Query psy9088
Match_columns 756
No_of_seqs 258 out of 1314
Neff 4.8
Searched_HMMs 46136
Date Fri Aug 16 18:32:46 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9088.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9088hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2465|consensus 100.0 3.2E-94 7E-99 742.0 16.0 339 42-430 10-354 (390)
2 PF09741 DUF2045: Uncharacteri 100.0 8.2E-88 1.8E-92 685.5 23.2 233 69-304 2-237 (237)
3 COG2123 RNase PH-related exori 100.0 8.9E-52 1.9E-56 427.2 26.1 248 412-675 16-271 (272)
4 KOG1613|consensus 100.0 7.1E-48 1.5E-52 390.0 15.1 257 387-650 7-287 (298)
5 PRK04282 exosome complex RNA-b 100.0 1.8E-45 4E-50 384.7 27.1 238 405-652 13-258 (271)
6 KOG1614|consensus 100.0 6.8E-46 1.5E-50 376.2 20.7 253 413-681 16-276 (291)
7 KOG1612|consensus 100.0 3.5E-42 7.7E-47 351.0 24.5 251 413-679 15-279 (288)
8 PRK00173 rph ribonuclease PH; 100.0 1.9E-34 4E-39 297.3 23.5 209 419-651 1-224 (238)
9 TIGR01966 RNasePH ribonuclease 100.0 3.9E-33 8.4E-38 287.0 23.8 208 420-651 1-223 (236)
10 PRK03983 exosome complex exonu 100.0 4.8E-32 1E-36 280.0 23.3 202 413-651 8-220 (244)
11 TIGR02065 ECX1 archaeal exosom 100.0 1.8E-31 3.8E-36 273.6 23.7 201 414-651 3-214 (230)
12 TIGR03591 polynuc_phos polyrib 99.9 4.3E-26 9.3E-31 265.9 24.2 209 413-654 304-529 (684)
13 PRK11824 polynucleotide phosph 99.9 1.3E-25 2.8E-30 262.3 24.2 205 413-652 308-530 (693)
14 COG0689 Rph RNase PH [Translat 99.9 7.6E-24 1.7E-28 217.4 18.7 202 415-651 4-217 (230)
15 PF01138 RNase_PH: 3' exoribon 99.9 1.7E-22 3.7E-27 188.7 15.5 127 428-564 1-132 (132)
16 KOG1068|consensus 99.9 2.3E-22 5E-27 206.5 12.6 201 414-651 8-220 (245)
17 PLN00207 polyribonucleotide nu 99.9 3.4E-20 7.4E-25 218.8 24.1 209 414-655 433-664 (891)
18 PRK11824 polynucleotide phosph 99.8 4.2E-20 9.2E-25 216.3 22.0 183 431-654 16-214 (693)
19 TIGR03591 polynuc_phos polyrib 99.8 5.4E-20 1.2E-24 215.1 21.0 182 431-653 7-204 (684)
20 TIGR02696 pppGpp_PNP guanosine 99.8 7.8E-19 1.7E-23 203.8 19.3 220 398-654 317-557 (719)
21 KOG1069|consensus 99.7 1.6E-16 3.5E-21 159.1 15.0 181 428-650 4-195 (217)
22 PLN00207 polyribonucleotide nu 99.4 2.7E-11 5.9E-16 144.2 20.8 183 431-654 91-289 (891)
23 KOG1067|consensus 98.9 8.5E-09 1.8E-13 116.2 10.1 248 376-668 323-596 (760)
24 PF03725 RNase_PH_C: 3' exorib 98.7 4E-08 8.8E-13 82.8 7.1 60 590-651 1-68 (68)
25 TIGR02696 pppGpp_PNP guanosine 98.4 1.3E-05 2.8E-10 95.0 18.2 181 431-652 19-233 (719)
26 COG1185 Pnp Polyribonucleotide 98.1 1.2E-05 2.7E-10 93.6 11.8 214 399-651 295-527 (692)
27 COG1185 Pnp Polyribonucleotide 97.9 0.00024 5.1E-09 83.3 16.8 179 431-651 16-210 (692)
28 KOG1067|consensus 97.0 0.0033 7.1E-08 72.3 10.3 207 429-677 55-291 (760)
29 KOG2465|consensus 78.2 0.6 1.3E-05 50.9 -0.4 62 235-303 228-289 (390)
30 PF03726 PNPase: Polyribonucle 28.7 24 0.00051 31.1 0.6 13 413-425 71-83 (83)
31 PF06856 DUF1251: Protein of u 25.7 88 0.0019 30.4 3.9 46 200-248 23-68 (120)
32 cd08353 Glo_EDI_BRP_like_7 Thi 21.6 65 0.0014 29.8 2.2 23 196-218 86-108 (142)
No 1
>KOG2465|consensus
Probab=100.00 E-value=3.2e-94 Score=742.02 Aligned_cols=339 Identities=45% Similarity=0.641 Sum_probs=307.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhcccCe---eeccCchhHHHHHHHhhhccCC-CCCCCCceEEEEeccccccCCCCCCCCcc
Q psy9088 42 TLEQLLEEINFQRAKEKRQYLRNDM---FLTQGTSYWTDLFVRYFLFQTD-SNIDCDDLLFFVRKKYIKTSSRNLPKFET 117 (756)
Q Consensus 42 ~~~~~l~~i~~~r~~~~~~~~~~d~---v~~~~~~fW~~~F~~~f~~~~~-~~~~~DDlLFfVr~~~~~~~~~~~~~~~~ 117 (756)
+++|+|++|+ +|.|+||+..+||. ++.+++.|||++|+.||+.+.+ +..++||||||||+++.|.+++.+|+...
T Consensus 10 ~~~q~l~~v~-kr~k~lrkl~~ddgdf~~vq~~s~~W~~lF~~~Fv~~te~~~s~sDDllffVrk~~~ksts~~~~~~~~ 88 (390)
T KOG2465|consen 10 SRHQILSMVK-KRSKSLRKLSLDDGDFSDVQMDSNFWHGLFDVYFVRCTESRRSQSDDLLFFVRKLSCKSTSNEDAPAPY 88 (390)
T ss_pred cHHHHHHHHH-HHHHHHHhhhcccCCceEEeccchhhhhhhhhheeeeccccccCCCceEEeeeehhcccccccCCCCch
Confidence 4999999999 99999999999987 7777899999999999999886 44589999999999999988999999999
Q ss_pred ceEEEecCCCCCCC-CCCCCchhhhhHHHHhhhcceEEEEEeeecccCCCccceeEEeeeEEecCCCccccCccCCcccc
Q psy9088 118 EVEVFRKDSRKLPI-GDPDVDWEETVYLNMIIHQFDYTLTLAICTRTSPKHLQVLKRHSQKVYASPSRRRMDTKGEVEEM 196 (756)
Q Consensus 118 ~~~v~rr~s~~~p~-~~~~vdW~et~~LNli~~~~~y~lT~avc~~~~~~~l~~~~~~~q~VyASPs~~~mDskg~~~~~ 196 (756)
.|+|||++|++||. .|++||||||||||+|+||+ |+|||||||+++||+||++|||+|+||||||||+||+|||.|+|
T Consensus 89 ~v~vfr~~s~~lp~~~d~~vdWeetvyLNmi~hq~-ftvT~AiCt~t~pk~lQ~~rk~~qrVyaSPSRr~mDsKgE~Eei 167 (390)
T KOG2465|consen 89 FVRVFRPKSDELPGESDAEVDWEETVYLNMIAHQS-FTVTVAICTNTAPKTLQGSRKVVQRVYASPSRRHMDSKGEVEEI 167 (390)
T ss_pred HHHhhcchhhcCCCCCCcccChhhhhHHHHhhhhe-eEEEEEeecCCChHHHHHHHhhheeeccCcccccccccCcccee
Confidence 99999999999996 59999999999999999996 99999999999999999999999999999999999999999999
Q ss_pred cccceEeeecchhhhccceeecCCceEEEEEeeccCCCCceEEEeecchhHHHHHhhhccccchh-hhhhhccccccccc
Q psy9088 197 TYPCVCFTVDNFNEVFHDILVRDGEMVCVELVASDRAGSVKSVIFLGSIRYDALKRVYDARTSVS-NKFTQRMSFGIFSN 275 (756)
Q Consensus 197 ~YP~i~F~iD~Fee~F~~~~v~~~e~~cveL~A~d~~~~~~~viF~Gsv~y~~l~~~y~~~~s~~-~~~~~~~~~g~~~~ 275 (756)
+||.|||+||||||+|+|++|+|||||||||+|+| ||+|+|||+|+.|+++||++.|.. .+..++|++|.
T Consensus 168 tYP~icFavD~FdevF~dvvvrDgecvCVeLva~D------gv~Flgsiryd~lk~vyda~~ss~~~~~~~lms~g~--- 238 (390)
T KOG2465|consen 168 TYPEICFAVDDFDEVFDDVVVRDGECVCVELVAHD------GVAFLGSIRYDSLKSVYDADPSSVKDPKVTLMSGGV--- 238 (390)
T ss_pred ccceEEEEecCHHHhhhhhEEecCcEEEEEEeccC------cceeechhhhhhhhhhccCCcchhhchHHHHhhchh---
Confidence 99999999999999999999999999999999999 899999999999999999997655 55577788884
Q ss_pred CCCCceeEEEeecCCCCceEEEEEeCCCCCCCCCCCCCCCCCCCccCCCCCCCCchhhhccccccccCCCcccccccccc
Q psy9088 276 NSNSRIEFVKMKGPQGKGFAEMAVTKPKGYGVETPTSEPGYCETDMWDSDWDDDPEDFYYYRHQRRLSDPSANINMFAKS 355 (756)
Q Consensus 276 ~~~~~~efv~m~GP~GkG~aE~Av~~~~~~g~~tp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~ 355 (756)
+.|||||+||||||||||||++++.+|+|||.+||| +|| .|+.+..+..+|+++|++++|++|+++|.+
T Consensus 239 ----~~efVRm~gpqGkg~aemavs~~~~~G~etpl~e~g-----p~d-~~E~e~~~~~~~~~~~~~~~p~~~~~~f~s- 307 (390)
T KOG2465|consen 239 ----SYEFVRMAGPQGKGRAEMAVSLGHITGKETPLYERG-----PGD-RGEVEVAVSGVVDQSQVVLGPVSPMSSFKS- 307 (390)
T ss_pred ----HhhHHHhhCcCCCCchheeeeccCCCCccCccccCC-----CCc-chhhhhhhhhhhhhheeeccCCCccccCCC-
Confidence 389999999999999999999999999999999999 677 799999999999999999999999999966
Q ss_pred cccCCCCcccccccccccchhccccCccccccCCCccccCccccCcchhcccchhhhcccccccccCCCCCccce
Q psy9088 356 IWKGPVNKTTAKAVSEDEGLDSLAHGVAEIEAGDMRDELDDGAYNPLWTMRGFTQTFHFWKESKRAQDWTDVDFM 430 (756)
Q Consensus 356 ~~~~~~~~~~~~~~se~~~ld~~~~~~~e~~a~~i~de~~~~~~~rL~p~~~~eq~~r~L~~giRpDGR~~~efR 430 (756)
.+-++..|+|++++|. ..+|.++.|.|.||.+.+..|..--..+.|=
T Consensus 308 ------~~vg~~~r~e~s~~d~----------------------~~~~~mra~aa~~hgdrEk~~~ec~p~~~~l 354 (390)
T KOG2465|consen 308 ------IDVGSIFRKEASVADV----------------------AAKHAMRAFAAVWHGDREKKRAECTPLNAFL 354 (390)
T ss_pred ------Cccchhhhhhccccch----------------------HHhhhHHHHHHhhcchhhhccccCCchhhcc
Confidence 4456778889998873 2236677888889977777766554444433
No 2
>PF09741 DUF2045: Uncharacterized conserved protein (DUF2045); InterPro: IPR019141 This entry is the conserved 250 residues of proteins of approximately 450 amino acids. It contains several highly conserved motifs including a CVxLxxxD motif. The function is unknown.
Probab=100.00 E-value=8.2e-88 Score=685.46 Aligned_cols=233 Identities=59% Similarity=1.026 Sum_probs=220.2
Q ss_pred ccCchhHHHHHHHhhhccCC-CCCCCCceEEEEeccccccCCCCCCCCccceEEEecCCCCCC-CCCCCCchhhhhHHHH
Q psy9088 69 TQGTSYWTDLFVRYFLFQTD-SNIDCDDLLFFVRKKYIKTSSRNLPKFETEVEVFRKDSRKLP-IGDPDVDWEETVYLNM 146 (756)
Q Consensus 69 ~~~~~fW~~~F~~~f~~~~~-~~~~~DDlLFfVr~~~~~~~~~~~~~~~~~~~v~rr~s~~~p-~~~~~vdW~et~~LNl 146 (756)
.+++.|||+||++|||++.. +...+||||||||+++++++++..++.+.+++||||++++|| .+|++|||+|||||||
T Consensus 2 ~~~~~fW~~~F~~~Fv~~~~~~~s~~DDLLFFVr~k~~~~~s~~~~~~~~~~~v~RR~spklp~~~d~~VdWeeTvyLNL 81 (237)
T PF09741_consen 2 EMDIVFWTEMFSEYFVEGWASRQSADDDLLFFVRRKLSYSSSRGSPKNENEVQVYRRWSPKLPKLGDPSVDWEETVYLNL 81 (237)
T ss_pred CccchHHHHHHHHHheecCccCCCCCCcEEEEEEccccccCccccCCCcccccceeccCCCCCCCCCCCcCchHHhHHHH
Confidence 56778999999999998653 222459999999999988888888999999999999999999 7999999999999999
Q ss_pred hhhcceEEEEEeeecccCCCccceeEEeeeEEecCCCccccCccCCcccccccceEeeecchhhhccceeecCCceEEEE
Q psy9088 147 IIHQFDYTLTLAICTRTSPKHLQVLKRHSQKVYASPSRRRMDTKGEVEEMTYPCVCFTVDNFNEVFHDILVRDGEMVCVE 226 (756)
Q Consensus 147 i~~~~~y~lT~avc~~~~~~~l~~~~~~~q~VyASPs~~~mDskg~~~~~~YP~i~F~iD~Fee~F~~~~v~~~e~~cve 226 (756)
|+|+|+|+||||||+++++++|++++|++|+||||||||+||+||++++|+||||||+||||||+|+|++|+||||||||
T Consensus 82 I~q~~~y~lTvAvC~~~~~~~l~~~~k~~~~VyASPsr~~md~k~~~e~~~YP~i~F~vD~Fde~F~~~~l~~~e~~cVe 161 (237)
T PF09741_consen 82 ILQQFSYTLTVAVCTRTSPQNLQIIKKVSQRVYASPSRRRMDSKGEGEEITYPNICFTVDDFDEVFDDVVLSDGECYCVE 161 (237)
T ss_pred HHhhCcEEEEEEEEcCcCCCceeeEEeeeeEEecCCccccccccccccccccCeEEEEecChhhhhheEEecCCCEEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeeccCCCCceEEEeecchhHHHHHhhhccccc-hhhhhhhcccccccccCCCCceeEEEeecCCCCceEEEEEeCCCC
Q psy9088 227 LVASDRAGSVKSVIFLGSIRYDALKRVYDARTS-VSNKFTQRMSFGIFSNNSNSRIEFVKMKGPQGKGFAEMAVTKPKG 304 (756)
Q Consensus 227 L~A~d~~~~~~~viF~Gsv~y~~l~~~y~~~~s-~~~~~~~~~~~g~~~~~~~~~~efv~m~GP~GkG~aE~Av~~~~~ 304 (756)
|+|+|+.+++|+|||+|||+|++|+++||+|+| .+++++|+|++|.|+ ++|+||||||||+|||||||||+|+++
T Consensus 162 L~A~~~~~~~~~vlF~Gsv~y~~l~~~yd~~~s~~~s~~~q~ls~~~~~---~~~~efv~M~GP~GkG~aEmAv~~~~~ 237 (237)
T PF09741_consen 162 LVAHDRSGPFKGVLFLGSVRYEVLKKVYDSRVSETGSKMAQRLSFGHYS---QGRTEFVRMRGPGGKGHAEMAVSRVAD 237 (237)
T ss_pred EEEecCCCCeeEEEEEeeeeHHHHHHHHhccchhhhHHHHHHhhcCccc---CCceEEEEEECCCCccEEEEEEEeccC
Confidence 999999999999999999999999999999998 668899999999876 589999999999999999999999753
No 3
>COG2123 RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.9e-52 Score=427.16 Aligned_cols=248 Identities=31% Similarity=0.516 Sum_probs=234.1
Q ss_pred hcccccccccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEeeecCCCCCCCCccEEEEEEEeCCCCCcC
Q psy9088 412 FHFWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCNMVIPKATRPNEGLLFINAELSPMASPQ 490 (756)
Q Consensus 412 ~r~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~EV~~P~~~~P~eG~L~VnVe~sP~asp~ 490 (756)
.+-+++++|+|||.++||| ++|++|+|+.|||||++. +|+|+|+||||++++.|..++|++|.+.+|+|+.|+|++.
T Consensus 16 ~~ll~~g~R~DGR~~~efR~ieI~~~vi~ka~GSa~Vk--lG~Tqvv~gvK~eig~Pf~DtP~eG~~~~n~El~Plas~~ 93 (272)
T COG2123 16 LNLLKKGIRIDGRSFDEFRPLEIETGVIPKANGSALVK--LGNTQVVVGVKAEIGEPFPDTPNEGVLVVNVELSPLASPS 93 (272)
T ss_pred HHHhccCcccCCCCcccccceEEEeCceecCCCcEEEE--ecCeEEEEEEEcccCCCCCCCCCCceEEeeeeeecccccc
Confidence 4788899999999999999 899999999999999984 8999999999999999999999999999999999999999
Q ss_pred cccCCCChhHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCCCceeecC
Q psy9088 491 FETGRQTDTSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRHPDVTSTG 570 (756)
Q Consensus 491 fr~Gr~se~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrIP~V~v~~ 570 (756)
|++|++++.+.++++.+++.++++++||+++|||.+||++|.+++|++||++|||++|||++|++|||++|++|++...+
T Consensus 94 fE~Gppde~aielsrvvdr~lr~s~aiDlekL~I~~g~kvwvv~vDv~vld~DGnl~Da~~lA~~aAL~~t~vP~~~~~~ 173 (272)
T COG2123 94 FEPGPPDELAIELSRVVDRGLRESKAIDLEKLCIEEGKKVWVVFVDVHVLDYDGNLIDAASLAAVAALLNTRVPKAVEVG 173 (272)
T ss_pred ccCCCCchhHHHHHHHHHHHHHhccCcchhheeEecCCEEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCceeecC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999888887
Q ss_pred CceEEecCCCCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE-------eecccccccCHHHHHH
Q psy9088 571 DQIIIHSAAEKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD-------RQKLGVDSAYANLVNK 643 (756)
Q Consensus 571 d~v~I~~~de~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~-------~Qk~G~g~~t~e~l~k 643 (756)
++..++...+ ++.||.+.++|+++|++++++ ++++|||.+||..+++.|+|+++ +||.|++.++...+.+
T Consensus 174 ~~~~v~~~~~-~~~pl~~~~~pi~vt~a~ig~--~lvvDPsleEe~v~d~~ltit~~~~~~Iv~iqK~g~~~~~~~~~~~ 250 (272)
T COG2123 174 DGEIVIEVEE-EPVPLPVSNPPISVTFAKIGN--VLVVDPSLEEELVADGRLTITVNEDGEIVAIQKVGGGSITESDLEK 250 (272)
T ss_pred CcceeecccC-CCcccccCCCceEEEEEEECC--EEEeCCCcchhhhcCceEEEEECCCCcEEEEEEcCCCcCCHHHHHH
Confidence 7666553333 778899999999999999999 99999999999999999999998 8899999999999999
Q ss_pred HHHHHHhhCccccCcceeeeecccchHHHhhh
Q psy9088 644 TDRILLDEGEKDSGETKVKVEKVGPGIADLIS 675 (756)
Q Consensus 644 ai~lAld~~~~~sk~~~~~v~~~~~~i~~~l~ 675 (756)
|++.|++. ++|+.+.+.++|.
T Consensus 251 ~~~~A~~~-----------~~kl~~~~~~~L~ 271 (272)
T COG2123 251 ALKTALSK-----------AEKLREALKEALK 271 (272)
T ss_pred HHHHHHHH-----------HHHHHHHHHHhhc
Confidence 99999988 7888888888875
No 4
>KOG1613|consensus
Probab=100.00 E-value=7.1e-48 Score=389.96 Aligned_cols=257 Identities=19% Similarity=0.273 Sum_probs=224.1
Q ss_pred cCCCccccCccccCcchhcccchhhhcccccccccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEeeec
Q psy9088 387 AGDMRDELDDGAYNPLWTMRGFTQTFHFWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCNMV 465 (756)
Q Consensus 387 a~~i~de~~~~~~~rL~p~~~~eq~~r~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~EV~ 465 (756)
++...-+|++++|+|+.|.+||+ |||.+++|||||+..+|| +.|+.|.|++|||||++ +.|.|.||||||+++.
T Consensus 7 a~~~~~~f~p~~fkrI~Pe~~l~---rhLse~~RpdgR~lgefRdt~in~g~IsTangSal~--K~G~ttvi~~Ik~ei~ 81 (298)
T KOG1613|consen 7 AGIHPITFPPEVFKRISPELYLQ---RHLSEGIRPDGRKLGEFRDTAINAGNISTANGSALL--KSGKTTVICGIKAEIA 81 (298)
T ss_pred ccccccccCHHHHhhcCHHHHHH---HHhhcccCcchhhhhHHhhhheecCceeccCcHHHH--hcCCcEEEEEeeeeec
Confidence 44556689999999999999999 999999999999999999 88999999999999996 4777789999999999
Q ss_pred CCCCCCCCccEEEEEEEeCCCCCcCcccCCCChhHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCc
Q psy9088 466 IPKATRPNEGLLFINAELSPMASPQFETGRQTDTSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGN 545 (756)
Q Consensus 466 ~P~~~~P~eG~L~VnVe~sP~asp~fr~Gr~se~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGN 545 (756)
+|..+.|++|.|..|++++|.|++.||+|+|+++++.+|+.|++.+.+|++|+++.|||.+||.+|++|.||+||++||+
T Consensus 82 epstdapdeg~Iv~n~~lpplcs~r~RpG~p~dea~viSq~LhdtIl~S~ii~~k~Lci~~gKaawvlYadIicLd~dG~ 161 (298)
T KOG1613|consen 82 EPSTDAPDEGDIVPNYALPPLCSSRFRPGPPTDEAQVISQKLHDTILHSRIIPKKALCIKAGKAAWVLYADIICLDYDGP 161 (298)
T ss_pred ccccCCCCCcceeecccCCcccccCCCCCCCchHHHHHHHHHHHHHHhcCCcchhhheeeccceeeEEEEEEEEEcCCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHhhCCCCceeecCCc--eEEe-------------cCCCCCCCCcccCCceEEEEEEEeCCceeEEEeC
Q psy9088 546 LLGCCSIAALAALAHFRHPDVTSTGDQ--IIIH-------------SAAEKDPIPMTILHYPVTISYAVFNGGSEGSTVP 610 (756)
Q Consensus 546 LlDAaslAa~AAL~dtrIP~V~v~~d~--v~I~-------------~~de~e~vpL~i~~iPisvTfgli~d~~~iLvDP 610 (756)
+||||++|++|||++.+||.+.++++. +.+. ..-+.+.+++..++.+++.++ ++++. .++.||
T Consensus 162 ~fDa~w~al~aAlknvklP~a~ide~~~~~~~t~e~~ic~~tlt~p~~ln~e~r~~~~~n~~fS~~~-vl~~~-li~adp 239 (298)
T KOG1613|consen 162 VFDACWNALMAALKNVKLPRAFIDERASDLRMTIEEIICDQTLTVPLMLNAENRAFASQNSDFSEEE-VLDDV-LIAADP 239 (298)
T ss_pred HHHHHHHHHHHHHhcCCCceeeecccchhhhhhHHHHHHhhhhcchhhhccccccccccCCCccHHH-hhcce-eEecCC
Confidence 999999999999999999999998752 1111 112344555666666776665 45551 456899
Q ss_pred ChhHhhhcCCceEEEEE-------eecccccc-cCHHHHHHHHHHHHh
Q psy9088 611 GFTECIQLDTALALSQD-------RQKLGVDS-AYANLVNKTDRILLD 650 (756)
Q Consensus 611 T~eEE~~sda~LtVav~-------~Qk~G~g~-~t~e~l~kai~lAld 650 (756)
|.+||..+++.++|..+ ..|.|++. .+++.+++|+++|-.
T Consensus 240 T~eEE~l~~~~lTIvldss~n~v~l~k~GG~al~~~~~iK~c~elar~ 287 (298)
T KOG1613|consen 240 TEEEETLITSTLTIVLDSSGNYVQLTKVGGGALITPEMIKRCLELARV 287 (298)
T ss_pred CchhhhhhhceEEEEEcCCCCEEEEEecCcccccCHHHHHHHHHHHHH
Confidence 99999999999999987 22445555 567999999999653
No 5
>PRK04282 exosome complex RNA-binding protein Rrp42; Provisional
Probab=100.00 E-value=1.8e-45 Score=384.73 Aligned_cols=238 Identities=31% Similarity=0.445 Sum_probs=221.6
Q ss_pred cccchhhhcccccccccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEeeecCCCCCCCCccEEEEEEEe
Q psy9088 405 MRGFTQTFHFWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCNMVIPKATRPNEGLLFINAEL 483 (756)
Q Consensus 405 ~~~~eq~~r~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~EV~~P~~~~P~eG~L~VnVe~ 483 (756)
+.|+. ++|++++|+|||+++|+| +.+++|.+++|+|||++. +|.|+|+|+||+++..|..++|++|.|.++|++
T Consensus 13 ~~~i~---~~l~~~~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~--~G~T~vl~~V~~~~~~p~~~~~~~g~i~~~v~~ 87 (271)
T PRK04282 13 KDYIL---SLLKKGKRIDGRKLDEYRPIEIETGVIKKAEGSALVK--LGNTQVLAGVKLEIGEPFPDTPNEGVLIVNAEL 87 (271)
T ss_pred HHHHH---HHHhcCCCCCCCCCccccCeEEEeCCccCCCcEEEEE--ECCCEEEEEEEEEEecCCCCCCCCCEEEEEEEE
Confidence 45666 889999999999999999 899999999999999984 999999999999999998889999999999999
Q ss_pred CCCCCcCcccCCCChhHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCC
Q psy9088 484 SPMASPQFETGRQTDTSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRH 563 (756)
Q Consensus 484 sP~asp~fr~Gr~se~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrI 563 (756)
+|+|++.|++|++++.+++++++|+++|+++..+|+++|||.||+++|.|+|||+||++|||++|||++|+++||.|++|
T Consensus 88 ~~~a~~~~~~~~~~~~~~~l~~~l~r~l~~~~~~dl~~L~I~~g~~~w~i~Vdv~VL~~dG~~~daa~~Aa~aAL~~~~i 167 (271)
T PRK04282 88 LPLASPTFEPGPPDENAIELARVVDRGIRESKAIDLEKLVIEPGKKVWVVFIDVYVLDHDGNLLDASMLAAVAALLNTKV 167 (271)
T ss_pred CCCcCccccCCCCCHHHHHHHHHHHHHHhccCCccHHHcEEecCcEEEEEEEEEEEECCCCCHHHHHHHHHHHHHHhCCC
Confidence 99999999989999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceeecCCceEEecCCCCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE-------eeccccccc
Q psy9088 564 PDVTSTGDQIIIHSAAEKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD-------RQKLGVDSA 636 (756)
Q Consensus 564 P~V~v~~d~v~I~~~de~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~-------~Qk~G~g~~ 636 (756)
|++.+.++.... ++.+..+|.++++|+++|++++++ .+++|||.+||+++++.++|+++ +++.|++++
T Consensus 168 P~~~~~~~~~~~---~~~~~~~l~~~~~p~~vt~~~~~~--~~v~Dpt~~Ee~~~~~~l~va~~~~g~i~~l~~~g~~~~ 242 (271)
T PRK04282 168 PAVEEGEDGVVD---KLGEDFPLPVNDKPVTVTFAKIGN--YLIVDPTLEEESVMDARITITTDEDGNIVAIQKSGIGSF 242 (271)
T ss_pred CcEEEcCCceec---cCCCcccCCCCCeeEEEEEEEECC--EEEECCCHHHHhhcCceEEEEECCCCcEEEEEcCCCCCC
Confidence 999998776332 356778899999999999999988 89999999999999999999998 557788899
Q ss_pred CHHHHHHHHHHHHhhC
Q psy9088 637 YANLVNKTDRILLDEG 652 (756)
Q Consensus 637 t~e~l~kai~lAld~~ 652 (756)
+++.+.+|+++|...+
T Consensus 243 ~~~~l~~~i~~A~~~~ 258 (271)
T PRK04282 243 TEEEVDKAIDIALEKA 258 (271)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 9999999999988874
No 6
>KOG1614|consensus
Probab=100.00 E-value=6.8e-46 Score=376.23 Aligned_cols=253 Identities=34% Similarity=0.575 Sum_probs=240.2
Q ss_pred cccccccccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEeeecCCCCCCCCccEEEEEEEeCCCCCcCc
Q psy9088 413 HFWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCNMVIPKATRPNEGLLFINAELSPMASPQF 491 (756)
Q Consensus 413 r~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~EV~~P~~~~P~eG~L~VnVe~sP~asp~f 491 (756)
..|+.|.|.|||.+.+|| .+|+.|- .-||+.+. +|+|+|+|.|.+++..|+.++|.+|.+.+.++++|++++.|
T Consensus 16 ~alk~g~R~DgR~l~efR~lei~fGk---e~gs~~vt--~G~Tkvm~~vt~~ia~Py~dRP~eG~~~I~telsPmA~~sf 90 (291)
T KOG1614|consen 16 NALKAGLRFDGRSLEEFRDLEIEFGK---EYGSVLVT--MGNTKVMARVTAQIAQPYIDRPHEGSFSIFTELSPMASPSF 90 (291)
T ss_pred HHHHhcccccccchhhhhceEEEecc---ccccEEEE--ecCeeEEEEeehhhcCcccCCCCCCeeeeeecccccccccc
Confidence 678899999999999999 7888764 56899985 99999999999999999999999999999999999999999
Q ss_pred ccCCCChhHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCCCceeecCC
Q psy9088 492 ETGRQTDTSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRHPDVTSTGD 571 (756)
Q Consensus 492 r~Gr~se~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrIP~V~v~~d 571 (756)
++|+.++...+|+++|+++++.|++||+|+|||..|+++|.|++|+.+|+.|||++||+++|+++||++++.|.+++.++
T Consensus 91 E~Gr~~~~~v~l~Rliek~~R~S~aiD~EsLCI~aG~kvW~IRiDlhiLd~DGnlvDaA~iAviaaL~hFrrPdvTv~g~ 170 (291)
T KOG1614|consen 91 EPGRKGESEVELSRLIEKALRRSKAIDTESLCIRAGEKVWLIRIDLHILDHDGNLVDAACIAVIAALMHFRRPDVTVGGE 170 (291)
T ss_pred CCCCccchHHHHHHHHHHHHHhccccchHHHHhhhCCeEEEEEEEEEEEcCCCCeehhHHHHHHHHHHhcCCCCcccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceEEecCCCCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE-------eecccccccCHHHHHHH
Q psy9088 572 QIIIHSAAEKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD-------RQKLGVDSAYANLVNKT 644 (756)
Q Consensus 572 ~v~I~~~de~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~-------~Qk~G~g~~t~e~l~ka 644 (756)
++.||+..+++|+||.|+|+|+|+||++|++|..+++|||..||.++++.++|+++ +||.|+-.++...+.+|
T Consensus 171 ev~ihp~eEr~PvPL~I~HmPIC~tf~ffnkG~ivviDpt~~Ee~~~dGs~vVt~Nk~rEVc~i~k~G~~~~~~~~i~~C 250 (291)
T KOG1614|consen 171 EVIIHPVEEREPVPLSIHHMPICFTFGFFNKGEIVVIDPTEKEEAVMDGSMVVTMNKNREVCAIQKSGGEILDESVIERC 250 (291)
T ss_pred eeEecChhccCCcceeeeeccceEEEEEecCceEEEeCCcHHHHhccCceEEEEEcCCccEEEEecCCCccccHHHHHHH
Confidence 99999999999999999999999999999988889999999999999999999997 78999999999999999
Q ss_pred HHHHHhhCccccCcceeeeecccchHHHhhhccCCCC
Q psy9088 645 DRILLDEGEKDSGETKVKVEKVGPGIADLISKSDIEP 681 (756)
Q Consensus 645 i~lAld~~~~~sk~~~~~v~~~~~~i~~~l~~~~~~~ 681 (756)
.++|.+- +.++..-|.++|+++|...
T Consensus 251 ~k~A~~~-----------a~~vt~ii~e~l~~d~~~r 276 (291)
T KOG1614|consen 251 YKLAKDR-----------AVEVTGIILEALEEDQRER 276 (291)
T ss_pred HHHHHHH-----------HHHHHHHHHHHHHHHHHHh
Confidence 9998887 7888888999998887544
No 7
>KOG1612|consensus
Probab=100.00 E-value=3.5e-42 Score=350.99 Aligned_cols=251 Identities=21% Similarity=0.268 Sum_probs=223.1
Q ss_pred cccccccccCCCCCccce-eEEeeccccccccceEeecccCC-cEEEEEEEeeecCCCCCCCCccEEEEEEEeCCCCCcC
Q psy9088 413 HFWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKP-SEVLAQVSCNMVIPKATRPNEGLLFINAELSPMASPQ 490 (756)
Q Consensus 413 r~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~-GkVIcgVK~EV~~P~~~~P~eG~L~VnVe~sP~asp~ 490 (756)
+...+.+|+|||.++||| +.+++|++|++|||||+ +++. |+||++||+|++.|+.++|++|.+.+.|+++|.++|.
T Consensus 15 ~g~e~~iR~DGR~~~~~Rpi~vetdVlp~tNGSaRV--k~g~~tdiivgVKaEvg~~~~~~p~egk~~~~VD~S~sasp~ 92 (288)
T KOG1612|consen 15 TGSEPDIRNDGRSCHQFRPIEVETDVLPGTNGSARV--KLGDGTDIIVGVKAEVGSPDDETPVEGKYLFFVDCSPSASPQ 92 (288)
T ss_pred cccCcccccCCcCccccceEEEEeccccCCCCcEEE--EecCCceEEEEEeeeccCccccCCCCCeEEEEEEecCCcCcc
Confidence 455689999999999999 79999999999999998 4888 4899999999999999999999999999999999999
Q ss_pred cccCCCChhHHHHHHHHHHHhhc-cCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCCCceeec
Q psy9088 491 FETGRQTDTSVMINRFLEKCFKE-SKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRHPDVTST 569 (756)
Q Consensus 491 fr~Gr~se~a~eLSslL~r~L~s-S~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrIP~V~v~ 569 (756)
|.....++...+|++.|+++|++ ...+|+.+|||.|| ++|.||||+.||++|||++||+++|+++||.+|+||++.+.
T Consensus 93 f~gRggde~~~eltsaLq~~l~~~~sgv~ls~L~lt~~-~~W~i~VDvlVi~s~gn~~dAiS~Ai~~AL~~T~lPkv~v~ 171 (288)
T KOG1612|consen 93 FQGRGGDELVEELTSALQRVLNSLGSGVDLSKLQLTPG-YCWKIYVDVLVISSDGNLLDAISIAIYAALNNTRLPKVIVA 171 (288)
T ss_pred ccCCChhhHHHHHHHHHHHHHhCcCcccchhheeccCC-eeEEEEEeEEEEecCCCHHHHHHHHHHHHHhcccCCccccc
Confidence 98666778899999999999998 44599999999998 89999999999999999999999999999999999999986
Q ss_pred CC---ceEEe-cCCCCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE-------eecccccccCH
Q psy9088 570 GD---QIIIH-SAAEKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD-------RQKLGVDSAYA 638 (756)
Q Consensus 570 ~d---~v~I~-~~de~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~-------~Qk~G~g~~t~ 638 (756)
.| ++++. +.++++...+.+..+|+.+|++.++. ++++|||.+||+|+.+.+.|.++ +.+-|.|.+.+
T Consensus 172 ~dd~~~~~i~~s~~~Yd~~~~~~~~~P~ivtlskIG~--~~lVD~T~eEe~~a~s~l~Isv~a~givs~~r~VG~G~l~~ 249 (288)
T KOG1612|consen 172 FDDDGEVEILLSDEEYDLMVKLVENVPLIVTLSKIGT--NMLVDPTAEEESVANSGLLISVSAGGIVSCTRSVGLGDLDP 249 (288)
T ss_pred cccCCceeeccCcccchhhhhhcccCCEEEEEEeecc--eEEccCCccHHHhhhcceEEEEecCcceEEEEEecCCCCCh
Confidence 54 45555 34555544455679999999999999 89999999999999999999987 33456667999
Q ss_pred HHHHHHHHHHHhhCccccCcceeeeecccchHHHhhhccCC
Q psy9088 639 NLVNKTDRILLDEGEKDSGETKVKVEKVGPGIADLISKSDI 679 (756)
Q Consensus 639 e~l~kai~lAld~~~~~sk~~~~~v~~~~~~i~~~l~~~~~ 679 (756)
+.+..|++.++.. ++.+.+.+++.|++...
T Consensus 250 s~i~~mle~~~~~-----------~e~l~~~l~k~L~~~e~ 279 (288)
T KOG1612|consen 250 SSIPEMLEQGKAV-----------VETLAPDLVKSLENEED 279 (288)
T ss_pred hhHHHHHHHHHHH-----------HHhhhHHHHHHhhhhhh
Confidence 9999999998887 88999999999987643
No 8
>PRK00173 rph ribonuclease PH; Reviewed
Probab=100.00 E-value=1.9e-34 Score=297.26 Aligned_cols=209 Identities=15% Similarity=0.165 Sum_probs=180.2
Q ss_pred cccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEeeecCCCC-CCCCccEEEEEEEeCCCCCcCcc----
Q psy9088 419 KRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCNMVIPKA-TRPNEGLLFINAELSPMASPQFE---- 492 (756)
Q Consensus 419 iRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~EV~~P~~-~~P~eG~L~VnVe~sP~asp~fr---- 492 (756)
+|+|||+++++| +.+++|++++|+|||++ ++|+|+|+|+||+++..|.. ..+++|.|.|+++++|+|++.++
T Consensus 1 ~R~DGR~~~e~R~i~~~~g~~~~a~GSa~v--~~G~T~Vla~V~~~~~~p~~~~~~~~g~l~v~~~~~p~a~~~~~~~~~ 78 (238)
T PRK00173 1 MRPDGRAADQLRPVTITRNFTKHAEGSVLV--EFGDTKVLCTASVEEGVPRFLKGQGQGWVTAEYGMLPRATHTRNDREA 78 (238)
T ss_pred CCCCCCCcccccCeEEEeCCCCCCCeeEEE--EecCcEEEEEEEcCCCCCCccCCCCcEEEEEEEecCCCCCcccccccc
Confidence 599999999999 89999999999999999 59999999999999998855 45789999999999999998773
Q ss_pred -cCCCChhHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCCCceeecCC
Q psy9088 493 -TGRQTDTSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRHPDVTSTGD 571 (756)
Q Consensus 493 -~Gr~se~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrIP~V~v~~d 571 (756)
+|++++.+.+++++|++.|++ +||++.| ++. .++|+++||++|||++|||++|+++||.|++++. .+
T Consensus 79 ~~g~~~~~~~~~sr~i~r~lr~--~i~l~~l----~~~--~i~v~v~VL~~DG~~~~aai~Aa~~AL~da~~~~---~~- 146 (238)
T PRK00173 79 AKGKQGGRTQEIQRLIGRSLRA--VVDLKAL----GER--TITIDCDVIQADGGTRTASITGAYVALADALNKL---VA- 146 (238)
T ss_pred cCCCCCccHHHHHHHHHHHHHH--hcCHHHc----CCe--EEEEEEEEEeCCCCHHHHHHHHHHHHHHHhhhhh---hc-
Confidence 567888899999999999996 8999998 444 4666777799999999999999999999998541 11
Q ss_pred ceEEecCCCCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE-------eec-ccccccCHHHHHH
Q psy9088 572 QIIIHSAAEKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD-------RQK-LGVDSAYANLVNK 643 (756)
Q Consensus 572 ~v~I~~~de~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~-------~Qk-~G~g~~t~e~l~k 643 (756)
+.+..++.++++|+++|++++++ .+++|||.+||+++++.|+|+++ +|+ +|+++++.+++.+
T Consensus 147 --------~~~~~~ip~~~~~~~vt~~~~~~--~~lvDpt~~Ee~~~~~~l~v~~~~~~~i~~v~~~g~g~~~~~e~l~~ 216 (238)
T PRK00173 147 --------RGKLKKNPLKDQVAAVSVGIVDG--EPVLDLDYEEDSAAETDMNVVMTGSGGFVEVQGTAEGAPFSREELDA 216 (238)
T ss_pred --------cCcccCCcccCceeEEEEEEECC--EEEECCCHHHHhcCCceEEEEECCCCCEEEEEccCCCCCcCHHHHHH
Confidence 11222345679999999999988 79999999999999999999987 445 3456899999999
Q ss_pred HHHHHHhh
Q psy9088 644 TDRILLDE 651 (756)
Q Consensus 644 ai~lAld~ 651 (756)
|+++|...
T Consensus 217 ~i~~A~~~ 224 (238)
T PRK00173 217 LLDLAEKG 224 (238)
T ss_pred HHHHHHHH
Confidence 99999887
No 9
>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=3.9e-33 Score=287.00 Aligned_cols=208 Identities=19% Similarity=0.222 Sum_probs=178.2
Q ss_pred ccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEeeecCCCCCC-CCccEEEEEEEeCCCCCcCc---c--
Q psy9088 420 RAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCNMVIPKATR-PNEGLLFINAELSPMASPQF---E-- 492 (756)
Q Consensus 420 RpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~EV~~P~~~~-P~eG~L~VnVe~sP~asp~f---r-- 492 (756)
|+|||++.++| +.+++|++++|+|||++. +|+|+|+|+|+++...|...+ +++|.|.|+++++|++++.+ +
T Consensus 1 R~DGR~~~e~R~i~i~~G~~~~A~GSa~v~--~G~T~Vla~V~~~~~~p~~~~~~~~g~l~v~~~~~p~a~~~~~~r~~~ 78 (236)
T TIGR01966 1 RPDGRKPDQLRPVSITRDFLKHAEGSVLIE--FGNTKVLCTASVEEKVPPFLRGSGEGWITAEYGMLPRATQTRNRRESA 78 (236)
T ss_pred CCCCCCCCCccCeEEEeCCcCCCCceEEEE--ecCCEEEEEEEccCccCCcccCCCcEEEEEEEecCCCCCCCCcccccc
Confidence 89999999999 899999999999999994 999999999999998886554 57999999999999999865 2
Q ss_pred cCCCChhHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCCCceeecCCc
Q psy9088 493 TGRQTDTSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRHPDVTSTGDQ 572 (756)
Q Consensus 493 ~Gr~se~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrIP~V~v~~d~ 572 (756)
.|++++.+.+++++|+++|++ +|+++.| ++. .|+|+++||++|||++|||++|+.+||.|++++....
T Consensus 79 ~g~~~~~~~e~~~~i~r~lr~--~i~l~~l----~~~--~i~I~v~VL~~DG~~~~aai~Aa~aAL~da~~~~~~~---- 146 (236)
T TIGR01966 79 KGKQSGRTQEIQRLIGRALRA--VVDLEAL----GER--TIWIDCDVIQADGGTRTASITGAFVALADAISKLHKR---- 146 (236)
T ss_pred CCCCCccHHHHHHHHHHHHHH--hcCHhhc----CCe--EEEEEEEEEeCCCCHHHHHHHHHHHHHHHHHHhhhhc----
Confidence 356766788999999999986 8999998 333 5888889999999999999999999999997642110
Q ss_pred eEEecCCCCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE-------eecc-cccccCHHHHHHH
Q psy9088 573 IIIHSAAEKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD-------RQKL-GVDSAYANLVNKT 644 (756)
Q Consensus 573 v~I~~~de~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~-------~Qk~-G~g~~t~e~l~ka 644 (756)
.... .+.++++|+++|++++++ .+++|||.+||+++++.|+|+++ +|+. |++.++++++.+|
T Consensus 147 ------~~~~--~ip~~~~~~~vt~~~~~~--~~v~Dpt~~Ee~~~~~~l~l~~~~~~~i~~i~~~g~~~~~~~~~l~~~ 216 (236)
T TIGR01966 147 ------GILK--ESPIRDFVAAVSVGIVDG--EPVLDLDYEEDSAADVDMNVVMTGSGGFVEVQGTAEEGPFSRDELNKL 216 (236)
T ss_pred ------Cccc--CCCccCceeEEEEEEECC--EEEECCChhHHhccCceEEEEEcCCCCEEEEEecCCCCCcCHHHHHHH
Confidence 0111 244679999999999998 79999999999999999999987 5553 4678999999999
Q ss_pred HHHHHhh
Q psy9088 645 DRILLDE 651 (756)
Q Consensus 645 i~lAld~ 651 (756)
+++|...
T Consensus 217 i~~a~~~ 223 (236)
T TIGR01966 217 LDLAKKG 223 (236)
T ss_pred HHHHHHH
Confidence 9998887
No 10
>PRK03983 exosome complex exonuclease Rrp41; Provisional
Probab=100.00 E-value=4.8e-32 Score=280.00 Aligned_cols=202 Identities=13% Similarity=0.063 Sum_probs=177.8
Q ss_pred cccccccccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEee--ecCCCCCCCCccEEEEEEEeCCCCCc
Q psy9088 413 HFWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCN--MVIPKATRPNEGLLFINAELSPMASP 489 (756)
Q Consensus 413 r~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~E--V~~P~~~~P~eG~L~VnVe~sP~asp 489 (756)
.++.+++|+|||+++++| +.+++|.+++|+|||++ ++|+|+|+|+|+++ +..|....|++|.|.++++++|+++.
T Consensus 8 ~~~~~~~R~DGR~~~~~R~i~i~~G~l~~a~GSa~v--~~G~T~Vl~~V~gp~e~~~~~~~~~~~~~l~v~~~~~p~~~~ 85 (244)
T PRK03983 8 LILEDGLRLDGRKPDELRPIKIEVGVLKNADGSAYL--EWGNNKIIAAVYGPREMHPRHLQLPDRAVLRVRYNMAPFSVD 85 (244)
T ss_pred hhccCCCCCCCCCcCcccceEEEeCCCCCCCeEEEE--EECCeEEEEEEecCCccccccccCCCcEEEEEEEEcCCCccc
Confidence 567899999999999999 89999999999999999 49999999999984 45666678999999999999999987
Q ss_pred CcccCCCChhHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCCCceeec
Q psy9088 490 QFETGRQTDTSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRHPDVTST 569 (756)
Q Consensus 490 ~fr~Gr~se~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrIP~V~v~ 569 (756)
.++.+++++.+.+++++|+++|+++.. ++.+ | .+.|.|.|+||++|||+++||++|+.+||.+++||
T Consensus 86 ~~~~~~~~~~~~~~s~~l~~~l~~~i~--~~~~---p---~~~I~I~i~VL~~DG~~~~aai~Aa~lAL~dagIp----- 152 (244)
T PRK03983 86 ERKRPGPDRRSIEISKVIREALEPAIM--LELF---P---RTVIDVFIEVLQADAGTRVAGITAASLALADAGIP----- 152 (244)
T ss_pred cccCCCCChhHHHHHHHHHHHHHHhcc--HHhC---C---CeEEEEEEEEEECCCCHHHHHHHHHHHHHHhcCCc-----
Confidence 655556788899999999999998543 3332 2 36788888999999999999999999999999999
Q ss_pred CCceEEecCCCCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE--------eecccccccCHHHH
Q psy9088 570 GDQIIIHSAAEKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD--------RQKLGVDSAYANLV 641 (756)
Q Consensus 570 ~d~v~I~~~de~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~--------~Qk~G~g~~t~e~l 641 (756)
+.++|.++|++++++ .+++|||.+||+++++.|+|+++ +++.| .++.+++
T Consensus 153 ------------------~~~~v~avtv~~~~~--~~i~DPt~~Ee~~~~~~l~va~~~~~~~I~~l~~~G--~~~~~~~ 210 (244)
T PRK03983 153 ------------------MRDLVAGCAVGKVDG--VIVLDLNKEEDNYGEADMPVAIMPRLGEITLLQLDG--NLTREEF 210 (244)
T ss_pred ------------------cccceeEEEEEEECC--EEEECCCHHHhccCCceEEEEEECCCCCEEEEEEec--CcCHHHH
Confidence 568999999999988 79999999999999999999986 33443 7999999
Q ss_pred HHHHHHHHhh
Q psy9088 642 NKTDRILLDE 651 (756)
Q Consensus 642 ~kai~lAld~ 651 (756)
.+|+++|...
T Consensus 211 ~~~i~~A~~~ 220 (244)
T PRK03983 211 LEALELAKKG 220 (244)
T ss_pred HHHHHHHHHH
Confidence 9999999988
No 11
>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=1.8e-31 Score=273.62 Aligned_cols=201 Identities=13% Similarity=0.115 Sum_probs=175.1
Q ss_pred ccccccccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEee--ecCCCCCCCCccEEEEEEEeCCCCCcC
Q psy9088 414 FWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCN--MVIPKATRPNEGLLFINAELSPMASPQ 490 (756)
Q Consensus 414 ~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~E--V~~P~~~~P~eG~L~VnVe~sP~asp~ 490 (756)
.|.+++|+|||+++++| +.+++|.+++|+|||++ ++|+|+|+|+|+++ +..+....|++|.|.|+++++|+++..
T Consensus 3 ~~~~~~R~DGR~~~e~R~~~~~~g~~~~a~GSa~~--~~G~T~Vl~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~a~~~ 80 (230)
T TIGR02065 3 ILEDGVRLDGRKPDELRPIKIEAGVLKNADGSAYV--EFGGTKIIAAVYGPREMHPRHLQLPDRAVLRVRYHMAPFSTDE 80 (230)
T ss_pred ccCCCcCCCCCCcccccCeEEEECCCCCCCeEEEE--EECCcEEEEEEeCCCccccccccCCCceEEEEEEEeCCcccCC
Confidence 46789999999999999 89999999999999999 49999999999995 445555678999999999999999976
Q ss_pred cccCCCChhHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCCCceeecC
Q psy9088 491 FETGRQTDTSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRHPDVTSTG 570 (756)
Q Consensus 491 fr~Gr~se~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrIP~V~v~~ 570 (756)
++.+.+++.+.+++++|+++|++. +.++.+ |+ ..++|.|+||++|||+++|+++|+.+||.+++||
T Consensus 81 ~~~~~~~~~~~~~s~~l~~~l~~~--i~~~~~---p~---~~i~i~v~vl~~DG~~~~aai~aa~lAL~dagIp------ 146 (230)
T TIGR02065 81 RKRPGPSRREIEISKVIREALEPA--ILLEQF---PR---TAIDVFIEVLQADAGTRCAGLTAASLALADAGIP------ 146 (230)
T ss_pred ccCCCCCccHHHHHHHHHHHHHHH--hChhhc---CC---eEEEEEEEEEEcCCCHHHHHHHHHHHHHHHcCCc------
Confidence 665668888999999999999985 444433 32 4566777899999999999999999999999999
Q ss_pred CceEEecCCCCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE--------eecccccccCHHHHH
Q psy9088 571 DQIIIHSAAEKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD--------RQKLGVDSAYANLVN 642 (756)
Q Consensus 571 d~v~I~~~de~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~--------~Qk~G~g~~t~e~l~ 642 (756)
|.++|.++|++++++ .+++|||.+||+++++.++|+++ +++. |.++++++.
T Consensus 147 -----------------~~~~v~avtv~~~~~--~~v~Dpt~~Ee~~~~~~l~va~~~~~~~i~~i~~~--g~~~~e~~~ 205 (230)
T TIGR02065 147 -----------------MRDLVVGVAVGKVDG--VVVLDLNEEEDMYGEADMPVAMMPKLGEITLLQLD--GDMTPDEFR 205 (230)
T ss_pred -----------------cccceeeEEEEEECC--eEEECCCHHHhhcCCCceEEEEeCCCCCEEEEEEe--cCcCHHHHH
Confidence 568999999999988 79999999999999999999984 3344 379999999
Q ss_pred HHHHHHHhh
Q psy9088 643 KTDRILLDE 651 (756)
Q Consensus 643 kai~lAld~ 651 (756)
+|+++|.+.
T Consensus 206 ~~l~~a~~~ 214 (230)
T TIGR02065 206 QALDLAVKG 214 (230)
T ss_pred HHHHHHHHH
Confidence 999999988
No 12
>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=99.94 E-value=4.3e-26 Score=265.88 Aligned_cols=209 Identities=13% Similarity=0.081 Sum_probs=177.3
Q ss_pred cccccccccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEE-eeecC--CC--CCCCCccEEEEEEEeCCC
Q psy9088 413 HFWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVS-CNMVI--PK--ATRPNEGLLFINAELSPM 486 (756)
Q Consensus 413 r~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK-~EV~~--P~--~~~P~eG~L~VnVe~sP~ 486 (756)
..|.+++|+|||+++++| +.+++|.++.|+|||++ +.|.|+|+|+|+ ++... +. .....+|++.++++++||
T Consensus 304 ~il~~g~R~DGR~~~e~Rpi~~~~g~l~~a~GSa~~--~~G~Tqvl~~vt~g~~~~~~~~~~~~~~~~~~~~~~y~~~pf 381 (684)
T TIGR03591 304 RILKEGKRIDGRDLDTIRPISIEVGVLPRTHGSALF--TRGETQALVVTTLGTERDEQIIDDLEGEYRKRFMLHYNFPPY 381 (684)
T ss_pred HHhcCCCCCCCCCCCCcCceEEEeCCCCCCCceEEE--EeCCeEEEEEEecCCcccccCCcccCCCccEEEEEEEEcCCC
Confidence 456789999999999999 89999999999999999 499999999997 33221 10 111347999999999999
Q ss_pred CCcCcc-cCCCChhHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCCCc
Q psy9088 487 ASPQFE-TGRQTDTSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRHPD 565 (756)
Q Consensus 487 asp~fr-~Gr~se~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrIP~ 565 (756)
|++.++ +|++++++..++++++++|++ +|++ ++++.|+|+|+++||++|||..+|+++|+.+||+++++|
T Consensus 382 s~~e~~~~g~~~rrei~~~~l~~ral~~--~i~~------~~~~p~tI~v~~~VLesdGs~~~Aai~aaslAL~dAgvP- 452 (684)
T TIGR03591 382 SVGEVGRVGGPGRREIGHGALAERALKA--VLPS------EEEFPYTIRVVSEILESNGSSSMASVCGGSLALMDAGVP- 452 (684)
T ss_pred CCCCcCCCCCCChHHHHHHHHHHHHHHH--hcCc------cccCCeEEEEEEEEEeCCCChHHHHHHHHHHHHHhcCCC-
Confidence 998876 577889999999999999987 5653 255679999999999999999999999999999999999
Q ss_pred eeecCCceEEecCCCCCCCCcccCCceEEEEEEEeCCce---eEEEeCChhHhhhcCCceEEEEE------eec-ccccc
Q psy9088 566 VTSTGDQIIIHSAAEKDPIPMTILHYPVTISYAVFNGGS---EGSTVPGFTECIQLDTALALSQD------RQK-LGVDS 635 (756)
Q Consensus 566 V~v~~d~v~I~~~de~e~vpL~i~~iPisvTfgli~d~~---~iLvDPT~eEE~~sda~LtVav~------~Qk-~G~g~ 635 (756)
+.++|.++|+|++++++ .+++||+.+|+..++..++|+.+ .|. .+.++
T Consensus 453 ----------------------~~~~Vagvs~gli~~~~~~~~il~D~~~~Ed~~~d~d~~va~t~~gI~~lq~d~k~~~ 510 (684)
T TIGR03591 453 ----------------------IKAPVAGIAMGLIKEGDERFAVLSDILGDEDHLGDMDFKVAGTRDGITALQMDIKIDG 510 (684)
T ss_pred ----------------------CcCCEEEEEEEEEcCCCcceEEEeCCChHHHhcCCceEEEEEcCCceEEEEEEcCcCC
Confidence 45789999999997532 49999999999999999998876 555 46678
Q ss_pred cCHHHHHHHHHHHHhhCcc
Q psy9088 636 AYANLVNKTDRILLDEGEK 654 (756)
Q Consensus 636 ~t~e~l~kai~lAld~~~~ 654 (756)
++.+.+.+|+++|..+..+
T Consensus 511 i~~~~l~~al~~a~~~~~~ 529 (684)
T TIGR03591 511 ITREIMEQALEQAKEGRLH 529 (684)
T ss_pred cCHHHHHHHHHHHHHHHHH
Confidence 9999999999999877443
No 13
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=99.94 E-value=1.3e-25 Score=262.32 Aligned_cols=205 Identities=13% Similarity=0.083 Sum_probs=173.7
Q ss_pred cccccccccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEeeecCCCCC-------CCCccEEEEEEEeC
Q psy9088 413 HFWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCNMVIPKAT-------RPNEGLLFINAELS 484 (756)
Q Consensus 413 r~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~EV~~P~~~-------~P~eG~L~VnVe~s 484 (756)
.-|.+++|+|||+++++| +.+++|.++.|+|||++ +.|+|+|+|+|+. +.|... ..++|++.++++++
T Consensus 308 ~il~~g~R~DGR~~~e~Rpi~~~~g~l~~a~GSal~--~~G~T~Vl~~vt~--g~~~~~~~~~~~~~~~~~~~~~~y~~~ 383 (693)
T PRK11824 308 RILEEGIRIDGRKLDEIRPISIEVGVLPRTHGSALF--TRGETQALVVATL--GTLRDEQIIDGLEGEYKKRFMLHYNFP 383 (693)
T ss_pred HHhcCCCCCCCCCcCcccceEEEeCCCCCCCceEEE--EECCeEEEEEEec--CCCcccccccccCCCCcEEEEEEEEcC
Confidence 345689999999999999 89999999999999999 4999999999973 222211 12689999999999
Q ss_pred CCCCcCc-ccCCCChhHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCC
Q psy9088 485 PMASPQF-ETGRQTDTSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRH 563 (756)
Q Consensus 485 P~asp~f-r~Gr~se~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrI 563 (756)
|||+..+ +.|++++++..++++++++|++ +|++ ++++.|+|+|+++||++|||..+|+++|+.+||+++++
T Consensus 384 pfs~~e~~~~~~~~rre~~~~~li~ral~~--vi~~------~~~~p~~I~v~~~VLe~dGs~~~Aai~aaslAL~dAgv 455 (693)
T PRK11824 384 PYSVGETGRVGSPGRREIGHGALAERALEP--VLPS------EEEFPYTIRVVSEILESNGSSSMASVCGSSLALMDAGV 455 (693)
T ss_pred CCCCCCcCCCCCCChhHHHHHHHHHHHHHH--hcCc------ccCCCEEEEEEEEEEecCCCHHHHHHHHHHHHHHhcCC
Confidence 9999876 4567889999999999999987 5553 24567999999999999999999999999999999999
Q ss_pred CceeecCCceEEecCCCCCCCCcccCCceEEEEEEEeCCce--eEEEeCChhHhhhcCCceEEEEE------eecc-ccc
Q psy9088 564 PDVTSTGDQIIIHSAAEKDPIPMTILHYPVTISYAVFNGGS--EGSTVPGFTECIQLDTALALSQD------RQKL-GVD 634 (756)
Q Consensus 564 P~V~v~~d~v~I~~~de~e~vpL~i~~iPisvTfgli~d~~--~iLvDPT~eEE~~sda~LtVav~------~Qk~-G~g 634 (756)
| +.+++.++|+|+++++. .+++||+..|+..++..++|+.+ +|.. ..+
T Consensus 456 P-----------------------~~~~Va~vs~gli~~~~~~~il~D~~~~Ed~~~d~d~~va~t~~gi~~lq~d~k~~ 512 (693)
T PRK11824 456 P-----------------------IKAPVAGIAMGLIKEGDKYAVLTDILGDEDHLGDMDFKVAGTRDGITALQMDIKID 512 (693)
T ss_pred C-----------------------ccCceeEEEEEEEcCCCceEEEcCCChhhHhhCCceEEEEecCCceEEEEEecccC
Confidence 9 45799999999996532 38899999999999999999876 4522 234
Q ss_pred ccCHHHHHHHHHHHHhhC
Q psy9088 635 SAYANLVNKTDRILLDEG 652 (756)
Q Consensus 635 ~~t~e~l~kai~lAld~~ 652 (756)
+++.+.+.+|++.|..+.
T Consensus 513 ~i~~~~l~~al~~a~~g~ 530 (693)
T PRK11824 513 GITREILEEALEQAKEGR 530 (693)
T ss_pred CcCHHHHHHHHHHHHHHH
Confidence 799999999999998764
No 14
>COG0689 Rph RNase PH [Translation, ribosomal structure and biogenesis]
Probab=99.91 E-value=7.6e-24 Score=217.38 Aligned_cols=202 Identities=15% Similarity=0.141 Sum_probs=171.8
Q ss_pred cccccccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEeeecC--CCCCCCCccEEEEEEEeCCCCCcCc
Q psy9088 415 WKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCNMVI--PKATRPNEGLLFINAELSPMASPQF 491 (756)
Q Consensus 415 L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~EV~~--P~~~~P~eG~L~VnVe~sP~asp~f 491 (756)
..++.|+|||+++|.| +.++.|++++|+||+++ +.|+|+|+|+|+++... +....+.+|++.+.+.|.|+++...
T Consensus 4 ~~~~~R~dgR~~delR~i~~~~~~~~~a~GS~~~--~~G~tkVic~vsGp~e~~p~~l~~~~~g~~t~ey~m~p~sT~~R 81 (230)
T COG0689 4 SEDGMRPDGRKPDELRPIKITRGVLKHAEGSSLI--EFGNTKVICTVSGPREPVPRFLRGTGKGWLTAEYGMLPRSTDER 81 (230)
T ss_pred cccCcCCCCCCcccccceEEEeccccCCCccEEE--EeCCeEEEEEEecCCCCCChhhcCCCceEEEEEEeccccccccc
Confidence 3478999999999999 89999999999999999 59999999999976532 2234467899999999999998433
Q ss_pred ccCCCCh-hHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCCCceeecC
Q psy9088 492 ETGRQTD-TSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRHPDVTSTG 570 (756)
Q Consensus 492 r~Gr~se-~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrIP~V~v~~ 570 (756)
....++. +.++++++|.++|+. +|+|+.| |. -.|+||+.||++||+.+-|+++|+..||.++++|
T Consensus 82 ~~~~~~~gR~~eisrli~~al~~--~i~L~~~---p~---~~I~i~~dVlqaDggTrta~It~A~lAL~DAgip------ 147 (230)
T COG0689 82 KKREADRGRTKEISRLIGRALRA--VIDLELL---PE---STIDIDCDVLQADGGTRTASITGASLALADAGIP------ 147 (230)
T ss_pred ccccccccchhHHHHHHHHHHHH--Hhhhhhc---Cc---cEEEEEEEEEECCCCeeeehhhHHHHHHHHcCCc------
Confidence 2211233 689999999999987 7888876 43 3799999999999999999999999999999998
Q ss_pred CceEEecCCCCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE-------ee-cccccccCHHHHH
Q psy9088 571 DQIIIHSAAEKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD-------RQ-KLGVDSAYANLVN 642 (756)
Q Consensus 571 d~v~I~~~de~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~-------~Q-k~G~g~~t~e~l~ 642 (756)
+.++..++|+|++++ .+++|++..|++.+.+.++|++. +| ..-.++++++++.
T Consensus 148 -----------------l~~~vaaiSvgi~~~--~~~lDl~~~Eds~~~~d~~v~~~~~~~~~ei~~~~~~~~~~~del~ 208 (230)
T COG0689 148 -----------------LRDLVAAISVGIVDG--VIVLDLDYEEDSAAEADMNVVMTGNGGLVEIQGLAEDGPFTEDELL 208 (230)
T ss_pred -----------------hhhheeEeEEEEECC--ceEecCcchhhcccccCceEEEEecCCeEEEEEEeccCCcCHHHHH
Confidence 457899999999999 69999999999999999999987 22 3345689999999
Q ss_pred HHHHHHHhh
Q psy9088 643 KTDRILLDE 651 (756)
Q Consensus 643 kai~lAld~ 651 (756)
+++++|..+
T Consensus 209 ~lL~la~~g 217 (230)
T COG0689 209 ELLDLAIKG 217 (230)
T ss_pred HHHHHHHHH
Confidence 999998877
No 15
>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=99.89 E-value=1.7e-22 Score=188.69 Aligned_cols=127 Identities=29% Similarity=0.435 Sum_probs=113.2
Q ss_pred cce-eEEeeccccccccceEeecccCCcEEEEEEEeeecC-CCCCCC-CccEEEEEEEeCCCCCcCccc-CCCChhHHHH
Q psy9088 428 DFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCNMVI-PKATRP-NEGLLFINAELSPMASPQFET-GRQTDTSVMI 503 (756)
Q Consensus 428 efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~EV~~-P~~~~P-~eG~L~VnVe~sP~asp~fr~-Gr~se~a~eL 503 (756)
|+| +.+++|++++|||||++. +|+|+|+|+|++++.. |..+++ .+|.+.++|+++|++.+.++. +++++.+..|
T Consensus 1 e~R~i~i~~~~~~~a~GSa~v~--~G~T~V~~~V~~~~~~~~~~~~~~~~g~~~v~v~~~~~~~~~~~~~~~~~~~~~~l 78 (132)
T PF01138_consen 1 ELRPISIETGVLPRADGSARVS--LGNTKVICSVKGPIEPPPSNERDDAEGRLTVEVEFSPFASPSFRRGGRPDEEEREL 78 (132)
T ss_dssp CBEEEEEEESSSSSSSEEEEEE--ETTEEEEEEEEEEEEGCSCSTTSSSSEEEEEEEEECCCGSTSSSSSSSTHHHHHHH
T ss_pred CCccEEEEeCCCCCCCeEEEEE--ECCeEEEEEEEecccccchhcccCCCceEEEEEEeccccccccccccccchhHHHH
Confidence 689 799999999999999994 9999999999999988 555434 369999999999999988765 6688889999
Q ss_pred HHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCC-chhhHHHHHHHHHHhhCCCC
Q psy9088 504 NRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDG-NLLGCCSIAALAALAHFRHP 564 (756)
Q Consensus 504 SslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DG-NLlDAaslAa~AAL~dtrIP 564 (756)
+++|+++|+++..+ +++.+|.|+|+|+||++|| |++|||++|+++||.+++||
T Consensus 79 ~~~l~~~l~~~~~~--------~~~~~~~i~v~v~vl~~dG~~~~~a~~~A~~~AL~~~~iP 132 (132)
T PF01138_consen 79 SSLLERALRSSILL--------EGYPRWQIHVDVQVLSDDGGNLLDAAINAACLALLDAGIP 132 (132)
T ss_dssp HHHHHHHHHHTBST--------TTTSSEEEEEEEEEEECSSSSHHHHHHHHHHHHHHHHTCS
T ss_pred HHHHhhhccccccc--------cccCceEEEEEEEEEecCCCCHHHHHHHHHHHHHHhcCCC
Confidence 99999999875432 6778999999999999999 99999999999999999998
No 16
>KOG1068|consensus
Probab=99.88 E-value=2.3e-22 Score=206.50 Aligned_cols=201 Identities=16% Similarity=0.126 Sum_probs=170.8
Q ss_pred ccccccccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEeeecCCC--CCCCCccEEEEEEEeCCCCCcC
Q psy9088 414 FWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCNMVIPK--ATRPNEGLLFINAELSPMASPQ 490 (756)
Q Consensus 414 ~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~EV~~P~--~~~P~eG~L~VnVe~sP~asp~ 490 (756)
+-.++.|.|||++++.| +....|++++++|||++ +.|+|||||.|+|+...-. ...|+++.++|.+.+++|..-.
T Consensus 8 ~seeg~r~dgRr~~elR~i~~~~g~~~~a~GSay~--E~GnTKVl~aV~GPre~~~~~~~~~~~a~lnc~~~~a~Fst~~ 85 (245)
T KOG1068|consen 8 LSEEGLRTDGRRPNELRRIYARIGVLTQADGSAYM--EQGNTKVLCAVYGPREIRGKSARRPDKAVLNCEVSSAQFSTGD 85 (245)
T ss_pred cCccccccCCCChhHhhhhhhhcCccccCCccchh--hcCCeEEEEEEeCCcccccccccccccceEEEEEeeeccccch
Confidence 44689999999999999 88999999999999998 7999999999999765332 2257899999999999998776
Q ss_pred ccc-CCCChhHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCCCceeec
Q psy9088 491 FET-GRQTDTSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRHPDVTST 569 (756)
Q Consensus 491 fr~-Gr~se~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrIP~V~v~ 569 (756)
++. ...+.++.+++.+|+++|.+ +|.++- .|. .+|+|.|+||++||+.+.+|++|+..||.+++||
T Consensus 86 r~~~~~~~rr~~e~s~~L~~afe~--~I~~~l---yPr---sqIDI~v~VleddG~~laa~inaatlAL~daGI~----- 152 (245)
T KOG1068|consen 86 RKKRPKGDRREKELSLMLQQAFEP--VILLEL---YPR---SQIDIYVQVLEDDGSNLAAAINAATLALADAGIP----- 152 (245)
T ss_pred hccCCCccHHHHHHHHHHHHHHHH--HHHhhh---Ccc---ccceEEEEEEECCCccHHHHHHHHHHHHHHcCCC-----
Confidence 663 34567889999999999987 454433 353 4899999999999999999999999999999999
Q ss_pred CCceEEecCCCCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE--------eecccccccCHHHH
Q psy9088 570 GDQIIIHSAAEKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD--------RQKLGVDSAYANLV 641 (756)
Q Consensus 570 ~d~v~I~~~de~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~--------~Qk~G~g~~t~e~l 641 (756)
|.++..++|++++++ ..++||+..||......++|++. .|.. +.+..+.+
T Consensus 153 ------------------m~D~i~~~t~~l~~~--~~l~Dl~~~eesa~~~~ltVa~l~~~~~i~~l~~~--~~~~~d~l 210 (245)
T KOG1068|consen 153 ------------------MYDLITACTAGLADG--TPLLDLTSLEESARAPGLTVAALPNREEIALLQLD--ERLHCDHL 210 (245)
T ss_pred ------------------hhhhhhhceeeecCC--ccccccccchhhccCCceEEEEecCcceEEEEEec--CCCCHHHH
Confidence 568999999999999 79999999999999989999986 3333 36778888
Q ss_pred HHHHHHHHhh
Q psy9088 642 NKTDRILLDE 651 (756)
Q Consensus 642 ~kai~lAld~ 651 (756)
...+++|+.+
T Consensus 211 ~~vl~~a~~~ 220 (245)
T KOG1068|consen 211 ETVLELAIAG 220 (245)
T ss_pred HHHHHHHHHH
Confidence 8888887775
No 17
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=99.85 E-value=3.4e-20 Score=218.80 Aligned_cols=209 Identities=12% Similarity=0.122 Sum_probs=170.0
Q ss_pred ccccccccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEe-eecCC-----CCCCCCccEEEEEEEeCCC
Q psy9088 414 FWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSC-NMVIP-----KATRPNEGLLFINAELSPM 486 (756)
Q Consensus 414 ~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~-EV~~P-----~~~~P~eG~L~VnVe~sP~ 486 (756)
-+.+++|+|||+++++| +.+++|.++.|+|||++. .|.|+|+|+|+. +...+ ....+..+.+.++++++|+
T Consensus 433 i~~~g~R~DGR~~~eiRpI~~e~G~Lp~A~GSAlf~--~G~TqVLatVtlGp~~~~q~~d~l~~~~~~~~f~~~y~fPPf 510 (891)
T PLN00207 433 IVEGGKRSDGRTPDEIRPINSSCGLLPRAHGSALFT--RGETQALAVVTLGDKQMAQRIDNLVDADEVKRFYLQYSFPPS 510 (891)
T ss_pred HhcCCCCCCCCCcCccceEEEEeCCcCCCCceEEEE--ECCeEEEEEEEecCccccccccccccccceeeEEEEEEcCCC
Confidence 55679999999999999 799999999999999984 899999999974 32111 1112567899999999999
Q ss_pred CCcCc-ccCCCChhHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCCCc
Q psy9088 487 ASPQF-ETGRQTDTSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRHPD 565 (756)
Q Consensus 487 asp~f-r~Gr~se~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrIP~ 565 (756)
+...+ +.+++++++...+++++++|++ +|..+ ..+.|.|+|++.||++||+...|+++|+.+||++++||
T Consensus 511 s~ge~~r~g~psrREi~hg~L~eRALrp--vip~~------~~fP~tIrV~~~VLesDGSssmAaV~aaSLALmDAGIP- 581 (891)
T PLN00207 511 CVGEVGRIGAPSRREIGHGMLAERALEP--ILPSE------DDFPYTIRVESTITESNGSSSMASVCGGCLALQDAGVP- 581 (891)
T ss_pred CCccccCCCCCCHHHHHHHHHHHHHHHH--hCCcc------cCCCEEEEEEEEEEeCCCChHHHHHHHHHHHHHhcCCC-
Confidence 97544 5577888999999999999987 33221 23678999999999999999999999999999999999
Q ss_pred eeecCCceEEecCCCCCCCCcccCCceEEEEEEEeCC-------cee-EEEeCChhHhhhcCCceEEEEE------eec-
Q psy9088 566 VTSTGDQIIIHSAAEKDPIPMTILHYPVTISYAVFNG-------GSE-GSTVPGFTECIQLDTALALSQD------RQK- 630 (756)
Q Consensus 566 V~v~~d~v~I~~~de~e~vpL~i~~iPisvTfgli~d-------~~~-iLvDPT~eEE~~sda~LtVav~------~Qk- 630 (756)
|.++..++++|++.+ +.. +++||+..|+..++..+.|+-+ +|.
T Consensus 582 ----------------------mk~~VAGvsvGli~d~~~~~~~g~~~IL~Dp~g~Ed~~gdmDfkVAgT~~gIt~iqmd 639 (891)
T PLN00207 582 ----------------------VKCPIAGIAMGMVLDTEEFGGDGSPLILSDITGSEDASGDMDFKVAGNEDGITAFQMD 639 (891)
T ss_pred ----------------------ccCceeEEEEEEEecccccCCCCcEEEEeCCCHHHHhcCCceEEEEecccceEEEEEe
Confidence 678999999999932 234 6679999999998888888765 332
Q ss_pred ccccccCHHHHHHHHHHHHhhCccc
Q psy9088 631 LGVDSAYANLVNKTDRILLDEGEKD 655 (756)
Q Consensus 631 ~G~g~~t~e~l~kai~lAld~~~~~ 655 (756)
...++++.+.+.+|++.|.++..+-
T Consensus 640 ~k~~gis~e~l~eAL~~A~~g~~~I 664 (891)
T PLN00207 640 IKVGGITLPIMERALLQAKDGRKHI 664 (891)
T ss_pred cccCCCCHHHHHHHHHHHHHHHHHH
Confidence 2335689999999999998875443
No 18
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=99.85 E-value=4.2e-20 Score=216.27 Aligned_cols=183 Identities=15% Similarity=0.145 Sum_probs=154.6
Q ss_pred eEEeecccc-ccccceEeecccCCcEEEEEEEeeecCCCCCCCCccEEEEEEEeCCCC--Cc----Cc--ccCCCChhHH
Q psy9088 431 SSENWTSIS-AENGEAVWCPWVKPSEVLAQVSCNMVIPKATRPNEGLLFINAELSPMA--SP----QF--ETGRQTDTSV 501 (756)
Q Consensus 431 ~~I~tGvIs-sAnGSA~vsa~Vg~GkVIcgVK~EV~~P~~~~P~eG~L~VnVe~sP~a--sp----~f--r~Gr~se~a~ 501 (756)
+.+++|.++ +|+|||++ +.|+|.|+|+|+++.. | ++..+.+.++|++.+.+ +. .| +.|+|++.+.
T Consensus 16 i~~e~G~ia~qAdGSa~v--~~G~T~VlatV~~~~~-~---~~~~df~pL~v~y~e~~~A~gkiP~~f~kreg~pse~ei 89 (693)
T PRK11824 16 LTLETGKLARQANGAVLV--RYGDTVVLVTVVASKE-P---KEGQDFFPLTVDYEEKTYAAGKIPGGFFKREGRPSEKET 89 (693)
T ss_pred EEEEECCcCCCCCeEEEE--EECCeEEEEEEEcCCC-C---CCCCCeeeeEEEEEehhhhccCCCcccccCCCCCChHHH
Confidence 678899995 79999998 4999999999999876 3 35567777777776544 22 33 5688999999
Q ss_pred HHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCch-hh-HHHHHHHHHHhhCCCCceeecCCceEEecCC
Q psy9088 502 MINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNL-LG-CCSIAALAALAHFRHPDVTSTGDQIIIHSAA 579 (756)
Q Consensus 502 eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNL-lD-AaslAa~AAL~dtrIP~V~v~~d~v~I~~~d 579 (756)
.+++++.+.|++. .|+.++|.++|+++||++||+. .| ||++||.+||.+++||
T Consensus 90 l~srlIdR~lrpl----------fp~~~~~~i~I~~~VL~~Dg~~~~d~aai~aAsaAL~~s~IP--------------- 144 (693)
T PRK11824 90 LTSRLIDRPIRPL----------FPKGFRNEVQVVATVLSVDPENDPDILAMIGASAALSISGIP--------------- 144 (693)
T ss_pred HHHHHHhhhHHHh----------CCCCCCeEEEEEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCC---------------
Confidence 9999999999872 4788999999999999999965 78 8999999999999999
Q ss_pred CCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE-----eecccccccCHHHHHHHHHHHHhhCcc
Q psy9088 580 EKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD-----RQKLGVDSAYANLVNKTDRILLDEGEK 654 (756)
Q Consensus 580 e~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~-----~Qk~G~g~~t~e~l~kai~lAld~~~~ 654 (756)
+.+++.++++|++++ .+++|||.+|++.++..|+|+.+ +...+++.++.+++.+|+++|.....+
T Consensus 145 --------~~~~v~av~vg~i~g--~~ivdPt~~E~~~s~~~l~va~t~~~i~mie~~~~~l~e~~l~~al~~a~~~~~~ 214 (693)
T PRK11824 145 --------FNGPIAAVRVGYIDG--EFVLNPTVEELEESDLDLVVAGTKDAVLMVESEAKELSEEVMLEAIEFGHEAIQE 214 (693)
T ss_pred --------cCCCeEEEEEEEECC--EEEEcCCHHHHhhCcceEEEEEccCceEEEECCCCCCCHHHHHHHHHHHHHHHHH
Confidence 346789999999988 79999999999999999988876 445566779999999999999877443
No 19
>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=99.84 E-value=5.4e-20 Score=215.07 Aligned_cols=182 Identities=16% Similarity=0.128 Sum_probs=153.1
Q ss_pred eEEeeccc-cccccceEeecccCCcEEEEEEEeeecCCCCCCCCccEEEEEEEeCCCCC--c----Cc--ccCCCChhHH
Q psy9088 431 SSENWTSI-SAENGEAVWCPWVKPSEVLAQVSCNMVIPKATRPNEGLLFINAELSPMAS--P----QF--ETGRQTDTSV 501 (756)
Q Consensus 431 ~~I~tGvI-ssAnGSA~vsa~Vg~GkVIcgVK~EV~~P~~~~P~eG~L~VnVe~sP~as--p----~f--r~Gr~se~a~ 501 (756)
+.+++|.+ ++|+|||++ +.|+|+|+|+|+++... ++..+.+.++|++.+.++ . .| +.|+|++.+.
T Consensus 7 i~ie~G~la~~AdGSa~v--~~G~T~VlatV~~~~~~----~~~~df~pL~vey~e~~~A~gkipg~f~kReg~p~~~ei 80 (684)
T TIGR03591 7 LTLETGKIARQADGAVVV--RYGDTVVLVTVVAAKEA----KEGQDFFPLTVNYQEKFYAAGKIPGGFFKREGRPSEKET 80 (684)
T ss_pred EEEEECCcCCCCCeEEEE--EECCeEEEEEEEcCCCC----CCCCceEeEEEEEEehhhhccCCCCCcccCCCCCCHHHH
Confidence 68899999 689999998 49999999999998652 234566777777654332 2 23 5688999999
Q ss_pred HHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchh-h-HHHHHHHHHHhhCCCCceeecCCceEEecCC
Q psy9088 502 MINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLL-G-CCSIAALAALAHFRHPDVTSTGDQIIIHSAA 579 (756)
Q Consensus 502 eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLl-D-AaslAa~AAL~dtrIP~V~v~~d~v~I~~~d 579 (756)
.++++|.+.|++. .|+++.|.++|+++||++||+.. | ||++|+.+||.+++||
T Consensus 81 l~srlIdR~lrpl----------fp~~~~~~i~V~~~VLs~Dg~~~~d~aai~aAsaAL~~s~IP--------------- 135 (684)
T TIGR03591 81 LTSRLIDRPIRPL----------FPKGFRNEVQVVATVLSYDPENDPDILAIIGASAALAISGIP--------------- 135 (684)
T ss_pred HHHHHHhhHHHHh----------cCCCCCceEEEEEEEEecCcCCchHHHHHHHHHHHHHhcCCC---------------
Confidence 9999999999762 57888999999999999999975 7 9999999999999999
Q ss_pred CCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE-----eecccccccCHHHHHHHHHHHHhhCc
Q psy9088 580 EKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD-----RQKLGVDSAYANLVNKTDRILLDEGE 653 (756)
Q Consensus 580 e~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~-----~Qk~G~g~~t~e~l~kai~lAld~~~ 653 (756)
+.+++.+++++++++ .+++|||.+|++.++..|+|+.+ +...+.+.++.+++.+|+++|.....
T Consensus 136 --------~~~~v~av~vg~idg--~~ildPt~~E~~~s~~~l~va~t~~~i~mie~~~~~i~e~~l~~al~~a~~~~~ 204 (684)
T TIGR03591 136 --------FNGPIAAVRVGYIDG--QYVLNPTVDELEKSDLDLVVAGTKDAVLMVESEAKELSEEVMLGAIEFGHEEIQ 204 (684)
T ss_pred --------cCCCeEEEEEEEECC--EEEEcCCHHHHhhCCceEEEEccCCcEEEEEcCCCCCCHHHHHHHHHHHHHHHH
Confidence 458899999999988 79999999999999988988755 44567677999999999999987754
No 20
>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=99.80 E-value=7.8e-19 Score=203.78 Aligned_cols=220 Identities=13% Similarity=0.065 Sum_probs=173.8
Q ss_pred ccCcchhcccchhhhcccccccccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEe---eec-CCC-CCC
Q psy9088 398 AYNPLWTMRGFTQTFHFWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSC---NMV-IPK-ATR 471 (756)
Q Consensus 398 ~~~rL~p~~~~eq~~r~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~---EV~-~P~-~~~ 471 (756)
+|..+.-....+ ..|.+++|+|||+++++| +.+++|+++.++|||++ ..|.|+|+|.+.. +.. .+. ...
T Consensus 317 ~~~~~~k~~~r~---~il~~g~R~DGR~~~eiR~i~~~~g~l~~a~GSa~~--~~G~Tqvl~~~tlG~~~~~q~~~~l~~ 391 (719)
T TIGR02696 317 AYRAVTKKLVRE---RVLTEGVRIDGRGVTDIRPLDAEVQVIPRVHGSALF--ERGETQILGVTTLNMLKMEQQIDSLSP 391 (719)
T ss_pred HHHHHHHHHHHH---HHhcCCCCCCCCCccccccceeecCCCCCCCceEEE--EecCcEEEEEEeCCCchhhhhcccccc
Confidence 455555555555 678899999999999999 89999999999999998 4999999998764 111 011 112
Q ss_pred CCccEEEEEEEeCCCCCcCccc-CCCChhHHHHHHHHHHHhhccCccc-cccceeecceeeEEEEEEEEEecCCCchhhH
Q psy9088 472 PNEGLLFINAELSPMASPQFET-GRQTDTSVMINRFLEKCFKESKCID-LESLCVVAEEKVWNVRVDLNVLNYDGNLLGC 549 (756)
Q Consensus 472 P~eG~L~VnVe~sP~asp~fr~-Gr~se~a~eLSslL~r~L~sS~~ID-LEsLCI~pGK~vW~L~VDV~VLs~DGNLlDA 549 (756)
.+.+.+.+++.++||+....++ ++++.++..++++++++|.+ +|+ ++.+ |. +|.+...||++||+..-|
T Consensus 392 ~~~~~~~~~YnfpPFSt~er~~~~~~~RReighg~La~rALe~--vI~~~e~f---P~----TIrvvseVLeSdGSss~A 462 (719)
T TIGR02696 392 ETSKRYMHHYNFPPYSTGETGRVGSPKRREIGHGALAERALVP--VLPSREEF---PY----AIRQVSEALGSNGSTSMG 462 (719)
T ss_pred cccceEEEEEeCCCCcccCCCCCCCCCccHHHHHHHHHHHHHH--hhCcHhhC---CC----EEEEEEEeeccCCcHHHH
Confidence 4578999999999999875443 45677899999999999987 554 4544 42 478888999999999999
Q ss_pred HHHHHHHHHhhCCCCceeecCCceEEecCCCCCCCCcccCCceEEEEEEEeCC---ce---eEEEeCChhHhhhcCCceE
Q psy9088 550 CSIAALAALAHFRHPDVTSTGDQIIIHSAAEKDPIPMTILHYPVTISYAVFNG---GS---EGSTVPGFTECIQLDTALA 623 (756)
Q Consensus 550 aslAa~AAL~dtrIP~V~v~~d~v~I~~~de~e~vpL~i~~iPisvTfgli~d---~~---~iLvDPT~eEE~~sda~Lt 623 (756)
++.|+.+||+|+++| |.++..++++|++++ +. .+|+||+..|+...+..+.
T Consensus 463 sIcaasLALmDAGVP-----------------------mkd~VAgis~Gli~e~~~~~~~~~iL~Di~g~ED~~Gdmdfk 519 (719)
T TIGR02696 463 SVCASTLSLLNAGVP-----------------------LKAPVAGIAMGLISDEVDGETRYVALTDILGAEDAFGDMDFK 519 (719)
T ss_pred HHHHHHHHHHHcCcc-----------------------hhheeeEEEEEEeccccCCCcceeEEeCCCchhhhcCCceEE
Confidence 999999999999999 679999999999955 21 3899999999999887777
Q ss_pred EEEE------eecc-cccccCHHHHHHHHHHHHhhCcc
Q psy9088 624 LSQD------RQKL-GVDSAYANLVNKTDRILLDEGEK 654 (756)
Q Consensus 624 Vav~------~Qk~-G~g~~t~e~l~kai~lAld~~~~ 654 (756)
|+-+ .|.. -..+++.+.+.+|+++|.++..+
T Consensus 520 vagt~~gIt~lQmd~ki~gi~~e~l~~aL~~A~~g~~~ 557 (719)
T TIGR02696 520 VAGTSEFVTALQLDTKLDGIPASVLASALKQARDARLA 557 (719)
T ss_pred EEecCCCEEEEEEEeeECCCCHHHHHHHHHHHHHHHHH
Confidence 7654 3322 23458999999999999887443
No 21
>KOG1069|consensus
Probab=99.71 E-value=1.6e-16 Score=159.15 Aligned_cols=181 Identities=17% Similarity=0.194 Sum_probs=145.9
Q ss_pred cce-eEEeeccccccccceEeecccCCcEEEEEEEeeecC-CCCCCCCccEEEEEEEeCCCCCcCcccCCCChhHHHHHH
Q psy9088 428 DFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCNMVI-PKATRPNEGLLFINAELSPMASPQFETGRQTDTSVMINR 505 (756)
Q Consensus 428 efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~EV~~-P~~~~P~eG~L~VnVe~sP~asp~fr~Gr~se~a~eLSs 505 (756)
+.| ...+.|+|++++|||.++ .|+|+|+|+|+|+... -..+.|++..+.|-+. |.+ |-.+..++.+++
T Consensus 4 ~lr~~~cei~iLsr~dGSs~fs--qgdT~V~c~V~GP~dvk~r~E~~~katleVi~r--p~~------G~~~~~eK~~e~ 73 (217)
T KOG1069|consen 4 RLRGIACEISILSRPDGSSEFS--QGDTKVICSVYGPIDVKARQEDPEKATLEVIWR--PKS------GVNGTVEKVLER 73 (217)
T ss_pred hhhhhhhhhceecCCCCcccee--cCCcEEEEEeeCCcchhhcccCchhceEEEEEe--ccc------CcchHHHHHHHH
Confidence 445 456689999999999996 8999999999998753 3445677777766654 544 445566789999
Q ss_pred HHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCCCceeecCCceEEecCCCCCCCC
Q psy9088 506 FLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRHPDVTSTGDQIIIHSAAEKDPIP 585 (756)
Q Consensus 506 lL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrIP~V~v~~d~v~I~~~de~e~vp 585 (756)
+|+++|.. +|-++ +.|.+ .|.|-++|+++||+.+.+|++||++||.|++||
T Consensus 74 iI~~tl~~--~I~l~---l~Prt---~iqVsiqvv~ddgs~LacaINaAclALvDaGIp--------------------- 124 (217)
T KOG1069|consen 74 IIRKTLSK--AIILE---LYPRT---TIQVSIQVVEDDGSTLACAINAACLALVDAGIP--------------------- 124 (217)
T ss_pred HHHHHHHH--hheee---ecCCc---eEEEEEEEEecCCcchHHHHHHHHHHHHhcCCc---------------------
Confidence 99999876 34332 24543 799999999999999999999999999999999
Q ss_pred cccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEEe---------ecccccccCHHHHHHHHHHHHh
Q psy9088 586 MTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQDR---------QKLGVDSAYANLVNKTDRILLD 650 (756)
Q Consensus 586 L~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~~---------Qk~G~g~~t~e~l~kai~lAld 650 (756)
|++++.++.+++.+++ .+++|||..+|..+.+..++++.. -....|.++.++|+.++++|--
T Consensus 125 --l~~mfcai~~~~~~d~-~lv~Dpt~~qek~~~~~~~lsf~~~~~~~~~vi~s~t~G~~~~d~lf~~le~a~~ 195 (217)
T KOG1069|consen 125 --LRSMFCAISCALHEDG-VLVLDPTAKQEKISTARATLSFEGGSLGEPKVIISETNGEKSEDQLFYVLELAQA 195 (217)
T ss_pred --hHHhhhhceEEEecCc-cEEECCcHHhhhhhhceEEEEEecCCCCCcceEEEeccCCCCHHHHHHHHHhhHH
Confidence 6799999999999997 799999999999998887777742 2335567899999999988653
No 22
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=99.36 E-value=2.7e-11 Score=144.25 Aligned_cols=183 Identities=16% Similarity=0.109 Sum_probs=139.4
Q ss_pred eEEeeccc-cccccceEeecccCCcEEEEEEEeeecCCCCCCCCccEEEEEEEeCCCCC-----c-Cc--ccCCCChhHH
Q psy9088 431 SSENWTSI-SAENGEAVWCPWVKPSEVLAQVSCNMVIPKATRPNEGLLFINAELSPMAS-----P-QF--ETGRQTDTSV 501 (756)
Q Consensus 431 ~~I~tGvI-ssAnGSA~vsa~Vg~GkVIcgVK~EV~~P~~~~P~eG~L~VnVe~sP~as-----p-~f--r~Gr~se~a~ 501 (756)
+.+++|-+ .+||||+.++ .|.|-|+|+|-+.- .| .+..+.+=+.|++--..+ | .| |-|+|++.+.
T Consensus 91 ~~~etG~~a~qA~gav~v~--~g~t~vl~t~~~~~-~~---~~~~dF~PLtV~y~Ek~~AaGkipggf~kREgrp~d~ei 164 (891)
T PLN00207 91 ILVETGHIGRQASGSVTVT--DGETIVYTSVCLAD-VP---SEPSDFFPLSVHYQERFSAAGRTSGGFFKREGRTKDHEV 164 (891)
T ss_pred EEEEhhHHHHhCCCcEEEE--ECCeEEEEEEEecc-CC---CCCCCccceeEeeeeehhhcCccCCceeccCCCCChHHH
Confidence 67889887 4899999974 89999999987532 22 123455555665422111 1 22 3478999999
Q ss_pred HHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCc--hhhHHHHHHHHHHhhCCCCceeecCCceEEecCC
Q psy9088 502 MINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGN--LLGCCSIAALAALAHFRHPDVTSTGDQIIIHSAA 579 (756)
Q Consensus 502 eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGN--LlDAaslAa~AAL~dtrIP~V~v~~d~v~I~~~d 579 (756)
.+++++.+.|++ .+..+- .-...|.++||++||. +--+|++||.+||..+.||
T Consensus 165 L~sRlIdR~lRP--lfp~~~--------~~etQI~i~VLsaDg~~~pd~~AInAASaAL~~SgIP--------------- 219 (891)
T PLN00207 165 LICRLIDRPLRP--TMPKGF--------YHETQILSWVLSYDGLHSPDSLAVTAAGIAVALSEVP--------------- 219 (891)
T ss_pred HHHHHHCccchh--hccccC--------CCCcEEEEEEEeeCCCCChhhHHHHHHHHHHHhhCCC---------------
Confidence 999999999987 444332 2346677899999998 7799999999999999999
Q ss_pred CCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE----ee-cccccccCHHHHHHHHHHHHhhCcc
Q psy9088 580 EKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD----RQ-KLGVDSAYANLVNKTDRILLDEGEK 654 (756)
Q Consensus 580 e~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~----~Q-k~G~g~~t~e~l~kai~lAld~~~~ 654 (756)
+..+..++++|++++ .+++|||.+|.+.++..|.|+.+ .. -.+...++.+++.+|+++|.++..+
T Consensus 220 --------~~gpVaAVrVG~idg--~~VlnPt~~E~~~s~ldLvvagt~~~IvMIE~~a~e~see~l~~Al~~a~~aik~ 289 (891)
T PLN00207 220 --------NLKAIAGVRVGLIGG--KFIVNPTTKEMEESELDLIMAGTDSAILMIEGYCNFLPEEKLLEAVEVGQDAVRA 289 (891)
T ss_pred --------ccCceEEEEEEEECC--EEEECCCHHHHhcCCeeEEEEEcCCeEEEEEcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 568999999999988 79999999999998888877665 11 2344457999999999999877543
No 23
>KOG1067|consensus
Probab=98.85 E-value=8.5e-09 Score=116.16 Aligned_cols=248 Identities=17% Similarity=0.145 Sum_probs=164.8
Q ss_pred hccccCccccccCCCccccCccccCcchhcccchhhhcccccccccCCCCCccce-eEEeeccccccccceEeecccCCc
Q psy9088 376 DSLAHGVAEIEAGDMRDELDDGAYNPLWTMRGFTQTFHFWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPS 454 (756)
Q Consensus 376 d~~~~~~~e~~a~~i~de~~~~~~~rL~p~~~~eq~~r~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~G 454 (756)
|..-..+||.+...+ .++|+...-..|=+ +.+..+.|.|||..++.| +.++.+.++..+|||++. -|.|
T Consensus 323 ~~~~e~~pe~e~~~i-----~~~fn~vskkv~Rs---~i~~~gkR~DGR~ldelR~I~ce~~m~~~lHGSaLFq--RGqT 392 (760)
T KOG1067|consen 323 DKVKEEFPEQEPSEI-----IESFNTVSKKVFRS---RILEEGKRCDGRDLDELRNISCEVDMLKTLHGSALFQ--RGQT 392 (760)
T ss_pred HHHHhhcCCccHHHH-----HHHHHHHHHHHHHH---HHHhcccccCCcchhhhcccceecCccccccchhhhh--cCce
Confidence 444455555554222 23455554443334 778899999999999999 899999999999999973 6778
Q ss_pred EEEEEEEeeecC-----CCCCCCCcc-EEEEEEEeCCCCCcCc-ccCCCChhHHHHHHHHHHHhhccCccccccceeecc
Q psy9088 455 EVLAQVSCNMVI-----PKATRPNEG-LLFINAELSPMASPQF-ETGRQTDTSVMINRFLEKCFKESKCIDLESLCVVAE 527 (756)
Q Consensus 455 kVIcgVK~EV~~-----P~~~~P~eG-~L~VnVe~sP~asp~f-r~Gr~se~a~eLSslL~r~L~sS~~IDLEsLCI~pG 527 (756)
+|+|.|...--. -....+++| .+..+.+++|-|.-.. +.|..+.++.-=..+-+++|.. +.|.
T Consensus 393 QvlctVtl~s~e~a~klD~l~~~~~~~~FmLhY~FPPyat~Evgkig~~nRRE~GhgaLAEkaL~~----------vlP~ 462 (760)
T KOG1067|consen 393 QVLCTVTLDSLESAQKLDSLIGPDNGINFMLHYEFPPYATNEVGKIGGLNRRELGHGALAEKALLP----------VLPE 462 (760)
T ss_pred eEEEEEEcCCHHHhhhhhhhccCccCceEEEEeccCCccccccccccCCcccccCchhHhhhhhhc----------cCcc
Confidence 999999873211 111234454 9999999999986533 3355555544445556666653 3456
Q ss_pred eeeEEEEEEEEEecCCCchhhHHHHHHHHHHhhCCCCceeecCCceEEecCCCCCCCCcccCCceEEEEEEEeCCc----
Q psy9088 528 EKVWNVRVDLNVLNYDGNLLGCCSIAALAALAHFRHPDVTSTGDQIIIHSAAEKDPIPMTILHYPVTISYAVFNGG---- 603 (756)
Q Consensus 528 K~vW~L~VDV~VLs~DGNLlDAaslAa~AAL~dtrIP~V~v~~d~v~I~~~de~e~vpL~i~~iPisvTfgli~d~---- 603 (756)
-+-++|+|.-.||+++|+--=|..-.-..||+|+++|. ......+.+|++-+-
T Consensus 463 dfPftIRv~SeVleSnGSsSMASvCGGslALmDaGvPv-----------------------~a~vAGvaiGlvt~td~e~ 519 (760)
T KOG1067|consen 463 DFPFTIRVTSEVLESNGSSSMASVCGGSLALMDAGVPV-----------------------SAHVAGVAIGLVTKTDPEK 519 (760)
T ss_pred cCceEEEEeeeeeecCCcchHHhhhcchhhhhhcCCcc-----------------------ccccceeEEEeEeccCccc
Confidence 66789999999999999876676777788999999992 334444555555331
Q ss_pred -----eeEEEeCChhHhhhcCCceEEEEEeeccccc--ccCHHHHHHHHHHHH-------hhCccccCcceeeeecccc
Q psy9088 604 -----SEGSTVPGFTECIQLDTALALSQDRQKLGVD--SAYANLVNKTDRILL-------DEGEKDSGETKVKVEKVGP 668 (756)
Q Consensus 604 -----~~iLvDPT~eEE~~sda~LtVav~~Qk~G~g--~~t~e~l~kai~lAl-------d~~~~~sk~~~~~v~~~~~ 668 (756)
-.++-|-...|....+-.+-|+=+ ..|.. +++.+.+.+++..|. +..+||...-+-.-.+|+|
T Consensus 520 g~i~dyriltDIlGiEd~~GDMDFKiAGt--~dGvTA~gi~l~Iv~eal~~a~~ar~~Il~~m~k~i~~Pr~~~~~y~P 596 (760)
T KOG1067|consen 520 GEIEDYRILTDILGIEDYNGDMDFKIAGT--NDGVTALGIPLKIVMEALQKAREARLQILDIMEKNINSPRGSDKEYSP 596 (760)
T ss_pred CCcccceeehhhcchhhhcCCcceeeccc--cCcceecCCcHHHHHHHHHhhhHHHHHHHHHHHhhcCCcccCccccCc
Confidence 135667777777766655555433 22222 467777777666553 4455666555556666776
No 24
>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=98.70 E-value=4e-08 Score=82.78 Aligned_cols=60 Identities=23% Similarity=0.259 Sum_probs=51.1
Q ss_pred CceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE-------eecccccc-cCHHHHHHHHHHHHhh
Q psy9088 590 HYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD-------RQKLGVDS-AYANLVNKTDRILLDE 651 (756)
Q Consensus 590 ~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~-------~Qk~G~g~-~t~e~l~kai~lAld~ 651 (756)
++|+++|++++++ .+++|||.+||.++++.++++++ .++.|++. ++++++.+|+++|+++
T Consensus 1 ~~~~avt~~~i~~--~~v~Dpt~~Ee~~~~~~l~~~~~~~~~~~~~~~~~g~~~~~~~~l~~~i~~A~~~ 68 (68)
T PF03725_consen 1 DPPVAVTVGIIDG--ELVVDPTAEEESLSDSSLTLAVDGTGNICTLQKSGGGSELSEDQLEEAIELAKKA 68 (68)
T ss_dssp SEEEEEEEEEETT--EEEES--HHHHHHSSEEEEEEEETTSSEEEEEEEEESSEEEHHHHHHHHHHHHHH
T ss_pred CCeEEEEEEEECC--EEEECCCHHHHhhcCCcEEEEEECCCCEEEEEEcCCCCCCCHHHHHHHHHHHhcC
Confidence 5799999999998 79999999999999999999998 44555555 9999999999999864
No 25
>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=98.36 E-value=1.3e-05 Score=94.96 Aligned_cols=181 Identities=13% Similarity=0.140 Sum_probs=133.8
Q ss_pred eEEeeccc-cccccceEeeccc-CCcEEEEEEEeeecCCCCCCCCccEEEEEEEeCCCCC-----c-Cc--ccCCCChhH
Q psy9088 431 SSENWTSI-SAENGEAVWCPWV-KPSEVLAQVSCNMVIPKATRPNEGLLFINAELSPMAS-----P-QF--ETGRQTDTS 500 (756)
Q Consensus 431 ~~I~tGvI-ssAnGSA~vsa~V-g~GkVIcgVK~EV~~P~~~~P~eG~L~VnVe~sP~as-----p-~f--r~Gr~se~a 500 (756)
+.+++|-+ .+||||+.+. . |.|-|+|++-+.- .| .+..+.+=+.|++--..+ | .| |-|+|++.+
T Consensus 19 ~~~etG~~A~qA~Gav~v~--~~G~t~vl~t~~~~~-~~---~~~~dF~PLtV~y~Ek~yA~GkiPggf~kREgrps~~e 92 (719)
T TIGR02696 19 IRFETGRLARQAAGSVVAY--LDDETMLLSATTASK-QP---KDQFDFFPLTVDVEERMYAAGRIPGSFFRREGRPSTDA 92 (719)
T ss_pred EEEEcchhHhhCCceEEEE--ecCCeEEEEEEEecC-CC---CCCCCCcceeEeeeehhhhcCccCCceeccCCCCChhh
Confidence 56788887 4899999974 7 8889999887532 22 123455655666432211 1 12 347899999
Q ss_pred HHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCC-chh-hHHHHHHHHHHhhCCCCceeecCCceEEecC
Q psy9088 501 VMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDG-NLL-GCCSIAALAALAHFRHPDVTSTGDQIIIHSA 578 (756)
Q Consensus 501 ~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DG-NLl-DAaslAa~AAL~dtrIP~V~v~~d~v~I~~~ 578 (756)
...++++.|.|++ +.|.-+..-+.|-++||++|+ |.. =.+++||.|||.=..||
T Consensus 93 iL~sRliDR~iRP----------LFp~~~~~e~qi~~~vls~D~~~~pdvla~~~ASaAl~iSdiP-------------- 148 (719)
T TIGR02696 93 ILTCRLIDRPLRP----------SFVKGLRNEVQVVVTVLSLNPDHLYDVVAINAASASTQLAGLP-------------- 148 (719)
T ss_pred hHHHHhhCCCCcc----------CCCCCCCcceEEEEEEEEcCCCCChHHHHHHHHHHHHHhcCCC--------------
Confidence 9999999999886 246666778899999999988 333 46789999999999998
Q ss_pred CCCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEEe----e------cc------------ccccc
Q psy9088 579 AEKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQDR----Q------KL------------GVDSA 636 (756)
Q Consensus 579 de~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~~----Q------k~------------G~g~~ 636 (756)
......++-+|.+++ .+++-||.+|-+.++=.|.|+-+. . -. +...+
T Consensus 149 ---------f~gPv~~vrVg~i~g--~~viNPt~~~~~~s~ldLvvagt~~~~~~~~i~MiE~~a~~~~~~~~~~~a~e~ 217 (719)
T TIGR02696 149 ---------FSGPIGGVRVALIDG--QWVAFPTHEQLEGAVFDMVVAGRVLENGDVAIMMVEAEATEKTWDLVKGGAEAP 217 (719)
T ss_pred ---------CCCceEEEEEEEECC--EEEECcCHHHHhhCeeeEEEEeeecCCCCccEEEEecCCccccccccccCCCCC
Confidence 446778899999998 799999999988877677776543 1 11 45568
Q ss_pred CHHHHHHHHHHHHhhC
Q psy9088 637 YANLVNKTDRILLDEG 652 (756)
Q Consensus 637 t~e~l~kai~lAld~~ 652 (756)
+.+.+.+|++.|+...
T Consensus 218 ~e~~~~~Ai~~a~~~i 233 (719)
T TIGR02696 218 TEEVVAEGLEAAKPFI 233 (719)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 9999999998887653
No 26
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=98.15 E-value=1.2e-05 Score=93.60 Aligned_cols=214 Identities=12% Similarity=0.066 Sum_probs=138.3
Q ss_pred cCcchhcccchhhhcccccccccCCCCCccce-eEEeeccccccccceEeecccCCcEEEEEEEeeecCCC-------CC
Q psy9088 399 YNPLWTMRGFTQTFHFWKESKRAQDWTDVDFM-SSENWTSISAENGEAVWCPWVKPSEVLAQVSCNMVIPK-------AT 470 (756)
Q Consensus 399 ~~rL~p~~~~eq~~r~L~~giRpDGR~~~efR-~~I~tGvIssAnGSA~vsa~Vg~GkVIcgVK~EV~~P~-------~~ 470 (756)
|..|.+..--. .-|..++|+|||...+.| +.++.|.+|.+|||+++. -|.|+.++.+.. +.+. ..
T Consensus 295 ~~~l~~~~vR~---~Il~~~vR~DGR~~~~VRpi~~ev~~lpr~HGS~LFt--RGeTQal~v~TL--G~~~d~Qvid~l~ 367 (692)
T COG1185 295 LEKLEKKPVRR---LILEGKVRIDGRFGDEVRPIGIEVGVLPRTHGSALFT--RGETQALVVVTL--GTPRDAQVIDILE 367 (692)
T ss_pred HHHHhHHHHHH---HHhcCCcccCCCCcceeeeeeEEecCCCCccchhhhc--cCCCcceEEEEc--CCcchhhhhhhcc
Confidence 44444433333 556789999999999999 789999999999999973 566676666654 2221 11
Q ss_pred CCCccEEEEEEEeCCCCCcC-cccCCCChhHHHHHHHHHHHhhccCccc-cccceeecceeeEEEEEEEEEecCCCchhh
Q psy9088 471 RPNEGLLFINAELSPMASPQ-FETGRQTDTSVMINRFLEKCFKESKCID-LESLCVVAEEKVWNVRVDLNVLNYDGNLLG 548 (756)
Q Consensus 471 ~P~eG~L~VnVe~sP~asp~-fr~Gr~se~a~eLSslL~r~L~sS~~ID-LEsLCI~pGK~vW~L~VDV~VLs~DGNLlD 548 (756)
.+..-++-.+.+++|++.-. .+-|.|+.++.==.++-++++.. .++ .+ .+-+.|.+---|+++.|+--=
T Consensus 368 ~e~~krfm~hYNFPp~SvGE~g~~g~p~RREiGHG~LA~Ral~~--vlp~~e-------~fpytiRvVsEi~eSNGSsSm 438 (692)
T COG1185 368 GEYKKRFLLHYNFPPFSVGETGRMGSPGRREIGHGALAERALAP--VLPSEE-------EFPYTIRVVSEILESNGSSSM 438 (692)
T ss_pred chhhhheeeeccCCCCCccccCCCCCCCcccccCchhhHHHHhh--hCCchh-------cCCceeeeeehhhcccCcccc
Confidence 23456788899999999432 22233433333333444455443 222 22 344678888899999998887
Q ss_pred HHHHHHHHHHhhCCCCceeecCCceEEecCCCCCCCCcccCCceEEEEEEEeCCce--eEEEeCChhHhhhcCCceEEEE
Q psy9088 549 CCSIAALAALAHFRHPDVTSTGDQIIIHSAAEKDPIPMTILHYPVTISYAVFNGGS--EGSTVPGFTECIQLDTALALSQ 626 (756)
Q Consensus 549 AaslAa~AAL~dtrIP~V~v~~d~v~I~~~de~e~vpL~i~~iPisvTfgli~d~~--~iLvDPT~eEE~~sda~LtVav 626 (756)
|..-+..+||+++++|. +.....+-.|++.++. .++-|-...|....+=.+-|+=
T Consensus 439 aSVCg~sLaLmdAGVPI-----------------------k~pVAGIAMGLI~eg~~~~vLsDI~G~EDhlGDMDFKVAG 495 (692)
T COG1185 439 ASVCGGSLALMDAGVPI-----------------------KAPVAGIAMGLIKEGDKYAVLSDILGDEDHLGDMDFKVAG 495 (692)
T ss_pred hhhhhhHHHHHhCCCcc-----------------------cccccchhccceecCCceEeeccccccccccCCceeEEec
Confidence 88888999999999993 3444455667776543 3555766667544443444441
Q ss_pred E------ee-cccccccCHHHHHHHHHHHHhh
Q psy9088 627 D------RQ-KLGVDSAYANLVNKTDRILLDE 651 (756)
Q Consensus 627 ~------~Q-k~G~g~~t~e~l~kai~lAld~ 651 (756)
+ .| ..-..+++++.+.+|+.-|..+
T Consensus 496 T~~GiTAlQMDiKi~Git~eim~~AL~QAk~a 527 (692)
T COG1185 496 TDDGITALQMDIKIKGITKEIMKKALEQAKGA 527 (692)
T ss_pred CCCcceeeeeeeeecCCCHHHHHHHHHHHHHH
Confidence 1 22 1234578999999888877654
No 27
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=97.93 E-value=0.00024 Score=83.27 Aligned_cols=179 Identities=15% Similarity=0.135 Sum_probs=130.1
Q ss_pred eEEeeccc-cccccceEeecccCCcEEEEEEEeeecCCCCCCCCccEEEEEEEeCCCCC-----c-Cc--ccCCCChhHH
Q psy9088 431 SSENWTSI-SAENGEAVWCPWVKPSEVLAQVSCNMVIPKATRPNEGLLFINAELSPMAS-----P-QF--ETGRQTDTSV 501 (756)
Q Consensus 431 ~~I~tGvI-ssAnGSA~vsa~Vg~GkVIcgVK~EV~~P~~~~P~eG~L~VnVe~sP~as-----p-~f--r~Gr~se~a~ 501 (756)
..+++|.+ .+|||+.++. .|.|-|+|++-+.-.. +....+-+.|++---.. | .| |-|||++.+.
T Consensus 16 l~~etg~~A~qa~gav~~~--~gdt~vl~t~~~~~~~-----~~~dF~PLtV~y~Ek~yaaGkiPGgf~kREGrpse~e~ 88 (692)
T COG1185 16 LTLETGKIARQANGAVLVR--YGDTVVLATVVASKPK-----EGQDFFPLTVNYEEKTYAAGKIPGGFFKREGRPSEKEI 88 (692)
T ss_pred EEEEcchhhhhcCccEEEE--ECCeEEEEEEeecCCC-----CCCCccceeEeeeeehhccCcCCCcccccCCCCCccch
Confidence 46788887 5899999984 8999999998875421 23444444444321110 1 12 4588999988
Q ss_pred HHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCch--hhHHHHHHHHHHhhCCCCceeecCCceEEecCC
Q psy9088 502 MINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGNL--LGCCSIAALAALAHFRHPDVTSTGDQIIIHSAA 579 (756)
Q Consensus 502 eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGNL--lDAaslAa~AAL~dtrIP~V~v~~d~v~I~~~d 579 (756)
..++++.+-+++ +.|..+.--+.|-.+|++.|+.. -=++++++.+||.=.++|
T Consensus 89 L~sRLIDRpiRP----------lFp~g~~~evqIv~tvls~D~~~~pdi~a~~gaSaAl~is~iP--------------- 143 (692)
T COG1185 89 LTSRLIDRPIRP----------LFPKGFRNEVQIVNTVLSVDPENDPDILAMVGASAALSLSGIP--------------- 143 (692)
T ss_pred hhhhhccccccc----------ccchhhccceEEEEEEEEECCCCCHHHHHHHHHHHHHhccCCC---------------
Confidence 888888877664 24555555788888999998844 446788999999999988
Q ss_pred CCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE-----eecccccccCHHHHHHHHHHHHhh
Q psy9088 580 EKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD-----RQKLGVDSAYANLVNKTDRILLDE 651 (756)
Q Consensus 580 e~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~-----~Qk~G~g~~t~e~l~kai~lAld~ 651 (756)
.....-++.+|++++ .+++-||.+|-+.++-.|.|+=+ +--.+...++.+.+.+|+..++..
T Consensus 144 --------f~gpi~~vrvg~idg--~~vlNPt~~e~~~s~lDlvVAGT~~aV~MVE~~a~~l~E~~ml~Av~fg~~~ 210 (692)
T COG1185 144 --------FLGPIGAVRVGYIDG--IFVLNPTLEELEESKLDLVVAGTKDAVNMVESEADELDEEVMLEAVEFGHEA 210 (692)
T ss_pred --------ccCccceEEEEEECC--EEEECCChHHhhhcceeeEecCChhhhheeecccccCCHHHHHHHHHHHHHH
Confidence 346778899999988 79999999999988777777643 334566678888888888777655
No 28
>KOG1067|consensus
Probab=97.02 E-value=0.0033 Score=72.33 Aligned_cols=207 Identities=16% Similarity=0.127 Sum_probs=126.1
Q ss_pred ce-eEEeecccc-ccccceEeecccCCcEEEEEEEeeecCCCCCCCCccEEEEEEEeCCCC------CcCc--ccCCCCh
Q psy9088 429 FM-SSENWTSIS-AENGEAVWCPWVKPSEVLAQVSCNMVIPKATRPNEGLLFINAELSPMA------SPQF--ETGRQTD 498 (756)
Q Consensus 429 fR-~~I~tGvIs-sAnGSA~vsa~Vg~GkVIcgVK~EV~~P~~~~P~eG~L~VnVe~sP~a------sp~f--r~Gr~se 498 (756)
-| +.+++|-+. .||||+.+ ..|.|.|+++|-+.- .|. |.+ .+-..|++---. .-.| |.+++.+
T Consensus 55 nR~i~~etGklaRfAngsvvv--~~GeT~Vm~Tv~~a~-~PS---p~q-FlPL~VdYqeK~aAvGRip~~fmRREg~tkd 127 (760)
T KOG1067|consen 55 NREILFETGKLARFANGSVVV--QMGETAVMTTVVLAD-KPS---PPQ-FLPLVVDYQEKFAAVGRIPGNFMRREGRTKD 127 (760)
T ss_pred CeEEEEecchhhhhcCCcEEE--ccCCeEEEEEEEecC-CCC---ccc-cceEEEehhhhhhhhccCCCcccccccCCcc
Confidence 46 678888875 69999997 477778888876642 221 223 555566642111 1112 3466777
Q ss_pred hHHHHHHHHHHHhhccCccccccceeecceeeEEEEEEEEEecCCCc--hhhHHHHHHHHHHhhCCCCceeecCCceEEe
Q psy9088 499 TSVMINRFLEKCFKESKCIDLESLCVVAEEKVWNVRVDLNVLNYDGN--LLGCCSIAALAALAHFRHPDVTSTGDQIIIH 576 (756)
Q Consensus 499 ~a~eLSslL~r~L~sS~~IDLEsLCI~pGK~vW~L~VDV~VLs~DGN--LlDAaslAa~AAL~dtrIP~V~v~~d~v~I~ 576 (756)
.+....+++.+-++.- .|.-++.-..+-..+|..||- +=-.+++|+.+||.-..+|
T Consensus 128 kEiL~~rLidrsirpl----------fp~g~~~etqi~~n~Ls~dG~~~pdvlainaas~Al~lsdvp------------ 185 (760)
T KOG1067|consen 128 KEILTGRLIDRPIRPL----------FPKGFYHETQILCNVLSSDGVHDPDVLAINAASAALSLSDVP------------ 185 (760)
T ss_pred hhheeeeccccccccC----------CcccchhHHHHHhhheecccccCchHHHHhHHHHHhhhccCC------------
Confidence 7777777777766541 222222222333455666772 2345788999999988888
Q ss_pred cCCCCCCCCcccCCceEEEEEEEeCCceeEEEeCChhHhhhcCCceEEEEE-----eecccccccCHHHHHHHHHHHHhh
Q psy9088 577 SAAEKDPIPMTILHYPVTISYAVFNGGSEGSTVPGFTECIQLDTALALSQD-----RQKLGVDSAYANLVNKTDRILLDE 651 (756)
Q Consensus 577 ~~de~e~vpL~i~~iPisvTfgli~d~~~iLvDPT~eEE~~sda~LtVav~-----~Qk~G~g~~t~e~l~kai~lAld~ 651 (756)
......++-.|+++. .+++.||..|-+.++-.|.++.+ +-......+..+++.+|++.+.+.
T Consensus 186 -----------w~gpig~vRigLi~G--e~vVNPT~kEmssS~Lnlvvagt~~~~vmle~~s~~i~qqdl~~Aikvg~~~ 252 (760)
T KOG1067|consen 186 -----------WNGPIGAVRIGLIDG--EFVVNPTRKEMSSSQLNLVVAGTKSQTVMLEGSSNNILQQDLLHAIKVGVKE 252 (760)
T ss_pred -----------CCCceeeeEeeeecc--eEEeCcchhhhhhccceeEEEeccceEEEEEcccccccHHHHHHHHHhccHH
Confidence 234556778899988 79999999999988777777665 112334456677777777765543
Q ss_pred C-----------cccc--CcceeeeecccchHHHhhhcc
Q psy9088 652 G-----------EKDS--GETKVKVEKVGPGIADLISKS 677 (756)
Q Consensus 652 ~-----------~~~s--k~~~~~v~~~~~~i~~~l~~~ 677 (756)
. +|.- ||+-=+...-.|.+.+...++
T Consensus 253 ~q~~i~~i~~L~k~~Gk~Kr~~~~~~~p~pel~K~v~~l 291 (760)
T KOG1067|consen 253 AQQIIQGIERLAKKYGKQKREPQKLFLPDPELVKHVHKL 291 (760)
T ss_pred HHHHHHHHHHHHHHhCccccchhhhcCCCHHHHHHHHHH
Confidence 2 2222 444333444556666654444
No 29
>KOG2465|consensus
Probab=78.20 E-value=0.6 Score=50.95 Aligned_cols=62 Identities=18% Similarity=0.289 Sum_probs=45.4
Q ss_pred CceEEEeecchhHHHHHhhhccccchhhhhhhcccccccccCCCCceeEEEeecCCCCceEEEEEeCCC
Q psy9088 235 SVKSVIFLGSIRYDALKRVYDARTSVSNKFTQRMSFGIFSNNSNSRIEFVKMKGPQGKGFAEMAVTKPK 303 (756)
Q Consensus 235 ~~~~viF~Gsv~y~~l~~~y~~~~s~~~~~~~~~~~g~~~~~~~~~~efv~m~GP~GkG~aE~Av~~~~ 303 (756)
+.+..+|+|.++||.++.+|.++.- +..-..+.| +..|.-.-+.|+||.|.|++|+|++...
T Consensus 228 ~~~~~lms~g~~~efVRm~gpqGkg---~aemavs~~----~~~G~etpl~e~gp~d~~E~e~~~~~~~ 289 (390)
T KOG2465|consen 228 DPKVTLMSGGVSYEFVRMAGPQGKG---RAEMAVSLG----HITGKETPLYERGPGDRGEVEVAVSGVV 289 (390)
T ss_pred chHHHHhhchhHhhHHHhhCcCCCC---chheeeecc----CCCCccCccccCCCCcchhhhhhhhhhh
Confidence 5788999999999999999988521 111112222 3445556689999999999999998743
No 30
>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=28.71 E-value=24 Score=31.13 Aligned_cols=13 Identities=15% Similarity=0.143 Sum_probs=9.3
Q ss_pred cccccccccCCCC
Q psy9088 413 HFWKESKRAQDWT 425 (756)
Q Consensus 413 r~L~~giRpDGR~ 425 (756)
.-|..++|+|||+
T Consensus 71 ~Il~~~~R~DGR~ 83 (83)
T PF03726_consen 71 MILEEGIRIDGRK 83 (83)
T ss_dssp HHHCTSBTTTS-B
T ss_pred HHHCCCCCCCCCC
Confidence 4466799999995
No 31
>PF06856 DUF1251: Protein of unknown function (DUF1251); InterPro: IPR009661 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf17; it is a family of uncharacterised viral proteins.
Probab=25.73 E-value=88 Score=30.41 Aligned_cols=46 Identities=22% Similarity=0.262 Sum_probs=37.7
Q ss_pred ceEeeecchhhhccceeecCCceEEEEEeeccCCCCceEEEeecchhHH
Q psy9088 200 CVCFTVDNFNEVFHDILVRDGEMVCVELVASDRAGSVKSVIFLGSIRYD 248 (756)
Q Consensus 200 ~i~F~iD~Fee~F~~~~v~~~e~~cveL~A~d~~~~~~~viF~Gsv~y~ 248 (756)
.|-=.||+|++-|=..++--|...+--++|.|+ .+.++|-|++.++
T Consensus 23 kv~V~v~s~~~~~iQatF~~~~~~v~iVNa~~~---~~~i~FDGF~d~~ 68 (120)
T PF06856_consen 23 KVRVRVDSFDNKYIQATFCCGHKHVCIVNARDK---QRPIVFDGFPDED 68 (120)
T ss_pred EEEEEEccCCCceEEEEEEeCCceEEEEeccCC---CCceEECCCCCcc
Confidence 667789999999999999888754445777765 6789999999997
No 32
>cd08353 Glo_EDI_BRP_like_7 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The structures of this family demonstrate domain swapping, which is shared by glyoxalase I and antibiotic resistance proteins.
Probab=21.62 E-value=65 Score=29.81 Aligned_cols=23 Identities=17% Similarity=0.273 Sum_probs=19.0
Q ss_pred ccccceEeeecchhhhccceeec
Q psy9088 196 MTYPCVCFTVDNFNEVFHDILVR 218 (756)
Q Consensus 196 ~~YP~i~F~iD~Fee~F~~~~v~ 218 (756)
..|.+|||.|||+|++++.+.=.
T Consensus 86 ~g~~hia~~v~d~d~~~~~l~~~ 108 (142)
T cd08353 86 LGLRRVMFAVDDIDARVARLRKH 108 (142)
T ss_pred CCceEEEEEeCCHHHHHHHHHHC
Confidence 46889999999999998876543
Done!