Query 030980
Match_columns 168
No_of_seqs 111 out of 1056
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 07:27:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030980.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030980hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG2123 RNase PH-related exori 100.0 2.4E-44 5.2E-49 289.4 18.8 158 1-168 54-211 (272)
2 KOG1614 Exosomal 3'-5' exoribo 100.0 8.7E-44 1.9E-48 281.4 14.0 156 1-168 50-210 (291)
3 PRK04282 exosome complex RNA-b 100.0 5.6E-38 1.2E-42 256.9 20.1 156 1-168 55-210 (271)
4 KOG1612 Exosomal 3'-5' exoribo 100.0 3.3E-37 7.1E-42 245.1 17.9 161 1-168 52-215 (288)
5 KOG1613 Exosomal 3'-5' exoribo 100.0 9.6E-32 2.1E-36 212.8 13.3 162 1-168 67-240 (298)
6 PRK00173 rph ribonuclease PH; 99.9 6.9E-26 1.5E-30 182.5 15.8 139 1-168 32-176 (238)
7 TIGR01966 RNasePH ribonuclease 99.9 1.1E-24 2.3E-29 175.3 15.4 139 1-168 31-175 (236)
8 PF01138 RNase_PH: 3' exoribon 99.9 1.7E-22 3.7E-27 148.3 12.8 106 1-119 23-132 (132)
9 PRK03983 exosome complex exonu 99.9 1.3E-21 2.8E-26 158.1 15.2 128 1-168 45-174 (244)
10 TIGR02065 ECX1 archaeal exosom 99.9 5.1E-21 1.1E-25 153.4 15.3 128 1-168 39-168 (230)
11 PRK11824 polynucleotide phosph 99.7 1.4E-16 3.1E-21 145.1 16.0 126 1-168 345-482 (693)
12 TIGR03591 polynuc_phos polyrib 99.7 5.4E-16 1.2E-20 141.1 16.0 126 1-168 341-479 (684)
13 PRK11824 polynucleotide phosph 99.7 1.5E-15 3.3E-20 138.4 14.3 122 1-168 35-166 (693)
14 TIGR03591 polynuc_phos polyrib 99.6 5.8E-15 1.3E-19 134.4 13.9 122 1-168 26-157 (684)
15 COG0689 Rph RNase PH [Translat 99.5 7.9E-14 1.7E-18 111.4 11.3 109 1-122 39-150 (230)
16 KOG1068 Exosomal 3'-5' exoribo 99.3 2.5E-11 5.4E-16 97.2 10.4 112 1-125 44-158 (245)
17 PLN00207 polyribonucleotide nu 99.3 1.2E-10 2.7E-15 107.8 15.7 108 1-121 469-583 (891)
18 KOG1069 Exosomal 3'-5' exoribo 99.2 4.3E-10 9.2E-15 87.7 11.9 99 1-120 26-125 (217)
19 TIGR02696 pppGpp_PNP guanosine 98.7 2.6E-07 5.6E-12 84.5 13.5 108 1-124 366-482 (719)
20 PLN00207 polyribonucleotide nu 98.4 3.9E-06 8.4E-11 78.4 12.0 122 1-168 110-241 (891)
21 TIGR02696 pppGpp_PNP guanosine 96.8 0.026 5.6E-07 52.3 12.1 98 2-119 40-148 (719)
22 KOG1067 Predicted RNA-binding 95.0 0.1 2.2E-06 47.1 7.3 104 2-120 390-500 (760)
23 COG1185 Pnp Polyribonucleotide 93.9 0.9 1.9E-05 41.9 11.0 99 1-120 35-144 (692)
24 KOG1067 Predicted RNA-binding 39.8 62 0.0013 29.9 5.0 100 1-120 77-186 (760)
25 PF08872 KGK: KGK domain; Int 38.1 69 0.0015 23.0 4.2 29 9-37 66-96 (114)
26 PF01019 G_glu_transpept: Gamm 26.0 29 0.00063 31.1 0.7 18 94-111 3-20 (510)
27 PF12745 HGTP_anticodon2: Anti 21.5 1.2E+02 0.0027 24.9 3.6 32 89-120 5-36 (273)
28 cd05798 SIS_TAL_PGI SIS_TAL_PG 21.4 1.3E+02 0.0028 22.0 3.3 29 97-125 57-85 (129)
29 PF10934 DUF2634: Protein of u 20.7 2.9E+02 0.0062 19.4 4.9 50 46-101 63-112 (112)
30 TIGR00066 g_glut_trans gamma-g 20.0 46 0.001 29.9 0.8 18 94-111 17-34 (516)
No 1
>COG2123 RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.4e-44 Score=289.44 Aligned_cols=158 Identities=35% Similarity=0.537 Sum_probs=144.6
Q ss_pred CCCcEEEEEEEeeecCCCCCCCCccEEEEEeeeCCCCCCCCCCCCcchhHHHHHHHHHHHHhcCCCCCCccccccceeee
Q 030980 1 MGSTDVIASVKAELGRPSAMQPDKGKVAIFVDCSPTAEPTFEGRGGEELSAELSSALQHCLLGGKSGAGAGIDLSSLVVV 80 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~~~~p~~G~i~~~v~~s~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~id~~~LcI~ 80 (168)
+|+|+|+||||+|+++|++++|++|.+.+|+|++|.+++.|+.+++++...+++++++|.+++ ++++|+++|||.
T Consensus 54 lG~Tqvv~gvK~eig~Pf~DtP~eG~~~~n~El~Plas~~fE~Gppde~aielsrvvdr~lr~-----s~aiDlekL~I~ 128 (272)
T COG2123 54 LGNTQVVVGVKAEIGEPFPDTPNEGVLVVNVELSPLASPSFEPGPPDELAIELSRVVDRGLRE-----SKAIDLEKLCIE 128 (272)
T ss_pred ecCeEEEEEEEcccCCCCCCCCCCceEEeeeeeeccccccccCCCCchhHHHHHHHHHHHHHh-----ccCcchhheeEe
Confidence 699999999999999999999999999999999999999999888889999999999999995 689999999999
Q ss_pred cCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEEecccccCCCCCceecCCcccccCCCCCCcEEEEEEEeC
Q 030980 81 EGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVHVAAEAASDEQPEVDISDEEFLQFDTSGVPVITTLTKVP 160 (168)
Q Consensus 81 ~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~~~~~~~~~~~~~~~~~~~~~~~l~i~~~Pi~vT~~~~~ 160 (168)
+||++|.+|+|++||++|||++||+++|++|||++||+|+.....++ ...+. .++++.||++.++|+++||+++|
T Consensus 129 ~g~kvwvv~vDv~vld~DGnl~Da~~lA~~aAL~~t~vP~~~~~~~~----~~v~~-~~~~~~pl~~~~~pi~vt~a~ig 203 (272)
T COG2123 129 EGKKVWVVFVDVHVLDYDGNLIDAASLAAVAALLNTRVPKAVEVGDG----EIVIE-VEEEPVPLPVSNPPISVTFAKIG 203 (272)
T ss_pred cCCEEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCceeecCCc----ceeec-ccCCCcccccCCCceEEEEEEEC
Confidence 99999999999999999999999999999999999999977666442 11122 23467889999999999999999
Q ss_pred CeEEeeCC
Q 030980 161 FPLIVHNL 168 (168)
Q Consensus 161 ~~~vvDp~ 168 (168)
+.+++||+
T Consensus 204 ~~lvvDPs 211 (272)
T COG2123 204 NVLVVDPS 211 (272)
T ss_pred CEEEeCCC
Confidence 99999996
No 2
>KOG1614 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp45 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.7e-44 Score=281.45 Aligned_cols=156 Identities=33% Similarity=0.475 Sum_probs=144.9
Q ss_pred CCCcEEEEEEEeeecCCCCCCCCccEEEEEeeeCCCCCCCCCCCCcchhHHHHHHHHHHHHhcCCCCCCccccccceeee
Q 030980 1 MGSTDVIASVKAELGRPSAMQPDKGKVAIFVDCSPTAEPTFEGRGGEELSAELSSALQHCLLGGKSGAGAGIDLSSLVVV 80 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~~~~p~~G~i~~~v~~s~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~id~~~LcI~ 80 (168)
+|+|+|+|.|++++.+|+.+||.+|.+.+..+++|++.++|+.+...+...+|+++|+++++. |++||+|+|||.
T Consensus 50 ~G~Tkvm~~vt~~ia~Py~dRP~eG~~~I~telsPmA~~sfE~Gr~~~~~v~l~Rliek~~R~-----S~aiD~EsLCI~ 124 (291)
T KOG1614|consen 50 MGNTKVMARVTAQIAQPYIDRPHEGSFSIFTELSPMASPSFEPGRKGESEVELSRLIEKALRR-----SKAIDTESLCIR 124 (291)
T ss_pred ecCeeEEEEeehhhcCcccCCCCCCeeeeeeccccccccccCCCCccchHHHHHHHHHHHHHh-----ccccchHHHHhh
Confidence 699999999999999999999999999999999999999999666667789999999999994 689999999999
Q ss_pred cCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEEecccccCCCCCceec---CCcccccCCCCCCcEEEEEE
Q 030980 81 EGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVHVAAEAASDEQPEVDI---SDEEFLQFDTSGVPVITTLT 157 (168)
Q Consensus 81 ~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~~~~~~~~~~~~~~~~---~~~~~~~l~i~~~Pi~vT~~ 157 (168)
.|+++|.|++|+++|++|||++||+++|+++||+|+|.|.+++.++ ++.+ .++++.||.++|||+|+||+
T Consensus 125 aG~kvW~IRiDlhiLd~DGnlvDaA~iAviaaL~hFrrPdvTv~g~-------ev~ihp~eEr~PvPL~I~HmPIC~tf~ 197 (291)
T KOG1614|consen 125 AGEKVWLIRIDLHILDHDGNLVDAACIAVIAALMHFRRPDVTVGGE-------EVIIHPVEEREPVPLSIHHMPICFTFG 197 (291)
T ss_pred hCCeEEEEEEEEEEEcCCCCeehhHHHHHHHHHHhcCCCCcccccc-------eeEecChhccCCcceeeeeccceEEEE
Confidence 9999999999999999999999999999999999999999999864 4444 35567999999999999999
Q ss_pred EeC--CeEEeeCC
Q 030980 158 KVP--FPLIVHNL 168 (168)
Q Consensus 158 ~~~--~~~vvDp~ 168 (168)
+|+ +..|+||+
T Consensus 198 ffnkG~ivviDpt 210 (291)
T KOG1614|consen 198 FFNKGEIVVIDPT 210 (291)
T ss_pred EecCceEEEeCCc
Confidence 997 89999996
No 3
>PRK04282 exosome complex RNA-binding protein Rrp42; Provisional
Probab=100.00 E-value=5.6e-38 Score=256.92 Aligned_cols=156 Identities=35% Similarity=0.484 Sum_probs=143.3
Q ss_pred CCCcEEEEEEEeeecCCCCCCCCccEEEEEeeeCCCCCCCCCCCCcchhHHHHHHHHHHHHhcCCCCCCccccccceeee
Q 030980 1 MGSTDVIASVKAELGRPSAMQPDKGKVAIFVDCSPTAEPTFEGRGGEELSAELSSALQHCLLGGKSGAGAGIDLSSLVVV 80 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~~~~p~~G~i~~~v~~s~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~id~~~LcI~ 80 (168)
+|+|+|+|+||+++..|..++|++|++.++++++|++.+.|+.+.+++.+.+++++|+|.|++ +..+|+++|||.
T Consensus 55 ~G~T~vl~~V~~~~~~p~~~~~~~g~i~~~v~~~~~a~~~~~~~~~~~~~~~l~~~l~r~l~~-----~~~~dl~~L~I~ 129 (271)
T PRK04282 55 LGNTQVLAGVKLEIGEPFPDTPNEGVLIVNAELLPLASPTFEPGPPDENAIELARVVDRGIRE-----SKAIDLEKLVIE 129 (271)
T ss_pred ECCCEEEEEEEEEEecCCCCCCCCCEEEEEEEECCCcCccccCCCCCHHHHHHHHHHHHHHhc-----cCCccHHHcEEe
Confidence 599999999999999999999999999999999999999887666778889999999999983 568999999999
Q ss_pred cCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEEecccccCCCCCceecCCcccccCCCCCCcEEEEEEEeC
Q 030980 81 EGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVHVAAEAASDEQPEVDISDEEFLQFDTSGVPVITTLTKVP 160 (168)
Q Consensus 81 ~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~~~~~~~~~~~~~~~~~~~~~~~l~i~~~Pi~vT~~~~~ 160 (168)
||+++|.|+|||+||++|||++||+++|+++||+|+++|++++.++. ...++.+..+|.++++|+++||++++
T Consensus 130 ~g~~~w~i~Vdv~VL~~dG~~~daa~~Aa~aAL~~~~iP~~~~~~~~-------~~~~~~~~~~l~~~~~p~~vt~~~~~ 202 (271)
T PRK04282 130 PGKKVWVVFIDVYVLDHDGNLLDASMLAAVAALLNTKVPAVEEGEDG-------VVDKLGEDFPLPVNDKPVTVTFAKIG 202 (271)
T ss_pred cCcEEEEEEEEEEEECCCCCHHHHHHHHHHHHHHhCCCCcEEEcCCc-------eeccCCCcccCCCCCeeEEEEEEEEC
Confidence 99999999999999999999999999999999999999999997541 33456677899999999999999999
Q ss_pred CeEEeeCC
Q 030980 161 FPLIVHNL 168 (168)
Q Consensus 161 ~~~vvDp~ 168 (168)
+.+|+||+
T Consensus 203 ~~~v~Dpt 210 (271)
T PRK04282 203 NYLIVDPT 210 (271)
T ss_pred CEEEECCC
Confidence 99999996
No 4
>KOG1612 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp42 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.3e-37 Score=245.12 Aligned_cols=161 Identities=51% Similarity=0.826 Sum_probs=144.9
Q ss_pred CCC-cEEEEEEEeeecCCCCCCCCccEEEEEeeeCCCCCCCCCCCCcchhHHHHHHHHHHHHhcCCCCCCccccccceee
Q 030980 1 MGS-TDVIASVKAELGRPSAMQPDKGKVAIFVDCSPTAEPTFEGRGGEELSAELSSALQHCLLGGKSGAGAGIDLSSLVV 79 (168)
Q Consensus 1 lG~-T~Vi~~Vk~ev~~p~~~~p~~G~i~~~v~~s~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~id~~~LcI 79 (168)
+|+ |.|++|||+|+++|+..+|++|.+.++|||+|.++|+|.+|..+++..+|++.|+|+|+. .+..+|+++||+
T Consensus 52 ~g~~tdiivgVKaEvg~~~~~~p~egk~~~~VD~S~sasp~f~gRggde~~~eltsaLq~~l~~----~~sgv~ls~L~l 127 (288)
T KOG1612|consen 52 LGDGTDIIVGVKAEVGSPDDETPVEGKYLFFVDCSPSASPQFQGRGGDELVEELTSALQRVLNS----LGSGVDLSKLQL 127 (288)
T ss_pred ecCCceEEEEEeeeccCccccCCCCCeEEEEEEecCCcCccccCCChhhHHHHHHHHHHHHHhC----cCcccchhheec
Confidence 355 999999999999999999999999999999999999999999999999999999999973 234699999999
Q ss_pred ecCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEEecccccCCCCCceecCCccc--ccCCCCCCcEEEEEE
Q 030980 80 VEGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVHVAAEAASDEQPEVDISDEEF--LQFDTSGVPVITTLT 157 (168)
Q Consensus 80 ~~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~~~~~~~~~~~~~~~~~~~~~--~~l~i~~~Pi~vT~~ 157 (168)
.|| ++|.||||+.|+++|||++||.++|+++||.+|++|++.+..+ +++..++.+..+++ ..+.+.++|+.+|++
T Consensus 128 t~~-~~W~i~VDvlVi~s~gn~~dAiS~Ai~~AL~~T~lPkv~v~~d--d~~~~~i~~s~~~Yd~~~~~~~~~P~ivtls 204 (288)
T KOG1612|consen 128 TPG-YCWKIYVDVLVISSDGNLLDAISIAIYAALNNTRLPKVIVAFD--DDGEVEILLSDEEYDLMVKLVENVPLIVTLS 204 (288)
T ss_pred cCC-eeEEEEEeEEEEecCCCHHHHHHHHHHHHHhcccCCccccccc--cCCceeeccCcccchhhhhhcccCCEEEEEE
Confidence 999 8999999999999999999999999999999999999999866 23444555555555 556788999999999
Q ss_pred EeCCeEEeeCC
Q 030980 158 KVPFPLIVHNL 168 (168)
Q Consensus 158 ~~~~~~vvDp~ 168 (168)
++|.+++|||.
T Consensus 205 kIG~~~lVD~T 215 (288)
T KOG1612|consen 205 KIGTNMLVDPT 215 (288)
T ss_pred eecceEEccCC
Confidence 99999999994
No 5
>KOG1613 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp43 [Translation, ribosomal structure and biogenesis]
Probab=99.98 E-value=9.6e-32 Score=212.79 Aligned_cols=162 Identities=25% Similarity=0.356 Sum_probs=131.8
Q ss_pred CCCcEEEEEEEeeecCCCCCCCCccEEEEEeeeCCCCCCCCCCCCcchhHHHHHHHHHHHHhcCCCCCCccccccceeee
Q 030980 1 MGSTDVIASVKAELGRPSAMQPDKGKVAIFVDCSPTAEPTFEGRGGEELSAELSSALQHCLLGGKSGAGAGIDLSSLVVV 80 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~~~~p~~G~i~~~v~~s~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~id~~~LcI~ 80 (168)
+|+|.|+|+||+|+.+|..++|+||.|..|++.+|.+++.|..+++.+..+.+++.|...+. +|+.|+++.|||.
T Consensus 67 ~G~ttvi~~Ik~ei~epstdapdeg~Iv~n~~lpplcs~r~RpG~p~dea~viSq~LhdtIl-----~S~ii~~k~Lci~ 141 (298)
T KOG1613|consen 67 SGKTTVICGIKAEIAEPSTDAPDEGDIVPNYALPPLCSSRFRPGPPTDEAQVISQKLHDTIL-----HSRIIPKKALCIK 141 (298)
T ss_pred cCCcEEEEEeeeeecccccCCCCCcceeecccCCcccccCCCCCCCchHHHHHHHHHHHHHH-----hcCCcchhhheee
Confidence 59999999999999999999999999999999999999999877777888999999988887 4689999999999
Q ss_pred cCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEEecccccCC----CC----Ccee---cCCcccccCCCCC
Q 030980 81 EGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVHVAAEAASD----EQ----PEVD---ISDEEFLQFDTSG 149 (168)
Q Consensus 81 ~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~~~~~~~~~----~~----~~~~---~~~~~~~~l~i~~ 149 (168)
+||++|.+|+|++||++||++||||+.|++|||.+.++|.+.+++..++- +. ..+. .-+.+.++|...+
T Consensus 142 ~gKaawvlYadIicLd~dG~~fDa~w~al~aAlknvklP~a~ide~~~~~~~t~e~~ic~~tlt~p~~ln~e~r~~~~~n 221 (298)
T KOG1613|consen 142 AGKAAWVLYADIICLDYDGPVFDACWNALMAALKNVKLPRAFIDERASDLRMTIEEIICDQTLTVPLMLNAENRAFASQN 221 (298)
T ss_pred ccceeeEEEEEEEEEcCCCcHHHHHHHHHHHHHhcCCCceeeecccchhhhhhHHHHHHhhhhcchhhhccccccccccC
Confidence 99999999999999999999999999999999999999999998754210 00 0000 0122335555555
Q ss_pred CcEEEEEEEeCCeEE-eeCC
Q 030980 150 VPVITTLTKVPFPLI-VHNL 168 (168)
Q Consensus 150 ~Pi~vT~~~~~~~~v-vDp~ 168 (168)
.|.+.+. ++++.++ +||.
T Consensus 222 ~~fS~~~-vl~~~li~adpT 240 (298)
T KOG1613|consen 222 SDFSEEE-VLDDVLIAADPT 240 (298)
T ss_pred CCccHHH-hhcceeEecCCC
Confidence 5665554 5555444 8874
No 6
>PRK00173 rph ribonuclease PH; Reviewed
Probab=99.94 E-value=6.9e-26 Score=182.50 Aligned_cols=139 Identities=21% Similarity=0.153 Sum_probs=116.1
Q ss_pred CCCcEEEEEEEeeecCCCC-CCCCccEEEEEeeeCCCCCCCCCC-----CCcchhHHHHHHHHHHHHhcCCCCCCccccc
Q 030980 1 MGSTDVIASVKAELGRPSA-MQPDKGKVAIFVDCSPTAEPTFEG-----RGGEELSAELSSALQHCLLGGKSGAGAGIDL 74 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~~-~~p~~G~i~~~v~~s~~~~~~~~~-----~~~~~~~~~l~~~l~~~l~~~~~~~~~~id~ 74 (168)
+|+|+|+|+|++++..|.. ..+++|.|+++++++|++++.+.+ +++++...+++++|+|.|+ ++||+
T Consensus 32 ~G~T~Vla~V~~~~~~p~~~~~~~~g~l~v~~~~~p~a~~~~~~~~~~~g~~~~~~~~~sr~i~r~lr-------~~i~l 104 (238)
T PRK00173 32 FGDTKVLCTASVEEGVPRFLKGQGQGWVTAEYGMLPRATHTRNDREAAKGKQGGRTQEIQRLIGRSLR-------AVVDL 104 (238)
T ss_pred ecCcEEEEEEEcCCCCCCccCCCCcEEEEEEEecCCCCCcccccccccCCCCCccHHHHHHHHHHHHH-------HhcCH
Confidence 6999999999999999865 557899999999999999988742 2345678999999999998 58999
Q ss_pred cceeeecCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEEecccccCCCCCceecCCcccccCCCCCCcEEE
Q 030980 75 SSLVVVEGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVHVAAEAASDEQPEVDISDEEFLQFDTSGVPVIT 154 (168)
Q Consensus 75 ~~LcI~~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~~~~~~~~~~~~~~~~~~~~~~~l~i~~~Pi~v 154 (168)
+.| |+..|. |+++||++|||++||++.|+.+||.|++++. .+ +++..+++++++|+++
T Consensus 105 ~~l----~~~~i~--v~v~VL~~DG~~~~aai~Aa~~AL~da~~~~---~~-------------~~~~~~ip~~~~~~~v 162 (238)
T PRK00173 105 KAL----GERTIT--IDCDVIQADGGTRTASITGAYVALADALNKL---VA-------------RGKLKKNPLKDQVAAV 162 (238)
T ss_pred HHc----CCeEEE--EEEEEEeCCCCHHHHHHHHHHHHHHHhhhhh---hc-------------cCcccCCcccCceeEE
Confidence 999 566555 4666699999999999999999999998541 11 1123457789999999
Q ss_pred EEEEeCCeEEeeCC
Q 030980 155 TLTKVPFPLIVHNL 168 (168)
Q Consensus 155 T~~~~~~~~vvDp~ 168 (168)
|++++++.+|+||+
T Consensus 163 t~~~~~~~~lvDpt 176 (238)
T PRK00173 163 SVGIVDGEPVLDLD 176 (238)
T ss_pred EEEEECCEEEECCC
Confidence 99999999999996
No 7
>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=99.93 E-value=1.1e-24 Score=175.35 Aligned_cols=139 Identities=19% Similarity=0.166 Sum_probs=114.4
Q ss_pred CCCcEEEEEEEeeecCCCCCC-CCccEEEEEeeeCCCCCCCCCC-----CCcchhHHHHHHHHHHHHhcCCCCCCccccc
Q 030980 1 MGSTDVIASVKAELGRPSAMQ-PDKGKVAIFVDCSPTAEPTFEG-----RGGEELSAELSSALQHCLLGGKSGAGAGIDL 74 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~~~~-p~~G~i~~~v~~s~~~~~~~~~-----~~~~~~~~~l~~~l~~~l~~~~~~~~~~id~ 74 (168)
+|+|+|+|+|+++...|...+ +++|.++++++++|++++.+.. ++..+...+++++|+|.|+ .+||+
T Consensus 31 ~G~T~Vla~V~~~~~~p~~~~~~~~g~l~v~~~~~p~a~~~~~~r~~~~g~~~~~~~e~~~~i~r~lr-------~~i~l 103 (236)
T TIGR01966 31 FGNTKVLCTASVEEKVPPFLRGSGEGWITAEYGMLPRATQTRNRRESAKGKQSGRTQEIQRLIGRALR-------AVVDL 103 (236)
T ss_pred ecCCEEEEEEEccCccCCcccCCCcEEEEEEEecCCCCCCCCccccccCCCCCccHHHHHHHHHHHHH-------HhcCH
Confidence 599999999999999887665 6899999999999999886622 2233457889999999997 48999
Q ss_pred cceeeecCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEEecccccCCCCCceecCCcccccCCCCCCcEEE
Q 030980 75 SSLVVVEGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVHVAAEAASDEQPEVDISDEEFLQFDTSGVPVIT 154 (168)
Q Consensus 75 ~~LcI~~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~~~~~~~~~~~~~~~~~~~~~~~l~i~~~Pi~v 154 (168)
+.| ++. +|+|+++||++|||++||++.|+.+||.|++++... . .....++++++|+++
T Consensus 104 ~~l----~~~--~i~I~v~VL~~DG~~~~aai~Aa~aAL~da~~~~~~---~-------------~~~~~ip~~~~~~~v 161 (236)
T TIGR01966 104 EAL----GER--TIWIDCDVIQADGGTRTASITGAFVALADAISKLHK---R-------------GILKESPIRDFVAAV 161 (236)
T ss_pred hhc----CCe--EEEEEEEEEeCCCCHHHHHHHHHHHHHHHHHHhhhh---c-------------CcccCCCccCceeEE
Confidence 998 454 567788899999999999999999999999664210 0 011357789999999
Q ss_pred EEEEeCCeEEeeCC
Q 030980 155 TLTKVPFPLIVHNL 168 (168)
Q Consensus 155 T~~~~~~~~vvDp~ 168 (168)
|++++++.+|+||+
T Consensus 162 t~~~~~~~~v~Dpt 175 (236)
T TIGR01966 162 SVGIVDGEPVLDLD 175 (236)
T ss_pred EEEEECCEEEECCC
Confidence 99999999999996
No 8
>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=148.29 Aligned_cols=106 Identities=42% Similarity=0.605 Sum_probs=91.8
Q ss_pred CCCcEEEEEEEeeecC-CCCCCC-CccEEEEEeeeCCCCCCCCC-CCCcchhHHHHHHHHHHHHhcCCCCCCccccccce
Q 030980 1 MGSTDVIASVKAELGR-PSAMQP-DKGKVAIFVDCSPTAEPTFE-GRGGEELSAELSSALQHCLLGGKSGAGAGIDLSSL 77 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~-p~~~~p-~~G~i~~~v~~s~~~~~~~~-~~~~~~~~~~l~~~l~~~l~~~~~~~~~~id~~~L 77 (168)
+|+|+|+|+|++++.. |..+++ .+|++.++|+++|++.+.+. ++..++.+.+|+++|+++|++ .+.+
T Consensus 23 ~G~T~V~~~V~~~~~~~~~~~~~~~~g~~~v~v~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~l~~-------~~~~--- 92 (132)
T PF01138_consen 23 LGNTKVICSVKGPIEPPPSNERDDAEGRLTVEVEFSPFASPSFRRGGRPDEEERELSSLLERALRS-------SILL--- 92 (132)
T ss_dssp ETTEEEEEEEEEEEEGCSCSTTSSSSEEEEEEEEECCCGSTSSSSSSSTHHHHHHHHHHHHHHHHH-------TBST---
T ss_pred ECCeEEEEEEEecccccchhcccCCCceEEEEEEeccccccccccccccchhHHHHHHHHhhhccc-------cccc---
Confidence 5999999999999998 555534 36999999999999988775 245667889999999999973 4433
Q ss_pred eeecCceEEEEEEEEEEEcCCC-CHHHHHHHHHHHHHHhcCCC
Q 030980 78 VVVEGKVCWDLYIDGLVISSDG-NLLDALGAAIKAALSNTGIP 119 (168)
Q Consensus 78 cI~~gk~~W~i~vdv~VL~~dG-nl~Da~~lA~~aAL~~~~lP 119 (168)
+++.+|+|+||++||++|| |++||+++|+++||+++++|
T Consensus 93 ---~~~~~~~i~v~v~vl~~dG~~~~~a~~~A~~~AL~~~~iP 132 (132)
T PF01138_consen 93 ---EGYPRWQIHVDVQVLSDDGGNLLDAAINAACLALLDAGIP 132 (132)
T ss_dssp ---TTTSSEEEEEEEEEEECSSSSHHHHHHHHHHHHHHHHTCS
T ss_pred ---cccCceEEEEEEEEEecCCCCHHHHHHHHHHHHHHhcCCC
Confidence 7888999999999999999 99999999999999999998
No 9
>PRK03983 exosome complex exonuclease Rrp41; Provisional
Probab=99.88 E-value=1.3e-21 Score=158.14 Aligned_cols=128 Identities=20% Similarity=0.190 Sum_probs=108.7
Q ss_pred CCCcEEEEEEEe--eecCCCCCCCCccEEEEEeeeCCCCCCCCCCCCcchhHHHHHHHHHHHHhcCCCCCCcccccccee
Q 030980 1 MGSTDVIASVKA--ELGRPSAMQPDKGKVAIFVDCSPTAEPTFEGRGGEELSAELSSALQHCLLGGKSGAGAGIDLSSLV 78 (168)
Q Consensus 1 lG~T~Vi~~Vk~--ev~~p~~~~p~~G~i~~~v~~s~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~id~~~Lc 78 (168)
+|+|+|+|+|++ |+..|...+|++|.+.++++++|+++..+..+.+++...+++++|+|.|+ +.+.++..
T Consensus 45 ~G~T~Vl~~V~gp~e~~~~~~~~~~~~~l~v~~~~~p~~~~~~~~~~~~~~~~~~s~~l~~~l~-------~~i~~~~~- 116 (244)
T PRK03983 45 WGNNKIIAAVYGPREMHPRHLQLPDRAVLRVRYNMAPFSVDERKRPGPDRRSIEISKVIREALE-------PAIMLELF- 116 (244)
T ss_pred ECCeEEEEEEecCCccccccccCCCcEEEEEEEEcCCCccccccCCCCChhHHHHHHHHHHHHH-------HhccHHhC-
Confidence 599999999996 66677778899999999999999988655444566778899999999997 35655543
Q ss_pred eecCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEEecccccCCCCCceecCCcccccCCCCCCcEEEEEEE
Q 030980 79 VVEGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVHVAAEAASDEQPEVDISDEEFLQFDTSGVPVITTLTK 158 (168)
Q Consensus 79 I~~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~~~~~~~~~~~~~~~~~~~~~~~l~i~~~Pi~vT~~~ 158 (168)
| .|+|.|.++||++|||+++|++.|+.+||.++++| +.++|.++|+++
T Consensus 117 --p---~~~I~I~i~VL~~DG~~~~aai~Aa~lAL~dagIp---------------------------~~~~v~avtv~~ 164 (244)
T PRK03983 117 --P---RTVIDVFIEVLQADAGTRVAGITAASLALADAGIP---------------------------MRDLVAGCAVGK 164 (244)
T ss_pred --C---CeEEEEEEEEEECCCCHHHHHHHHHHHHHHhcCCc---------------------------cccceeEEEEEE
Confidence 2 37788888899999999999999999999999998 336889999999
Q ss_pred eCCeEEeeCC
Q 030980 159 VPFPLIVHNL 168 (168)
Q Consensus 159 ~~~~~vvDp~ 168 (168)
+++.+|+||+
T Consensus 165 ~~~~~i~DPt 174 (244)
T PRK03983 165 VDGVIVLDLN 174 (244)
T ss_pred ECCEEEECCC
Confidence 9999999996
No 10
>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=99.87 E-value=5.1e-21 Score=153.42 Aligned_cols=128 Identities=21% Similarity=0.219 Sum_probs=106.0
Q ss_pred CCCcEEEEEEEe--eecCCCCCCCCccEEEEEeeeCCCCCCCCCCCCcchhHHHHHHHHHHHHhcCCCCCCcccccccee
Q 030980 1 MGSTDVIASVKA--ELGRPSAMQPDKGKVAIFVDCSPTAEPTFEGRGGEELSAELSSALQHCLLGGKSGAGAGIDLSSLV 78 (168)
Q Consensus 1 lG~T~Vi~~Vk~--ev~~p~~~~p~~G~i~~~v~~s~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~id~~~Lc 78 (168)
+|+|+|+|+|++ |+..|....|++|.|.++++++|++...+..+.+++.+.+++++|+|.++ +.+.++.+
T Consensus 39 ~G~T~Vl~~V~gp~e~~~~~~~~~~~~~l~v~~~~~~~a~~~~~~~~~~~~~~~~s~~l~~~l~-------~~i~~~~~- 110 (230)
T TIGR02065 39 FGGTKIIAAVYGPREMHPRHLQLPDRAVLRVRYHMAPFSTDERKRPGPSRREIEISKVIREALE-------PAILLEQF- 110 (230)
T ss_pred ECCcEEEEEEeCCCccccccccCCCceEEEEEEEeCCcccCCccCCCCCccHHHHHHHHHHHHH-------HHhChhhc-
Confidence 599999999999 55566667799999999999999988655444466788999999999997 46666644
Q ss_pred eecCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEEecccccCCCCCceecCCcccccCCCCCCcEEEEEEE
Q 030980 79 VVEGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVHVAAEAASDEQPEVDISDEEFLQFDTSGVPVITTLTK 158 (168)
Q Consensus 79 I~~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~~~~~~~~~~~~~~~~~~~~~~~l~i~~~Pi~vT~~~ 158 (168)
| + +.++|.++||++|||++||++.|+.+||.++++| +.++|.++|+++
T Consensus 111 --p-~--~~i~i~v~vl~~DG~~~~aai~aa~lAL~dagIp---------------------------~~~~v~avtv~~ 158 (230)
T TIGR02065 111 --P-R--TAIDVFIEVLQADAGTRCAGLTAASLALADAGIP---------------------------MRDLVVGVAVGK 158 (230)
T ss_pred --C-C--eEEEEEEEEEEcCCCHHHHHHHHHHHHHHHcCCc---------------------------cccceeeEEEEE
Confidence 3 3 4455555799999999999999999999999998 336888999999
Q ss_pred eCCeEEeeCC
Q 030980 159 VPFPLIVHNL 168 (168)
Q Consensus 159 ~~~~~vvDp~ 168 (168)
+++.+|+||+
T Consensus 159 ~~~~~v~Dpt 168 (230)
T TIGR02065 159 VDGVVVLDLN 168 (230)
T ss_pred ECCeEEECCC
Confidence 9999999996
No 11
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=99.72 E-value=1.4e-16 Score=145.06 Aligned_cols=126 Identities=12% Similarity=0.091 Sum_probs=99.6
Q ss_pred CCCcEEEEEEEeeecCCCCC-------CCCccEEEEEeeeCCCCCCCCC-CCCcchhHHHHHHHHHHHHhcCCCCCCccc
Q 030980 1 MGSTDVIASVKAELGRPSAM-------QPDKGKVAIFVDCSPTAEPTFE-GRGGEELSAELSSALQHCLLGGKSGAGAGI 72 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~~~-------~p~~G~i~~~v~~s~~~~~~~~-~~~~~~~~~~l~~~l~~~l~~~~~~~~~~i 72 (168)
.|+|+|+|+|+ ++.|... ..++|++.++++++|+++..+. .++++..+..++++++|.|+ .++
T Consensus 345 ~G~T~Vl~~vt--~g~~~~~~~~~~~~~~~~~~~~~~y~~~pfs~~e~~~~~~~~rre~~~~~li~ral~-------~vi 415 (693)
T PRK11824 345 RGETQALVVAT--LGTLRDEQIIDGLEGEYKKRFMLHYNFPPYSVGETGRVGSPGRREIGHGALAERALE-------PVL 415 (693)
T ss_pred ECCeEEEEEEe--cCCCcccccccccCCCCcEEEEEEEEcCCCCCCCcCCCCCCChhHHHHHHHHHHHHH-------Hhc
Confidence 49999999998 3443321 1268999999999999987663 34456788999999999997 456
Q ss_pred cccceeeecCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEEecccccCCCCCceecCCcccccCCCCCCcE
Q 030980 73 DLSSLVVVEGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVHVAAEAASDEQPEVDISDEEFLQFDTSGVPV 152 (168)
Q Consensus 73 d~~~LcI~~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~~~~~~~~~~~~~~~~~~~~~~~l~i~~~Pi 152 (168)
+++ +++.|+|+|++.||++|||..+|++.|+.+||+++++|.. .++.
T Consensus 416 ~~~------~~~p~~I~v~~~VLe~dGs~~~Aai~aaslAL~dAgvP~~---------------------------~~Va 462 (693)
T PRK11824 416 PSE------EEFPYTIRVVSEILESNGSSSMASVCGSSLALMDAGVPIK---------------------------APVA 462 (693)
T ss_pred Ccc------cCCCEEEEEEEEEEecCCCHHHHHHHHHHHHHHhcCCCcc---------------------------Ccee
Confidence 532 4567999999999999999999999999999999999943 3666
Q ss_pred EEEEEEeCC----eEEeeCC
Q 030980 153 ITTLTKVPF----PLIVHNL 168 (168)
Q Consensus 153 ~vT~~~~~~----~~vvDp~ 168 (168)
++|++++++ .+++||+
T Consensus 463 ~vs~gli~~~~~~~il~D~~ 482 (693)
T PRK11824 463 GIAMGLIKEGDKYAVLTDIL 482 (693)
T ss_pred EEEEEEEcCCCceEEEcCCC
Confidence 778887742 3677774
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=99.70 E-value=5.4e-16 Score=141.11 Aligned_cols=126 Identities=14% Similarity=0.132 Sum_probs=101.6
Q ss_pred CCCcEEEEEEEeeecCCCCCC-------CCccEEEEEeeeCCCCCCCCC-CCCcchhHHHHHHHHHHHHhcCCCCCCccc
Q 030980 1 MGSTDVIASVKAELGRPSAMQ-------PDKGKVAIFVDCSPTAEPTFE-GRGGEELSAELSSALQHCLLGGKSGAGAGI 72 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~~~~-------p~~G~i~~~v~~s~~~~~~~~-~~~~~~~~~~l~~~l~~~l~~~~~~~~~~i 72 (168)
.|+|+|+|+|+ ++.|...+ .++|++.++++++|+++..+. .++++.++..++++++|.|+ .++
T Consensus 341 ~G~Tqvl~~vt--~g~~~~~~~~~~~~~~~~~~~~~~y~~~pfs~~e~~~~g~~~rrei~~~~l~~ral~-------~~i 411 (684)
T TIGR03591 341 RGETQALVVTT--LGTERDEQIIDDLEGEYRKRFMLHYNFPPYSVGEVGRVGGPGRREIGHGALAERALK-------AVL 411 (684)
T ss_pred eCCeEEEEEEe--cCCcccccCCcccCCCccEEEEEEEEcCCCCCCCcCCCCCCChHHHHHHHHHHHHHH-------Hhc
Confidence 59999999998 44443221 347999999999999988765 34456788899999999997 466
Q ss_pred cccceeeecCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEEecccccCCCCCceecCCcccccCCCCCCcE
Q 030980 73 DLSSLVVVEGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVHVAAEAASDEQPEVDISDEEFLQFDTSGVPV 152 (168)
Q Consensus 73 d~~~LcI~~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~~~~~~~~~~~~~~~~~~~~~~~l~i~~~Pi 152 (168)
++ ++++.|+|+|++.||++|||..+|++.|+.+||+++++|.. ..+.
T Consensus 412 ~~------~~~~p~tI~v~~~VLesdGs~~~Aai~aaslAL~dAgvP~~---------------------------~~Va 458 (684)
T TIGR03591 412 PS------EEEFPYTIRVVSEILESNGSSSMASVCGGSLALMDAGVPIK---------------------------APVA 458 (684)
T ss_pred Cc------cccCCeEEEEEEEEEeCCCChHHHHHHHHHHHHHhcCCCCc---------------------------CCEE
Confidence 53 25567999999999999999999999999999999999843 3578
Q ss_pred EEEEEEeC--C---eEEeeCC
Q 030980 153 ITTLTKVP--F---PLIVHNL 168 (168)
Q Consensus 153 ~vT~~~~~--~---~~vvDp~ 168 (168)
++|+++++ + .+++||+
T Consensus 459 gvs~gli~~~~~~~~il~D~~ 479 (684)
T TIGR03591 459 GIAMGLIKEGDERFAVLSDIL 479 (684)
T ss_pred EEEEEEEcCCCcceEEEeCCC
Confidence 88888884 1 4888874
No 13
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=99.66 E-value=1.5e-15 Score=138.41 Aligned_cols=122 Identities=19% Similarity=0.149 Sum_probs=99.0
Q ss_pred CCCcEEEEEEEeeecCCCCCCCCccEEEEEeeeCCCCC--C----CC--CCCCcchhHHHHHHHHHHHHhcCCCCCCccc
Q 030980 1 MGSTDVIASVKAELGRPSAMQPDKGKVAIFVDCSPTAE--P----TF--EGRGGEELSAELSSALQHCLLGGKSGAGAGI 72 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~~~~p~~G~i~~~v~~s~~~~--~----~~--~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~i 72 (168)
+|+|+|+|+|+++.. | +++.+++-++|++.+.+. . +| +.+++++.+..++++++|.+++
T Consensus 35 ~G~T~VlatV~~~~~-~---~~~~df~pL~v~y~e~~~A~gkiP~~f~kreg~pse~eil~srlIdR~lrp--------- 101 (693)
T PRK11824 35 YGDTVVLVTVVASKE-P---KEGQDFFPLTVDYEEKTYAAGKIPGGFFKREGRPSEKETLTSRLIDRPIRP--------- 101 (693)
T ss_pred ECCeEEEEEEEcCCC-C---CCCCCeeeeEEEEEehhhhccCCCcccccCCCCCChHHHHHHHHHhhhHHH---------
Confidence 599999999999987 3 456788888888665442 2 33 2234567889999999999972
Q ss_pred cccceeeecCceEEEEEEEEEEEcCCCCH-HH-HHHHHHHHHHHhcCCCeEEecccccCCCCCceecCCcccccCCCCCC
Q 030980 73 DLSSLVVVEGKVCWDLYIDGLVISSDGNL-LD-ALGAAIKAALSNTGIPSVHVAAEAASDEQPEVDISDEEFLQFDTSGV 150 (168)
Q Consensus 73 d~~~LcI~~gk~~W~i~vdv~VL~~dGnl-~D-a~~lA~~aAL~~~~lP~v~~~~~~~~~~~~~~~~~~~~~~~l~i~~~ 150 (168)
+.|+.++|.++|+++||++||+. .| |++.|+.+||.++++|.. ..
T Consensus 102 ------lfp~~~~~~i~I~~~VL~~Dg~~~~d~aai~aAsaAL~~s~IP~~---------------------------~~ 148 (693)
T PRK11824 102 ------LFPKGFRNEVQVVATVLSVDPENDPDILAMIGASAALSISGIPFN---------------------------GP 148 (693)
T ss_pred ------hCCCCCCeEEEEEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCcC---------------------------CC
Confidence 25777899999999999999954 78 899999999999999932 35
Q ss_pred cEEEEEEEeCCeEEeeCC
Q 030980 151 PVITTLTKVPFPLIVHNL 168 (168)
Q Consensus 151 Pi~vT~~~~~~~~vvDp~ 168 (168)
+.++|++++++.+|+||+
T Consensus 149 v~av~vg~i~g~~ivdPt 166 (693)
T PRK11824 149 IAAVRVGYIDGEFVLNPT 166 (693)
T ss_pred eEEEEEEEECCEEEEcCC
Confidence 789999999999999996
No 14
>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=99.62 E-value=5.8e-15 Score=134.42 Aligned_cols=122 Identities=16% Similarity=0.090 Sum_probs=97.8
Q ss_pred CCCcEEEEEEEeeecCCCCCCCCccEEEEEeeeCCCCC--C----CCC--CCCcchhHHHHHHHHHHHHhcCCCCCCccc
Q 030980 1 MGSTDVIASVKAELGRPSAMQPDKGKVAIFVDCSPTAE--P----TFE--GRGGEELSAELSSALQHCLLGGKSGAGAGI 72 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~~~~p~~G~i~~~v~~s~~~~--~----~~~--~~~~~~~~~~l~~~l~~~l~~~~~~~~~~i 72 (168)
+|+|+|+|+|+++... ++..+++-++|++.+.+. . +|. .+++++.+..++++|+|.+++
T Consensus 26 ~G~T~VlatV~~~~~~----~~~~df~pL~vey~e~~~A~gkipg~f~kReg~p~~~eil~srlIdR~lrp--------- 92 (684)
T TIGR03591 26 YGDTVVLVTVVAAKEA----KEGQDFFPLTVNYQEKFYAAGKIPGGFFKREGRPSEKETLTSRLIDRPIRP--------- 92 (684)
T ss_pred ECCeEEEEEEEcCCCC----CCCCceEeEEEEEEehhhhccCCCCCcccCCCCCCHHHHHHHHHHhhHHHH---------
Confidence 5999999999998762 344567778888665432 2 331 234567889999999999972
Q ss_pred cccceeeecCceEEEEEEEEEEEcCCCCHH-H-HHHHHHHHHHHhcCCCeEEecccccCCCCCceecCCcccccCCCCCC
Q 030980 73 DLSSLVVVEGKVCWDLYIDGLVISSDGNLL-D-ALGAAIKAALSNTGIPSVHVAAEAASDEQPEVDISDEEFLQFDTSGV 150 (168)
Q Consensus 73 d~~~LcI~~gk~~W~i~vdv~VL~~dGnl~-D-a~~lA~~aAL~~~~lP~v~~~~~~~~~~~~~~~~~~~~~~~l~i~~~ 150 (168)
.+|++++|.++|+++||++|||.. | |++.|+.+||.++++|. ..+
T Consensus 93 ------lfp~~~~~~i~V~~~VLs~Dg~~~~d~aai~aAsaAL~~s~IP~---------------------------~~~ 139 (684)
T TIGR03591 93 ------LFPKGFRNEVQVVATVLSYDPENDPDILAIIGASAALAISGIPF---------------------------NGP 139 (684)
T ss_pred ------hcCCCCCceEEEEEEEEecCcCCchHHHHHHHHHHHHHhcCCCc---------------------------CCC
Confidence 367778899999999999999864 8 99999999999999982 247
Q ss_pred cEEEEEEEeCCeEEeeCC
Q 030980 151 PVITTLTKVPFPLIVHNL 168 (168)
Q Consensus 151 Pi~vT~~~~~~~~vvDp~ 168 (168)
+.+++++++++.+++||+
T Consensus 140 v~av~vg~idg~~ildPt 157 (684)
T TIGR03591 140 IAAVRVGYIDGQYVLNPT 157 (684)
T ss_pred eEEEEEEEECCEEEEcCC
Confidence 788999999999999995
No 15
>COG0689 Rph RNase PH [Translation, ribosomal structure and biogenesis]
Probab=99.54 E-value=7.9e-14 Score=111.38 Aligned_cols=109 Identities=27% Similarity=0.290 Sum_probs=89.5
Q ss_pred CCCcEEEEEEE-eeecCCC-CCCCCccEEEEEeeeCCCCCCCCCCCCcch-hHHHHHHHHHHHHhcCCCCCCccccccce
Q 030980 1 MGSTDVIASVK-AELGRPS-AMQPDKGKVAIFVDCSPTAEPTFEGRGGEE-LSAELSSALQHCLLGGKSGAGAGIDLSSL 77 (168)
Q Consensus 1 lG~T~Vi~~Vk-~ev~~p~-~~~p~~G~i~~~v~~s~~~~~~~~~~~~~~-~~~~l~~~l~~~l~~~~~~~~~~id~~~L 77 (168)
.|+|+|+|+|+ .+-..|. ...+.+|++++.....|+++..+..+.+.. +.++++++|.|.|+ .++|++.|
T Consensus 39 ~G~tkVic~vsGp~e~~p~~l~~~~~g~~t~ey~m~p~sT~~R~~~~~~~gR~~eisrli~~al~-------~~i~L~~~ 111 (230)
T COG0689 39 FGNTKVICTVSGPREPVPRFLRGTGKGWLTAEYGMLPRSTDERKKREADRGRTKEISRLIGRALR-------AVIDLELL 111 (230)
T ss_pred eCCeEEEEEEecCCCCCChhhcCCCceEEEEEEecccccccccccccccccchhHHHHHHHHHHH-------HHhhhhhc
Confidence 49999999999 4433333 344778999999999999986554444444 68999999999997 58999977
Q ss_pred eeecCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEE
Q 030980 78 VVVEGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVH 122 (168)
Q Consensus 78 cI~~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~ 122 (168)
++ -.|+||+.|+++||+.+-|+..|+..||.++.+|...
T Consensus 112 ----p~--~~I~i~~dVlqaDggTrta~It~A~lAL~DAgipl~~ 150 (230)
T COG0689 112 ----PE--STIDIDCDVLQADGGTRTASITGASLALADAGIPLRD 150 (230)
T ss_pred ----Cc--cEEEEEEEEEECCCCeeeehhhHHHHHHHHcCCchhh
Confidence 33 5799999999999999999999999999999988654
No 16
>KOG1068 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp41 and related exoribonucleases [Translation, ribosomal structure and biogenesis]
Probab=99.29 E-value=2.5e-11 Score=97.22 Aligned_cols=112 Identities=27% Similarity=0.264 Sum_probs=91.6
Q ss_pred CCCcEEEEEEEeeecCCC--CCCCCccEEEEEeeeCCCCCCCCCCC-CcchhHHHHHHHHHHHHhcCCCCCCccccccce
Q 030980 1 MGSTDVIASVKAELGRPS--AMQPDKGKVAIFVDCSPTAEPTFEGR-GGEELSAELSSALQHCLLGGKSGAGAGIDLSSL 77 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~--~~~p~~G~i~~~v~~s~~~~~~~~~~-~~~~~~~~l~~~l~~~l~~~~~~~~~~id~~~L 77 (168)
.|||+|+|.|++.-..-. ..+|+++.+++.+.++++..-.+.++ ..+..+.+++.+|+++|. .+|.++
T Consensus 44 ~GnTKVl~aV~GPre~~~~~~~~~~~a~lnc~~~~a~Fst~~r~~~~~~~rr~~e~s~~L~~afe-------~~I~~~-- 114 (245)
T KOG1068|consen 44 QGNTKVLCAVYGPREIRGKSARRPDKAVLNCEVSSAQFSTGDRKKRPKGDRREKELSLMLQQAFE-------PVILLE-- 114 (245)
T ss_pred cCCeEEEEEEeCCcccccccccccccceEEEEEeeeccccchhccCCCccHHHHHHHHHHHHHHH-------HHHHhh--
Confidence 499999999999755322 23688999999999988877666643 344578999999999996 467655
Q ss_pred eeecCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEEecc
Q 030980 78 VVVEGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVHVAA 125 (168)
Q Consensus 78 cI~~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~~~~ 125 (168)
+.| .-+|.|.|+||++||+.+-+|.-|+..||.++.+|......
T Consensus 115 -lyP---rsqIDI~v~VleddG~~laa~inaatlAL~daGI~m~D~i~ 158 (245)
T KOG1068|consen 115 -LYP---RSQIDIYVQVLEDDGSNLAAAINAATLALADAGIPMYDLIT 158 (245)
T ss_pred -hCc---cccceEEEEEEECCCccHHHHHHHHHHHHHHcCCChhhhhh
Confidence 445 36899999999999999999999999999999999987764
No 17
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=99.28 E-value=1.2e-10 Score=107.82 Aligned_cols=108 Identities=12% Similarity=0.062 Sum_probs=83.0
Q ss_pred CCCcEEEEEEEeeec-C-----CCCCCCCccEEEEEeeeCCCCCCCCC-CCCcchhHHHHHHHHHHHHhcCCCCCCcccc
Q 030980 1 MGSTDVIASVKAELG-R-----PSAMQPDKGKVAIFVDCSPTAEPTFE-GRGGEELSAELSSALQHCLLGGKSGAGAGID 73 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~-~-----p~~~~p~~G~i~~~v~~s~~~~~~~~-~~~~~~~~~~l~~~l~~~l~~~~~~~~~~id 73 (168)
.|+|+|+|+|+..-. . .....+..+++.++++++|++...+. .+.+++.+...+++++|.|+ ..+.
T Consensus 469 ~G~TqVLatVtlGp~~~~q~~d~l~~~~~~~~f~~~y~fPPfs~ge~~r~g~psrREi~hg~L~eRALr-------pvip 541 (891)
T PLN00207 469 RGETQALAVVTLGDKQMAQRIDNLVDADEVKRFYLQYSFPPSCVGEVGRIGAPSRREIGHGMLAERALE-------PILP 541 (891)
T ss_pred ECCeEEEEEEEecCccccccccccccccceeeEEEEEEcCCCCCccccCCCCCCHHHHHHHHHHHHHHH-------HhCC
Confidence 499999999985311 1 11123567899999999998864432 23456778889999999997 3332
Q ss_pred ccceeeecCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeE
Q 030980 74 LSSLVVVEGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSV 121 (168)
Q Consensus 74 ~~~LcI~~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v 121 (168)
.+ ..+.|.|+|++.||++||+...|++.|+.+||+++++|.-
T Consensus 542 ~~------~~fP~tIrV~~~VLesDGSssmAaV~aaSLALmDAGIPmk 583 (891)
T PLN00207 542 SE------DDFPYTIRVESTITESNGSSSMASVCGGCLALQDAGVPVK 583 (891)
T ss_pred cc------cCCCEEEEEEEEEEeCCCChHHHHHHHHHHHHHhcCCCcc
Confidence 22 2267999999999999999999999999999999999964
No 18
>KOG1069 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp46 [Translation, ribosomal structure and biogenesis]
Probab=99.19 E-value=4.3e-10 Score=87.67 Aligned_cols=99 Identities=23% Similarity=0.294 Sum_probs=77.9
Q ss_pred CCCcEEEEEEEeeecC-CCCCCCCccEEEEEeeeCCCCCCCCCCCCcchhHHHHHHHHHHHHhcCCCCCCccccccceee
Q 030980 1 MGSTDVIASVKAELGR-PSAMQPDKGKVAIFVDCSPTAEPTFEGRGGEELSAELSSALQHCLLGGKSGAGAGIDLSSLVV 79 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~-p~~~~p~~G~i~~~v~~s~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~id~~~LcI 79 (168)
-|+|+|+|+|.+.... -..+.|++-.+.+.+. |. .+.+....+.++++|+++|. .+|-++ +
T Consensus 26 qgdT~V~c~V~GP~dvk~r~E~~~katleVi~r--p~------~G~~~~~eK~~e~iI~~tl~-------~~I~l~---l 87 (217)
T KOG1069|consen 26 QGDTKVICSVYGPIDVKARQEDPEKATLEVIWR--PK------SGVNGTVEKVLERIIRKTLS-------KAIILE---L 87 (217)
T ss_pred cCCcEEEEEeeCCcchhhcccCchhceEEEEEe--cc------cCcchHHHHHHHHHHHHHHH-------Hhheee---e
Confidence 3899999999998773 3445688888887776 22 23344566889999999985 466554 5
Q ss_pred ecCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCe
Q 030980 80 VEGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPS 120 (168)
Q Consensus 80 ~~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~ 120 (168)
.|. -.+.|-++|+++||+.+-+|.-||..||.|.++|.
T Consensus 88 ~Pr---t~iqVsiqvv~ddgs~LacaINaAclALvDaGIpl 125 (217)
T KOG1069|consen 88 YPR---TTIQVSIQVVEDDGSTLACAINAACLALVDAGIPL 125 (217)
T ss_pred cCC---ceEEEEEEEEecCCcchHHHHHHHHHHHHhcCCch
Confidence 564 46899999999999999999999999999999995
No 19
>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=98.72 E-value=2.6e-07 Score=84.47 Aligned_cols=108 Identities=10% Similarity=0.083 Sum_probs=81.6
Q ss_pred CCCcEEEEEEEeeecCC------C-CCCCCccEEEEEeeeCCCCCCCCCC-CCcchhHHHHHHHHHHHHhcCCCCCCccc
Q 030980 1 MGSTDVIASVKAELGRP------S-AMQPDKGKVAIFVDCSPTAEPTFEG-RGGEELSAELSSALQHCLLGGKSGAGAGI 72 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p------~-~~~p~~G~i~~~v~~s~~~~~~~~~-~~~~~~~~~l~~~l~~~l~~~~~~~~~~i 72 (168)
.|+|+|+|.+.. +.. + ....+.+.+.++..++|++...... +.++.++.+++++++|.|. .+|
T Consensus 366 ~G~Tqvl~~~tl--G~~~~~q~~~~l~~~~~~~~~~~YnfpPFSt~er~~~~~~~RReighg~La~rALe-------~vI 436 (719)
T TIGR02696 366 RGETQILGVTTL--NMLKMEQQIDSLSPETSKRYMHHYNFPPYSTGETGRVGSPKRREIGHGALAERALV-------PVL 436 (719)
T ss_pred ecCcEEEEEEeC--CCchhhhhcccccccccceEEEEEeCCCCcccCCCCCCCCCccHHHHHHHHHHHHH-------Hhh
Confidence 499999997653 211 1 1124578999999999998765432 2344578889999999997 466
Q ss_pred c-ccceeeecCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCeEEec
Q 030980 73 D-LSSLVVVEGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPSVHVA 124 (168)
Q Consensus 73 d-~~~LcI~~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~v~~~ 124 (168)
. ++.+ | ..|++...||++||+..-|+..|+..||+++.+|.-...
T Consensus 437 ~~~e~f---P----~TIrvvseVLeSdGSss~AsIcaasLALmDAGVPmkd~V 482 (719)
T TIGR02696 437 PSREEF---P----YAIRQVSEALGSNGSTSMGSVCASTLSLLNAGVPLKAPV 482 (719)
T ss_pred CcHhhC---C----CEEEEEEEeeccCCcHHHHHHHHHHHHHHHcCcchhhee
Confidence 5 4544 2 337888899999999999999999999999999975443
No 20
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=98.39 E-value=3.9e-06 Score=78.43 Aligned_cols=122 Identities=16% Similarity=0.047 Sum_probs=81.3
Q ss_pred CCCcEEEEEEEeeecCCCCCCCCccEEEEEeeeCCCCC------CCCCC--CCcchhHHHHHHHHHHHHhcCCCCCCccc
Q 030980 1 MGSTDVIASVKAELGRPSAMQPDKGKVAIFVDCSPTAE------PTFEG--RGGEELSAELSSALQHCLLGGKSGAGAGI 72 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~~~~p~~G~i~~~v~~s~~~~------~~~~~--~~~~~~~~~l~~~l~~~l~~~~~~~~~~i 72 (168)
.|+|.|+|++.+.-. |. +...++=..|++-...+ -+|-. +.+.+.+.-++++|+|.|+ ..|
T Consensus 110 ~g~t~vl~t~~~~~~-~~---~~~dF~PLtV~y~Ek~~AaGkipggf~kREgrp~d~eiL~sRlIdR~lR-------Plf 178 (891)
T PLN00207 110 DGETIVYTSVCLADV-PS---EPSDFFPLSVHYQERFSAAGRTSGGFFKREGRTKDHEVLICRLIDRPLR-------PTM 178 (891)
T ss_pred ECCeEEEEEEEeccC-CC---CCCCccceeEeeeeehhhcCccCCceeccCCCCChHHHHHHHHHCccch-------hhc
Confidence 499999999886433 21 23446556666332221 13321 2345677889999999997 355
Q ss_pred cccceeeecCceEEEEEEEEEEEcCCCC--HHHHHHHHHHHHHHhcCCCeEEecccccCCCCCceecCCcccccCCCCCC
Q 030980 73 DLSSLVVVEGKVCWDLYIDGLVISSDGN--LLDALGAAIKAALSNTGIPSVHVAAEAASDEQPEVDISDEEFLQFDTSGV 150 (168)
Q Consensus 73 d~~~LcI~~gk~~W~i~vdv~VL~~dGn--l~Da~~lA~~aAL~~~~lP~v~~~~~~~~~~~~~~~~~~~~~~~l~i~~~ 150 (168)
..+-+ -...|.++||++||+ +--++..||.+||....+|.- ..
T Consensus 179 p~~~~--------~etQI~i~VLsaDg~~~pd~~AInAASaAL~~SgIP~~---------------------------gp 223 (891)
T PLN00207 179 PKGFY--------HETQILSWVLSYDGLHSPDSLAVTAAGIAVALSEVPNL---------------------------KA 223 (891)
T ss_pred cccCC--------CCcEEEEEEEeeCCCCChhhHHHHHHHHHHHhhCCCcc---------------------------Cc
Confidence 44432 345667799999997 668899999999999998832 23
Q ss_pred cEEEEEEEeCCeEEeeCC
Q 030980 151 PVITTLTKVPFPLIVHNL 168 (168)
Q Consensus 151 Pi~vT~~~~~~~~vvDp~ 168 (168)
=-+|+++++++.+|+||+
T Consensus 224 VaAVrVG~idg~~VlnPt 241 (891)
T PLN00207 224 IAGVRVGLIGGKFIVNPT 241 (891)
T ss_pred eEEEEEEEECCEEEECCC
Confidence 345667777777777774
No 21
>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=96.76 E-value=0.026 Score=52.30 Aligned_cols=98 Identities=18% Similarity=0.158 Sum_probs=65.6
Q ss_pred CCcEEEEEEEeeecCCCCCCCCccEEEEEeeeCCCCC------CCC---CCCCcchhHHHHHHHHHHHHhcCCCCCCccc
Q 030980 2 GSTDVIASVKAELGRPSAMQPDKGKVAIFVDCSPTAE------PTF---EGRGGEELSAELSSALQHCLLGGKSGAGAGI 72 (168)
Q Consensus 2 G~T~Vi~~Vk~ev~~p~~~~p~~G~i~~~v~~s~~~~------~~~---~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~i 72 (168)
|+|.|+|++.+.-. | +++..++=..|++-.... -+| ++| +.+.+.-.+|+++|.+++
T Consensus 40 G~t~vl~t~~~~~~-~---~~~~dF~PLtV~y~Ek~yA~GkiPggf~kREgr-ps~~eiL~sRliDR~iRP--------- 105 (719)
T TIGR02696 40 DETMLLSATTASKQ-P---KDQFDFFPLTVDVEERMYAAGRIPGSFFRREGR-PSTDAILTCRLIDRPLRP--------- 105 (719)
T ss_pred CCeEEEEEEEecCC-C---CCCCCCcceeEeeeehhhhcCccCCceeccCCC-CChhhhHHHHhhCCCCcc---------
Confidence 89999999876432 2 223456656666333221 133 233 446677788899998873
Q ss_pred cccceeeecCceEEEEEEEEEEEcCCC-CHHH-HHHHHHHHHHHhcCCC
Q 030980 73 DLSSLVVVEGKVCWDLYIDGLVISSDG-NLLD-ALGAAIKAALSNTGIP 119 (168)
Q Consensus 73 d~~~LcI~~gk~~W~i~vdv~VL~~dG-nl~D-a~~lA~~aAL~~~~lP 119 (168)
++|.-++.-+.|-++||++|+ |..| .+..|+.|||.=..+|
T Consensus 106 ------LFp~~~~~e~qi~~~vls~D~~~~pdvla~~~ASaAl~iSdiP 148 (719)
T TIGR02696 106 ------SFVKGLRNEVQVVVTVLSLNPDHLYDVVAINAASASTQLAGLP 148 (719)
T ss_pred ------CCCCCCCcceEEEEEEEEcCCCCChHHHHHHHHHHHHHhcCCC
Confidence 445445667888899999987 5555 4678999999988888
No 22
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Probab=94.96 E-value=0.1 Score=47.09 Aligned_cols=104 Identities=21% Similarity=0.280 Sum_probs=68.0
Q ss_pred CCcEEEEEEEeeecCC-----CCCCCCcc-EEEEEeeeCCCCCCCCCCC-CcchhHHHHHHHHHHHHhcCCCCCCccccc
Q 030980 2 GSTDVIASVKAELGRP-----SAMQPDKG-KVAIFVDCSPTAEPTFEGR-GGEELSAELSSALQHCLLGGKSGAGAGIDL 74 (168)
Q Consensus 2 G~T~Vi~~Vk~ev~~p-----~~~~p~~G-~i~~~v~~s~~~~~~~~~~-~~~~~~~~l~~~l~~~l~~~~~~~~~~id~ 74 (168)
|.|+|+|.|+..=-+- ....+++| ++-.+.+|+|-+.-..... +...++.-=-.+-+|.|.
T Consensus 390 GqTQvlctVtl~s~e~a~klD~l~~~~~~~~FmLhY~FPPyat~Evgkig~~nRRE~GhgaLAEkaL~------------ 457 (760)
T KOG1067|consen 390 GQTQVLCTVTLDSLESAQKLDSLIGPDNGINFMLHYEFPPYATNEVGKIGGLNRRELGHGALAEKALL------------ 457 (760)
T ss_pred CceeEEEEEEcCCHHHhhhhhhhccCccCceEEEEeccCCccccccccccCCcccccCchhHhhhhhh------------
Confidence 8899999998742211 11235555 9999999999876533211 111111101112345443
Q ss_pred cceeeecCceEEEEEEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCe
Q 030980 75 SSLVVVEGKVCWDLYIDGLVISSDGNLLDALGAAIKAALSNTGIPS 120 (168)
Q Consensus 75 ~~LcI~~gk~~W~i~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~ 120 (168)
-+.|..+-|+|++.-.||+.+|+-==|..-.=..||+++.+|-
T Consensus 458 ---~vlP~dfPftIRv~SeVleSnGSsSMASvCGGslALmDaGvPv 500 (760)
T KOG1067|consen 458 ---PVLPEDFPFTIRVTSEVLESNGSSSMASVCGGSLALMDAGVPV 500 (760)
T ss_pred ---ccCcccCceEEEEeeeeeecCCcchHHhhhcchhhhhhcCCcc
Confidence 4666778899999999999999766666666678999999994
No 23
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=93.89 E-value=0.9 Score=41.95 Aligned_cols=99 Identities=26% Similarity=0.229 Sum_probs=61.1
Q ss_pred CCCcEEEEEEEeeecCCCCCCCCccEEEEEeeeCCCC------CCCC---CCCCcchhHHHHHHHHHHHHhcCCCCCCcc
Q 030980 1 MGSTDVIASVKAELGRPSAMQPDKGKVAIFVDCSPTA------EPTF---EGRGGEELSAELSSALQHCLLGGKSGAGAG 71 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~~~~p~~G~i~~~v~~s~~~------~~~~---~~~~~~~~~~~l~~~l~~~l~~~~~~~~~~ 71 (168)
+|+|.|++++.++-..+ ...++=..|++-... --+| ++|+. +.+.-.+|+++|-++
T Consensus 35 ~gdt~vl~t~~~~~~~~-----~~dF~PLtV~y~Ek~yaaGkiPGgf~kREGrps-e~e~L~sRLIDRpiR--------- 99 (692)
T COG1185 35 YGDTVVLATVVASKPKE-----GQDFFPLTVNYEEKTYAAGKIPGGFFKREGRPS-EKEILTSRLIDRPIR--------- 99 (692)
T ss_pred ECCeEEEEEEeecCCCC-----CCCccceeEeeeeehhccCcCCCcccccCCCCC-ccchhhhhhcccccc---------
Confidence 48999999998876321 233544555522211 1122 34544 555666667776665
Q ss_pred ccccceeeecCceEEEEEEEEEEEcCCC-CHHH-HHHHHHHHHHHhcCCCe
Q 030980 72 IDLSSLVVVEGKVCWDLYIDGLVISSDG-NLLD-ALGAAIKAALSNTGIPS 120 (168)
Q Consensus 72 id~~~LcI~~gk~~W~i~vdv~VL~~dG-nl~D-a~~lA~~aAL~~~~lP~ 120 (168)
-++|-.+.--+.|-.+|++.|+ +..| .+..++.+||.=..+|-
T Consensus 100 ------PlFp~g~~~evqIv~tvls~D~~~~pdi~a~~gaSaAl~is~iPf 144 (692)
T COG1185 100 ------PLFPKGFRNEVQIVNTVLSVDPENDPDILAMVGASAALSLSGIPF 144 (692)
T ss_pred ------cccchhhccceEEEEEEEEECCCCCHHHHHHHHHHHHHhccCCCc
Confidence 2444444556778889999987 3344 56778889999888874
No 24
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Probab=39.76 E-value=62 Score=29.90 Aligned_cols=100 Identities=25% Similarity=0.244 Sum_probs=47.1
Q ss_pred CCCcEEEEEEEeeecCCCCCCCCccEEEEEeeeCCCC------CCCCCCC--CcchhHHHHHHHHHHHHhcCCCCCCccc
Q 030980 1 MGSTDVIASVKAELGRPSAMQPDKGKVAIFVDCSPTA------EPTFEGR--GGEELSAELSSALQHCLLGGKSGAGAGI 72 (168)
Q Consensus 1 lG~T~Vi~~Vk~ev~~p~~~~p~~G~i~~~v~~s~~~------~~~~~~~--~~~~~~~~l~~~l~~~l~~~~~~~~~~i 72 (168)
.|+|.|++.+.+--. |. |.+ ++=..|+.-..+ .-+|-.| .+.+.+.-..+++.|.+++ .+
T Consensus 77 ~GeT~Vm~Tv~~a~~-PS---p~q-FlPL~VdYqeK~aAvGRip~~fmRREg~tkdkEiL~~rLidrsirp-------lf 144 (760)
T KOG1067|consen 77 MGETAVMTTVVLADK-PS---PPQ-FLPLVVDYQEKFAAVGRIPGNFMRREGRTKDKEILTGRLIDRPIRP-------LF 144 (760)
T ss_pred cCCeEEEEEEEecCC-CC---ccc-cceEEEehhhhhhhhccCCCcccccccCCcchhheeeecccccccc-------CC
Confidence 488999988876533 22 122 666666633221 1122212 2223334444555555542 22
Q ss_pred cccceeeecCceEEEEEEEEEEEcCCC-CHHH-HHHHHHHHHHHhcCCCe
Q 030980 73 DLSSLVVVEGKVCWDLYIDGLVISSDG-NLLD-ALGAAIKAALSNTGIPS 120 (168)
Q Consensus 73 d~~~LcI~~gk~~W~i~vdv~VL~~dG-nl~D-a~~lA~~aAL~~~~lP~ 120 (168)
..-..|-.. -++| +|..|| +--| .+..|+.+||.-..+|-
T Consensus 145 p~g~~~etq-i~~n-------~Ls~dG~~~pdvlainaas~Al~lsdvpw 186 (760)
T KOG1067|consen 145 PKGFYHETQ-ILCN-------VLSSDGVHDPDVLAINAASAALSLSDVPW 186 (760)
T ss_pred cccchhHHH-HHhh-------heecccccCchHHHHhHHHHHhhhccCCC
Confidence 111111110 0233 345555 2222 35667888888877773
No 25
>PF08872 KGK: KGK domain; InterPro: IPR014971 This protein is found in one or two copies in cyanobacterial proteins. It is named after a short sequence motif.
Probab=38.05 E-value=69 Score=22.99 Aligned_cols=29 Identities=28% Similarity=0.342 Sum_probs=23.9
Q ss_pred EEEeeecCCCCCCCCccEEEE--EeeeCCCC
Q 030980 9 SVKAELGRPSAMQPDKGKVAI--FVDCSPTA 37 (168)
Q Consensus 9 ~Vk~ev~~p~~~~p~~G~i~~--~v~~s~~~ 37 (168)
|+.|++-.+....-.+|.+.+ .+++.|--
T Consensus 66 Gi~CeiL~~g~~~W~kGK~ri~~~leF~pde 96 (114)
T PF08872_consen 66 GIECEILRFGSKGWQKGKVRIKVSLEFIPDE 96 (114)
T ss_pred CeeEEEeccCCCCCccceEEEEEEEEEecCC
Confidence 678899888888888998888 88888763
No 26
>PF01019 G_glu_transpept: Gamma-glutamyltranspeptidase; InterPro: IPR000101 Gamma-glutamyltranspeptidase (2.3.2.2 from EC) (GGT) [] catalyzes the transfer of the gamma-glutamyl moiety of glutathione to an acceptor that may be an amino acid, a peptide or water (forming glutamate). GGT plays a key role in the gamma-glutamyl cycle, a pathway for the synthesis and degradation of glutathione and drug and xenobiotic detoxification []. In prokaryotes and eukaryotes, it is an enzyme that consists of two polypeptide chains, a heavy and a light subunit, processed from a single chain precursor by an autocatalytic cleavage. The active site of GGT is known to be located in the light subunit. The sequences of mammalian and bacterial GGT show a number of regions of high similarity []. Pseudomonas cephalosporin acylases (3.5.1 from EC) that convert 7-beta-(4-carboxybutanamido)-cephalosporanic acid (GL-7ACA) into 7-aminocephalosporanic acid (7ACA) and glutaric acid are evolutionary related to GGT and also show some GGT activity []. Like GGT, these GL-7ACA acylases, are also composed of two subunits. As an autocatalytic peptidase GGT belongs to MEROPS peptidase family T3 (gamma-glutamyltransferase family, clan PB(T)). The active site residue for members of this family and family T1 is C-terminal to the autolytic cleavage site. The type example is gamma-glutamyltransferase 1 from Escherichia coli. ; GO: 0003840 gamma-glutamyltransferase activity; PDB: 2DBX_A 2Z8K_D 2Z8I_B 2DBU_D 2E0X_B 2DBW_B 2E0W_B 2DG5_A 2E0Y_C 2Z8J_C ....
Probab=26.03 E-value=29 Score=31.06 Aligned_cols=18 Identities=44% Similarity=0.447 Sum_probs=13.3
Q ss_pred EEcCCCCHHHHHHHHHHH
Q 030980 94 VISSDGNLLDALGAAIKA 111 (168)
Q Consensus 94 VL~~dGnl~Da~~lA~~a 111 (168)
||..+||-+||++.|+.+
T Consensus 3 vL~~GGNAvDAAvAaa~~ 20 (510)
T PF01019_consen 3 VLRKGGNAVDAAVAAALA 20 (510)
T ss_dssp HHHTT--HHHHHHHHHHH
T ss_pred HHHhCCCHHHHHHHHHHH
Confidence 578999999999877766
No 27
>PF12745 HGTP_anticodon2: Anticodon binding domain of tRNAs; InterPro: IPR024435 This is an anticodon binding domain, found largely on Gcn2 proteins which bind tRNA to down regulate translation in certain stress situations [].; GO: 0000049 tRNA binding
Probab=21.50 E-value=1.2e+02 Score=24.93 Aligned_cols=32 Identities=31% Similarity=0.252 Sum_probs=29.7
Q ss_pred EEEEEEEcCCCCHHHHHHHHHHHHHHhcCCCe
Q 030980 89 YIDGLVISSDGNLLDALGAAIKAALSNTGIPS 120 (168)
Q Consensus 89 ~vdv~VL~~dGnl~Da~~lA~~aAL~~~~lP~ 120 (168)
+|||+|-+.++++|...-+-+..-|+...|-.
T Consensus 5 RCDVLV~S~~~~~L~~~~~~iv~~LW~~gIsA 36 (273)
T PF12745_consen 5 RCDVLVCSFGPSSLRTEGIEIVQELWAAGISA 36 (273)
T ss_pred cceEEEEeCChhHHHHHHHHHHHHHHHCCCce
Confidence 69999999999999999999999999999864
No 28
>cd05798 SIS_TAL_PGI SIS_TAL_PGI: Transaldolase (TAL)/ Phosphoglucose isomerase (PGI). This group represents the SIS (Sugar ISomerase) PGI domain, of a multifunctional protein (TAL-PGI ) having both TAL and PGI activities. TAL_PGI contains an N-terminal TAL domain and a C-terminal PGI domain. TAL catalyzes the reversible conversion of sedoheptulose-7-phosphate (S7P) and glyceraldehyde-3-phosphate (G3P), to fructose-6-phosphate (F6P) and erythrose-4-phosphate (E4P). PGI catalyzes the reversible isomerization of F6P to glucose-6-phosphate (G6P). It has been suggested for Gluconobacter oxydans TAL_PGI that this enzyme generates E4P and G6P directly from S7P and G3P. G. oxydans TAL_PGI contributes to increased xylitol production from D-arabitol. As xylitol is an alternative natural sweetner to sucrose, the microbial conversion of D-arabitol to xylitol is of interest to food and pharmaceutical industries.
Probab=21.35 E-value=1.3e+02 Score=22.03 Aligned_cols=29 Identities=21% Similarity=0.162 Sum_probs=25.2
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCCeEEecc
Q 030980 97 SDGNLLDALGAAIKAALSNTGIPSVHVAA 125 (168)
Q Consensus 97 ~dGnl~Da~~lA~~aAL~~~~lP~v~~~~ 125 (168)
.=|.+.++...|...||.+.++|.+.+.-
T Consensus 57 ~~~~~~~~~~~at~~AL~~~g~P~~~i~~ 85 (129)
T cd05798 57 RLAGEADADQEEALLALEAAGHPVIRIDL 85 (129)
T ss_pred echhhhHHHHHHHHHHHHhCCCCeEEEec
Confidence 44788999999999999999999988753
No 29
>PF10934 DUF2634: Protein of unknown function (DUF2634); InterPro: IPR020288 This entry is represented by the Bacteriophage EJ-1, Orf60. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Bacteriophage EJ-1, Orf60 function has not been characterised. It has been shown to be simialr to XkdS (P54331 from SWISSPROT), which is encoded on a phage-like element (prophage) of PSBX found in Bacillus subtilis.
Probab=20.68 E-value=2.9e+02 Score=19.44 Aligned_cols=50 Identities=16% Similarity=0.167 Sum_probs=35.9
Q ss_pred cchhHHHHHHHHHHHHhcCCCCCCccccccceeeecCceEEEEEEEEEEEcCCCCH
Q 030980 46 GEELSAELSSALQHCLLGGKSGAGAGIDLSSLVVVEGKVCWDLYIDGLVISSDGNL 101 (168)
Q Consensus 46 ~~~~~~~l~~~l~~~l~~~~~~~~~~id~~~LcI~~gk~~W~i~vdv~VL~~dGnl 101 (168)
.+....++.+.|+++|.. +.+....+.+.+.-.+ -.+++.+.|..-.|++
T Consensus 63 ~~~~~sEi~r~I~EaL~~----d~rI~~V~~f~f~~~~--~~l~v~f~V~ti~G~~ 112 (112)
T PF10934_consen 63 REYVESEIEREIEEALLQ----DPRITSVENFSFEWEG--DSLYVSFTVTTIYGEI 112 (112)
T ss_pred hHHHHHHHHHHHHHHHhc----CCCcceEEEEEEEEEC--CEEEEEEEEEEecccC
Confidence 345668899999999874 4566777888775433 4678888888777763
No 30
>TIGR00066 g_glut_trans gamma-glutamyltranspeptidase. Also called gamma-glutamyltranspeptidase (ggt). Some members of this family have antibiotic synthesis or resistance activities. In the case of a cephalosporin acylase from Pseudomonas sp., the enzyme was shown to retain some gamma-glutamyltranspeptidase activity. Other, more distantly related proteins have ggt-related activities and score below the trusted cutoff.
Probab=20.05 E-value=46 Score=29.92 Aligned_cols=18 Identities=33% Similarity=0.342 Sum_probs=14.1
Q ss_pred EEcCCCCHHHHHHHHHHH
Q 030980 94 VISSDGNLLDALGAAIKA 111 (168)
Q Consensus 94 VL~~dGnl~Da~~lA~~a 111 (168)
||..+||-+||++.++.+
T Consensus 17 vL~~GGNAvDAAIAa~~~ 34 (516)
T TIGR00066 17 ILKEGGNAFDAAVAVGLA 34 (516)
T ss_pred HHHhCCCHHHHHHHHHHH
Confidence 678899999998755443
Done!