Query 032906
Match_columns 130
No_of_seqs 149 out of 1241
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 07:24:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032906.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032906hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0216 PrfA Protein chain rel 100.0 2.9E-37 6.3E-42 260.7 11.8 121 4-128 131-286 (363)
2 PRK08179 prfH peptide chain re 100.0 9.6E-37 2.1E-41 241.9 12.9 127 3-129 18-171 (200)
3 TIGR03072 release_prfH putativ 100.0 3.6E-36 7.8E-41 238.7 12.9 127 3-129 17-170 (200)
4 PRK08787 peptide chain release 100.0 2.1E-34 4.5E-39 241.2 13.1 127 3-129 83-240 (313)
5 PRK06746 peptide chain release 100.0 2.7E-34 5.9E-39 241.5 13.6 127 3-129 104-261 (326)
6 PRK05589 peptide chain release 100.0 2.5E-34 5.3E-39 241.7 13.2 125 4-128 104-259 (325)
7 PRK07342 peptide chain release 100.0 3.7E-34 7.9E-39 241.8 13.2 127 3-129 106-263 (339)
8 TIGR00019 prfA peptide chain r 100.0 4E-34 8.7E-39 243.0 13.3 126 3-128 129-284 (360)
9 TIGR00020 prfB peptide chain r 100.0 9.3E-34 2E-38 241.1 13.2 127 3-129 142-299 (364)
10 PRK00578 prfB peptide chain re 100.0 1E-33 2.2E-38 241.0 13.3 127 3-129 142-299 (367)
11 PRK00591 prfA peptide chain re 100.0 1.7E-33 3.6E-38 239.2 13.3 127 3-129 129-285 (359)
12 COG1186 PrfB Protein chain rel 100.0 3.2E-33 6.9E-38 226.8 8.9 122 4-129 18-174 (239)
13 KOG2726 Mitochondrial polypept 100.0 5.9E-33 1.3E-37 237.1 10.1 122 3-128 154-311 (386)
14 PF00472 RF-1: RF-1 domain; I 100.0 7E-30 1.5E-34 185.8 6.9 70 54-127 5-74 (113)
15 PRK09256 hypothetical protein; 99.9 8.3E-26 1.8E-30 170.5 8.4 70 54-127 6-99 (138)
16 KOG3429 Predicted peptidyl-tRN 99.8 1.3E-21 2.9E-26 151.8 6.0 67 58-128 37-128 (172)
17 PF03462 PCRF: PCRF domain; I 97.9 9.1E-06 2E-10 59.1 3.6 42 4-45 65-106 (115)
18 PF10213 MRP-S28: Mitochondria 77.4 19 0.00041 26.8 7.6 33 96-128 60-93 (127)
19 cd02394 vigilin_like_KH K homo 50.9 16 0.00036 22.6 2.4 39 76-119 16-61 (62)
20 KOG3933 Mitochondrial ribosoma 48.8 60 0.0013 27.9 6.0 32 96-127 202-234 (296)
21 smart00322 KH K homology RNA-b 38.9 41 0.00089 19.8 2.8 45 76-123 19-68 (69)
22 cd00552 RaiA RaiA ("ribosome-a 37.1 1.2E+02 0.0027 19.9 7.5 54 67-126 36-90 (93)
23 COG1186 PrfB Protein chain rel 31.1 9.5 0.00021 31.7 -1.3 29 98-126 168-196 (239)
24 PF04149 DUF397: Domain of unk 30.9 1E+02 0.0023 19.6 3.8 19 87-105 16-34 (56)
25 PRK06418 transcription elongat 30.2 30 0.00065 27.1 1.4 35 90-124 119-157 (166)
26 PF02815 MIR: MIR domain; Int 29.6 99 0.0022 23.4 4.1 38 69-106 121-158 (190)
27 PF14048 MBD_C: C-terminal dom 28.4 25 0.00055 25.1 0.6 27 97-123 70-96 (96)
28 cd00105 KH-I K homology RNA-bi 27.7 42 0.0009 20.4 1.5 40 75-119 15-63 (64)
29 smart00472 MIR Domain in ryano 26.9 71 0.0015 19.3 2.4 22 85-106 6-27 (57)
30 PF02817 E3_binding: e3 bindin 25.4 20 0.00043 21.6 -0.3 16 66-81 17-32 (39)
31 cd02395 SF1_like-KH Splicing f 21.2 1.2E+02 0.0026 22.2 3.1 25 98-124 70-94 (120)
32 PF13014 KH_3: KH domain 21.0 27 0.00057 20.5 -0.4 20 76-95 7-28 (43)
33 cd04911 ACT_AKiii-YclM-BS_1 AC 20.7 1.4E+02 0.003 20.4 3.1 17 88-104 29-48 (76)
No 1
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.9e-37 Score=260.68 Aligned_cols=121 Identities=26% Similarity=0.355 Sum_probs=107.8
Q ss_pred hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCC-------CC---------------------------C
Q 032906 4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNC-------SS---------------------------S 49 (130)
Q Consensus 4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~-------~~---------------------------~ 49 (130)
.+|||+||+++|+.+||++++++.+.++.+||+.++++|+|.+ ++ |
T Consensus 131 agDLfrMY~rYAe~kgWk~ei~s~se~~~GG~kEii~~I~G~gvys~LKfEsGvHRVQRVP~TEsqGRIHTStaTVaVlP 210 (363)
T COG0216 131 AGDLFRMYSRYAESKGWKVEILSASESELGGYKEIIASISGKGVYSRLKFESGVHRVQRVPATESQGRIHTSAATVAVLP 210 (363)
T ss_pred HHHHHHHHHHHHHhCCCEEEEeecCcccCCCceEEEEEEeccchhhhhhhccCccceeccccccCCCceeecceeEEecc
Confidence 5899999999999999999999999999999999999999987 11 2
Q ss_pred CCCc-CceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906 50 SSSR-NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC 128 (130)
Q Consensus 50 s~~~-~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~ 128 (130)
.+.. .-+.|+++|| +|+++||||+||||||+|+|+|||||+||||+|+|+++|||++||+.||..|+++|.+.++
T Consensus 211 E~ee~~ei~I~~~Dl----rIDt~RsSGaGGQhVNtTdSAVRiTHlPTGIvV~cQderSQ~kNk~kAmkvL~ARl~~~~~ 286 (363)
T COG0216 211 EVEEVEEIEINPKDL----RIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAER 286 (363)
T ss_pred CCCcccccccChHHc----eeeeeecCCCCCCCcCccchhheeeecCCceEEEecchhhhhhhHHHHHHHHHHHHHHHHH
Confidence 2211 2355666666 9999999999999999999999999999999999999999999999999999999998854
No 2
>PRK08179 prfH peptide chain release factor-like protein; Reviewed
Probab=100.00 E-value=9.6e-37 Score=241.95 Aligned_cols=127 Identities=26% Similarity=0.332 Sum_probs=108.2
Q ss_pred chHHHHHhhhhhhhccCceeeeeeccCCCCCC-ceeeeeeccCCCCC--------------CCCCc-------CceecC-
Q 032906 3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPL-FLSCNYSTNDNCSS--------------SSSSR-------NYLELT- 59 (130)
Q Consensus 3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~-~~S~~~~~~g~~~~--------------~s~~~-------~~~~i~- 59 (130)
.+++||+||.++|+++||++++++..+++.++ |+|++++++|...- .+|++ |++.+.
T Consensus 18 fa~~L~~my~~~a~~~g~~~~ii~~~~~~~~gg~ksa~~~i~G~~a~~~l~~~~G~~~~V~~sp~~~~~~R~~s~~~V~v 97 (200)
T PRK08179 18 AVAKALERLLKEAARQGVRVTVLETETGRYPDTLRSALVSLDGDNAEALAESWCGTIQWICPSPYRPHHGRKNWFVGIGR 97 (200)
T ss_pred HHHHHHHHHHHHHHHcCCeEEEEeCCCCCCCCceEEEEEEEEccCHHHHhhcccCeeEEEecCCCCCCCCceEEEEEEEE
Confidence 47899999999999999999999999999866 99999999988620 33433 444321
Q ss_pred --c-hhh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906 60 --D-DEL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE 129 (130)
Q Consensus 60 --~-~~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~ 129 (130)
. .+| ++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.+
T Consensus 98 ~~~~~~i~~~dl~~~~~RssGpGGQ~VNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L~~~L~~~~~~ 171 (200)
T PRK08179 98 FSADEEEQSDEIRFETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLARLLIAWKLEQQQQE 171 (200)
T ss_pred eCCcCccCHHHeEEEEEEccCCcccccccccceEEEEEcCCcEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 122 346699999999999999999999999999999999999999999999999999999999988543
No 3
>TIGR03072 release_prfH putative peptide chain release factor H. Members of this protein family are bacterial proteins homologous to peptide chain release factors 1 (RF-1, product of the prfA gene), and 2 (RF-2, product of the prfB gene). The member from Escherichia coli K-12, designated prfH, appears to be a pseudogene. This class I release factor is always found as the downstream gene of a two-gene operon.
Probab=100.00 E-value=3.6e-36 Score=238.67 Aligned_cols=127 Identities=26% Similarity=0.317 Sum_probs=108.2
Q ss_pred chHHHHHhhhhhhhccCceeeeeeccCCCCCC-ceeeeeeccCCCCC--------------CCCCc-------CceecCc
Q 032906 3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPL-FLSCNYSTNDNCSS--------------SSSSR-------NYLELTD 60 (130)
Q Consensus 3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~-~~S~~~~~~g~~~~--------------~s~~~-------~~~~i~~ 60 (130)
.+++||+||.++|.++||++++++..+++.++ |+|+++.|+|...- .+|++ |++.+..
T Consensus 17 fa~~L~~my~~~a~~~g~~~eii~~~~~~~~gg~ksa~~~i~G~~ay~~l~~~~G~h~~v~~sp~r~~~~R~ts~~~V~v 96 (200)
T TIGR03072 17 AVAKALERLTREAAARGVRVEVLEQEPGEVPGTLRSALVSLDGEAAAALADRWEGTLLWICPSPYRPHHRRKNWFIGVQR 96 (200)
T ss_pred HHHHHHHHHHHHHHHcCCeEEEEeCCCCCCCCceEEEEEEEEccCHHHHhhcccceEEEEEcCCCCCCCCeeEEEEEEEE
Confidence 47899999999999999999999999999865 99999999988620 33333 4443311
Q ss_pred ----hhh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906 61 ----DEL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE 129 (130)
Q Consensus 61 ----~~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~ 129 (130)
.+| ++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.+
T Consensus 97 ~~~~~~i~~~dl~~~~~RssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L~~~l~~~~~~ 170 (200)
T TIGR03072 97 FSASEEATEDEIRFETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLATLLLAVRLADLQQE 170 (200)
T ss_pred ecCccccChhheEEEEEECCCCCcccccccceeEEEEECCCcEEEEECCccCHHHHHHHHHHHHHHHHHHHHHH
Confidence 122 356799999999999999999999999999999999999999999999999999999999988543
No 4
>PRK08787 peptide chain release factor 2; Provisional
Probab=100.00 E-value=2.1e-34 Score=241.16 Aligned_cols=127 Identities=24% Similarity=0.321 Sum_probs=107.1
Q ss_pred chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-------CCCCc-------Cceec---
Q 032906 3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-------SSSSR-------NYLEL--- 58 (130)
Q Consensus 3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-------~s~~~-------~~~~i--- 58 (130)
.+++||+||.++|+++||++++++..+++.++|+|+++.|+|... . .+|++ |++.+
T Consensus 83 ~a~~LlrMY~r~A~~~g~~~evi~~~~g~~~Giksa~l~I~G~~ayg~lk~E~GvHRv~R~sp~~s~~rrhTsfasV~V~ 162 (313)
T PRK08787 83 WAEILLRMYLRWAESRGWKTELMEVSGGEVAGIKSATVRIEGEYAYGWLKTEIGVHRLVRKSPFDSDNRRHTSFTSVFVS 162 (313)
T ss_pred HHHHHHHHHHHHHHHcCCeEEEEecCCCCCceeeEEEEEEecccHHHHHhhccCeeEEEecCCCCCCCCEEeeeEEEEEe
Confidence 468999999999999999999999999998889999999998861 1 22222 33222
Q ss_pred Cc--h----hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906 59 TD--D----EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE 129 (130)
Q Consensus 59 ~~--~----~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~ 129 (130)
|. + ++ +.|++++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|.++|.+.+.+
T Consensus 163 P~~~~~~~i~i~~~dl~~~~~RssG~GGQ~VNkt~saVri~H~Ptgi~v~~q~eRSQ~~Nk~~A~~~L~~~L~~~~~e 240 (313)
T PRK08787 163 PEVDDNIEIDINPADLRTDVYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRDNAMKMLAAKLYELEVQ 240 (313)
T ss_pred cCcCcccccccChhHeEEEEEECCCCCCCCcCCEeeEEEEEECCCcEEEEECCcccHHHHHHHHHHHHHHHHHHHHHH
Confidence 11 1 12 346799999999999999999999999999999999999999999999999999999999987543
No 5
>PRK06746 peptide chain release factor 2; Provisional
Probab=100.00 E-value=2.7e-34 Score=241.53 Aligned_cols=127 Identities=22% Similarity=0.295 Sum_probs=107.4
Q ss_pred chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCC-------CC-------CCCCc-------Cceec---
Q 032906 3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNC-------SS-------SSSSR-------NYLEL--- 58 (130)
Q Consensus 3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~-------~~-------~s~~~-------~~~~i--- 58 (130)
.+++||+||.++|+++||++++++..+++.++|+|+++.++|.. ++ .+|++ |++.+
T Consensus 104 ~a~~Ll~MY~r~a~~~g~~~evi~~~~~~~~g~ksa~l~i~G~~ay~~lk~E~GvHrv~Rvsp~~s~~rrhTsfa~V~v~ 183 (326)
T PRK06746 104 WGSMLLRMYTRWAEKRGFKVETVDYLPGDEAGIKSVTLLIKGHNAYGYLKAEKGVHRLVRISPFDSSGRRHTSFVSCEVV 183 (326)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEEecCCCCCCceEEEEEEEeccCHHHHHhhccceEEEEecCCCCCCCCeEeeEEEEEEe
Confidence 47899999999999999999999999999988999999999886 11 22222 33222
Q ss_pred Cc--h--hh---ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906 59 TD--D--EL---FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE 129 (130)
Q Consensus 59 ~~--~--~l---~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~ 129 (130)
|. + ++ +.|++++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+.+|+++|.+.+.+
T Consensus 184 P~~~~~~~i~i~~~dl~~~~~rssG~GGQ~vNkt~saVrl~h~ptgi~v~~q~~RSQ~~Nk~~A~~~L~akL~~~~~~ 261 (326)
T PRK06746 184 PEFNDEVEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQIKNREHAMKMLKAKLYQKKLE 261 (326)
T ss_pred cCcCCccccccChHHeEEEEEeCCCCCCCCccceeeEEEEEEeCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 11 0 01 246699999999999999999999999999999999999999999999999999999999988653
No 6
>PRK05589 peptide chain release factor 2; Provisional
Probab=100.00 E-value=2.5e-34 Score=241.70 Aligned_cols=125 Identities=24% Similarity=0.356 Sum_probs=106.1
Q ss_pred hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-------CCCCc-------Cceec---C
Q 032906 4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-------SSSSR-------NYLEL---T 59 (130)
Q Consensus 4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-------~s~~~-------~~~~i---~ 59 (130)
+++||+||.++|+++||++++++..+++.++|+|+++.++|... + .+|++ |++.+ |
T Consensus 104 a~~L~~mY~~~a~~~g~~~~vi~~~~~~~~g~ks~~~~i~G~~ay~~lk~E~GvHrv~r~s~~~~~~rr~ts~a~V~VlP 183 (325)
T PRK05589 104 TEMLLRMYTRWAEKKGYKVEIIDLLEGDEAGIKSVTLKITGEFAYGYLKAEKGIHRLVRISPFNANGKRQTSFASVEVLP 183 (325)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEecCCCCCCceEEEEEEEeccCHHHHHhhccceEEEEEcCCCCCCCCeEeeeEEEEEec
Confidence 68999999999999999999999999999889999999999861 1 12222 32222 1
Q ss_pred c--h----hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906 60 D--D----EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC 128 (130)
Q Consensus 60 ~--~----~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~ 128 (130)
. + +| ++|++++++|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.
T Consensus 184 ~~~~~~~~~i~~~dl~~~~~rssG~GGQ~VNkt~saVrl~H~ptgi~v~~q~eRSQ~~Nk~~A~~~L~~kL~~~~~ 259 (325)
T PRK05589 184 ELTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQNERSQHSNKETAMKMLKSKLVELKE 259 (325)
T ss_pred CcCccccccCCchheEEEEeeCCCCCCCcccceeeEEEEEECCCCEEEEECCccCHHHHHHHHHHHHHHHHHHHHH
Confidence 1 1 11 34669999999999999999999999999999999999999999999999999999999998754
No 7
>PRK07342 peptide chain release factor 2; Provisional
Probab=100.00 E-value=3.7e-34 Score=241.77 Aligned_cols=127 Identities=28% Similarity=0.367 Sum_probs=108.0
Q ss_pred chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-------CCCCc-------Cceec---
Q 032906 3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-------SSSSR-------NYLEL--- 58 (130)
Q Consensus 3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-------~s~~~-------~~~~i--- 58 (130)
.+++||+||.++|+++||++++++..+++.++|+|+++.++|.+. . .+|++ |++.+
T Consensus 106 ~a~~Ll~mY~~~a~~~g~~~~vi~~~~~~~~g~ksa~l~i~G~~ay~~lk~E~GvHrv~rvsp~~~~~rrhTs~a~V~Vl 185 (339)
T PRK07342 106 WASMLLRMYTRWAERQGRKVEVLEVHDGEEAGIKSATILVKGHNAYGWLKTESGVHRLVRISPYDSNARRHTSFASIWVY 185 (339)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEEecCCCCCCceEEEEEEEeccCHHHHHhhccceeEEEecCCCCCCCCeEeEEEEEEEE
Confidence 478999999999999999999999999999889999999998861 1 22322 33322
Q ss_pred Cc--h----hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906 59 TD--D----EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE 129 (130)
Q Consensus 59 ~~--~----~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~ 129 (130)
|. + +| +++|+++++|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+.+|.+.+.+
T Consensus 186 P~~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptgi~v~~~~eRSQ~~Nk~~A~~~L~~~L~~~~~~ 263 (339)
T PRK07342 186 PVIDDNIEVDVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQHKNRAKAWSMLRARLYEEELK 263 (339)
T ss_pred cCCCcccccccCcccEEEEEEECCCCCCCCccceeeeEEEEEcCCcEEEEECCcccHHHHHHHHHHHHHHHHHHHHHH
Confidence 11 1 12 356799999999999999999999999999999999999999999999999999999999987543
No 8
>TIGR00019 prfA peptide chain release factor 1. This model describes peptide chain release factor 1 (PrfA, RF-1), and excludes the related peptide chain release factor 2 (PrfB, RF-2). RF-1 helps recognize and terminate translation at UAA and UAG stop codons. The mitochondrial release factors are prfA-like, although not included above the trusted cutoff for this model. RF-1 does not have a translational frameshift.
Probab=100.00 E-value=4e-34 Score=243.04 Aligned_cols=126 Identities=23% Similarity=0.297 Sum_probs=106.4
Q ss_pred chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCC-------CC-----------CCCC---cCceec---
Q 032906 3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNC-------SS-----------SSSS---RNYLEL--- 58 (130)
Q Consensus 3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~-------~~-----------~s~~---~~~~~i--- 58 (130)
.+++||+||.++|.++||++++++..+++.++|+|+++.++|.+ +. .+.. +|++.+
T Consensus 129 ~a~~Ll~mY~~~a~~~g~~~~vi~~~~~~~~g~ksa~l~i~G~~ay~~lk~E~GvHrv~Rvp~~~s~~R~hTsfa~V~v~ 208 (360)
T TIGR00019 129 FAGDLFRMYSRYAESKGWKVEILSANETELGGYKEVIAEIKGDGVYSRLKFESGVHRVQRVPVTESQGRIHTSAATVAVM 208 (360)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEEecCCCCCCcceEEEEEEecccHHHHHhhcCeeEEEECCCCCCCCCCeecceeEEEEE
Confidence 57899999999999999999999999999888999999999886 11 1111 122221
Q ss_pred Cch-----hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906 59 TDD-----EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC 128 (130)
Q Consensus 59 ~~~-----~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~ 128 (130)
|.. .| ++|++++++|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.
T Consensus 209 P~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~SaVrl~h~ptgi~V~~~~eRSQ~~Nk~~A~~~L~~~L~~~~~ 284 (360)
T TIGR00019 209 PELEEVEVDINPADLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKDKAMKVLRARLYEAEQ 284 (360)
T ss_pred cCCCccccccCcccEEEEEEECCCCCCCCcCceeeeEEEEECCCcEEEEECCccCHHHHHHHHHHHHHHHHHHHHH
Confidence 111 12 34679999999999999999999999999999999999999999999999999999999998854
No 9
>TIGR00020 prfB peptide chain release factor 2. In many but not all taxa, there is a conserved real translational frameshift at a TGA codon. RF-2 helps terminate translation at TGA codons and can therefore regulate its own production by readthrough when RF-2 is insufficient. There is a Pfam model called "RF-1" for the superfamily of RF-1, RF-2, mitochondrial, RF-H, etc.
Probab=100.00 E-value=9.3e-34 Score=241.07 Aligned_cols=127 Identities=26% Similarity=0.362 Sum_probs=108.0
Q ss_pred chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-------CCCCc-------Cceec---
Q 032906 3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-------SSSSR-------NYLEL--- 58 (130)
Q Consensus 3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-------~s~~~-------~~~~i--- 58 (130)
.+++||+||.++|.++||++++++...++.++|+|+++.|+|... + .+|++ |++.+
T Consensus 142 ~a~~L~~mY~~~a~~~g~~~evi~~~~~~~~g~ks~~~~i~G~~ay~~lk~E~GvHrv~rvs~~~~~~rrhts~a~V~vl 221 (364)
T TIGR00020 142 WASMLYRMYLRWAERRGFKVEIIDYSEGEEAGIKSVTILIKGPYAYGYLKSEQGVHRLVRISPFDANGRRHTSFASVFVM 221 (364)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEEecCCCCCCceEEEEEEEeccCHHHHHhhccceEEEEecCCCCCCCCeEeeeEEEEEe
Confidence 478999999999999999999999999999889999999998861 1 12222 33322
Q ss_pred Cch------hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906 59 TDD------EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE 129 (130)
Q Consensus 59 ~~~------~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~ 129 (130)
|.. ++ +.|++++++|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.+
T Consensus 222 P~~~~~~~~~i~~~d~~~~~~rssG~GGQ~VNkt~saVri~H~ptgi~v~~q~~RSQ~~Nk~~A~~~L~~kL~~~~~~ 299 (364)
T TIGR00020 222 PEVDDDIDIEIKPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDSAMKVLKAKLYELEME 299 (364)
T ss_pred cCCCcccceecccccEEEEEeeCCCCCCccccccceEEEEEECCCcEEEEECCccCHHHHHHHHHHHHHHHHHHHHHH
Confidence 111 12 356799999999999999999999999999999999999999999999999999999999998653
No 10
>PRK00578 prfB peptide chain release factor 2; Validated
Probab=100.00 E-value=1e-33 Score=240.99 Aligned_cols=127 Identities=26% Similarity=0.385 Sum_probs=107.4
Q ss_pred chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-------CCCCc-------Cceec---
Q 032906 3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-------SSSSR-------NYLEL--- 58 (130)
Q Consensus 3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-------~s~~~-------~~~~i--- 58 (130)
.+++||+||.++|.++||++++++..+++.++|+|+++.++|.+. + .++++ |++.+
T Consensus 142 fa~~L~~mY~~~a~~~g~~~evi~~~~~~~gg~ks~~~~i~G~~a~~~lk~E~GvHrvqrvs~~~~~~r~hts~~~V~vl 221 (367)
T PRK00578 142 WASMLLRMYLRWAERHGFKVEVLDYSEGEEAGIKSATFKIKGPYAYGYLKSETGVHRLVRISPFDSAGRRHTSFASVEVY 221 (367)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEEecCCCCCCCeeEEEEEEeccCHHHHHhhccceEEEEecCCCCCCCceecceeeEEec
Confidence 578999999999999999999999999999889999999999861 1 11221 32222
Q ss_pred Cch------hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906 59 TDD------EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE 129 (130)
Q Consensus 59 ~~~------~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~ 129 (130)
|.. .+ ++|++++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.+
T Consensus 222 P~~~~~~~~~i~~~dl~~~~~rssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L~~kL~~~~~~ 299 (367)
T PRK00578 222 PEVDDTIEIEINPKDLRIDTYRSSGAGGQHVNKTDSAVRITHIPTGIVVQCQNERSQHQNKASAMKMLKAKLYELELE 299 (367)
T ss_pred CCCCCccccccChhhEEEEEeeCCCCCCCcccceeeEEEEEECCCcEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 111 12 346699999999999999999999999999999999999999999999999999999999988653
No 11
>PRK00591 prfA peptide chain release factor 1; Validated
Probab=100.00 E-value=1.7e-33 Score=239.20 Aligned_cols=127 Identities=24% Similarity=0.329 Sum_probs=107.6
Q ss_pred chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-----------CCCC---cCceec---
Q 032906 3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-----------SSSS---RNYLEL--- 58 (130)
Q Consensus 3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-----------~s~~---~~~~~i--- 58 (130)
.+++||+||.++|+++||++++++..+++.++|+|+++.++|.+. . .+.. +|++.+
T Consensus 129 ~a~~Ll~mY~~~a~~~g~~~~vi~~~~~~~~g~ksa~l~i~G~~ay~~Lk~E~GvHrv~R~p~~~s~~R~~tsfa~V~v~ 208 (359)
T PRK00591 129 FAGDLFRMYSRYAERQGWKVEILSASEGELGGYKEVIAEISGDGVYSKLKFESGVHRVQRVPATESQGRIHTSAATVAVL 208 (359)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEEecCCCCCCceeEEEEEEecccHHHHHhhcCeeEEEEeeCCCCCCCceecceEEEEEE
Confidence 578999999999999999999999999998889999999999862 1 1111 232222
Q ss_pred Cch-----hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906 59 TDD-----EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE 129 (130)
Q Consensus 59 ~~~-----~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~ 129 (130)
|.. ++ ++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+.+|.+.+.+
T Consensus 209 P~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptGi~v~~~~eRSQ~~Nk~~Al~~L~~~L~~~~~~ 285 (359)
T PRK00591 209 PEAEEVEVEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAERQ 285 (359)
T ss_pred cCCCccccccCcccEEEEEEECCCCCCCCccceeeeEEEEECCCcEEEEECCcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 111 22 346799999999999999999999999999999999999999999999999999999999988653
No 12
>COG1186 PrfB Protein chain release factor B [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.2e-33 Score=226.81 Aligned_cols=122 Identities=29% Similarity=0.376 Sum_probs=105.7
Q ss_pred hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-------CCCCc-------C--------
Q 032906 4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-------SSSSR-------N-------- 54 (130)
Q Consensus 4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-------~s~~~-------~-------- 54 (130)
+.-||+||.+.|+++|+++++++..+|+..+++|+++.++|..+ . .|||+ |
T Consensus 18 ~~~l~rmy~r~a~~~g~~~e~l~~~~g~~~g~ks~~~~~~g~~a~g~~~~e~g~hrlvr~Spf~~~~~R~tsf~~v~v~p 97 (239)
T COG1186 18 ASMLLRMYTRWAERKGFKVEVLDTSDGEEAGIKSATLKIKGENAYGYLKTETGVHRLVRISPFDSNGRRHTSFASVEVFP 97 (239)
T ss_pred HHHHHHHHHHHHHHcCCeEEEEeccCCcccccceEEEEEechHHHHHHHhhcceeEEEeecCCCcCcccccceeeeeecC
Confidence 45689999999999999999999999999889999999999651 1 34444 1
Q ss_pred ------ceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906 55 ------YLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC 128 (130)
Q Consensus 55 ------~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~ 128 (130)
.+.|++ .|++++|+|||||||||||||+|||+|+|+|+||++.|+.+|||++|++.|+..|+.+|.+.++
T Consensus 98 ~~~~~i~i~I~~----~dl~idt~RASGaGGQhVNKt~SAVrlth~ptgivv~cq~eRSq~~n~~~a~~~l~~kL~~~~~ 173 (239)
T COG1186 98 ELDISIEIEIPD----DDLRIDTYRASGAGGQHVNKTDSAVRLTHLPTGIVVLCQNERSQHLNKALARKMLKGKLYILAQ 173 (239)
T ss_pred CCCcccceecCc----cceEEEEEEcCCCCCCccccccccEEEEEcCCCCEecCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 233333 4559999999999999999999999999999999999999999999999999999999988765
Q ss_pred c
Q 032906 129 E 129 (130)
Q Consensus 129 ~ 129 (130)
+
T Consensus 174 ~ 174 (239)
T COG1186 174 E 174 (239)
T ss_pred H
Confidence 4
No 13
>KOG2726 consensus Mitochondrial polypeptide chain release factor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.9e-33 Score=237.07 Aligned_cols=122 Identities=27% Similarity=0.328 Sum_probs=105.4
Q ss_pred chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C--------CC-----------------
Q 032906 3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S--------SS----------------- 50 (130)
Q Consensus 3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~--------~s----------------- 50 (130)
.-.+||.||..+|++++|++++++..+++.+|+++++++|+|.+. . ++
T Consensus 154 ft~el~~MY~~~a~~~~w~~~~l~~~~~~~~Gi~~At~~i~G~~ayg~l~~E~GvHRv~r~p~~e~~gr~htstasV~Vi 233 (386)
T KOG2726|consen 154 FTMELVDMYQKYAERLGWKARVLEKAPGESGGIKSATLEIEGESAYGYLKFEAGVHRVQRVPSTETSGRRHTSTASVAVI 233 (386)
T ss_pred HHHHHHHHHHHHHHhcccceeehhcCCcccccceeeeeEecccchhheeeccCcccceeecCCcccccccccccceEEEe
Confidence 346899999999999999999999999999999999999999871 1 10
Q ss_pred --C--CcCceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhh
Q 032906 51 --S--SRNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEE 126 (130)
Q Consensus 51 --~--~~~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~ 126 (130)
+ -...+.++ ++||+++++|+|||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+.+|+.+|.+.
T Consensus 234 P~~~~~~~~~~~~----~~dl~i~~~R~~G~GGQhvNktdsaVrl~HiPTGIvv~cq~eRSq~~Nr~~A~~~L~akL~~~ 309 (386)
T KOG2726|consen 234 PQPGRDEVDVEID----EKDLRIETFRASGPGGQHVNKTDSAVRLTHIPTGIVVECQEERSQHKNRALALKRLRAKLAVI 309 (386)
T ss_pred ccCCCCccceecC----chheeEEecccCCCCcccccccccceEEEeecCceEEEeecHHhHHhhHHHHHHHHHHHHHHH
Confidence 1 11222333 345699999999999999999999999999999999999999999999999999999999987
Q ss_pred hh
Q 032906 127 QC 128 (130)
Q Consensus 127 q~ 128 (130)
+.
T Consensus 310 ~~ 311 (386)
T KOG2726|consen 310 YR 311 (386)
T ss_pred HH
Confidence 54
No 14
>PF00472 RF-1: RF-1 domain; InterPro: IPR000352 Peptide chain release factors (RFs) are required for the termination of protein biosynthesis []. At present two classes of RFs can be distinguished. Class I RFs bind to ribosomes that have encountered a stop codon at their decoding site and induce release of the nascent polypeptide. Class II RFs are GTP-binding proteins that interact with class I RFs and enhance class I RF activity. In prokaryotes there are two class I RFs that act in a codon specific manner []: RF-1 (gene prfA) mediates UAA and UAG-dependent termination while RF-2 (gene prfB) mediates UAA and UGA-dependent termination. RF-1 and RF-2 are structurally and evolutionary related proteins which have been shown to be part of a larger family [].; GO: 0003747 translation release factor activity, 0006415 translational termination; PDB: 2JY9_A 1ZBT_A 1GQE_A 3F1G_X 3F1E_X 1RQ0_C 4DH9_Y 2JVA_A 1J26_A 3D5A_X ....
Probab=99.96 E-value=7e-30 Score=185.77 Aligned_cols=70 Identities=41% Similarity=0.673 Sum_probs=64.7
Q ss_pred CceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhh
Q 032906 54 NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQ 127 (130)
Q Consensus 54 ~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q 127 (130)
..+.|++++| +++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++|++.|+++|.++|.++.
T Consensus 5 ~~~~i~~~dl----~~~~~RssGpGGQ~VNk~~s~V~l~h~ptgi~v~~~~~Rsq~~Nr~~A~~~L~~~l~~~~ 74 (113)
T PF00472_consen 5 KEIDIPEKDL----EISFSRSSGPGGQNVNKTNSKVRLRHIPTGIVVKCQESRSQHQNREDALEKLREKLDEAY 74 (113)
T ss_dssp SSSCC-GGGE----EEEEEESSSSSSCHHHSSSEEEEEEETTTTEEEEEESSSSHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccCHHHe----EEEEEecCCCCCCcccccCCEEEEEEecccEEEEEcccCCHHHHHHHHHHHHHHHHHHHH
Confidence 3456777777 999999999999999999999999999999999999999999999999999999999874
No 15
>PRK09256 hypothetical protein; Provisional
Probab=99.93 E-value=8.3e-26 Score=170.50 Aligned_cols=70 Identities=39% Similarity=0.552 Sum_probs=63.3
Q ss_pred CceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEE------eC-----------------Ce-eEEEEcCcCCHH
Q 032906 54 NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKH------VP-----------------TG-VIALAAEDRSQH 109 (130)
Q Consensus 54 ~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h------~P-----------------tG-i~v~~~e~RSq~ 109 (130)
..+.|++++| +++|+|||||||||||||+|+|+|+| +| +| |+|+|+++|||+
T Consensus 6 ~~~~i~~~~l----~~~~~RSSGPGGQ~VNKt~SkV~l~~~~~~~~lp~~~~~~l~~~~~~r~~~~g~l~i~~~~~RSQ~ 81 (138)
T PRK09256 6 RRLVIPENEL----EWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHRITKDGVIVIKAQEFRSQE 81 (138)
T ss_pred ccCccCHHHe----EEEEEEcCCCCcccccccceeeEEEechhhccCCHHHHHHHHHHhcCcccCCCcEEEEECCcCCHH
Confidence 3456777777 99999999999999999999999996 77 46 999999999999
Q ss_pred HHHHHHHHHHHHHHhhhh
Q 032906 110 KNRASALSHSFGPQSEEQ 127 (130)
Q Consensus 110 ~Nr~~A~~rL~~~l~e~q 127 (130)
+|+++|+++|.++|.++.
T Consensus 82 ~Nr~~al~kL~~~i~~~~ 99 (138)
T PRK09256 82 RNREDALERLVALIREAL 99 (138)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 999999999999999874
No 16
>KOG3429 consensus Predicted peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=99.85 E-value=1.3e-21 Score=151.84 Aligned_cols=67 Identities=34% Similarity=0.521 Sum_probs=60.4
Q ss_pred cCchhhccceeeeEEecCCCCCcCCCccCceEEEEE-------eC-----------------Ce-eEEEEcCcCCHHHHH
Q 032906 58 LTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKH-------VP-----------------TG-VIALAAEDRSQHKNR 112 (130)
Q Consensus 58 i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h-------~P-----------------tG-i~v~~~e~RSq~~Nr 112 (130)
||.+.+ +++|+||||||||||||++|+|.|++ || .| |+|.++.+|||+.|.
T Consensus 37 ipld~~----~i~y~RSSGPGGQNVNKvNTKv~vrf~vs~a~Wipe~~R~~~~~~~~~rink~gelvI~Sd~TRsq~~Ni 112 (172)
T KOG3429|consen 37 IPLDQL----EISYSRSSGPGGQNVNKVNTKVEVRFKVSNAEWIPEFLRNKLLTTEKNRINKDGELVIYSDKTRSQHKNI 112 (172)
T ss_pred Cchhhe----EEEEeecCCCCCcccccccceEEEEEecchhhhccHHHHHHHHHHHHHhhccCccEEEecchhHHhhccH
Confidence 554556 99999999999999999999999994 55 35 999999999999999
Q ss_pred HHHHHHHHHHHhhhhh
Q 032906 113 ASALSHSFGPQSEEQC 128 (130)
Q Consensus 113 ~~A~~rL~~~l~e~q~ 128 (130)
++||++|+++|.++++
T Consensus 113 aDcleKlr~~I~~~~~ 128 (172)
T KOG3429|consen 113 ADCLEKLRDIIRAAEQ 128 (172)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 9999999999999865
No 17
>PF03462 PCRF: PCRF domain; InterPro: IPR005139 This domain is found in peptide chain release factors. Peptide chain release factors are important for protein synthesis since they direct the termination of translation in response to the peptide chain termination codons UAG and UAA. These are structurally distinct but both contain the PCRF domain [].; GO: 0016149 translation release factor activity, codon specific, 0006415 translational termination, 0005737 cytoplasm; PDB: 3D5A_X 3D5C_X 3MR8_V 3MS0_V 3F1G_X 3F1E_X 1ZBT_A 2IHR_1 2X9R_Y 2X9T_Y ....
Probab=97.94 E-value=9.1e-06 Score=59.14 Aligned_cols=42 Identities=7% Similarity=-0.034 Sum_probs=37.8
Q ss_pred hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCC
Q 032906 4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDN 45 (130)
Q Consensus 4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~ 45 (130)
+++||+||.++|.++||++++++...++.++++++++.|+|.
T Consensus 65 a~~L~~MY~~~a~~~gw~~~~l~~~~~~~~G~k~a~~~I~G~ 106 (115)
T PF03462_consen 65 AEELFRMYQRYAERRGWKVEVLDYSPGEEGGIKSATLEISGE 106 (115)
T ss_dssp HHHHHHHHHHHHHHTT-EEEEEEEEE-SSSSEEEEEEEEEST
T ss_pred HHHHHHHHHHHHHHcCCEEEEEecCCCCccceeEEEEEEEcC
Confidence 578999999999999999999999999998899999999876
No 18
>PF10213 MRP-S28: Mitochondrial ribosomal subunit protein ; InterPro: IPR019349 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a conserved region of approx. 125 residues of one of the proteins that makes up the small subunit of the mitochondrial ribosome. In Saccharomyces cerevisiae (Baker's yeast) it is mitochondrial ribosomal protein S24 whereas in humans it is S35.
Probab=77.38 E-value=19 Score=26.83 Aligned_cols=33 Identities=9% Similarity=-0.092 Sum_probs=30.3
Q ss_pred Ce-eEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906 96 TG-VIALAAEDRSQHKNRASALSHSFGPQSEEQC 128 (130)
Q Consensus 96 tG-i~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~ 128 (130)
+| |.++|+..-++.+|+.-|...|..++.|+..
T Consensus 60 ~d~l~i~sdr~~~~~qN~~~l~~~l~~L~~EA~~ 93 (127)
T PF10213_consen 60 TDILKISSDRFPTRAQNKKYLSDLLTRLIHEAKD 93 (127)
T ss_pred CCEEEEecccCCCHHHHHHHHHHHHHHHHHHHhh
Confidence 56 8999999999999999999999999999854
No 19
>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like. The vigilin family is a large and extended family of multiple KH-domain proteins, including vigilin, also called high density lipoprotein binding protien (HBP), fungal Scp160 and bicaudal-C. Yeast Scp160p has been shown to bind RNA and to associate with both soluble and membrane-bound polyribosomes as a mRNP component. Bicaudal-C is a RNA-binding molecule believed to function in embryonic development at the post-transcriptional level. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=50.87 E-value=16 Score=22.61 Aligned_cols=39 Identities=18% Similarity=0.273 Sum_probs=23.4
Q ss_pred CCCCcCCCcc--CceEEEEEeC----Ce-eEEEEcCcCCHHHHHHHHHHHH
Q 032906 76 GPGGQHRNKR--ESAVRLKHVP----TG-VIALAAEDRSQHKNRASALSHS 119 (130)
Q Consensus 76 GPGGQ~VNKv--~s~V~l~h~P----tG-i~v~~~e~RSq~~Nr~~A~~rL 119 (130)
||||.++++. +|.|.|..-+ .+ ++|... ..+-..|...|
T Consensus 16 G~~G~~i~~i~~~~g~~I~i~~~~~~~~~v~I~G~-----~~~v~~A~~~i 61 (62)
T cd02394 16 GKKGSNIRKIMEETGVKIRFPDPGSKSDTITITGP-----KENVEKAKEEI 61 (62)
T ss_pred CCCCCcHHHHHHHhCCEEEcCCCCCCCCEEEEEcC-----HHHHHHHHHHh
Confidence 8899999943 4666666544 45 555555 23445555443
No 20
>KOG3933 consensus Mitochondrial ribosomal protein S28 [Translation, ribosomal structure and biogenesis]
Probab=48.76 E-value=60 Score=27.90 Aligned_cols=32 Identities=16% Similarity=-0.040 Sum_probs=28.6
Q ss_pred Ce-eEEEEcCcCCHHHHHHHHHHHHHHHHhhhh
Q 032906 96 TG-VIALAAEDRSQHKNRASALSHSFGPQSEEQ 127 (130)
Q Consensus 96 tG-i~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q 127 (130)
++ ++|.|+.--+..+|+..|+..|..++.|..
T Consensus 202 tD~~tissDR~~~r~QN~~y~~~lLt~L~~ES~ 234 (296)
T KOG3933|consen 202 TDLLTISSDRCEHREQNYDYALYLLTVLYHESG 234 (296)
T ss_pred CCeEEEeccccchhhHhHHHHHHHHHHHHHHhc
Confidence 45 799999999999999999999999998873
No 21
>smart00322 KH K homology RNA-binding domain.
Probab=38.87 E-value=41 Score=19.82 Aligned_cols=45 Identities=18% Similarity=0.181 Sum_probs=26.2
Q ss_pred CCCCcCCCc--cCceEEEEEeCC--e-eEEEEcCcCCHHHHHHHHHHHHHHHH
Q 032906 76 GPGGQHRNK--RESAVRLKHVPT--G-VIALAAEDRSQHKNRASALSHSFGPQ 123 (130)
Q Consensus 76 GPGGQ~VNK--v~s~V~l~h~Pt--G-i~v~~~e~RSq~~Nr~~A~~rL~~~l 123 (130)
|++|.+++. -.+.+.+.-.+. + -.+..... ..|.+.|...|.+.+
T Consensus 19 G~~G~~i~~i~~~~~~~i~~~~~~~~~~~v~i~g~---~~~v~~a~~~i~~~~ 68 (69)
T smart00322 19 GKGGSTIKKIEEETGVKIDIPEDGSEERVVEITGP---PENVEKAAELILEIL 68 (69)
T ss_pred CCCchHHHHHHHHHCCEEEECCCCCCccEEEEEcC---HHHHHHHHHHHHHHh
Confidence 888988774 334444443332 1 22333222 578888888887765
No 22
>cd00552 RaiA RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site. RaiA is also thought to counteract miscoding at the A site thus reducing translation errors. The RaiA fold structurally resembles the double-stranded RNA-binding domain (dsRBD).
Probab=37.07 E-value=1.2e+02 Score=19.95 Aligned_cols=54 Identities=15% Similarity=0.130 Sum_probs=34.8
Q ss_pred eeeeEEecCCCCCcCCCccCceEEEE-EeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhh
Q 032906 67 CEMDAYKSSGPGGQHRNKRESAVRLK-HVPTGVIALAAEDRSQHKNRASALSHSFGPQSEE 126 (130)
Q Consensus 67 ~~~~~~RssGPGGQ~VNKv~s~V~l~-h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~ 126 (130)
+++.+..-.+||++ -.|+++ ++|.+.++...+.-+-+.=-..|+++|...|...
T Consensus 36 ~~V~l~~~~~~~~~------~~v~i~v~~~g~~~~a~~~~~d~~~Aid~a~~kl~rqL~k~ 90 (93)
T cd00552 36 VDVVLSVEKNHGKR------FKVEITIHLPGGVLRAEASAEDLYAAIDLAVDKLERQLRKY 90 (93)
T ss_pred EEEEEEEecCCCCc------eEEEEEEEeCCCEEEEEEccCCHHHHHHHHHHHHHHHHHHh
Confidence 56666666555222 255555 6774444444555788888888999988888764
No 23
>COG1186 PrfB Protein chain release factor B [Translation, ribosomal structure and biogenesis]
Probab=31.08 E-value=9.5 Score=31.68 Aligned_cols=29 Identities=41% Similarity=0.445 Sum_probs=27.0
Q ss_pred eEEEEcCcCCHHHHHHHHHHHHHHHHhhh
Q 032906 98 VIALAAEDRSQHKNRASALSHSFGPQSEE 126 (130)
Q Consensus 98 i~v~~~e~RSq~~Nr~~A~~rL~~~l~e~ 126 (130)
|.+..++.|+|.+|+..|++++.+.+.++
T Consensus 168 L~~~~~~~Rsqe~n~~~a~~k~i~wg~qi 196 (239)
T COG1186 168 LYILAQEKRSQEKNRERALKKLIGWGNQI 196 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHHhc
Confidence 88999999999999999999999988775
No 24
>PF04149 DUF397: Domain of unknown function (DUF397); InterPro: IPR007278 The function of this family is unknown. It has been suggested that some members of this family are regulators of transcription.
Probab=30.87 E-value=1e+02 Score=19.60 Aligned_cols=19 Identities=26% Similarity=0.515 Sum_probs=13.9
Q ss_pred ceEEEEEeCCeeEEEEcCc
Q 032906 87 SAVRLKHVPTGVIALAAED 105 (130)
Q Consensus 87 s~V~l~h~PtGi~v~~~e~ 105 (130)
++|++...|.|+-|..+..
T Consensus 16 ~CVEva~~~~~v~vRDSk~ 34 (56)
T PF04149_consen 16 NCVEVARLPGGVAVRDSKD 34 (56)
T ss_pred CcEEEEeecceEEEecCCC
Confidence 4888888888866665554
No 25
>PRK06418 transcription elongation factor NusA-like protein; Validated
Probab=30.25 E-value=30 Score=27.10 Aligned_cols=35 Identities=17% Similarity=0.234 Sum_probs=21.1
Q ss_pred EEEEeCCe-eE--EEE-cCcCCHHHHHHHHHHHHHHHHh
Q 032906 90 RLKHVPTG-VI--ALA-AEDRSQHKNRASALSHSFGPQS 124 (130)
Q Consensus 90 ~l~h~PtG-i~--v~~-~e~RSq~~Nr~~A~~rL~~~l~ 124 (130)
++++.|+| .. |.. ...|.....|-..++.+..+|-
T Consensus 119 ~i~~~~dG~~~~kV~Vd~~Dk~~l~~k~e~~~~v~~klt 157 (166)
T PRK06418 119 NTVWLPDGTVQYVIRVSRRDRRRLPAKPELLESILSKIT 157 (166)
T ss_pred EEEEeCCCcEEEEEEECHHHhhcccccHHHHHHHHHHHH
Confidence 44566787 22 333 3446666677777777776664
No 26
>PF02815 MIR: MIR domain; InterPro: IPR003608 The MIR domain is named after three of the proteins in which it occurs: protein Mannosyltransferase (2.4.1.109 from EC), Inositol 1,4,5-trisphosphate receptor (IP3R) and Ryanodine receptor (RyR). MIR domains have also been found in eukaryotic stromal cell-derived factor 2 (SDF-2) and in Chlamydia trachomatis protein CT153. The MIR domain may have a ligand transferase function. This domain has a closed beta-barrel structure with a hairpin triplet, and has an internal pseudo-threefold symmetry. The MIR motifs that make up the MIR domain consist of ~50 residues and are often found in multiple copies. Inositol 1,4,5-trisphosphate (InsP3) is an intracellular second messenger that transduces growth factor and neurotransmitter signals. InsP3 mediates the release of Ca2+ from intracellular stores by binding to specific Ca2+ channel-coupled receptors. Ryanodine receptors are involved in communication between transverse-tubules and the sarcoplamic reticulum of cardiac and skeletal muscle. The proteins function as a Ca2+-release channels following depolarisation of transverse-tubules []. The function is modulated by Ca2+, Mg2+, ATP and calmodulin. Deficiency in the ryanodine receptor may be the cause of malignant hyperthermia (MH) and of central core disease of muscle (CCD) []. protein O-mannosyltransferases transfer mannose from DOL-P-mannose to ser or thr residues on proteins.; GO: 0016020 membrane; PDB: 1T9F_A 3UJ4_B 3UJ0_B 3T8S_B 3MAL_B 2XOA_A 1N4K_A.
Probab=29.57 E-value=99 Score=23.40 Aligned_cols=38 Identities=26% Similarity=0.392 Sum_probs=27.8
Q ss_pred eeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcC
Q 032906 69 MDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDR 106 (130)
Q Consensus 69 ~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~R 106 (130)
++..-..|.++..+-..+|.++|+|..+|.-+.+++.+
T Consensus 121 ~~~~~~~~~~~~~~~~~~s~frL~H~~t~~~L~~~~~~ 158 (190)
T PF02815_consen 121 FEEKSSTGMGEDEIKTLDSYFRLRHVATGCWLHSHDVK 158 (190)
T ss_dssp EEEEESSSCSSSSBBBTTSEEEEEETTTTEEEEEEEEE
T ss_pred EEecccCCccCCcEEecccEEEEEECCcCEEEecCCcc
Confidence 33444556677888888999999999999666665544
No 27
>PF14048 MBD_C: C-terminal domain of methyl-CpG binding protein 2 and 3; PDB: 2L2L_B.
Probab=28.41 E-value=25 Score=25.12 Aligned_cols=27 Identities=11% Similarity=0.035 Sum_probs=19.7
Q ss_pred eeEEEEcCcCCHHHHHHHHHHHHHHHH
Q 032906 97 GVIALAAEDRSQHKNRASALSHSFGPQ 123 (130)
Q Consensus 97 Gi~v~~~e~RSq~~Nr~~A~~rL~~~l 123 (130)
.++|+..+=|.|..--+.|++||.+.|
T Consensus 70 ~~~VT~eDIr~QE~rVk~aR~RLaeAL 96 (96)
T PF14048_consen 70 QFVVTEEDIRRQERRVKKARKRLAEAL 96 (96)
T ss_dssp -----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCccCHHHHHHHHHHHHHHHHHHHHHC
Confidence 467888888999999999999998764
No 28
>cd00105 KH-I K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is folded into a beta alpha alpha beta unit. In addition to the core, type II KH domains (e.g. ribosomal protein S3) include N-terminal extension and type I KH domains (e.g. hnRNP K) contain C-terminal extension.
Probab=27.70 E-value=42 Score=20.36 Aligned_cols=40 Identities=15% Similarity=0.152 Sum_probs=23.2
Q ss_pred CCCCCcCCCccC--ceEEEEEeCC------e-eEEEEcCcCCHHHHHHHHHHHH
Q 032906 75 SGPGGQHRNKRE--SAVRLKHVPT------G-VIALAAEDRSQHKNRASALSHS 119 (130)
Q Consensus 75 sGPGGQ~VNKv~--s~V~l~h~Pt------G-i~v~~~e~RSq~~Nr~~A~~rL 119 (130)
=||||.+++... |.|.+...+. . +.+... ..|...|...|
T Consensus 15 IG~~G~~i~~I~~~s~~~I~i~~~~~~~~~~~v~i~G~-----~~~v~~a~~~i 63 (64)
T cd00105 15 IGKGGSTIKEIREETGAKIKIPDSGSGSEERIVTITGT-----PEAVEKAKELI 63 (64)
T ss_pred ECCCCHHHHHHHHHHCCEEEEcCCCCCCCceEEEEEcC-----HHHHHHHHHHh
Confidence 388999988544 4477665442 2 333333 45666665544
No 29
>smart00472 MIR Domain in ryanodine and inositol trisphosphate receptors and protein O-mannosyltransferases.
Probab=26.87 E-value=71 Score=19.29 Aligned_cols=22 Identities=36% Similarity=0.525 Sum_probs=15.5
Q ss_pred cCceEEEEEeCCeeEEEEcCcC
Q 032906 85 RESAVRLKHVPTGVIALAAEDR 106 (130)
Q Consensus 85 v~s~V~l~h~PtGi~v~~~e~R 106 (130)
..+.|+|+|.-||--+.+++.+
T Consensus 6 ~g~~vrL~H~~tg~yL~s~~~~ 27 (57)
T smart00472 6 WGDVVRLRHVTTGRYLHSHENK 27 (57)
T ss_pred cCCEEEEEEhhhCcEeecCCCC
Confidence 3589999998887555555544
No 30
>PF02817 E3_binding: e3 binding domain; InterPro: IPR004167 A small domain of the E2 subunit of 2-oxo-acid dehydrogenases that is responsible for the binding of the E3 subunit. Proteins containing this domain include the branched-chain alpha-keto acid dehydrogenase complex of bacteria, which catalyses the overall conversion of alpha-keto acids to acyl-CoA and carbon dioxide; and the E-3 binding protein of eukaryotic pyruvate dehydrogenase.; GO: 0016746 transferase activity, transferring acyl groups, 0008152 metabolic process; PDB: 1BBL_A 1W4H_A 1BAL_A 2WXC_A 2BTH_A 2BTG_A 2CYU_A 2EQ7_C 2EQ8_C 3RNM_E ....
Probab=25.39 E-value=20 Score=21.55 Aligned_cols=16 Identities=31% Similarity=0.721 Sum_probs=11.4
Q ss_pred ceeeeEEecCCCCCcC
Q 032906 66 ECEMDAYKSSGPGGQH 81 (130)
Q Consensus 66 ~~~~~~~RssGPGGQ~ 81 (130)
.++++.+.++||+|.-
T Consensus 17 gidl~~v~gtG~~GrI 32 (39)
T PF02817_consen 17 GIDLSQVKGTGPGGRI 32 (39)
T ss_dssp T--GGGSSSSSTTSBB
T ss_pred CCCcccccccCCCCcE
Confidence 3567778899999974
No 31
>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hnRNP K) fold which is necessary and sufficient for BPS binding. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=21.21 E-value=1.2e+02 Score=22.23 Aligned_cols=25 Identities=16% Similarity=0.008 Sum_probs=12.8
Q ss_pred eEEEEcCcCCHHHHHHHHHHHHHHHHh
Q 032906 98 VIALAAEDRSQHKNRASALSHSFGPQS 124 (130)
Q Consensus 98 i~v~~~e~RSq~~Nr~~A~~rL~~~l~ 124 (130)
+.|.+... -...-+.|.+.+..++.
T Consensus 70 V~I~a~~~--~~e~~~~A~~~I~~ll~ 94 (120)
T cd02395 70 VLITAETP--PEEALAKAVEAIEELLK 94 (120)
T ss_pred EEEEeCCc--HHHHHHHHHHHHHHHhc
Confidence 66666652 22444455555554444
No 32
>PF13014 KH_3: KH domain
Probab=20.97 E-value=27 Score=20.45 Aligned_cols=20 Identities=25% Similarity=0.615 Sum_probs=14.4
Q ss_pred CCCCcCCC--ccCceEEEEEeC
Q 032906 76 GPGGQHRN--KRESAVRLKHVP 95 (130)
Q Consensus 76 GPGGQ~VN--Kv~s~V~l~h~P 95 (130)
||||.++| ..+|.|+|...+
T Consensus 7 G~~G~~I~~I~~~tg~~I~i~~ 28 (43)
T PF13014_consen 7 GKGGSTIKEIREETGAKIQIPP 28 (43)
T ss_pred CCCChHHHHHHHHhCcEEEECC
Confidence 78888888 456677776554
No 33
>cd04911 ACT_AKiii-YclM-BS_1 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Bacillus subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from Bacillus subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.66 E-value=1.4e+02 Score=20.42 Aligned_cols=17 Identities=18% Similarity=0.638 Sum_probs=10.7
Q ss_pred eEEEEEeCCe---eEEEEcC
Q 032906 88 AVRLKHVPTG---VIALAAE 104 (130)
Q Consensus 88 ~V~l~h~PtG---i~v~~~e 104 (130)
.+.+-|+||| +.|..++
T Consensus 29 ~is~Eh~PSGID~~Siii~~ 48 (76)
T cd04911 29 GISYEHMPSGIDDISIIIRD 48 (76)
T ss_pred CCCEeeecCCCccEEEEEEc
Confidence 3456699999 4555444
Done!