCcc
Q 024906 27 PIFSGSDVDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRESKKAMMYSNIGRLNCNVSYTTFAT 106 (260)
Q Consensus 27 ~~~~~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~~~~g~l~v~v~~~p~~~ 106 (260)
.++.+....++|+|||+++|+|+++|++|+++.++|||+|++|+|+|+|+|+.+.. .|+.+.|++|.+.+++++.|+++
T Consensus 13 ~~i~~ll~~g~R~DGR~~~efR~ieI~~~vi~ka~GSa~VklG~Tqvv~gvK~eig-~Pf~DtP~eG~~~~n~El~Plas 91 (272)
T COG2123 13 EYILNLLKKGIRIDGRSFDEFRPLEIETGVIPKANGSALVKLGNTQVVVGVKAEIG-EPFPDTPNEGVLVVNVELSPLAS 91 (272)
T ss_pred HHHHHHhccCcccCCCCcccccceEEEeCceecCCCcEEEEecCeEEEEEEEcccC-CCCCCCCCCceEEeeeeeecccc
Confidence 44555678999999999999999999999999999999999999999999999985 57889999999999999999998
Q ss_pred cC--CC-CCccHHHHHHHHHHHHHh--hhccCCCC----CcE--EEEEEEEEcCCCccHhHHHHHHHHHHHHcCCc----
Q 024906 107 PV--RG-QGSDHKDFSSMLHKALEG--AIILETFP----KTT--VDVFALVLESGGSDLPVVISCASVALADAGIM---- 171 (260)
Q Consensus 107 ~~--~g-~~~~~~~l~~~L~~~l~~--~i~le~~p----k~~--i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip---- 171 (260)
+. .| +++...+++++++|.++. +||+++|+ +.+ +.++++||++|||++||++.|+++||+++++|
T Consensus 92 ~~fE~Gppde~aielsrvvdr~lr~s~aiDlekL~I~~g~kvwvv~vDv~vld~DGnl~Da~~lA~~aAL~~t~vP~~~~ 171 (272)
T COG2123 92 PSFEPGPPDELAIELSRVVDRGLRESKAIDLEKLCIEEGKKVWVVFVDVHVLDYDGNLIDAASLAAVAALLNTRVPKAVE 171 (272)
T ss_pred ccccCCCCchhHHHHHHHHHHHHHhccCcchhheeEecCCEEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCceee
Confidence 85 56 667788999999999997 79999995 444 45678999999999999999999999999877
Q ss_pred ------------------ccCeEEEEEEEEeCCeEEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEec--CCCHHHHHH
Q 024906 172 ------------------MYDLVASVSVSCLGKNLLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTG--EWSTPHFNE 231 (260)
Q Consensus 172 ------------------~~~~~~avt~~~~~~~iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G--~~~~~~l~~ 231 (260)
+.+.|+++|++++++.+++|||.+||..+++.++|. +++.|+|+++++.| .++.+.+.+
T Consensus 172 ~~~~~~v~~~~~~~~pl~~~~~pi~vt~a~ig~~lvvDPsleEe~v~d~~ltit-~~~~~~Iv~iqK~g~~~~~~~~~~~ 250 (272)
T COG2123 172 VGDGEIVIEVEEEPVPLPVSNPPISVTFAKIGNVLVVDPSLEEELVADGRLTIT-VNEDGEIVAIQKVGGGSITESDLEK 250 (272)
T ss_pred cCCcceeecccCCCcccccCCCceEEEEEEECCEEEeCCCcchhhhcCceEEEE-ECCCCcEEEEEEcCCCcCCHHHHHH
Confidence 567899999999999999999999999999999998 47889999999986 799999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 024906 232 AMQLCLDASAKLGKIMRSCLK 252 (260)
Q Consensus 232 ~l~~A~~~~~~i~~~i~~~l~ 252 (260)
|++.|.+.+.++.+.+.+.|+
T Consensus 251 ~~~~A~~~~~kl~~~~~~~L~ 271 (272)
T COG2123 251 ALKTALSKAEKLREALKEALK 271 (272)
T ss_pred HHHHHHHHHHHHHHHHHHhhc
Confidence 999999999999999999885
No 9
>KOG1614 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp45 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.5e-40 Score=279.30 Aligned_cols=226 Identities=21% Similarity=0.293 Sum_probs=205.6
Q ss_pred ccCCCCCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEcccccccccCCCceeEEEEEEEeecCcccC
Q 024906 29 FSGSDVDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRESKKAMMYSNIGRLNCNVSYTTFATPV 108 (260)
Q Consensus 29 ~~~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~~~~g~l~v~v~~~p~~~~~ 108 (260)
+++..+.|.|.|||+++|+|.+++++| .-.||+.|++|+|+|+|.|+.... .|...+|.+|.+.+..+++|++++.
T Consensus 14 vl~alk~g~R~DgR~l~efR~lei~fG---ke~gs~~vt~G~Tkvm~~vt~~ia-~Py~dRP~eG~~~I~telsPmA~~s 89 (291)
T KOG1614|consen 14 VLNALKAGLRFDGRSLEEFRDLEIEFG---KEYGSVLVTMGNTKVMARVTAQIA-QPYIDRPHEGSFSIFTELSPMASPS 89 (291)
T ss_pred HHHHHHhcccccccchhhhhceEEEec---cccccEEEEecCeeEEEEeehhhc-CcccCCCCCCeeeeeeccccccccc
Confidence 445678999999999999999999999 468999999999999999999874 6788999999999999999999874
Q ss_pred --CC-CCccHHHHHHHHHHHHHh--hhccCCCC----C--cEEEEEEEEEcCCCccHhHHHHHHHHHHHHcC--------
Q 024906 109 --RG-QGSDHKDFSSMLHKALEG--AIILETFP----K--TTVDVFALVLESGGSDLPVVISCASVALADAG-------- 169 (260)
Q Consensus 109 --~g-~~~~~~~l~~~L~~~l~~--~i~le~~p----k--~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~ag-------- 169 (260)
.| +++.+.+++++|+++++. +||+|.|| + |.|++++++|+.|||++||++.|+++||++.+
T Consensus 90 fE~Gr~~~~~v~l~Rliek~~R~S~aiD~EsLCI~aG~kvW~IRiDlhiLd~DGnlvDaA~iAviaaL~hFrrPdvTv~g 169 (291)
T KOG1614|consen 90 FEPGRKGESEVELSRLIEKALRRSKAIDTESLCIRAGEKVWLIRIDLHILDHDGNLVDAACIAVIAALMHFRRPDVTVGG 169 (291)
T ss_pred cCCCCccchHHHHHHHHHHHHHhccccchHHHHhhhCCeEEEEEEEEEEEcCCCCeehhHHHHHHHHHHhcCCCCccccc
Confidence 56 677899999999999996 79999996 3 55677899999999999999999999999998
Q ss_pred ---------------CcccCeEEEEEEEEeC--CeEEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEec--CCCHHHHH
Q 024906 170 ---------------IMMYDLVASVSVSCLG--KNLLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTG--EWSTPHFN 230 (260)
Q Consensus 170 ---------------ip~~~~~~avt~~~~~--~~iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G--~~~~~~l~ 230 (260)
+.|+|+|.|+||++++ +.+++|||..||...+|.++|+ ++..++||.+++.| .++..++.
T Consensus 170 ~ev~ihp~eEr~PvPL~I~HmPIC~tf~ffnkG~ivviDpt~~Ee~~~dGs~vVt-~Nk~rEVc~i~k~G~~~~~~~~i~ 248 (291)
T KOG1614|consen 170 EEVIIHPVEEREPVPLSIHHMPICFTFGFFNKGEIVVIDPTEKEEAVMDGSMVVT-MNKNREVCAIQKSGGEILDESVIE 248 (291)
T ss_pred ceeEecChhccCCcceeeeeccceEEEEEecCceEEEeCCcHHHHhccCceEEEE-EcCCccEEEEecCCCccccHHHHH
Confidence 3379999999999996 6788999999999999999997 78999999999998 47899999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 024906 231 EAMQLCLDASAKLGKIMRSCLKEAASDEQ 259 (260)
Q Consensus 231 ~~l~~A~~~~~~i~~~i~~~l~~~~~~~~ 259 (260)
.|...|...+.++..+|.+.|+++..+|.
T Consensus 249 ~C~k~A~~~a~~vt~ii~e~l~~d~~~r~ 277 (291)
T KOG1614|consen 249 RCYKLAKDRAVEVTGIILEALEEDQRERS 277 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999887764
No 10
>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=2.6e-39 Score=316.58 Aligned_cols=221 Identities=21% Similarity=0.284 Sum_probs=197.2
Q ss_pred CCCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEE-Ecccccc---cccCCCceeEEEEEEEeecCcccC
Q 024906 33 DVDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSV-FGPRESK---KAMMYSNIGRLNCNVSYTTFATPV 108 (260)
Q Consensus 33 ~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V-~gp~~~~---~~~~~~~~g~l~v~v~~~p~~~~~ 108 (260)
+.++.|+|||.++|+|++++++|++++++|||+|++|+|+|+|+| .||.+.. ......+++++.++|+|+||++++
T Consensus 306 l~~g~R~DGR~~~e~Rpi~~~~g~l~~a~GSa~~~~G~Tqvl~~vt~g~~~~~~~~~~~~~~~~~~~~~~y~~~pfs~~e 385 (684)
T TIGR03591 306 LKEGKRIDGRDLDTIRPISIEVGVLPRTHGSALFTRGETQALVVTTLGTERDEQIIDDLEGEYRKRFMLHYNFPPYSVGE 385 (684)
T ss_pred hcCCCCCCCCCCCCcCceEEEeCCCCCCCceEEEEeCCeEEEEEEecCCcccccCCcccCCCccEEEEEEEEcCCCCCCC
Confidence 478999999999999999999999999999999999999999999 4775421 122335689999999999999987
Q ss_pred CC----CCccHHHHHHHHHHHHHhhhcc-CCCCCcEEEEEEEEEcCCCccHhHHHHHHHHHHHHcCCcccCeEEEEEEEE
Q 024906 109 RG----QGSDHKDFSSMLHKALEGAIIL-ETFPKTTVDVFALVLESGGSDLPVVISCASVALADAGIMMYDLVASVSVSC 183 (260)
Q Consensus 109 ~g----~~~~~~~l~~~L~~~l~~~i~l-e~~pk~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip~~~~~~avt~~~ 183 (260)
++ ++.++..++++++++|+++|++ +.||+ .|+|+++||++|||..+|+++|+++||+|+||||++.++++++|+
T Consensus 386 ~~~~g~~~rrei~~~~l~~ral~~~i~~~~~~p~-tI~v~~~VLesdGs~~~Aai~aaslAL~dAgvP~~~~Vagvs~gl 464 (684)
T TIGR03591 386 VGRVGGPGRREIGHGALAERALKAVLPSEEEFPY-TIRVVSEILESNGSSSMASVCGGSLALMDAGVPIKAPVAGIAMGL 464 (684)
T ss_pred cCCCCCCChHHHHHHHHHHHHHHHhcCccccCCe-EEEEEEEEEeCCCChHHHHHHHHHHHHHhcCCCCcCCEEEEEEEE
Confidence 54 5678999999999999999986 78896 599999999999999999999999999999999999999999999
Q ss_pred eC-C----eEEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEec---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 024906 184 LG-K----NLLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTG---EWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAA 255 (260)
Q Consensus 184 ~~-~----~iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G---~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~ 255 (260)
++ + .+++||+..|+..++..++|+ .+..| |+++++++ .++.+.|.+++++|.++++++.++|++++.++.
T Consensus 465 i~~~~~~~~il~D~~~~Ed~~~d~d~~va-~t~~g-I~~lq~d~k~~~i~~~~l~~al~~a~~~~~~I~~~m~~~l~~~~ 542 (684)
T TIGR03591 465 IKEGDERFAVLSDILGDEDHLGDMDFKVA-GTRDG-ITALQMDIKIDGITREIMEQALEQAKEGRLHILGEMNKVISEPR 542 (684)
T ss_pred EcCCCcceEEEeCCChHHHhcCCceEEEE-EcCCc-eEEEEEEcCcCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 94 2 599999999999999999997 44444 99999975 479999999999999999999999999998875
Q ss_pred h
Q 024906 256 S 256 (260)
Q Consensus 256 ~ 256 (260)
.
T Consensus 543 ~ 543 (684)
T TIGR03591 543 A 543 (684)
T ss_pred c
Confidence 4
No 11
>KOG1069 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp46 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.9e-40 Score=268.87 Aligned_cols=207 Identities=28% Similarity=0.367 Sum_probs=191.7
Q ss_pred CCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEcccccccccCCCceeEEEEEEEeecCcccCCC-CCccHHHHHHHHHH
Q 024906 46 QCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRESKKAMMYSNIGRLNCNVSYTTFATPVRG-QGSDHKDFSSMLHK 124 (260)
Q Consensus 46 e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~~~~g~l~v~v~~~p~~~~~~g-~~~~~~~l~~~L~~ 124 (260)
++|++.++.|+++++|||+.+.+|+|+|+|+|+||.+++.+++.+++..++|.++ +..| .+..++.++++|.+
T Consensus 4 ~lr~~~cei~iLsr~dGSs~fsqgdT~V~c~V~GP~dvk~r~E~~~katleVi~r------p~~G~~~~~eK~~e~iI~~ 77 (217)
T KOG1069|consen 4 RLRGIACEISILSRPDGSSEFSQGDTKVICSVYGPIDVKARQEDPEKATLEVIWR------PKSGVNGTVEKVLERIIRK 77 (217)
T ss_pred hhhhhhhhhceecCCCCccceecCCcEEEEEeeCCcchhhcccCchhceEEEEEe------cccCcchHHHHHHHHHHHH
Confidence 6899999999999999999999999999999999999988999999999999886 3445 56678999999999
Q ss_pred HHHhhhccCCCCCcEEEEEEEEEcCCCccHhHHHHHHHHHHHHcCCcccCeEEEEEEEEeCC-eEEeCCChhhhhcCCee
Q 024906 125 ALEGAIILETFPKTTVDVFALVLESGGSDLPVVISCASVALADAGIMMYDLVASVSVSCLGK-NLLIDPVLEEESYQDGS 203 (260)
Q Consensus 125 ~l~~~i~le~~pk~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip~~~~~~avt~~~~~~-~iv~DPt~~Ee~~~~~~ 203 (260)
+|+++|.++.||++.|+|.++|+++||+.+++++|||++||+|+||||+++++++.+++.++ .+++|||..++..+.+.
T Consensus 78 tl~~~I~l~l~Prt~iqVsiqvv~ddgs~LacaINaAclALvDaGIpl~~mfcai~~~~~~d~~lv~Dpt~~qek~~~~~ 157 (217)
T KOG1069|consen 78 TLSKAIILELYPRTTIQVSIQVVEDDGSTLACAINAACLALVDAGIPLRSMFCAISCALHEDGVLVLDPTAKQEKISTAR 157 (217)
T ss_pred HHHHhheeeecCCceEEEEEEEEecCCcchHHHHHHHHHHHHhcCCchHHhhhhceEEEecCccEEECCcHHhhhhhhce
Confidence 99999999999999999999999999999999999999999999999999999999999855 89999999999988888
Q ss_pred EEEEEcC---CCCcEEEEEEecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 024906 204 LMIACMP---SRYEVTQLTVTGEWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAASDE 258 (260)
Q Consensus 204 ~~va~~~---~~~~i~~i~~~G~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~~ 258 (260)
.+++|.. ...+++.++..|.++.++|..+++.|...+++++.++++.+++.-+++
T Consensus 158 ~~lsf~~~~~~~~~vi~s~t~G~~~~d~lf~~le~a~~~~~~~f~f~r~~~q~~~s~~ 215 (217)
T KOG1069|consen 158 ATLSFEGGSLGEPKVIISETNGEKSEDQLFYVLELAQAAAQSLFPFYREVLQRKYSKS 215 (217)
T ss_pred EEEEEecCCCCCcceEEEeccCCCCHHHHHHHHHhhHHHHHHHHHHHHHHHHhhcCcc
Confidence 7777643 245899999999999999999999999999999999999999988765
No 12
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=100.00 E-value=7.2e-39 Score=314.14 Aligned_cols=219 Identities=22% Similarity=0.296 Sum_probs=194.4
Q ss_pred CCCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEE-ccccc-cc--ccCCCceeEEEEEEEeecCcccC
Q 024906 33 DVDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVF-GPRES-KK--AMMYSNIGRLNCNVSYTTFATPV 108 (260)
Q Consensus 33 ~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~-gp~~~-~~--~~~~~~~g~l~v~v~~~p~~~~~ 108 (260)
+.+++|+|||.++|+|++++++|++++++|||+|++|+|+|+|+|+ ||... .+ .....+++++.++|+|+||++++
T Consensus 310 l~~g~R~DGR~~~e~Rpi~~~~g~l~~a~GSal~~~G~T~Vl~~vt~g~~~~~~~~~~~~~~~~~~~~~~y~~~pfs~~e 389 (693)
T PRK11824 310 LEEGIRIDGRKLDEIRPISIEVGVLPRTHGSALFTRGETQALVVATLGTLRDEQIIDGLEGEYKKRFMLHYNFPPYSVGE 389 (693)
T ss_pred hcCCCCCCCCCcCcccceEEEeCCCCCCCceEEEEECCeEEEEEEecCCCcccccccccCCCCcEEEEEEEEcCCCCCCC
Confidence 3689999999999999999999999999999999999999999994 66321 11 12234789999999999999987
Q ss_pred CC----CCccHHHHHHHHHHHHHhhhcc-CCCCCcEEEEEEEEEcCCCccHhHHHHHHHHHHHHcCCcccCeEEEEEEEE
Q 024906 109 RG----QGSDHKDFSSMLHKALEGAIIL-ETFPKTTVDVFALVLESGGSDLPVVISCASVALADAGIMMYDLVASVSVSC 183 (260)
Q Consensus 109 ~g----~~~~~~~l~~~L~~~l~~~i~l-e~~pk~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip~~~~~~avt~~~ 183 (260)
++ ++.++..++++++++|+++|++ +.||. .|+|+++||++|||..+|+++|+++||+|+||||++.++++++|+
T Consensus 390 ~~~~~~~~rre~~~~~li~ral~~vi~~~~~~p~-~I~v~~~VLe~dGs~~~Aai~aaslAL~dAgvP~~~~Va~vs~gl 468 (693)
T PRK11824 390 TGRVGSPGRREIGHGALAERALEPVLPSEEEFPY-TIRVVSEILESNGSSSMASVCGSSLALMDAGVPIKAPVAGIAMGL 468 (693)
T ss_pred cCCCCCCChhHHHHHHHHHHHHHHhcCcccCCCE-EEEEEEEEEecCCCHHHHHHHHHHHHHHhcCCCccCceeEEEEEE
Confidence 54 5678999999999999999998 68885 799999999999999999999999999999999999999999999
Q ss_pred eCC----eEEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEec---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024906 184 LGK----NLLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTG---EWSTPHFNEAMQLCLDASAKLGKIMRSCLKEA 254 (260)
Q Consensus 184 ~~~----~iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G---~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~ 254 (260)
+++ .+++||+..|+..++..++|+ .+..| |++++++| .++.+.+.+++++|.++++++.+.|++++.+.
T Consensus 469 i~~~~~~~il~D~~~~Ed~~~d~d~~va-~t~~g-i~~lq~d~k~~~i~~~~l~~al~~a~~g~~~I~~~M~~aI~~~ 544 (693)
T PRK11824 469 IKEGDKYAVLTDILGDEDHLGDMDFKVA-GTRDG-ITALQMDIKIDGITREILEEALEQAKEGRLHILGKMNEAISEP 544 (693)
T ss_pred EcCCCceEEEcCCChhhHhhCCceEEEE-ecCCc-eEEEEEecccCCcCHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 943 488999999999999999997 45445 99999775 57999999999999999999999999998643
No 13
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase. Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.
Probab=100.00 E-value=2.8e-37 Score=298.28 Aligned_cols=219 Identities=19% Similarity=0.241 Sum_probs=194.4
Q ss_pred CCCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEc-cccccc---ccCCCceeEEEEEEEeecCcccC
Q 024906 33 DVDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFG-PRESKK---AMMYSNIGRLNCNVSYTTFATPV 108 (260)
Q Consensus 33 ~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~g-p~~~~~---~~~~~~~g~l~v~v~~~p~~~~~ 108 (260)
..++.|+|||.++++|++++++|++++++|||+++.|+|+|+|.+.+ +..... .....+++.+.|+|+|+||++++
T Consensus 331 l~~g~R~DGR~~~eiR~i~~~~g~l~~a~GSa~~~~G~Tqvl~~~tlG~~~~~q~~~~l~~~~~~~~~~~YnfpPFSt~e 410 (719)
T TIGR02696 331 LTEGVRIDGRGVTDIRPLDAEVQVIPRVHGSALFERGETQILGVTTLNMLKMEQQIDSLSPETSKRYMHHYNFPPYSTGE 410 (719)
T ss_pred hcCCCCCCCCCccccccceeecCCCCCCCceEEEEecCcEEEEEEeCCCchhhhhcccccccccceEEEEEeCCCCcccC
Confidence 46889999999999999999999999999999999999999998764 221111 11235678899999999999987
Q ss_pred CC----CCccHHHHHHHHHHHHHhhhc-cCCCCCcEEEEEEEEEcCCCccHhHHHHHHHHHHHHcCCcccCeEEEEEEEE
Q 024906 109 RG----QGSDHKDFSSMLHKALEGAII-LETFPKTTVDVFALVLESGGSDLPVVISCASVALADAGIMMYDLVASVSVSC 183 (260)
Q Consensus 109 ~g----~~~~~~~l~~~L~~~l~~~i~-le~~pk~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip~~~~~~avt~~~ 183 (260)
++ ++.++.+++++++++|+++|+ ++.||++ |.+.++||++||+...|++||+++||+||||||+++++++++|+
T Consensus 411 r~~~~~~~RReighg~La~rALe~vI~~~e~fP~T-IrvvseVLeSdGSss~AsIcaasLALmDAGVPmkd~VAgis~Gl 489 (719)
T TIGR02696 411 TGRVGSPKRREIGHGALAERALVPVLPSREEFPYA-IRQVSEALGSNGSTSMGSVCASTLSLLNAGVPLKAPVAGIAMGL 489 (719)
T ss_pred CCCCCCCCccHHHHHHHHHHHHHHhhCcHhhCCCE-EEEEEEeeccCCcHHHHHHHHHHHHHHHcCcchhheeeEEEEEE
Confidence 65 466899999999999999997 7999988 88888999999999999999999999999999999999999999
Q ss_pred eCC----e----EEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEecC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024906 184 LGK----N----LLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTGE---WSTPHFNEAMQLCLDASAKLGKIMRSCLK 252 (260)
Q Consensus 184 ~~~----~----iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G~---~~~~~l~~~l~~A~~~~~~i~~~i~~~l~ 252 (260)
+++ . +++||+..|+...+..+.|+ .+.+.|++++++|. ++.+.|.+++++|.++|.++.+.++++|.
T Consensus 490 i~e~~~~~~~~~iL~Di~g~ED~~Gdmdfkva--gt~~gIt~lQmd~ki~gi~~e~l~~aL~~A~~g~~~Il~~m~~al~ 567 (719)
T TIGR02696 490 ISDEVDGETRYVALTDILGAEDAFGDMDFKVA--GTSEFVTALQLDTKLDGIPASVLASALKQARDARLAILDVMAEAID 567 (719)
T ss_pred eccccCCCcceeEEeCCCchhhhcCCceEEEE--ecCCCEEEEEEEeeECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 933 2 89999999999988888775 56799999999986 58999999999999999999999999998
Q ss_pred HH
Q 024906 253 EA 254 (260)
Q Consensus 253 ~~ 254 (260)
+.
T Consensus 568 ~p 569 (719)
T TIGR02696 568 TP 569 (719)
T ss_pred Cc
Confidence 76
No 14
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=100.00 E-value=1.9e-35 Score=290.77 Aligned_cols=218 Identities=21% Similarity=0.251 Sum_probs=192.6
Q ss_pred CCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEE-cccccccccC----CCceeEEEEEEEeecCcccC
Q 024906 34 VDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVF-GPRESKKAMM----YSNIGRLNCNVSYTTFATPV 108 (260)
Q Consensus 34 ~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~-gp~~~~~~~~----~~~~g~l~v~v~~~p~~~~~ 108 (260)
.++.|+|||.++|+|++.+++|.++.++|||++++|+|+|+|+|+ ||.+.....+ .+..+.+.++++|+||+.++
T Consensus 435 ~~g~R~DGR~~~eiRpI~~e~G~Lp~A~GSAlf~~G~TqVLatVtlGp~~~~q~~d~l~~~~~~~~f~~~y~fPPfs~ge 514 (891)
T PLN00207 435 EGGKRSDGRTPDEIRPINSSCGLLPRAHGSALFTRGETQALAVVTLGDKQMAQRIDNLVDADEVKRFYLQYSFPPSCVGE 514 (891)
T ss_pred cCCCCCCCCCcCccceEEEEeCCcCCCCceEEEEECCeEEEEEEEecCccccccccccccccceeeEEEEEEcCCCCCcc
Confidence 789999999999999999999999999999999999999999996 7764321111 24678899999999999865
Q ss_pred CC----CCccHHHHHHHHHHHHHhhhccC-CCCCcEEEEEEEEEcCCCccHhHHHHHHHHHHHHcCCcccCeEEEEEEEE
Q 024906 109 RG----QGSDHKDFSSMLHKALEGAIILE-TFPKTTVDVFALVLESGGSDLPVVISCASVALADAGIMMYDLVASVSVSC 183 (260)
Q Consensus 109 ~g----~~~~~~~l~~~L~~~l~~~i~le-~~pk~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip~~~~~~avt~~~ 183 (260)
++ ++.++..++++++++|+++|..+ .||. .|+|+++||++||+..+|++||+++||+|+||||++.++++++|+
T Consensus 515 ~~r~g~psrREi~hg~L~eRALrpvip~~~~fP~-tIrV~~~VLesDGSssmAaV~aaSLALmDAGIPmk~~VAGvsvGl 593 (891)
T PLN00207 515 VGRIGAPSRREIGHGMLAERALEPILPSEDDFPY-TIRVESTITESNGSSSMASVCGGCLALQDAGVPVKCPIAGIAMGM 593 (891)
T ss_pred ccCCCCCCHHHHHHHHHHHHHHHHhCCcccCCCE-EEEEEEEEEeCCCChHHHHHHHHHHHHHhcCCCccCceeEEEEEE
Confidence 43 56788899999999999999885 7895 899999999999999999999999999999999999999999999
Q ss_pred e-C-------Ce--EEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEec---CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024906 184 L-G-------KN--LLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTG---EWSTPHFNEAMQLCLDASAKLGKIMRSC 250 (260)
Q Consensus 184 ~-~-------~~--iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G---~~~~~~l~~~l~~A~~~~~~i~~~i~~~ 250 (260)
+ + +. +++||+..|+..++..+.|+ .+.+.|++++.++ .++.+.|.+++++|.+++.++.+.|+++
T Consensus 594 i~d~~~~~~~g~~~IL~Dp~g~Ed~~gdmDfkVA--gT~~gIt~iqmd~k~~gis~e~l~eAL~~A~~g~~~Il~~M~~~ 671 (891)
T PLN00207 594 VLDTEEFGGDGSPLILSDITGSEDASGDMDFKVA--GNEDGITAFQMDIKVGGITLPIMERALLQAKDGRKHILAEMSKC 671 (891)
T ss_pred EecccccCCCCcEEEEeCCCHHHHhcCCceEEEE--ecccceEEEEEecccCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9 2 23 56799999999999888887 4567899999876 4699999999999999999999999999
Q ss_pred HHHH
Q 024906 251 LKEA 254 (260)
Q Consensus 251 l~~~ 254 (260)
+.+.
T Consensus 672 i~~p 675 (891)
T PLN00207 672 SPPP 675 (891)
T ss_pred Hhhh
Confidence 8654
No 15
>KOG1612 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp42 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.5e-33 Score=237.07 Aligned_cols=227 Identities=23% Similarity=0.297 Sum_probs=195.9
Q ss_pred cccCCCCCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCC-eEEEEEEEcccccccccCCCceeEEEEEEEeecCcc
Q 024906 28 IFSGSDVDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGN-TKVIVSVFGPRESKKAMMYSNIGRLNCNVSYTTFAT 106 (260)
Q Consensus 28 ~~~~~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~-T~Vi~~V~gp~~~~~~~~~~~~g~l~v~v~~~p~~~ 106 (260)
+.-++..+.+|.|||+++++|+|.+++++++++||||+|++|+ |.|+++|+.++. .|..+.|++|.+.++|+++|.++
T Consensus 12 ~~i~g~e~~iR~DGR~~~~~Rpi~vetdVlp~tNGSaRVk~g~~tdiivgVKaEvg-~~~~~~p~egk~~~~VD~S~sas 90 (288)
T KOG1612|consen 12 YIITGSEPDIRNDGRSCHQFRPIEVETDVLPGTNGSARVKLGDGTDIIVGVKAEVG-SPDDETPVEGKYLFFVDCSPSAS 90 (288)
T ss_pred EEecccCcccccCCcCccccceEEEEeccccCCCCcEEEEecCCceEEEEEeeecc-CccccCCCCCeEEEEEEecCCcC
Confidence 3445788999999999999999999999999999999999999 999999999996 45778899999999999999888
Q ss_pred cC---CCCCccHHHHHHHHHHHHHh---hhccCCC---CCcE--EEEEEEEEcCCCccHhHHHHHHHHHHHHcCCc----
Q 024906 107 PV---RGQGSDHKDFSSMLHKALEG---AIILETF---PKTT--VDVFALVLESGGSDLPVVISCASVALADAGIM---- 171 (260)
Q Consensus 107 ~~---~g~~~~~~~l~~~L~~~l~~---~i~le~~---pk~~--i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip---- 171 (260)
+. ||.++...+|.+.|+++|++ .+++.++ |+.+ |.|++.|++.|||++||+..|+.+||.+..+|
T Consensus 91 p~f~gRggde~~~eltsaLq~~l~~~~sgv~ls~L~lt~~~~W~i~VDvlVi~s~gn~~dAiS~Ai~~AL~~T~lPkv~v 170 (288)
T KOG1612|consen 91 PQFQGRGGDELVEELTSALQRVLNSLGSGVDLSKLQLTPGYCWKIYVDVLVISSDGNLLDAISIAIYAALNNTRLPKVIV 170 (288)
T ss_pred ccccCCChhhHHHHHHHHHHHHHhCcCcccchhheeccCCeeEEEEEeEEEEecCCCHHHHHHHHHHHHHhcccCCcccc
Confidence 75 33455678999999999986 3777665 4544 55667899999999999999999999999887
Q ss_pred -----------------------ccCeEEEEEEEEeCCeEEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEec--CCCH
Q 024906 172 -----------------------MYDLVASVSVSCLGKNLLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTG--EWST 226 (260)
Q Consensus 172 -----------------------~~~~~~avt~~~~~~~iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G--~~~~ 226 (260)
....|+-++++.++..+++|||.+||+++...+.|++ ++.|-+.++...| .+.+
T Consensus 171 ~~dd~~~~~i~~s~~~Yd~~~~~~~~~P~ivtlskIG~~~lVD~T~eEe~~a~s~l~Isv-~a~givs~~r~VG~G~l~~ 249 (288)
T KOG1612|consen 171 AFDDDGEVEILLSDEEYDLMVKLVENVPLIVTLSKIGTNMLVDPTAEEESVANSGLLISV-SAGGIVSCTRSVGLGDLDP 249 (288)
T ss_pred ccccCCceeeccCcccchhhhhhcccCCEEEEEEeecceEEccCCccHHHhhhcceEEEE-ecCcceEEEEEecCCCCCh
Confidence 1346888999999999999999999999999999996 5667666677665 5899
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 024906 227 PHFNEAMQLCLDASAKLGKIMRSCLKEAAS 256 (260)
Q Consensus 227 ~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~ 256 (260)
+.+.++++++.+..+.+...+.+.|++...
T Consensus 250 s~i~~mle~~~~~~e~l~~~l~k~L~~~e~ 279 (288)
T KOG1612|consen 250 SSIPEMLEQGKAVVETLAPDLVKSLENEED 279 (288)
T ss_pred hhHHHHHHHHHHHHHhhhHHHHHHhhhhhh
Confidence 999999999999999999999888877654
No 16
>KOG1613 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp43 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.9e-35 Score=248.17 Aligned_cols=235 Identities=20% Similarity=0.236 Sum_probs=198.5
Q ss_pred ccceeccCCCCCCCCCCcccC-CCCCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEcccccccccCC
Q 024906 11 AKATYSPIDPTRKTRPPIFSG-SDVDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRESKKAMMY 89 (260)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~ 89 (260)
-+.+|.|..-+ ...|+.|.+ |.++++|+|||+..|+|.+.|..|.++++|||+.++.|+|.|+|+|+++.. .|+...
T Consensus 10 ~~~~f~p~~fk-rI~Pe~~l~rhLse~~RpdgR~lgefRdt~in~g~IsTangSal~K~G~ttvi~~Ik~ei~-epstda 87 (298)
T KOG1613|consen 10 HPITFPPEVFK-RISPELYLQRHLSEGIRPDGRKLGEFRDTAINAGNISTANGSALLKSGKTTVICGIKAEIA-EPSTDA 87 (298)
T ss_pred cccccCHHHHh-hcCHHHHHHHHhhcccCcchhhhhHHhhhheecCceeccCcHHHHhcCCcEEEEEeeeeec-ccccCC
Confidence 35688888888 777877766 889999999999999999999999999999999999999999999999985 467888
Q ss_pred CceeEEEEEEEeecCcccC--CC-CCccHHHHHHHHHHHHHh--hhccCCCC----CcEEEE--EEEEEcCCCccHhHHH
Q 024906 90 SNIGRLNCNVSYTTFATPV--RG-QGSDHKDFSSMLHKALEG--AIILETFP----KTTVDV--FALVLESGGSDLPVVI 158 (260)
Q Consensus 90 ~~~g~l~v~v~~~p~~~~~--~g-~~~~~~~l~~~L~~~l~~--~i~le~~p----k~~i~I--~v~VL~~dG~l~~a~i 158 (260)
|++|++..++.++|.+++. .| +++.++.+++.|.+.+.+ .|+++.|+ |+.|.+ ++.+|++||++||+|+
T Consensus 88 pdeg~Iv~n~~lpplcs~r~RpG~p~dea~viSq~LhdtIl~S~ii~~k~Lci~~gKaawvlYadIicLd~dG~~fDa~w 167 (298)
T KOG1613|consen 88 PDEGDIVPNYALPPLCSSRFRPGPPTDEAQVISQKLHDTILHSRIIPKKALCIKAGKAAWVLYADIICLDYDGPVFDACW 167 (298)
T ss_pred CCCcceeecccCCcccccCCCCCCCchHHHHHHHHHHHHHHhcCCcchhhheeeccceeeEEEEEEEEEcCCCcHHHHHH
Confidence 9999999999999999874 45 677889999999888775 68888885 666665 5789999999999999
Q ss_pred HHHHHHHHHcCCcc-------------------------------cCeEE-----EEEEE-EeCCeE-EeCCChhhhhcC
Q 024906 159 SCASVALADAGIMM-------------------------------YDLVA-----SVSVS-CLGKNL-LIDPVLEEESYQ 200 (260)
Q Consensus 159 ~Aa~~AL~~agip~-------------------------------~~~~~-----avt~~-~~~~~i-v~DPt~~Ee~~~ 200 (260)
+|.++||.+-.+|. +..++ ..|+. ++++.+ +.|||.+||...
T Consensus 168 ~al~aAlknvklP~a~ide~~~~~~~t~e~~ic~~tlt~p~~ln~e~r~~~~~n~~fS~~~vl~~~li~adpT~eEE~l~ 247 (298)
T KOG1613|consen 168 NALMAALKNVKLPRAFIDERASDLRMTIEEIICDQTLTVPLMLNAENRAFASQNSDFSEEEVLDDVLIAADPTEEEETLI 247 (298)
T ss_pred HHHHHHHhcCCCceeeecccchhhhhhHHHHHHhhhhcchhhhccccccccccCCCccHHHhhcceeEecCCCchhhhhh
Confidence 99999999998872 11111 22332 345554 499999999999
Q ss_pred CeeEEEEEcCCCCcEEEEEEecC---CCHHHHHHHHHHHHHHHHHHHHHHH
Q 024906 201 DGSLMIACMPSRYEVTQLTVTGE---WSTPHFNEAMQLCLDASAKLGKIMR 248 (260)
Q Consensus 201 ~~~~~va~~~~~~~i~~i~~~G~---~~~~~l~~~l~~A~~~~~~i~~~i~ 248 (260)
++.++|+ ++..|+++++++.|+ ..++.+++|+++|..+++++.+.+.
T Consensus 248 ~~~lTIv-ldss~n~v~l~k~GG~al~~~~~iK~c~elar~Rakelk~~~~ 297 (298)
T KOG1613|consen 248 TSTLTIV-LDSSGNYVQLTKVGGGALITPEMIKRCLELARVRAKELKTRFN 297 (298)
T ss_pred hceEEEE-EcCCCCEEEEEecCcccccCHHHHHHHHHHHHHHHHHHHHHhc
Confidence 9999997 678899999999873 5679999999999999999987653
No 17
>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=3.4e-31 Score=259.59 Aligned_cols=203 Identities=24% Similarity=0.320 Sum_probs=177.1
Q ss_pred cceEEEeCCC-CCCCeeEEEEeCCeEEEEEEEcccccccccCCCceeEEEEEEEeecCcccC--------CC-CCccHHH
Q 024906 48 RPAFFRTGAV-NSASGSAYAEFGNTKVIVSVFGPRESKKAMMYSNIGRLNCNVSYTTFATPV--------RG-QGSDHKD 117 (260)
Q Consensus 48 R~i~i~~g~l-~~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~~~~g~l~v~v~~~p~~~~~--------~g-~~~~~~~ 117 (260)
|++.+++|.+ ++|+|||++++|+|+|+|+|++|.+.++ ..+...++|+|...+++.+. .| +++++.+
T Consensus 5 R~i~ie~G~la~~AdGSa~v~~G~T~VlatV~~~~~~~~---~~df~pL~vey~e~~~A~gkipg~f~kReg~p~~~eil 81 (684)
T TIGR03591 5 RTLTLETGKIARQADGAVVVRYGDTVVLVTVVAAKEAKE---GQDFFPLTVNYQEKFYAAGKIPGGFFKREGRPSEKETL 81 (684)
T ss_pred ccEEEEECCcCCCCCeEEEEEECCeEEEEEEEcCCCCCC---CCceEeEEEEEEehhhhccCCCCCcccCCCCCCHHHHH
Confidence 7999999998 6899999999999999999999986433 23556788888766665541 24 6778999
Q ss_pred HHHHHHHHHHhhhccCCCCC---cEEEEEEEEEcCCCccH-h-HHHHHHHHHHHHcCCcccCeEEEEEEEEeCCeEEeCC
Q 024906 118 FSSMLHKALEGAIILETFPK---TTVDVFALVLESGGSDL-P-VVISCASVALADAGIMMYDLVASVSVSCLGKNLLIDP 192 (260)
Q Consensus 118 l~~~L~~~l~~~i~le~~pk---~~i~I~v~VL~~dG~l~-~-a~i~Aa~~AL~~agip~~~~~~avt~~~~~~~iv~DP 192 (260)
++++|++.|+++ ||+ +.++|+++||++||+.. + |++||+++||+++||||++.++++++|++++.+++||
T Consensus 82 ~srlIdR~lrpl-----fp~~~~~~i~V~~~VLs~Dg~~~~d~aai~aAsaAL~~s~IP~~~~v~av~vg~idg~~ildP 156 (684)
T TIGR03591 82 TSRLIDRPIRPL-----FPKGFRNEVQVVATVLSYDPENDPDILAIIGASAALAISGIPFNGPIAAVRVGYIDGQYVLNP 156 (684)
T ss_pred HHHHHhhHHHHh-----cCCCCCceEEEEEEEEecCcCCchHHHHHHHHHHHHHhcCCCcCCCeEEEEEEEECCEEEEcC
Confidence 999999999976 555 78999999999999975 4 9999999999999999999999999999999999999
Q ss_pred ChhhhhcCCeeEEEEEcCCCCcEEEEEEec-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q 024906 193 VLEEESYQDGSLMIACMPSRYEVTQLTVTG-EWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAASDEQE 260 (260)
Q Consensus 193 t~~Ee~~~~~~~~va~~~~~~~i~~i~~~G-~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~~~~ 260 (260)
|.+|++.++..++|+ .+.+.+++++..| .++.+++.++++.|.++++++.++++++++++.+.|++
T Consensus 157 t~~E~~~s~~~l~va--~t~~~i~mie~~~~~i~e~~l~~al~~a~~~~~~i~~~~~~~~~~~~~~k~~ 223 (684)
T TIGR03591 157 TVDELEKSDLDLVVA--GTKDAVLMVESEAKELSEEVMLGAIEFGHEEIQPVIEAIEELAEEAGKEKWE 223 (684)
T ss_pred CHHHHhhCCceEEEE--ccCCcEEEEEcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCcc
Confidence 999999999998886 4456788888876 59999999999999999999999999999999877653
No 18
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=99.97 E-value=5e-30 Score=251.82 Aligned_cols=201 Identities=23% Similarity=0.281 Sum_probs=173.3
Q ss_pred cceEEEeCCCC-CCCeeEEEEeCCeEEEEEEEcccccccccCCCceeEEEEEEEeecCcccC--------CC-CCccHHH
Q 024906 48 RPAFFRTGAVN-SASGSAYAEFGNTKVIVSVFGPRESKKAMMYSNIGRLNCNVSYTTFATPV--------RG-QGSDHKD 117 (260)
Q Consensus 48 R~i~i~~g~l~-~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~~~~g~l~v~v~~~p~~~~~--------~g-~~~~~~~ 117 (260)
|++.+++|.+. +|+|||++++|+|+|+|+|++|.++++ ..+...++|+|...+|+.+. .| +++++..
T Consensus 14 r~i~~e~G~ia~qAdGSa~v~~G~T~VlatV~~~~~~~~---~~df~pL~v~y~e~~~A~gkiP~~f~kreg~pse~eil 90 (693)
T PRK11824 14 RTLTLETGKLARQANGAVLVRYGDTVVLVTVVASKEPKE---GQDFFPLTVDYEEKTYAAGKIPGGFFKREGRPSEKETL 90 (693)
T ss_pred ccEEEEECCcCCCCCeEEEEEECCeEEEEEEEcCCCCCC---CCCeeeeEEEEEehhhhccCCCcccccCCCCCChHHHH
Confidence 78999999994 799999999999999999999987322 23556677887766776541 24 6778999
Q ss_pred HHHHHHHHHHhhhccCCCCCcEEEEEEEEEcCCCcc-Hh-HHHHHHHHHHHHcCCcccCeEEEEEEEEeCCeEEeCCChh
Q 024906 118 FSSMLHKALEGAIILETFPKTTVDVFALVLESGGSD-LP-VVISCASVALADAGIMMYDLVASVSVSCLGKNLLIDPVLE 195 (260)
Q Consensus 118 l~~~L~~~l~~~i~le~~pk~~i~I~v~VL~~dG~l-~~-a~i~Aa~~AL~~agip~~~~~~avt~~~~~~~iv~DPt~~ 195 (260)
++++|++.|++++.. ..++.++|+++||++||+. .| +++||+++||.++||||++.+++|++|++++.+++|||.+
T Consensus 91 ~srlIdR~lrplfp~--~~~~~i~I~~~VL~~Dg~~~~d~aai~aAsaAL~~s~IP~~~~v~av~vg~i~g~~ivdPt~~ 168 (693)
T PRK11824 91 TSRLIDRPIRPLFPK--GFRNEVQVVATVLSVDPENDPDILAMIGASAALSISGIPFNGPIAAVRVGYIDGEFVLNPTVE 168 (693)
T ss_pred HHHHHhhhHHHhCCC--CCCeEEEEEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCcCCCeEEEEEEEECCEEEEcCCHH
Confidence 999999999986432 1357899999999999976 55 8999999999999999999999999999999999999999
Q ss_pred hhhcCCeeEEEEEcCCCCcEEEEEEec-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 024906 196 EESYQDGSLMIACMPSRYEVTQLTVTG-EWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAA 255 (260)
Q Consensus 196 Ee~~~~~~~~va~~~~~~~i~~i~~~G-~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~ 255 (260)
|++.++..++|+. + .+.+++++..| .++.+++.++++.|.++++++.+++++.++++.
T Consensus 169 E~~~s~~~l~va~-t-~~~i~mie~~~~~l~e~~l~~al~~a~~~~~~i~~~~~~~~~~~~ 227 (693)
T PRK11824 169 ELEESDLDLVVAG-T-KDAVLMVESEAKELSEEVMLEAIEFGHEAIQELIDAQEELAAEAG 227 (693)
T ss_pred HHhhCcceEEEEE-c-cCceEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 9999999998873 3 45788888776 599999999999999999999999999999888
No 19
>PF01138 RNase_PH: 3' exoribonuclease family, domain 1 This Prosite family only includes Ribonuclease PH; InterPro: IPR001247 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function. An active PH domain uses inorganic phosphate as a nucleophile, adding it across the phosphodiester bond between the end two nucleotides in order to release ribonucleoside 5'-diphosphate (rNDP) from the 3' end of the RNA substrate. PH domains can be found in bacterial/organelle RNases and PNPases (polynucleotide phosphorylases) [], as well as in archaeal and eukaryotic RNA exosomes [, ], the later acting as nano-compartments for the degradation or processing of RNA (including mRNA, rRNA, snRNA and snoRNA). Bacterial/organelle PNPases share a common barrel structure with RNA exosomes, consisting of a hexameric ring of PH domains that act as a degradation chamber, and an S1-domain/KH-domain containing cap that binds the RNA substrate (and sometimes accessory proteins) in order to regulate and restrict entry into the degradation chamber []. Unstructured RNA substrates feed in through the pore made by the S1 domains, are degraded by the PH domain ring, and exit as nucleotides via the PH pore at the opposite end of the barrel [, ]. This entry represents the phosphorolytic (PH) domain 1, which has a core 2-layer alpha/beta structure with a left-handed crossover, similar to that found in ribosomal protein S5. This domain is found in bacterial/organelle PNPases and in archaeal/eukaryotic exosomes []. More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; PDB: 2C38_G 2BR2_O 2C37_M 3L7Z_A 2JEB_A 2C39_A 2JEA_A 2JE6_A 3U1K_A 4AM3_B ....
Probab=99.96 E-value=8.7e-29 Score=196.14 Aligned_cols=126 Identities=39% Similarity=0.584 Sum_probs=115.1
Q ss_pred CCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEcccccccccCCC-ceeEEEEEEEeecCcccCC---C-CCccHHHHHH
Q 024906 46 QCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRESKKAMMYS-NIGRLNCNVSYTTFATPVR---G-QGSDHKDFSS 120 (260)
Q Consensus 46 e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~~-~~g~l~v~v~~~p~~~~~~---g-~~~~~~~l~~ 120 (260)
|+|++.+++|++++++|||+|++|+|+|+|+|++|.+.+++.+.+ .+|+++|+|+++|++.+.. | ++..+.++++
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 789999999999999999999999999999999999875555533 3699999999999997654 3 5568899999
Q ss_pred HHHHHHHhhhccCCCCCcEEEEEEEEEcCCC-ccHhHHHHHHHHHHHHcCCc
Q 024906 121 MLHKALEGAIILETFPKTTVDVFALVLESGG-SDLPVVISCASVALADAGIM 171 (260)
Q Consensus 121 ~L~~~l~~~i~le~~pk~~i~I~v~VL~~dG-~l~~a~i~Aa~~AL~~agip 171 (260)
+|+++|+++++++.+|+|.|+|+++||++|| |++|+++||+++||+|+|||
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 20
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=99.95 E-value=1.4e-26 Score=228.30 Aligned_cols=205 Identities=19% Similarity=0.211 Sum_probs=178.4
Q ss_pred cceEEEeCCC-CCCCeeEEEEeCCeEEEEEEEcccccccccCCCceeEEEEEEEeecCcccC-------C-C-CCccHHH
Q 024906 48 RPAFFRTGAV-NSASGSAYAEFGNTKVIVSVFGPRESKKAMMYSNIGRLNCNVSYTTFATPV-------R-G-QGSDHKD 117 (260)
Q Consensus 48 R~i~i~~g~l-~~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~~~~g~l~v~v~~~p~~~~~-------~-g-~~~~~~~ 117 (260)
|.+.+++|-+ .+|+||+.+++|+|.|+|+|....+.+. ..+--.|+|+|+-.-++.+. | | +++.+..
T Consensus 89 ~~~~~etG~~a~qA~gav~v~~g~t~vl~t~~~~~~~~~---~~dF~PLtV~y~Ek~~AaGkipggf~kREgrp~d~eiL 165 (891)
T PLN00207 89 RHILVETGHIGRQASGSVTVTDGETIVYTSVCLADVPSE---PSDFFPLSVHYQERFSAAGRTSGGFFKREGRTKDHEVL 165 (891)
T ss_pred EEEEEEhhHHHHhCCCcEEEEECCeEEEEEEEeccCCCC---CCCccceeEeeeeehhhcCccCCceeccCCCCChHHHH
Confidence 4799999988 5999999999999999999987544222 23456788888765555542 1 3 6778889
Q ss_pred HHHHHHHHHHhhhccCCCCCcEEEEEEEEEcCCCc--cHhHHHHHHHHHHHHcCCcccCeEEEEEEEEeCCeEEeCCChh
Q 024906 118 FSSMLHKALEGAIILETFPKTTVDVFALVLESGGS--DLPVVISCASVALADAGIMMYDLVASVSVSCLGKNLLIDPVLE 195 (260)
Q Consensus 118 l~~~L~~~l~~~i~le~~pk~~i~I~v~VL~~dG~--l~~a~i~Aa~~AL~~agip~~~~~~avt~~~~~~~iv~DPt~~ 195 (260)
++++|++.|+++|..+.||+++|.+ +||++||+ ...+++|||++||.++||||++.++||++|++++.+|+|||..
T Consensus 166 ~sRlIdR~lRPlfp~~~~~etQI~i--~VLsaDg~~~pd~~AInAASaAL~~SgIP~~gpVaAVrVG~idg~~VlnPt~~ 243 (891)
T PLN00207 166 ICRLIDRPLRPTMPKGFYHETQILS--WVLSYDGLHSPDSLAVTAAGIAVALSEVPNLKAIAGVRVGLIGGKFIVNPTTK 243 (891)
T ss_pred HHHHHCccchhhccccCCCCcEEEE--EEEeeCCCCChhhHHHHHHHHHHHhhCCCccCceEEEEEEEECCEEEECCCHH
Confidence 9999999999999999999988866 99999998 7799999999999999999999999999999999999999999
Q ss_pred hhhcCCeeEEEEEcCCCCcEEEEEEecC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 024906 196 EESYQDGSLMIACMPSRYEVTQLTVTGE-WSTPHFNEAMQLCLDASAKLGKIMRSCLKEAASDEQ 259 (260)
Q Consensus 196 Ee~~~~~~~~va~~~~~~~i~~i~~~G~-~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~~~ 259 (260)
|++.++..+.|+ ...+.|++++..|. ++.+++.+++++|.++++++++++++.++++.+.|+
T Consensus 244 E~~~s~ldLvva--gt~~~IvMIE~~a~e~see~l~~Al~~a~~aik~i~~~~~el~~~~gk~k~ 306 (891)
T PLN00207 244 EMEESELDLIMA--GTDSAILMIEGYCNFLPEEKLLEAVEVGQDAVRAICKEIEVLVKKCGKPKM 306 (891)
T ss_pred HHhcCCeeEEEE--EcCCeEEEEEcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCc
Confidence 999998888776 34567999999884 699999999999999999999999999999987765
No 21
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Probab=99.90 E-value=1e-22 Score=188.58 Aligned_cols=212 Identities=25% Similarity=0.269 Sum_probs=182.5
Q ss_pred CCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEcccccc----cccCCCcee-EEEEEEEeecCcccC
Q 024906 34 VDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRESK----KAMMYSNIG-RLNCNVSYTTFATPV 108 (260)
Q Consensus 34 ~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~~----~~~~~~~~g-~l~v~v~~~p~~~~~ 108 (260)
..+.|.|||..+|+|+|.++.+.++..+||+.|+.|.|+|+|+|+...... .+...++.| .+..+|+|+|+++++
T Consensus 355 ~~gkR~DGR~ldelR~I~ce~~m~~~lHGSaLFqRGqTQvlctVtl~s~e~a~klD~l~~~~~~~~FmLhY~FPPyat~E 434 (760)
T KOG1067|consen 355 EEGKRCDGRDLDELRNISCEVDMLKTLHGSALFQRGQTQVLCTVTLDSLESAQKLDSLIGPDNGINFMLHYEFPPYATNE 434 (760)
T ss_pred hcccccCCcchhhhcccceecCccccccchhhhhcCceeEEEEEEcCCHHHhhhhhhhccCccCceEEEEeccCCccccc
Confidence 578999999999999999999999999999999999999999998754321 123455555 899999999999987
Q ss_pred CC----CCccHHHHHHHHHHHHHhhhccCCCCCcEEEEEEEEEcCCCccHhHHHHHHHHHHHHcCCcccCeEEEEEEEEe
Q 024906 109 RG----QGSDHKDFSSMLHKALEGAIILETFPKTTVDVFALVLESGGSDLPVVISCASVALADAGIMMYDLVASVSVSCL 184 (260)
Q Consensus 109 ~g----~~~~~~~l~~~L~~~l~~~i~le~~pk~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip~~~~~~avt~~~~ 184 (260)
-| .+.++.-...+-+++|.+++. +.|| ..|+|.-.||++||+--.|++++-++||+|+|||++.-+++|.+|+.
T Consensus 435 vgkig~~nRRE~GhgaLAEkaL~~vlP-~dfP-ftIRv~SeVleSnGSsSMASvCGGslALmDaGvPv~a~vAGvaiGlv 512 (760)
T KOG1067|consen 435 VGKIGGLNRRELGHGALAEKALLPVLP-EDFP-FTIRVTSEVLESNGSSSMASVCGGSLALMDAGVPVSAHVAGVAIGLV 512 (760)
T ss_pred cccccCCcccccCchhHhhhhhhccCc-ccCc-eEEEEeeeeeecCCcchHHhhhcchhhhhhcCCccccccceeEEEeE
Confidence 54 566777778888999988776 8888 47899999999999999999999999999999999999999999997
Q ss_pred -----------CCeEEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024906 185 -----------GKNLLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVTGEWSTPHFNEAMQLCLDASAKLGKIMRSCLKE 253 (260)
Q Consensus 185 -----------~~~iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~G~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~ 253 (260)
+-.++.|-...|....+..+.|+ .+.+.|.++ .++.+-..++++.|..+-.+|.+.+.+++..
T Consensus 513 t~td~e~g~i~dyriltDIlGiEd~~GDMDFKiA--Gt~dGvTA~----gi~l~Iv~eal~~a~~ar~~Il~~m~k~i~~ 586 (760)
T KOG1067|consen 513 TKTDPEKGEIEDYRILTDILGIEDYNGDMDFKIA--GTNDGVTAL----GIPLKIVMEALQKAREARLQILDIMEKNINS 586 (760)
T ss_pred eccCcccCCcccceeehhhcchhhhcCCcceeec--cccCcceec----CCcHHHHHHHHHhhhHHHHHHHHHHHhhcCC
Confidence 23688999999999999899887 444556666 6788999999999999999999999987643
No 22
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=99.84 E-value=4.7e-20 Score=175.63 Aligned_cols=219 Identities=22% Similarity=0.271 Sum_probs=187.7
Q ss_pred CCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCeEEEEEEEccccc--c--cccCCCceeEEEEEEEeecCcccCC
Q 024906 34 VDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNTKVIVSVFGPRES--K--KAMMYSNIGRLNCNVSYTTFATPVR 109 (260)
Q Consensus 34 ~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vi~~V~gp~~~--~--~~~~~~~~g~l~v~v~~~p~~~~~~ 109 (260)
..++|+|||..++.|++.++.|+++.++||+.+..|.|+.++.++.-... . ...+.+..-.+-.+|+|+||+..+.
T Consensus 309 ~~~vR~DGR~~~~VRpi~~ev~~lpr~HGS~LFtRGeTQal~v~TLG~~~d~Qvid~l~~e~~krfm~hYNFPp~SvGE~ 388 (692)
T COG1185 309 EGKVRIDGRFGDEVRPIGIEVGVLPRTHGSALFTRGETQALVVVTLGTPRDAQVIDILEGEYKKRFLLHYNFPPFSVGET 388 (692)
T ss_pred cCCcccCCCCcceeeeeeEEecCCCCccchhhhccCCCcceEEEEcCCcchhhhhhhccchhhhheeeeccCCCCCcccc
Confidence 47899999999999999999999999999999999999999888664321 1 1122334556888999999998764
Q ss_pred C----CCccHHHHHHHHHHHHHhhhc-cCCCCCcEEEEEEEEEcCCCccHhHHHHHHHHHHHHcCCcccCeEEEEEEEEe
Q 024906 110 G----QGSDHKDFSSMLHKALEGAII-LETFPKTTVDVFALVLESGGSDLPVVISCASVALADAGIMMYDLVASVSVSCL 184 (260)
Q Consensus 110 g----~~~~~~~l~~~L~~~l~~~i~-le~~pk~~i~I~v~VL~~dG~l~~a~i~Aa~~AL~~agip~~~~~~avt~~~~ 184 (260)
| ++.++.-..++-++++..++. .+.||. .|++.-.|++++|+--.|.+++.++||+|+|+|++..++++..|++
T Consensus 389 g~~g~p~RREiGHG~LA~Ral~~vlp~~e~fpy-tiRvVsEi~eSNGSsSmaSVCg~sLaLmdAGVPIk~pVAGIAMGLI 467 (692)
T COG1185 389 GRMGSPGRREIGHGALAERALAPVLPSEEEFPY-TIRVVSEILESNGSSSMASVCGGSLALMDAGVPIKAPVAGIAMGLI 467 (692)
T ss_pred CCCCCCCcccccCchhhHHHHhhhCCchhcCCc-eeeeeehhhcccCcccchhhhhhHHHHHhCCCcccccccchhccce
Confidence 4 667888889999999999887 678884 6888889999999999999999999999999999999999999998
Q ss_pred CC----eEEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEe---cCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 024906 185 GK----NLLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVT---GEWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAA 255 (260)
Q Consensus 185 ~~----~iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~---G~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~ 255 (260)
.+ .++-|-...|....+..+-|+ .+..-|.+++++ ..++.+.+.+++.+|..+..++...+.+++.+.-
T Consensus 468 ~eg~~~~vLsDI~G~EDhlGDMDFKVA--GT~~GiTAlQMDiKi~Git~eim~~AL~QAk~aRlhIL~~M~~ai~~pr 543 (692)
T COG1185 468 KEGDKYAVLSDILGDEDHLGDMDFKVA--GTDDGITALQMDIKIKGITKEIMKKALEQAKGARLHILIVMNEAISEPR 543 (692)
T ss_pred ecCCceEeeccccccccccCCceeEEe--cCCCcceeeeeeeeecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 32 578899999988999889887 566778888877 4789999999999999999999999999997653
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=99.81 E-value=4e-18 Score=165.66 Aligned_cols=206 Identities=17% Similarity=0.152 Sum_probs=168.8
Q ss_pred cceEEEeCCC-CCCCeeEEEEe-CCeEEEEEEEcccccccccCCCceeEEEEEEEeecCcccC-------C-C-CCccHH
Q 024906 48 RPAFFRTGAV-NSASGSAYAEF-GNTKVIVSVFGPRESKKAMMYSNIGRLNCNVSYTTFATPV-------R-G-QGSDHK 116 (260)
Q Consensus 48 R~i~i~~g~l-~~a~GSa~v~~-G~T~Vi~~V~gp~~~~~~~~~~~~g~l~v~v~~~p~~~~~-------~-g-~~~~~~ 116 (260)
|.+.+++|-+ .+|+||+.+++ |+|.|+|++....+.+. ..+--.|+|+|+-..++.+. | | +++.+.
T Consensus 17 ~~~~~etG~~A~qA~Gav~v~~~G~t~vl~t~~~~~~~~~---~~dF~PLtV~y~Ek~yA~GkiPggf~kREgrps~~ei 93 (719)
T TIGR02696 17 RTIRFETGRLARQAAGSVVAYLDDETMLLSATTASKQPKD---QFDFFPLTVDVEERMYAAGRIPGSFFRREGRPSTDAI 93 (719)
T ss_pred EEEEEEcchhHhhCCceEEEEecCCeEEEEEEEecCCCCC---CCCCcceeEeeeehhhhcCccCCceeccCCCCChhhh
Confidence 4799999988 59999999999 99999999986543222 23456788888866566542 1 3 677888
Q ss_pred HHHHHHHHHHHhhhccCCCCCcEEEEEEEEEcCCC--ccHhHHHHHHHHHHHHcCCcccCeEEEEEEEEeCCeEEeCCCh
Q 024906 117 DFSSMLHKALEGAIILETFPKTTVDVFALVLESGG--SDLPVVISCASVALADAGIMMYDLVASVSVSCLGKNLLIDPVL 194 (260)
Q Consensus 117 ~l~~~L~~~l~~~i~le~~pk~~i~I~v~VL~~dG--~l~~a~i~Aa~~AL~~agip~~~~~~avt~~~~~~~iv~DPt~ 194 (260)
..+++++|.|++.+...-+. -++|.++||+.|+ ..--.++|||++||.-++||..+.+.+|.+|.++|+++++||.
T Consensus 94 L~sRliDR~iRPLFp~~~~~--e~qi~~~vls~D~~~~pdvla~~~ASaAl~iSdiPf~gPv~~vrVg~i~g~~viNPt~ 171 (719)
T TIGR02696 94 LTCRLIDRPLRPSFVKGLRN--EVQVVVTVLSLNPDHLYDVVAINAASASTQLAGLPFSGPIGGVRVALIDGQWVAFPTH 171 (719)
T ss_pred HHHHhhCCCCccCCCCCCCc--ceEEEEEEEEcCCCCChHHHHHHHHHHHHHhcCCCCCCceEEEEEEEECCEEEECcCH
Confidence 89999999999876544332 4667778888887 4667899999999999999999999999999999999999999
Q ss_pred hhhhcCCeeEEEEEcCC----CCcEEEEEE------------ec-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 024906 195 EEESYQDGSLMIACMPS----RYEVTQLTV------------TG-EWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAASD 257 (260)
Q Consensus 195 ~Ee~~~~~~~~va~~~~----~~~i~~i~~------------~G-~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~ 257 (260)
+|.+.++-.++|+ .+. .+.|++++. .+ .++.+++.+++..|.+.++.+.+.+++..++..+.
T Consensus 172 ~~~~~s~ldLvva-gt~~~~~~~~i~MiE~~a~~~~~~~~~~~a~e~~e~~~~~Ai~~a~~~i~~~~~~~~~l~~~~gk~ 250 (719)
T TIGR02696 172 EQLEGAVFDMVVA-GRVLENGDVAIMMVEAEATEKTWDLVKGGAEAPTEEVVAEGLEAAKPFIKVLCRAQADLAEKAAKP 250 (719)
T ss_pred HHHhhCeeeEEEE-eeecCCCCccEEEEecCCccccccccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 9999888888887 333 348999997 33 58999999999999999999999999988877766
Q ss_pred hc
Q 024906 258 EQ 259 (260)
Q Consensus 258 ~~ 259 (260)
|.
T Consensus 251 k~ 252 (719)
T TIGR02696 251 TG 252 (719)
T ss_pred cc
Confidence 54
No 24
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=99.69 E-value=3.2e-15 Score=142.89 Aligned_cols=200 Identities=20% Similarity=0.250 Sum_probs=169.0
Q ss_pred cceEEEeCCC-CCCCeeEEEEeCCeEEEEEEEcccccccccCCCceeEEEEEEEeecCcccC-------C-C-CCccHHH
Q 024906 48 RPAFFRTGAV-NSASGSAYAEFGNTKVIVSVFGPRESKKAMMYSNIGRLNCNVSYTTFATPV-------R-G-QGSDHKD 117 (260)
Q Consensus 48 R~i~i~~g~l-~~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~~~~g~l~v~v~~~p~~~~~-------~-g-~~~~~~~ 117 (260)
|.+.+++|.+ .+|+|++.+++|+|.|++++.+.. .+ +..|--.|+|+|.-.-++.+. | | |++.+..
T Consensus 14 ~~l~~etg~~A~qa~gav~~~~gdt~vl~t~~~~~-~~---~~~dF~PLtV~y~Ek~yaaGkiPGgf~kREGrpse~e~L 89 (692)
T COG1185 14 RTLTLETGKIARQANGAVLVRYGDTVVLATVVASK-PK---EGQDFFPLTVNYEEKTYAAGKIPGGFFKREGRPSEKEIL 89 (692)
T ss_pred eeEEEEcchhhhhcCccEEEEECCeEEEEEEeecC-CC---CCCCccceeEeeeeehhccCcCCCcccccCCCCCccchh
Confidence 6899999988 599999999999999999999875 22 235667789999876666653 1 3 6778889
Q ss_pred HHHHHHHHHHhhhccCCCCCcEEEEEEEEEcCCCc--cHhHHHHHHHHHHHHcCCcccCeEEEEEEEEeCCeEEeCCChh
Q 024906 118 FSSMLHKALEGAIILETFPKTTVDVFALVLESGGS--DLPVVISCASVALADAGIMMYDLVASVSVSCLGKNLLIDPVLE 195 (260)
Q Consensus 118 l~~~L~~~l~~~i~le~~pk~~i~I~v~VL~~dG~--l~~a~i~Aa~~AL~~agip~~~~~~avt~~~~~~~iv~DPt~~ 195 (260)
.+++|++-+++.+.... +.-++|..+|++.|+. ..-.+++++++||.-++||....+.++.+|++++.++++||.+
T Consensus 90 ~sRLIDRpiRPlFp~g~--~~evqIv~tvls~D~~~~pdi~a~~gaSaAl~is~iPf~gpi~~vrvg~idg~~vlNPt~~ 167 (692)
T COG1185 90 TSRLIDRPIRPLFPKGF--RNEVQIVNTVLSVDPENDPDILAMVGASAALSLSGIPFLGPIGAVRVGYIDGIFVLNPTLE 167 (692)
T ss_pred hhhhcccccccccchhh--ccceEEEEEEEEECCCCCHHHHHHHHHHHHHhccCCCccCccceEEEEEECCEEEECCChH
Confidence 99999998887654322 2357888899999984 5678899999999999999999999999999999999999999
Q ss_pred hhhcCCeeEEEEEcCCCCcEEEEEEec-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 024906 196 EESYQDGSLMIACMPSRYEVTQLTVTG-EWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAA 255 (260)
Q Consensus 196 Ee~~~~~~~~va~~~~~~~i~~i~~~G-~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~ 255 (260)
|.+.+.-.++|+ .+...|.+++... .++.+++.+++..+.+..+.+.+++++......
T Consensus 168 e~~~s~lDlvVA--GT~~aV~MVE~~a~~l~E~~ml~Av~fg~~~~~~~~~~qe~l~~~~g 226 (692)
T COG1185 168 ELEESKLDLVVA--GTKDAVNMVESEADELDEEVMLEAVEFGHEAIQSVINAQEELALEVG 226 (692)
T ss_pred HhhhcceeeEec--CChhhhheeecccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 999888788776 5666799999876 688999999999999999999999999888776
No 25
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Probab=99.68 E-value=3e-16 Score=145.99 Aligned_cols=207 Identities=17% Similarity=0.221 Sum_probs=168.5
Q ss_pred CCcceEEEeCCCC-CCCeeEEEEeCCeEEEEEEEcccccccccCCCceeEEEEEEEeecCcccC-------C-C-CCccH
Q 024906 46 QCRPAFFRTGAVN-SASGSAYAEFGNTKVIVSVFGPRESKKAMMYSNIGRLNCNVSYTTFATPV-------R-G-QGSDH 115 (260)
Q Consensus 46 e~R~i~i~~g~l~-~a~GSa~v~~G~T~Vi~~V~gp~~~~~~~~~~~~g~l~v~v~~~p~~~~~-------~-g-~~~~~ 115 (260)
-.|.+.+++|.+. .|+||+.+..|+|.|+++|.....+.| ++.-.+.|+|...-.+.+. | | +.+++
T Consensus 54 GnR~i~~etGklaRfAngsvvv~~GeT~Vm~Tv~~a~~PSp----~qFlPL~VdYqeK~aAvGRip~~fmRREg~tkdkE 129 (760)
T KOG1067|consen 54 GNREILFETGKLARFANGSVVVQMGETAVMTTVVLADKPSP----PQFLPLVVDYQEKFAAVGRIPGNFMRREGRTKDKE 129 (760)
T ss_pred CCeEEEEecchhhhhcCCcEEEccCCeEEEEEEEecCCCCc----cccceEEEehhhhhhhhccCCCcccccccCCcchh
Confidence 4589999999985 899999999999999999977653222 3344577777643333221 1 2 45567
Q ss_pred HHHHHHHHHHHHhhhccCCCCCcEEEEEEEEEcCCC--ccHhHHHHHHHHHHHHcCCcccCeEEEEEEEEeCCeEEeCCC
Q 024906 116 KDFSSMLHKALEGAIILETFPKTTVDVFALVLESGG--SDLPVVISCASVALADAGIMMYDLVASVSVSCLGKNLLIDPV 193 (260)
Q Consensus 116 ~~l~~~L~~~l~~~i~le~~pk~~i~I~v~VL~~dG--~l~~a~i~Aa~~AL~~agip~~~~~~avt~~~~~~~iv~DPt 193 (260)
....+++++.+++.+....|...+| -+.+|..|| ..-.-++|++++||..+.||+..-+.++.+|+++|+++++||
T Consensus 130 iL~~rLidrsirplfp~g~~~etqi--~~n~Ls~dG~~~pdvlainaas~Al~lsdvpw~gpig~vRigLi~Ge~vVNPT 207 (760)
T KOG1067|consen 130 ILTGRLIDRPIRPLFPKGFYHETQI--LCNVLSSDGVHDPDVLAINAASAALSLSDVPWNGPIGAVRIGLIDGEFVVNPT 207 (760)
T ss_pred heeeeccccccccCCcccchhHHHH--HhhheecccccCchHHHHhHHHHHhhhccCCCCCceeeeEeeeecceEEeCcc
Confidence 7778889988887766655555444 456788888 455678999999999999999999999999999999999999
Q ss_pred hhhhhcCCeeEEEEEcCCCCcEEEEEEec-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q 024906 194 LEEESYQDGSLMIACMPSRYEVTQLTVTG-EWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAASDEQE 260 (260)
Q Consensus 194 ~~Ee~~~~~~~~va~~~~~~~i~~i~~~G-~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~~~~ 260 (260)
..|.+.++-.+.++ ..+.++++++..+ .+.+++|.+++.++.+.++++..-|....+++.++|||
T Consensus 208 ~kEmssS~Lnlvva--gt~~~~vmle~~s~~i~qqdl~~Aikvg~~~~q~~i~~i~~L~k~~Gk~Kr~ 273 (760)
T KOG1067|consen 208 RKEMSSSQLNLVVA--GTKSQTVMLEGSSNNILQQDLLHAIKVGVKEAQQIIQGIERLAKKYGKQKRE 273 (760)
T ss_pred hhhhhhccceeEEE--eccceEEEEEcccccccHHHHHHHHHhccHHHHHHHHHHHHHHHHhCccccc
Confidence 99999988777776 3478999999887 68999999999999999999999999999999999876
No 26
>PF03725 RNase_PH_C: 3' exoribonuclease family, domain 2 This Prosite family only includes Ribonuclease PH; InterPro: IPR015847 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function. An active PH domain uses inorganic phosphate as a nucleophile, adding it across the phosphodiester bond between the end two nucleotides in order to release ribonucleoside 5'-diphosphate (rNDP) from the 3' end of the RNA substrate. PH domains can be found in bacterial/organelle RNases and PNPases (polynucleotide phosphorylases) [], as well as in archaeal and eukaryotic RNA exosomes [, ], the later acting as nano-compartments for the degradation or processing of RNA (including mRNA, rRNA, snRNA and snoRNA). Bacterial/organelle PNPases share a common barrel structure with RNA exosomes, consisting of a hexameric ring of PH domains that act as a degradation chamber, and an S1-domain/KH-domain containing cap that binds the RNA substrate (and sometimes accessory proteins) in order to regulate and restrict entry into the degradation chamber []. Unstructured RNA substrates feed in through the pore made by the S1 domains, are degraded by the PH domain ring, and exit as nucleotides via the PH pore at the opposite end of the barrel [, ]. This entry represents the phosphorolytic (PH) domain 2, which has a core 3-layer alpha/beta/alpha structure. This domain is found in bacterial/organelle PNPases and in archaeal/eukaryotic exosomes []. More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding, 0006396 RNA processing; PDB: 1E3H_A 1E3P_A 2NN6_E 2WNR_A 3U1K_B 2BA0_H 2BA1_H 3M85_G 3M7N_H 3H1C_K ....
Probab=99.30 E-value=2.3e-11 Score=85.26 Aligned_cols=65 Identities=32% Similarity=0.441 Sum_probs=54.0
Q ss_pred CeEEEEEEEEeCCeEEeCCChhhhhcCCeeEEEEEcCCCCcEEEEEEe-cC--CCHHHHHHHHHHHHHH
Q 024906 174 DLVASVSVSCLGKNLLIDPVLEEESYQDGSLMIACMPSRYEVTQLTVT-GE--WSTPHFNEAMQLCLDA 239 (260)
Q Consensus 174 ~~~~avt~~~~~~~iv~DPt~~Ee~~~~~~~~va~~~~~~~i~~i~~~-G~--~~~~~l~~~l~~A~~~ 239 (260)
|+|+++|++++++.+++|||.+||..+++.+++++.+ .++++.+.+. |. ++++++.+++++|.++
T Consensus 1 ~~~~avt~~~i~~~~v~Dpt~~Ee~~~~~~l~~~~~~-~~~~~~~~~~~g~~~~~~~~l~~~i~~A~~~ 68 (68)
T PF03725_consen 1 DPPVAVTVGIIDGELVVDPTAEEESLSDSSLTLAVDG-TGNICTLQKSGGGSELSEDQLEEAIELAKKA 68 (68)
T ss_dssp SEEEEEEEEEETTEEEES--HHHHHHSSEEEEEEEET-TSSEEEEEEEEESSEEEHHHHHHHHHHHHHH
T ss_pred CCeEEEEEEEECCEEEECCCHHHHhhcCCcEEEEEEC-CCCEEEEEEcCCCCCCCHHHHHHHHHHHhcC
Confidence 6899999999999999999999999999999999765 4666555544 44 9999999999999874
No 27
>PF03726 PNPase: Polyribonucleotide nucleotidyltransferase, RNA binding domain; InterPro: IPR015848 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 an RNA-binding phosphorolytic (PH) domain found in bacterial and organelle PNPases, but not in exosomes. It usually occurs in combination with PH domain 1 (IPR001247 from INTERPRO) and PH domain 2 (IPR015847 from INTERPRO), both of which are found in PNPases and exosomes. The core structure of the RNA-binding PH domain consists of a DNA/RNA-binding 3-helical bundle. More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0000175 3'-5'-exoribonuclease activity, 0003723 RNA binding, 0006396 RNA processing; PDB: 1E3H_A 1E3P_A 3U1K_B 3GCM_A 3GLL_A 3GME_A 4AM3_B 4AID_C 4AIM_A 1WHU_A ....
Probab=53.83 E-value=6 Score=28.26 Aligned_cols=10 Identities=30% Similarity=0.348 Sum_probs=7.6
Q ss_pred CCCCCCCCCC
Q 024906 34 VDWLRPDSRG 43 (260)
Q Consensus 34 ~~~~R~DGR~ 43 (260)
..++|+|||.
T Consensus 74 ~~~~R~DGR~ 83 (83)
T PF03726_consen 74 EEGIRIDGRK 83 (83)
T ss_dssp CTSBTTTS-B
T ss_pred CCCCCCCCCC
Confidence 5789999995
No 28
>PF02575 YbaB_DNA_bd: YbaB/EbfC DNA-binding family; InterPro: IPR004401 The function of this protein is unknown. It is restricted to bacteria and a few plants, such as Arabidopsis. The plant form contains an additional N-terminal region that may serve as a transit peptide and shows a close relationship to the cyanobacterial member, suggesting that it is a chloroplast protein. Members of this family are found in a single copy per bacterial genome, but are broadly distributed. A crystal structure of one member, YbaB from Haemophilus influenzae, revealed a core structure consisting of two layers, alpha/beta; YbaB forms a tight dimer with a 3-layer structure, beta/alpha/beta []. YbaB is co-transcribed with RecR, which appears to protect DNA strands of the replilcation fork when it is blocked by DNA damage. A deletion of the YbaB operon resulted in increased sensitivity to DNA-damaging agents compared with the wild-type strain.; PDB: 1PUG_B 3F42_B 1YBX_B 1J8B_A.
Probab=42.54 E-value=1.3e+02 Score=21.63 Aligned_cols=43 Identities=12% Similarity=0.241 Sum_probs=29.9
Q ss_pred cCCeeEEEEEcCCCCcEEEEEEec----CCCHHHHHHHHHHHHHHHHH
Q 024906 199 YQDGSLMIACMPSRYEVTQLTVTG----EWSTPHFNEAMQLCLDASAK 242 (260)
Q Consensus 199 ~~~~~~~va~~~~~~~i~~i~~~G----~~~~~~l~~~l~~A~~~~~~ 242 (260)
..++.++|. ++..|++..++.+- +.+++.|.+++-.|...+..
T Consensus 27 s~~g~V~V~-v~g~g~v~~i~i~~~~~~~~~~~~L~~~I~~A~n~A~~ 73 (93)
T PF02575_consen 27 SGDGLVTVT-VNGNGEVVDIEIDPSALRPLDPEELEDLIVEAVNDAQK 73 (93)
T ss_dssp ETCCTEEEE-EETTS-EEEEEE-GGGGCTS-HHHHHHHHHHHHHHHHH
T ss_pred ECCCEEEEE-EecCceEEEEEEehHhhccCCHHHHHHHHHHHHHHHHH
Confidence 456778887 47789999999874 37788888877777666655
No 29
>PF12651 RHH_3: Ribbon-helix-helix domain
Probab=37.01 E-value=66 Score=20.09 Aligned_cols=35 Identities=11% Similarity=0.243 Sum_probs=30.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 024906 223 EWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAASD 257 (260)
Q Consensus 223 ~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~ 257 (260)
.++.+.+.++-++|.+......++++++++....+
T Consensus 8 ~l~~el~~~L~~ls~~t~i~~S~Ll~eAle~~l~k 42 (44)
T PF12651_consen 8 SLDKELYEKLKELSEETGIPKSKLLREALEDYLEK 42 (44)
T ss_pred ecCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh
Confidence 57889999999999999999999999999877654
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=32.34 E-value=1.5e+02 Score=24.18 Aligned_cols=29 Identities=14% Similarity=0.185 Sum_probs=22.1
Q ss_pred EcCCCCcEEEEEEecCCCHHHHHHHHHHHH
Q 024906 208 CMPSRYEVTQLTVTGEWSTPHFNEAMQLCL 237 (260)
Q Consensus 208 ~~~~~~~i~~i~~~G~~~~~~l~~~l~~A~ 237 (260)
+.+..|+|.++ ++|.++++++++.+++-.
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 35777776655 569999999999888754
No 31
>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=31.35 E-value=59 Score=19.16 Aligned_cols=33 Identities=9% Similarity=0.214 Sum_probs=27.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 024906 224 WSTPHFNEAMQLCLDASAKLGKIMRSCLKEAAS 256 (260)
Q Consensus 224 ~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~ 256 (260)
++.+.+..+=++|.+......++|+.++.+...
T Consensus 6 l~~~~~~~l~~~a~~~g~s~s~~ir~ai~~~l~ 38 (39)
T PF01402_consen 6 LPDELYERLDELAKELGRSRSELIREAIREYLE 38 (39)
T ss_dssp EEHHHHHHHHHHHHHHTSSHHHHHHHHHHHHHH
T ss_pred eCHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh
Confidence 567788888888888888888999998887754
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=31.03 E-value=56 Score=24.09 Aligned_cols=38 Identities=26% Similarity=0.281 Sum_probs=25.7
Q ss_pred ecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 024906 221 TGEWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAASDE 258 (260)
Q Consensus 221 ~G~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~~ 258 (260)
.|.+++++|.-+++++.-.+.++...+++.|..-.+++
T Consensus 20 pG~vs~e~F~lLl~ls~IrS~kiI~AL~dyLV~G~srk 57 (91)
T PF03333_consen 20 PGKVSEEHFWLLLELSSIRSEKIIAALRDYLVDGLSRK 57 (91)
T ss_dssp TT-S-HHHHHHHHHHS----HHHHHHHHHHHTT---HH
T ss_pred CCCcCHHHHHHHHHHCCCCcHHHHHHHHHHHHcCCcHH
Confidence 47899999999999999999999999999986655443
No 33
>PHA01623 hypothetical protein
Probab=24.13 E-value=1.2e+02 Score=20.13 Aligned_cols=36 Identities=11% Similarity=0.132 Sum_probs=28.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 024906 223 EWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAASDE 258 (260)
Q Consensus 223 ~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~~ 258 (260)
.++.+.+.++-.+|.+.-....++|++++.....++
T Consensus 19 rldeel~~~Ld~y~~~~g~~rSe~IreAI~~yL~~~ 54 (56)
T PHA01623 19 YMDKDLKTRLKVYCAKNNLQLTQAIEEAIKEYLQKR 54 (56)
T ss_pred EeCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHc
Confidence 577888888888888887778888888887776553
No 34
>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=23.34 E-value=2.2e+02 Score=21.04 Aligned_cols=59 Identities=19% Similarity=0.191 Sum_probs=28.3
Q ss_pred ccHHHHHHHHHHHHHh-hhccCCCCCcEEEEEEEEEcCCCcc--------HhHHHHHHHHHHHH-cCCcc
Q 024906 113 SDHKDFSSMLHKALEG-AIILETFPKTTVDVFALVLESGGSD--------LPVVISCASVALAD-AGIMM 172 (260)
Q Consensus 113 ~~~~~l~~~L~~~l~~-~i~le~~pk~~i~I~v~VL~~dG~l--------~~a~i~Aa~~AL~~-agip~ 172 (260)
.+-..+..+|++.+++ ..+.+.|-.....|.+. |..||.+ -.+.+.|+..|+.. +.+|+
T Consensus 11 ~ev~~Y~~~I~~~Iq~~l~~~~~y~GK~C~v~i~-l~~dG~v~~v~~~~GD~~lC~aa~~Ai~k~~~~P~ 79 (96)
T PF06519_consen 11 SEVSRYAAQIKQAIQRNLYDDESYKGKECRVRIR-LAPDGLVLSVTVESGDPALCRAAKSAIAKAAKFPP 79 (96)
T ss_dssp HHHHHHHHHHHHHHHTTTTTGGGGTT--EEEEEE-EETTSEEEEEEEEEE-HHHHHHHHHH-HCCS----
T ss_pred HHHHHHHHHHHHHHHHhcCCccccCCCEEEEEEE-ECCCCcEEEeeecCCCHHHHHHHHHHHHHhcCCCC
Confidence 3455667778887776 45666664333333332 3334422 24566677777554 45764
No 35
>PRK00153 hypothetical protein; Validated
Probab=21.25 E-value=3.5e+02 Score=20.02 Aligned_cols=45 Identities=9% Similarity=0.195 Sum_probs=32.9
Q ss_pred hcCCeeEEEEEcCCCCcEEEEEEec----CCCHHHHHHHHHHHHHHHHHH
Q 024906 198 SYQDGSLMIACMPSRYEVTQLTVTG----EWSTPHFNEAMQLCLDASAKL 243 (260)
Q Consensus 198 ~~~~~~~~va~~~~~~~i~~i~~~G----~~~~~~l~~~l~~A~~~~~~i 243 (260)
+..+|.++|. ++..++|..+.-+- +-+.+.|.+++-.|...|.+-
T Consensus 34 ~s~~G~V~V~-v~G~~~v~~i~Id~~ll~~~d~e~LedlI~~A~n~A~~~ 82 (104)
T PRK00153 34 EAGGGLVKVT-MTGKKEVKRVKIDPSLVDPEDVEMLEDLILAAFNDALRK 82 (104)
T ss_pred EECCCeEEEE-EecCceEEEEEECHHHcCCcCHHHHHHHHHHHHHHHHHH
Confidence 4456778886 57789999998774 246788888887777766653
No 36
>PRK14626 hypothetical protein; Provisional
Probab=20.79 E-value=3.8e+02 Score=20.30 Aligned_cols=46 Identities=4% Similarity=0.128 Sum_probs=31.7
Q ss_pred hcCCeeEEEEEcCCCCcEEEEEEecC-C---CHHHHHHHHHHHHHHHHHHH
Q 024906 198 SYQDGSLMIACMPSRYEVTQLTVTGE-W---STPHFNEAMQLCLDASAKLG 244 (260)
Q Consensus 198 ~~~~~~~~va~~~~~~~i~~i~~~G~-~---~~~~l~~~l~~A~~~~~~i~ 244 (260)
+...|.++|. ++..++|..++-+-. + +.+.|++++-.|...|.+-.
T Consensus 36 ~sggG~VkV~-~nG~~ev~~i~Id~~ll~~ed~e~LeDLI~aA~N~A~~k~ 85 (110)
T PRK14626 36 EVGGGMVKVV-SNGLGEIKDVEIDKSLLNEDEYEVLKDLLIAAFNEASRRS 85 (110)
T ss_pred EecCcEEEEE-EECCccEEEEEECHHHcCcccHHHHHHHHHHHHHHHHHHH
Confidence 3456778876 577899999988753 4 35677887777776665543
No 37
>PRK15215 fimbriae biosynthesis regulatory protein; Provisional
Probab=20.63 E-value=1.3e+02 Score=22.57 Aligned_cols=37 Identities=19% Similarity=0.141 Sum_probs=32.3
Q ss_pred ecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 024906 221 TGEWSTPHFNEAMQLCLDASAKLGKIMRSCLKEAASD 257 (260)
Q Consensus 221 ~G~~~~~~l~~~l~~A~~~~~~i~~~i~~~l~~~~~~ 257 (260)
.|.++.++|.-+++.+.-...++...+++.|-.-.++
T Consensus 28 pG~v~eehF~LLieIS~IrS~KvI~AL~dyLV~G~tr 64 (100)
T PRK15215 28 PAKVNEEHFWLLIGISSIHSEKIIQALRDYLVFGVSR 64 (100)
T ss_pred CCccCHHHHHHHHHHcccchHHHHHHHHHHHHcCccH
Confidence 3789999999999999999999999999998655444
No 38
>PF11558 HET-s_218-289: Het-s 218-289; InterPro: IPR021084 Vegetative incompatibility is a lethal reaction that destroys the heterokaryotic cells formed by the fusion of hyphae of non-isogenic strains in many fungi. This incompatibility is genetically determined, though the function of the genes triggering this rapid cell death is not. The two allelic incompatibility genes, s and S, of the fungus Podospora anserina have been characterised. Both encode 30 kDa polypeptides, which differ by 14 amino acids. These two proteins are responsible for the incompatibility reaction that results when cells containing s and S genes fuse. Inactivation of the s or S gene by disruption suppresses incompatibility but does not affect the growth or the sexual cycle of the mutant strains []. This entry represents residues 218-289 of P. anserina Het-s. Het-s plays a role in heterokaryon incompatibility which prevents different forms of parasitism []. The C terminus of Het-s is unstructured in solution but forms infectious fibrils in vitro which has a structure consisting of a left-handed beta-solenoid which contains two windings per molecule []. ; PDB: 2KJ3_A 2LBU_A 2RNM_B 2WVQ_A 2WVN_A 2WVO_A.
Probab=20.08 E-value=82 Score=21.69 Aligned_cols=35 Identities=23% Similarity=0.200 Sum_probs=24.6
Q ss_pred ccC-CCCCCCCCCCCCCCCCcceEEEeCCCCCCCeeEEEEeCCe
Q 024906 29 FSG-SDVDWLRPDSRGFHQCRPAFFRTGAVNSASGSAYAEFGNT 71 (260)
Q Consensus 29 ~~~-~~~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T 71 (260)
|++ ....+....-|..|....+..+ |+++|.+|++
T Consensus 28 fs~~~l~~~~~~~d~T~N~v~~V~ak--------g~srV~IGn~ 63 (65)
T PF11558_consen 28 FSEDALQQGTGINDRTRNSVDSVSAK--------GSSRVHIGNT 63 (65)
T ss_dssp EETTTTSSSSSSSC-SEEEEEEEEEE--------SS-EEEESEE
T ss_pred hhHhHhcCccccccccceeeeeEEec--------CCcEEEeccc
Confidence 444 4567777788888888777755 8999999986
Done!