Query 029341
Match_columns 195
No_of_seqs 266 out of 1121
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 11:22:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029341.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029341hhsearch_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 4.1E-50 8.8E-55 360.2 11.0 157 3-174 131-317 (363)
2 TIGR03072 release_prfH putativ 100.0 1.2E-44 2.6E-49 306.3 11.0 158 2-169 17-196 (200)
3 PRK08179 prfH peptide chain re 100.0 7.9E-44 1.7E-48 301.3 11.3 158 2-169 18-197 (200)
4 PRK08787 peptide chain release 100.0 6.7E-43 1.5E-47 311.9 11.7 161 2-174 83-269 (313)
5 TIGR00019 prfA peptide chain r 100.0 6E-43 1.3E-47 317.4 10.4 162 2-174 129-315 (360)
6 PRK05589 peptide chain release 100.0 1.6E-42 3.5E-47 311.0 11.8 159 2-170 103-287 (325)
7 PRK07342 peptide chain release 100.0 2.4E-42 5.3E-47 311.2 10.7 159 2-170 106-290 (339)
8 PRK06746 peptide chain release 100.0 2.2E-42 4.7E-47 310.2 10.0 159 2-170 104-288 (326)
9 PRK00591 prfA peptide chain re 100.0 2.6E-42 5.6E-47 313.2 10.3 160 2-170 129-313 (359)
10 TIGR00020 prfB peptide chain r 100.0 8.8E-42 1.9E-46 310.2 10.3 159 2-170 142-326 (364)
11 KOG2726 Mitochondrial polypept 100.0 2.1E-41 4.5E-46 308.0 12.1 155 3-170 155-340 (386)
12 PRK00578 prfB peptide chain re 100.0 2.4E-41 5.2E-46 307.6 10.7 159 2-170 142-326 (367)
13 COG1186 PrfB Protein chain rel 100.0 9.6E-39 2.1E-43 276.0 7.7 159 3-171 18-202 (239)
14 PF00472 RF-1: RF-1 domain; I 100.0 4.3E-32 9.4E-37 210.7 7.3 100 58-170 5-104 (113)
15 PRK09256 hypothetical protein; 99.9 2.5E-23 5.4E-28 167.5 8.2 71 59-133 7-101 (138)
16 KOG3429 Predicted peptidyl-tRN 99.7 1.4E-17 2.9E-22 137.6 6.3 62 71-132 42-128 (172)
17 PF03462 PCRF: PCRF domain; I 98.5 9.5E-08 2.1E-12 74.4 4.5 46 3-48 65-110 (115)
18 PF10213 MRP-S28: Mitochondria 62.3 48 0.001 26.5 7.3 34 100-133 60-94 (127)
19 PRK03657 hypothetical protein; 55.4 61 0.0013 27.1 7.1 124 3-129 12-164 (170)
20 PRK03661 hypothetical protein; 55.2 60 0.0013 26.8 7.0 122 6-130 9-160 (164)
21 cd02394 vigilin_like_KH K homo 39.5 31 0.00067 22.9 2.5 39 80-123 16-61 (62)
22 PF02815 MIR: MIR domain; Int 39.2 58 0.0013 26.6 4.5 38 74-111 122-159 (190)
23 smart00322 KH K homology RNA-b 31.3 78 0.0017 20.0 3.4 45 80-127 19-68 (69)
24 PRK13556 azoreductase; Provisi 25.8 48 0.001 27.5 1.9 23 167-189 99-121 (208)
25 PF13710 ACT_5: ACT domain; PD 25.0 1.1E+02 0.0024 21.0 3.4 33 12-44 11-43 (63)
26 smart00472 MIR Domain in ryano 24.9 75 0.0016 20.6 2.4 22 90-111 7-28 (57)
27 KOG3933 Mitochondrial ribosoma 23.9 2.9E+02 0.0064 25.4 6.7 31 100-130 202-233 (296)
28 PRK00549 competence damage-ind 23.2 2E+02 0.0043 27.0 5.7 117 8-127 261-407 (414)
29 TIGR00199 cinA_cterm competenc 22.3 1.8E+02 0.0038 23.5 4.6 109 12-123 3-141 (146)
30 PRK09739 hypothetical protein; 21.6 59 0.0013 26.7 1.7 24 167-190 89-112 (199)
31 COG1546 CinA Uncharacterized p 21.6 4.2E+02 0.0092 22.2 6.7 115 10-127 13-160 (162)
32 cd00105 KH-I K homology RNA-bi 20.5 91 0.002 20.2 2.2 42 79-123 15-63 (64)
No 1
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.1e-50 Score=360.25 Aligned_cols=157 Identities=27% Similarity=0.367 Sum_probs=136.8
Q ss_pred hHHHHHHhHHHHHHcCCeeeeeeccCCCCCCeeEEEEeecCCCCcc-----ccCC--------------CCCCCC-----
Q 029341 3 LAAQFLLRIPQLRRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSS-----SSSS--------------SSSSRN----- 58 (195)
Q Consensus 3 ~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~g~~S~~~~~~g~~~~~-----~g~~--------------~~~~~~----- 58 (195)
.+|||+||.++|+.+||++++++.+.++.||||.++++|+|.++|+ +|.| |..-..
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 5799999999999999999999999999999999999999999875 5655 332221
Q ss_pred ------ccccChhhhhccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHHh
Q 029341 59 ------YLELTDDELFRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVR 132 (195)
Q Consensus 59 ------~~~i~~~dL~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~ 132 (195)
-+.|++.|| +|++|||||+||||||+|+||||||||||||+|+||++||||+||++||+.|+++|....+
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 355555555 9999999999999999999999999999999999999999999999999999998876555
Q ss_pred hhcccCCCCCCccccccCCCCCccccCcccCccCCCCCChhH
Q 029341 133 SSVNLDAYSPPPKLLQILPPKSTIRSSEVGAQIGPNNPKFAL 174 (195)
Q Consensus 133 ~~~~~~~~~~~~~~~~~~~rksq~r~~~r~ekIrtyn~~fp~ 174 (195)
++.+.+ ....||+|+++|||||+||||| ||+
T Consensus 287 ~~~~~~---------~~~~RksqVGSGDRSErIRTYN--fPQ 317 (363)
T COG0216 287 QKAQAE---------EASERKSQVGSGDRSERIRTYN--FPQ 317 (363)
T ss_pred HHHHHH---------HHHHHHHhcCCCchhhhhhccC--CCC
Confidence 444332 2568999999999999999999 887
No 2
>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=1.2e-44 Score=306.33 Aligned_cols=158 Identities=22% Similarity=0.267 Sum_probs=136.5
Q ss_pred hhHHHHHHhHHHHHHcCCeeeeeeccCCCCC-CeeEEEEeecCCCCcc-----cc-----------CCCCCCCCccccCh
Q 029341 2 ALAAQFLLRIPQLRRKNINFPSYKHRGNYQP-LFLSCNYSTNDNCSSS-----SS-----------SSSSSSRNYLELTD 64 (195)
Q Consensus 2 ~~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~-g~~S~~~~~~g~~~~~-----~g-----------~~~~~~~~~~~i~~ 64 (195)
.+++||+||.+||+++||++++++..+++.+ ||+||+++|+|+++|. .| ++|+|++||+.+..
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 5789999999999999999999999999975 6999999999998753 23 44788999877533
Q ss_pred ----hhh-hccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHHhhhcccCC
Q 029341 65 ----DEL-FRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDA 139 (195)
Q Consensus 65 ----~dL-~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~~~~~~~~ 139 (195)
.++ ++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....++.+.+
T Consensus 97 ~~~~~~i~~~dl~~~~~RssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L~~~l~~~~~~~~~~~- 175 (200)
T TIGR03072 97 FSASEEATEDEIRFETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLATLLLAVRLADLQQEQAAAL- 175 (200)
T ss_pred ecCccccChhheEEEEEECCCCCcccccccceeEEEEECCCcEEEEECCccCHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence 123 35789999999999999999999999999999999999999999999999999999999976555554432
Q ss_pred CCCCccccccCCCCCccccCcccCccCCCC
Q 029341 140 YSPPPKLLQILPPKSTIRSSEVGAQIGPNN 169 (195)
Q Consensus 140 ~~~~~~~~~~~~rksq~r~~~r~ekIrtyn 169 (195)
...++++....+||++|||||
T Consensus 176 ---------~~~~r~~~~~~~Rg~~iRty~ 196 (200)
T TIGR03072 176 ---------RAERRTAHHQIERGNPVRVFK 196 (200)
T ss_pred ---------HHHHHhccccccccCceEeee
Confidence 456888888889999999999
No 3
>PRK08179 prfH peptide chain release factor-like protein; Reviewed
Probab=100.00 E-value=7.9e-44 Score=301.32 Aligned_cols=158 Identities=20% Similarity=0.223 Sum_probs=135.6
Q ss_pred hhHHHHHHhHHHHHHcCCeeeeeeccCCCC-CCeeEEEEeecCCCCccc-----c-----------CCCCCCCCccccCh
Q 029341 2 ALAAQFLLRIPQLRRKNINFPSYKHRGNYQ-PLFLSCNYSTNDNCSSSS-----S-----------SSSSSSRNYLELTD 64 (195)
Q Consensus 2 ~~~~~f~~~~~~a~r~~~~~~~v~~~~~~~-~g~~S~~~~~~g~~~~~~-----g-----------~~~~~~~~~~~i~~ 64 (195)
.+++||+||.+||+++||++++++..+++. |||+||+++|+|+++|.+ | ++|++.+||+.+..
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 578999999999999999999999999998 459999999999987542 3 44789999887532
Q ss_pred ----hhh-hccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHHhhhcccCC
Q 029341 65 ----DEL-FRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDA 139 (195)
Q Consensus 65 ----~dL-~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~~~~~~~~ 139 (195)
.++ ++||+|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....++.+.+
T Consensus 98 ~~~~~~i~~~dl~~~~~RssGpGGQ~VNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L~~~L~~~~~~~~~~~- 176 (200)
T PRK08179 98 FSADEEEQSDEIRFETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLARLLIAWKLEQQQQEQSAAL- 176 (200)
T ss_pred eCCcCccCHHHeEEEEEEccCCcccccccccceEEEEEcCCcEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence 122 34779999999999999999999999999999999999999999999999999999999876555544433
Q ss_pred CCCCccccccCCCCCccccCcccCccCCCC
Q 029341 140 YSPPPKLLQILPPKSTIRSSEVGAQIGPNN 169 (195)
Q Consensus 140 ~~~~~~~~~~~~rksq~r~~~r~ekIrtyn 169 (195)
...++++..+.+||++||||-
T Consensus 177 ---------~~~~~~~~~~~~Rg~~IRt~~ 197 (200)
T PRK08179 177 ---------KSQRRMFHHQIERGNPRRVFT 197 (200)
T ss_pred ---------HHHHHhccccccccCceEeee
Confidence 446788888889999999984
No 4
>PRK08787 peptide chain release factor 2; Provisional
Probab=100.00 E-value=6.7e-43 Score=311.85 Aligned_cols=161 Identities=23% Similarity=0.263 Sum_probs=131.4
Q ss_pred hhHHHHHHhHHHHHHcCCeeeeeeccCCCCCCeeEEEEeecCCCCcc-----ccCC-----------CCCCCCccccCh-
Q 029341 2 ALAAQFLLRIPQLRRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSS-----SSSS-----------SSSSRNYLELTD- 64 (195)
Q Consensus 2 ~~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~g~~S~~~~~~g~~~~~-----~g~~-----------~~~~~~~~~i~~- 64 (195)
.++.||+||.+||+++||++++++..+++.+||+|+++.|+|+++|. .|+| |++.+||+.+..
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 47899999999999999999999999999999999999999998764 3544 789999876422
Q ss_pred ----h----hh-hccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHHhhhc
Q 029341 65 ----D----EL-FRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSV 135 (195)
Q Consensus 65 ----~----dL-~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~~~~ 135 (195)
+ ++ +.||+|+|+|||||||||||||+|||||+|+||||+|+|+++|||++||+.|+++|+++|.....++.
T Consensus 163 P~~~~~~~i~i~~~dl~~~~~RssG~GGQ~VNkt~saVri~H~Ptgi~v~~q~eRSQ~~Nk~~A~~~L~~~L~~~~~e~~ 242 (313)
T PRK08787 163 PEVDDNIEIDINPADLRTDVYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRDNAMKMLAAKLYELEVQKR 242 (313)
T ss_pred cCcCcccccccChhHeEEEEEECCCCCCCCcCCEeeEEEEEECCCcEEEEECCcccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 12 35789999999999999999999999999999999999999999999999999999998865444433
Q ss_pred ccCCCCCCccccccCCCCCccccCcccCccCCCCCChhH
Q 029341 136 NLDAYSPPPKLLQILPPKSTIRSSEVGAQIGPNNPKFAL 174 (195)
Q Consensus 136 ~~~~~~~~~~~~~~~~rksq~r~~~r~ekIrtyn~~fp~ 174 (195)
+.+. .....+|+++ .||+|||||| ||+
T Consensus 243 ~~~~-------~~~~~~k~~i---~~g~qIRtY~--f~~ 269 (313)
T PRK08787 243 NAEK-------DALEATKSDI---GWGSQIRNYV--LDQ 269 (313)
T ss_pred HHHH-------HHHhhhhhhC---ccccccccee--CCC
Confidence 3220 0111235554 4888999999 555
No 5
>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=6e-43 Score=317.36 Aligned_cols=162 Identities=22% Similarity=0.272 Sum_probs=136.3
Q ss_pred hhHHHHHHhHHHHHHcCCeeeeeeccCCCCCCeeEEEEeecCCCCccc-----cCC-----------CCCCCCccccCh-
Q 029341 2 ALAAQFLLRIPQLRRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSSS-----SSS-----------SSSSRNYLELTD- 64 (195)
Q Consensus 2 ~~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~g~~S~~~~~~g~~~~~~-----g~~-----------~~~~~~~~~i~~- 64 (195)
+++.||+||.+||+++||++++++..+++.+||+||+++|+|.++|.. |.| +++.+||+.+..
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 578999999999999999999999999999999999999999987643 433 344488765422
Q ss_pred ---h----hh-hccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHHhhhcc
Q 029341 65 ---D----EL-FRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVN 136 (195)
Q Consensus 65 ---~----dL-~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~~~~~ 136 (195)
. ++ ++|++|+++|||||||||||||+|||||+|+||||+|+|+++|||++||+.||++|+++|.....++..
T Consensus 209 P~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~SaVrl~h~ptgi~V~~~~eRSQ~~Nk~~A~~~L~~~L~~~~~~~~~ 288 (360)
T TIGR00019 209 PELEEVEVDINPADLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKDKAMKVLRARLYEAEQEKQQ 288 (360)
T ss_pred cCCCccccccCcccEEEEEEECCCCCCCCcCceeeeEEEEECCCcEEEEECCccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0 12 347899999999999999999999999999999999999999999999999999999988765554322
Q ss_pred cCCCCCCccccccCCCCCccccCcccCccCCCCCChhH
Q 029341 137 LDAYSPPPKLLQILPPKSTIRSSEVGAQIGPNNPKFAL 174 (195)
Q Consensus 137 ~~~~~~~~~~~~~~~rksq~r~~~r~ekIrtyn~~fp~ 174 (195)
.+ +...++++++.++||++|||||+ |+
T Consensus 289 ~~---------~~~~r~~~~~~~~Rs~~IRtY~~--~~ 315 (360)
T TIGR00019 289 AA---------QASTRKSQVGSGDRSERIRTYNF--PQ 315 (360)
T ss_pred HH---------HHHHHhhhcceecccCCeEEEEC--CC
Confidence 21 13467999999999999999994 65
No 6
>PRK05589 peptide chain release factor 2; Provisional
Probab=100.00 E-value=1.6e-42 Score=311.00 Aligned_cols=159 Identities=22% Similarity=0.300 Sum_probs=132.7
Q ss_pred hhHHHHHHhHHHHHHcCCeeeeeeccCCCCCCeeEEEEeecCCCCcc-----ccCC-----------CCCCCCccccCh-
Q 029341 2 ALAAQFLLRIPQLRRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSS-----SSSS-----------SSSSRNYLELTD- 64 (195)
Q Consensus 2 ~~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~g~~S~~~~~~g~~~~~-----~g~~-----------~~~~~~~~~i~~- 64 (195)
.+++||+||.+||+++||++++++..+++.+||+||+++|+|.++|. .|+| |++++||+.+..
T Consensus 103 fa~~L~~mY~~~a~~~g~~~~vi~~~~~~~~g~ks~~~~i~G~~ay~~lk~E~GvHrv~r~s~~~~~~rr~ts~a~V~Vl 182 (325)
T PRK05589 103 WTEMLLRMYTRWAEKKGYKVEIIDLLEGDEAGIKSVTLKITGEFAYGYLKAEKGIHRLVRISPFNANGKRQTSFASVEVL 182 (325)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEEecCCCCCCceEEEEEEEeccCHHHHHhhccceEEEEEcCCCCCCCCeEeeeEEEEEe
Confidence 36899999999999999999999999999999999999999998763 4544 889999876522
Q ss_pred ----h----hh-hccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHHhhhc
Q 029341 65 ----D----EL-FRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSV 135 (195)
Q Consensus 65 ----~----dL-~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~~~~ 135 (195)
+ ++ ++|++|+++|||||||||||||+|||||+|+||||+|+|+++|||++||+.|+++|+++|.....++.
T Consensus 183 P~~~~~~~~~i~~~dl~~~~~rssG~GGQ~VNkt~saVrl~H~ptgi~v~~q~eRSQ~~Nk~~A~~~L~~kL~~~~~~~~ 262 (325)
T PRK05589 183 PELTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQNERSQHSNKETAMKMLKSKLVELKERAH 262 (325)
T ss_pred cCcCccccccCCchheEEEEeeCCCCCCCcccceeeEEEEEECCCCEEEEECCccCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 12 35789999999999999999999999999999999999999999999999999999998876544333
Q ss_pred ccCCCCCCccccccCCCCCccccCcccCccCCCCC
Q 029341 136 NLDAYSPPPKLLQILPPKSTIRSSEVGAQIGPNNP 170 (195)
Q Consensus 136 ~~~~~~~~~~~~~~~~rksq~r~~~r~ekIrtyn~ 170 (195)
+.+ ...++++.....||++|||||+
T Consensus 263 ~~~----------~~~~r~~~~~~~~g~~IRtY~~ 287 (325)
T PRK05589 263 KEK----------IEDLTGELKDMGWGSQIRSYVF 287 (325)
T ss_pred HHH----------HHHHhcccccccccCCceeeEC
Confidence 322 1223455556679999999995
No 7
>PRK07342 peptide chain release factor 2; Provisional
Probab=100.00 E-value=2.4e-42 Score=311.17 Aligned_cols=159 Identities=25% Similarity=0.309 Sum_probs=131.8
Q ss_pred hhHHHHHHhHHHHHHcCCeeeeeeccCCCCCCeeEEEEeecCCCCcc-----ccCC-----------CCCCCCccccCh-
Q 029341 2 ALAAQFLLRIPQLRRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSS-----SSSS-----------SSSSRNYLELTD- 64 (195)
Q Consensus 2 ~~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~g~~S~~~~~~g~~~~~-----~g~~-----------~~~~~~~~~i~~- 64 (195)
.+++||+||.+||+++||++++++..+++.+||+||+++|+|+++|. .|+| |++++||+.+..
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 57899999999999999999999999999999999999999998754 4544 789999876522
Q ss_pred ----h----hh-hccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHHhhhc
Q 029341 65 ----D----EL-FRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSV 135 (195)
Q Consensus 65 ----~----dL-~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~~~~ 135 (195)
+ ++ ++||+|+++|||||||||||||+|||||+|+||||+|+|+++|||++||+.|+++|+++|.....++.
T Consensus 186 P~~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptgi~v~~~~eRSQ~~Nk~~A~~~L~~~L~~~~~~~~ 265 (339)
T PRK07342 186 PVIDDNIEVDVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQHKNRAKAWSMLRARLYEEELKKR 265 (339)
T ss_pred cCCCcccccccCcccEEEEEEECCCCCCCCccceeeeEEEEEcCCcEEEEECCcccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 22 35889999999999999999999999999999999999999999999999999999998875554444
Q ss_pred ccCCCCCCccccccCCCCCccccCcccCccCCCCC
Q 029341 136 NLDAYSPPPKLLQILPPKSTIRSSEVGAQIGPNNP 170 (195)
Q Consensus 136 ~~~~~~~~~~~~~~~~rksq~r~~~r~ekIrtyn~ 170 (195)
+.+. .....++++++ ||++|||||+
T Consensus 266 ~~~~-------~~~~~~~~~i~---~g~~IRtY~~ 290 (339)
T PRK07342 266 EEAT-------NAAAASKTDIG---WGHQIRSYVL 290 (339)
T ss_pred HHHH-------HHHHhhhhhcc---ccCCcCCccC
Confidence 3320 11123455554 7779999994
No 8
>PRK06746 peptide chain release factor 2; Provisional
Probab=100.00 E-value=2.2e-42 Score=310.16 Aligned_cols=159 Identities=19% Similarity=0.203 Sum_probs=134.6
Q ss_pred hhHHHHHHhHHHHHHcCCeeeeeeccCCCCCCeeEEEEeecCCCCcc-----ccCC-----------CCCCCCccccChh
Q 029341 2 ALAAQFLLRIPQLRRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSS-----SSSS-----------SSSSRNYLELTDD 65 (195)
Q Consensus 2 ~~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~g~~S~~~~~~g~~~~~-----~g~~-----------~~~~~~~~~i~~~ 65 (195)
.+++||+||.+||+++||++++++..+++.+||+||++.|+|+++|. .|+| |++++||+.+..-
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 57899999999999999999999999999999999999999998764 4544 8899998765221
Q ss_pred -------hh---hccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHHhhhc
Q 029341 66 -------EL---FRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSV 135 (195)
Q Consensus 66 -------dL---~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~~~~ 135 (195)
++ +.||+|+|+|||||||||||||+|||||+|+||||+|+|+++|||++||+.|+++|+++|.....++.
T Consensus 184 P~~~~~~~i~i~~~dl~~~~~rssG~GGQ~vNkt~saVrl~h~ptgi~v~~q~~RSQ~~Nk~~A~~~L~akL~~~~~~~~ 263 (326)
T PRK06746 184 PEFNDEVEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQIKNREHAMKMLKAKLYQKKLEEQ 263 (326)
T ss_pred cCcCCccccccChHHeEEEEEeCCCCCCCCccceeeEEEEEEeCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 11 34789999999999999999999999999999999999999999999999999999998865544444
Q ss_pred ccCCCCCCccccccCCCCCccccCcccCccCCCCC
Q 029341 136 NLDAYSPPPKLLQILPPKSTIRSSEVGAQIGPNNP 170 (195)
Q Consensus 136 ~~~~~~~~~~~~~~~~rksq~r~~~r~ekIrtyn~ 170 (195)
+.+ ....|++++.. .|+++|||||+
T Consensus 264 ~~~---------~~~~r~~~~~~-~rg~~IRtYnf 288 (326)
T PRK06746 264 QAE---------LDEIRGEQKEI-GWGSQIRSYVF 288 (326)
T ss_pred HHH---------HHHHHhhhccC-ccCCCeEEEEC
Confidence 332 13467777766 58899999995
No 9
>PRK00591 prfA peptide chain release factor 1; Validated
Probab=100.00 E-value=2.6e-42 Score=313.19 Aligned_cols=160 Identities=24% Similarity=0.316 Sum_probs=136.0
Q ss_pred hhHHHHHHhHHHHHHcCCeeeeeeccCCCCCCeeEEEEeecCCCCcc-----ccCC----------C-CCCCCccccCh-
Q 029341 2 ALAAQFLLRIPQLRRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSS-----SSSS----------S-SSSRNYLELTD- 64 (195)
Q Consensus 2 ~~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~g~~S~~~~~~g~~~~~-----~g~~----------~-~~~~~~~~i~~- 64 (195)
+++.||+||.+||+++||++++++..+++.+||+||+++++|+++|. .|.| + ++.+||+.+..
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 57899999999999999999999999999999999999999998753 3433 3 44488766532
Q ss_pred ---h----hh-hccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHHhhhcc
Q 029341 65 ---D----EL-FRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVN 136 (195)
Q Consensus 65 ---~----dL-~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~~~~~ 136 (195)
. ++ ++||+|+|+|||||||||||||+|+|||+|+||||+|+|+++|||++||+.|+++|+++|.....++..
T Consensus 209 P~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptGi~v~~~~eRSQ~~Nk~~Al~~L~~~L~~~~~~~~~ 288 (359)
T PRK00591 209 PEAEEVEVEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAERQKAQ 288 (359)
T ss_pred cCCCccccccCcccEEEEEEECCCCCCCCccceeeeEEEEECCCcEEEEECCcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 22 347899999999999999999999999999999999999999999999999999999988765555544
Q ss_pred cCCCCCCccccccCCCCCccccCcccCccCCCCC
Q 029341 137 LDAYSPPPKLLQILPPKSTIRSSEVGAQIGPNNP 170 (195)
Q Consensus 137 ~~~~~~~~~~~~~~~rksq~r~~~r~ekIrtyn~ 170 (195)
.+ ....|++++.+++||++||||||
T Consensus 289 ~~---------~~~~r~~~~~~~~Rse~IRtY~f 313 (359)
T PRK00591 289 AE---------EAATRKSQVGSGDRSERIRTYNF 313 (359)
T ss_pred HH---------HHHHHHhhcccccccCCeeeEEC
Confidence 33 13467999999999999999994
No 10
>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=8.8e-42 Score=310.16 Aligned_cols=159 Identities=23% Similarity=0.294 Sum_probs=132.5
Q ss_pred hhHHHHHHhHHHHHHcCCeeeeeeccCCCCCCeeEEEEeecCCCCcc-----ccCC-----------CCCCCCccccCh-
Q 029341 2 ALAAQFLLRIPQLRRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSS-----SSSS-----------SSSSRNYLELTD- 64 (195)
Q Consensus 2 ~~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~g~~S~~~~~~g~~~~~-----~g~~-----------~~~~~~~~~i~~- 64 (195)
.+++||+||.+||.++||++++++..+++.+||+||+++|+|.++|. .|+| |++++||+.+..
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 57899999999999999999999999999999999999999998764 4544 899999876532
Q ss_pred ----h----hh-hccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHHhhhc
Q 029341 65 ----D----EL-FRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSV 135 (195)
Q Consensus 65 ----~----dL-~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~~~~ 135 (195)
+ ++ +.|++|+++|||||||||||||+|+|||+|+||||+|+|+++|||++||+.||++|+++|.....++.
T Consensus 222 P~~~~~~~~~i~~~d~~~~~~rssG~GGQ~VNkt~saVri~H~ptgi~v~~q~~RSQ~~Nk~~A~~~L~~kL~~~~~~~~ 301 (364)
T TIGR00020 222 PEVDDDIDIEIKPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDSAMKVLKAKLYELEMEKE 301 (364)
T ss_pred cCCCcccceecccccEEEEEeeCCCCCCccccccceEEEEEECCCcEEEEECCccCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 22 35889999999999999999999999999999999999999999999999999999998876554444
Q ss_pred ccCCCCCCccccccCCCCCccccCcccCccCCCCC
Q 029341 136 NLDAYSPPPKLLQILPPKSTIRSSEVGAQIGPNNP 170 (195)
Q Consensus 136 ~~~~~~~~~~~~~~~~rksq~r~~~r~ekIrtyn~ 170 (195)
+.+ ....|+ +....+||++|||||+
T Consensus 302 ~~~---------~~~~r~-~~~~~~rg~~IRtY~~ 326 (364)
T TIGR00020 302 QAE---------KDAKEG-EKSEIGWGSQIRSYVL 326 (364)
T ss_pred HHH---------HHHHHh-hhhccCccCCeEEEEC
Confidence 332 122343 3334478999999994
No 11
>KOG2726 consensus Mitochondrial polypeptide chain release factor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.1e-41 Score=307.97 Aligned_cols=155 Identities=26% Similarity=0.349 Sum_probs=132.3
Q ss_pred hHHHHHHhHHHHHHcCCeeeeeeccCCCCCCeeEEEEeecCCCCcc-----ccCC--------------CC---------
Q 029341 3 LAAQFLLRIPQLRRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSS-----SSSS--------------SS--------- 54 (195)
Q Consensus 3 ~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~g~~S~~~~~~g~~~~~-----~g~~--------------~~--------- 54 (195)
-.++|.||.+||.+++|++++++..+++.+||++++++|+|.++|. .|.| |.
T Consensus 155 t~el~~MY~~~a~~~~w~~~~l~~~~~~~~Gi~~At~~i~G~~ayg~l~~E~GvHRv~r~p~~e~~gr~htstasV~ViP 234 (386)
T KOG2726|consen 155 TMELVDMYQKYAERLGWKARVLEKAPGESGGIKSATLEIEGESAYGYLKFEAGVHRVQRVPSTETSGRRHTSTASVAVIP 234 (386)
T ss_pred HHHHHHHHHHHHHhcccceeehhcCCcccccceeeeeEecccchhheeeccCcccceeecCCcccccccccccceEEEec
Confidence 4579999999999999999999999999999999999999998876 2333 11
Q ss_pred ---CCCCccccChhhhhccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHH
Q 029341 55 ---SSRNYLELTDDELFRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKV 131 (195)
Q Consensus 55 ---~~~~~~~i~~~dL~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~ 131 (195)
+.+-.+.++ ++||+|+++|+|||||||||||+|||||+||||||+|+|+++|||++||+.|+.+|+++|....
T Consensus 235 ~~~~~~~~~~~~----~~dl~i~~~R~~G~GGQhvNktdsaVrl~HiPTGIvv~cq~eRSq~~Nr~~A~~~L~akL~~~~ 310 (386)
T KOG2726|consen 235 QPGRDEVDVEID----EKDLRIETFRASGPGGQHVNKTDSAVRLTHIPTGIVVECQEERSQHKNRALALKRLRAKLAVIY 310 (386)
T ss_pred cCCCCccceecC----chheeEEecccCCCCcccccccccceEEEeecCceEEEeecHHhHHhhHHHHHHHHHHHHHHHH
Confidence 111122233 3466999999999999999999999999999999999999999999999999999999998877
Q ss_pred hhhcccCCCCCCccccccCCCCCccccCcccCccCCCCC
Q 029341 132 RSSVNLDAYSPPPKLLQILPPKSTIRSSEVGAQIGPNNP 170 (195)
Q Consensus 132 ~~~~~~~~~~~~~~~~~~~~rksq~r~~~r~ekIrtyn~ 170 (195)
..+...+. ...|+.|+++++|++||||||+
T Consensus 311 ~~~~~~~~---------~~~r~~qv~s~~rsekiRTy~~ 340 (386)
T KOG2726|consen 311 REEKSEEE---------KKKRKAQVGSLKRSEKIRTYNF 340 (386)
T ss_pred HhhhhHHh---------hhhhHHhhcccCchhceeeccc
Confidence 76655441 3579999999999999999993
No 12
>PRK00578 prfB peptide chain release factor 2; Validated
Probab=100.00 E-value=2.4e-41 Score=307.60 Aligned_cols=159 Identities=23% Similarity=0.321 Sum_probs=133.6
Q ss_pred hhHHHHHHhHHHHHHcCCeeeeeeccCCCCCCeeEEEEeecCCCCcc-----ccCC-----------CCCCCCccccCh-
Q 029341 2 ALAAQFLLRIPQLRRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSS-----SSSS-----------SSSSRNYLELTD- 64 (195)
Q Consensus 2 ~~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~g~~S~~~~~~g~~~~~-----~g~~-----------~~~~~~~~~i~~- 64 (195)
.+++||+||.+||.++||++++++..+++.+||+||+++|+|+++|. .|+| |++.+||+.+..
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 57899999999999999999999999999999999999999998764 4544 789999876532
Q ss_pred ----h----hh-hccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHHhhhc
Q 029341 65 ----D----EL-FRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSV 135 (195)
Q Consensus 65 ----~----dL-~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~~~~ 135 (195)
+ ++ ++|++|+++|||||||||||||+|+|||+|+||||+|+|+++|||++||+.|+++|+++|.....++.
T Consensus 222 P~~~~~~~~~i~~~dl~~~~~rssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L~~kL~~~~~~~~ 301 (367)
T PRK00578 222 PEVDDTIEIEINPKDLRIDTYRSSGAGGQHVNKTDSAVRITHIPTGIVVQCQNERSQHQNKASAMKMLKAKLYELELEKR 301 (367)
T ss_pred CCCCCccccccChhhEEEEEeeCCCCCCCcccceeeEEEEEECCCcEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 12 34789999999999999999999999999999999999999999999999999999998876555544
Q ss_pred ccCCCCCCccccccCCCCCccccCcccCccCCCCC
Q 029341 136 NLDAYSPPPKLLQILPPKSTIRSSEVGAQIGPNNP 170 (195)
Q Consensus 136 ~~~~~~~~~~~~~~~~rksq~r~~~r~ekIrtyn~ 170 (195)
+.+ ....|+.+ ...+||++|||||+
T Consensus 302 ~~~---------~~~~r~~~-~~~~rg~~IRtYn~ 326 (367)
T PRK00578 302 AAE---------KDALKGEK-KEIGWGSQIRSYVL 326 (367)
T ss_pred HHH---------HHHHHhhh-ccccccCCeEEEEC
Confidence 432 12234333 56679999999994
No 13
>COG1186 PrfB Protein chain release factor B [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=9.6e-39 Score=275.99 Aligned_cols=159 Identities=22% Similarity=0.286 Sum_probs=128.7
Q ss_pred hHHHHHHhHHHHHHcCCeeeeeeccCCCCCCeeEEEEeecCCCCcc-----cc-----------CCCCCCCCccccCh--
Q 029341 3 LAAQFLLRIPQLRRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSS-----SS-----------SSSSSSRNYLELTD-- 64 (195)
Q Consensus 3 ~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~g~~S~~~~~~g~~~~~-----~g-----------~~~~~~~~~~~i~~-- 64 (195)
+.-||+||.+||+++|+++++++..+|+..|+||+++.++|+++|. .| ++|++++||..+..
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 4568999999999999999999999999999999999999998765 24 33788888765422
Q ss_pred ---h----hh-hccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHHhhhcc
Q 029341 65 ---D----EL-FRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVN 136 (195)
Q Consensus 65 ---~----dL-~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~~~~~ 136 (195)
. ++ +.|++|+|+|||||||||||||+|||||||+||||+|.|+.+|||++|++.|+..|+.+|.....+...
T Consensus 98 ~~~~~i~i~I~~~dl~idt~RASGaGGQhVNKt~SAVrlth~ptgivv~cq~eRSq~~n~~~a~~~l~~kL~~~~~~~Rs 177 (239)
T COG1186 98 ELDISIEIEIPDDDLRIDTYRASGAGGQHVNKTDSAVRLTHLPTGIVVLCQNERSQHLNKALARKMLKGKLYILAQEKRS 177 (239)
T ss_pred CCCcccceecCccceEEEEEEcCCCCCCccccccccEEEEEcCCCCEecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 11 247899999999999999999999999999999999999999999999999999999977543332222
Q ss_pred cCCCCCCccccccCCCCCccccCcccCccCCCCCC
Q 029341 137 LDAYSPPPKLLQILPPKSTIRSSEVGAQIGPNNPK 171 (195)
Q Consensus 137 ~~~~~~~~~~~~~~~rksq~r~~~r~ekIrtyn~~ 171 (195)
.+ ....+...+-..|+.|||+|.+.
T Consensus 178 qe----------~n~~~a~~k~i~wg~qirsyv~~ 202 (239)
T COG1186 178 QE----------KNRERALKKLIGWGNQIRSYVLD 202 (239)
T ss_pred HH----------HHHHHHHhhhHHHHHhccccCCC
Confidence 21 12233344455788999999965
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=99.97 E-value=4.3e-32 Score=210.66 Aligned_cols=100 Identities=36% Similarity=0.539 Sum_probs=85.7
Q ss_pred CccccChhhhhccceeeeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCCHHHHHHHHHHHHHHHHHHHHhhhccc
Q 029341 58 NYLELTDDELFRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNL 137 (195)
Q Consensus 58 ~~~~i~~~dL~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~~~~~~ 137 (195)
.-++|+++|| +|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....+....
T Consensus 5 ~~~~i~~~dl----~~~~~RssGpGGQ~VNk~~s~V~l~h~ptgi~v~~~~~Rsq~~Nr~~A~~~L~~~l~~~~~~~~~~ 80 (113)
T PF00472_consen 5 KEIDIPEKDL----EISFSRSSGPGGQNVNKTNSKVRLRHIPTGIVVKCQESRSQHQNREDALEKLREKLDEAYREKRRE 80 (113)
T ss_dssp SSSCC-GGGE----EEEEEESSSSSSCHHHSSSEEEEEEETTTTEEEEEESSSSHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccCHHHe----EEEEEecCCCCCCcccccCCEEEEEEecccEEEEEcccCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467777776 999999999999999999999999999999999999999999999999999999998776544433
Q ss_pred CCCCCCccccccCCCCCccccCcccCccCCCCC
Q 029341 138 DAYSPPPKLLQILPPKSTIRSSEVGAQIGPNNP 170 (195)
Q Consensus 138 ~~~~~~~~~~~~~~rksq~r~~~r~ekIrtyn~ 170 (195)
. ....++++.+..+++++||+||+
T Consensus 81 ~---------~~~~~~~~~~~~~~~~~iR~y~~ 104 (113)
T PF00472_consen 81 K---------TREIRKSQVKRLERKKKIRTYNF 104 (113)
T ss_dssp H---------TTTTTTTSCCCSSTTSEEEEEET
T ss_pred H---------HHHHHHHHHhHHhhhcceecccC
Confidence 2 13467888888899999999995
No 15
>PRK09256 hypothetical protein; Provisional
Probab=99.89 E-value=2.5e-23 Score=167.52 Aligned_cols=71 Identities=39% Similarity=0.637 Sum_probs=63.1
Q ss_pred ccccChhhhhccceeeeeecCCCCCCCCCccCceEEEEE------cc-----------------cc-cEEEEcccCCHHH
Q 029341 59 YLELTDDELFRECEMDAYKSPGPGGQHRNKRESAVRLKH------VP-----------------TG-VIAQAAEDRSQHK 114 (195)
Q Consensus 59 ~~~i~~~dL~~~~~i~~~RssGpGGQ~VNk~~taVrl~h------~P-----------------tG-i~v~~~~~RSq~~ 114 (195)
-+.|+.++| +++|+|||||||||||||+|+|+|+| +| +| |+|+|+++|||++
T Consensus 7 ~~~i~~~~l----~~~~~RSSGPGGQ~VNKt~SkV~l~~~~~~~~lp~~~~~~l~~~~~~r~~~~g~l~i~~~~~RSQ~~ 82 (138)
T PRK09256 7 RLVIPENEL----EWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHRITKDGVIVIKAQEFRSQER 82 (138)
T ss_pred cCccCHHHe----EEEEEEcCCCCcccccccceeeEEEechhhccCCHHHHHHHHHHhcCcccCCCcEEEEECCcCCHHH
Confidence 356666665 99999999999999999999999996 77 36 9999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 029341 115 NRASALSRLRTLLALKVRS 133 (195)
Q Consensus 115 Nk~~Al~rL~~~l~~~~~~ 133 (195)
|++.|+++|.++|......
T Consensus 83 Nr~~al~kL~~~i~~~~~~ 101 (138)
T PRK09256 83 NREDALERLVALIREALKP 101 (138)
T ss_pred HHHHHHHHHHHHHHHHhhc
Confidence 9999999999999877653
No 16
>KOG3429 consensus Predicted peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=99.71 E-value=1.4e-17 Score=137.61 Aligned_cols=62 Identities=35% Similarity=0.617 Sum_probs=56.0
Q ss_pred ceeeeeecCCCCCCCCCccCceEEEEE-------cc-----------------cc-cEEEEcccCCHHHHHHHHHHHHHH
Q 029341 71 CEMDAYKSPGPGGQHRNKRESAVRLKH-------VP-----------------TG-VIAQAAEDRSQHKNRASALSRLRT 125 (195)
Q Consensus 71 ~~i~~~RssGpGGQ~VNk~~taVrl~h-------~P-----------------tG-i~v~~~~~RSq~~Nk~~Al~rL~~ 125 (195)
+++.|.||||||||||||++|+|.|++ || .| |+|.++.+|||+.|.++||++|++
T Consensus 42 ~~i~y~RSSGPGGQNVNKvNTKv~vrf~vs~a~Wipe~~R~~~~~~~~~rink~gelvI~Sd~TRsq~~NiaDcleKlr~ 121 (172)
T KOG3429|consen 42 LEISYSRSSGPGGQNVNKVNTKVEVRFKVSNAEWIPEFLRNKLLTTEKNRINKDGELVIYSDKTRSQHKNIADCLEKLRD 121 (172)
T ss_pred eEEEEeecCCCCCcccccccceEEEEEecchhhhccHHHHHHHHHHHHHhhccCccEEEecchhHHhhccHHHHHHHHHH
Confidence 489999999999999999999999995 44 25 999999999999999999999999
Q ss_pred HHHHHHh
Q 029341 126 LLALKVR 132 (195)
Q Consensus 126 ~l~~~~~ 132 (195)
+|...-.
T Consensus 122 ~I~~~~~ 128 (172)
T KOG3429|consen 122 IIRAAEQ 128 (172)
T ss_pred HHHHHhc
Confidence 9976544
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=98.54 E-value=9.5e-08 Score=74.36 Aligned_cols=46 Identities=7% Similarity=-0.039 Sum_probs=41.3
Q ss_pred hHHHHHHhHHHHHHcCCeeeeeeccCCCCCCeeEEEEeecCCCCcc
Q 029341 3 LAAQFLLRIPQLRRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSS 48 (195)
Q Consensus 3 ~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~g~~S~~~~~~g~~~~~ 48 (195)
+++||+||.+||.++||++++++..+++.+||+++++.|+|.++|.
T Consensus 65 a~~L~~MY~~~a~~~gw~~~~l~~~~~~~~G~k~a~~~I~G~~aY~ 110 (115)
T PF03462_consen 65 AEELFRMYQRYAERRGWKVEVLDYSPGEEGGIKSATLEISGEGAYG 110 (115)
T ss_dssp HHHHHHHHHHHHHHTT-EEEEEEEEE-SSSSEEEEEEEEESTTHHH
T ss_pred HHHHHHHHHHHHHHcCCEEEEEecCCCCccceeEEEEEEEcCChHH
Confidence 5789999999999999999999999999999999999999998764
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=62.31 E-value=48 Score=26.47 Aligned_cols=34 Identities=12% Similarity=0.029 Sum_probs=30.9
Q ss_pred cc-cEEEEcccCCHHHHHHHHHHHHHHHHHHHHhh
Q 029341 100 TG-VIAQAAEDRSQHKNRASALSRLRTLLALKVRS 133 (195)
Q Consensus 100 tG-i~v~~~~~RSq~~Nk~~Al~rL~~~l~~~~~~ 133 (195)
+| |.++|...-++.+|+.-|...|..++.++.+.
T Consensus 60 ~d~l~i~sdr~~~~~qN~~~l~~~l~~L~~EA~~~ 94 (127)
T PF10213_consen 60 TDILKISSDRFPTRAQNKKYLSDLLTRLIHEAKDL 94 (127)
T ss_pred CCEEEEecccCCCHHHHHHHHHHHHHHHHHHHhhc
Confidence 67 99999999999999999999999999887764
No 19
>PRK03657 hypothetical protein; Validated
Probab=55.40 E-value=61 Score=27.10 Aligned_cols=124 Identities=10% Similarity=0.029 Sum_probs=71.1
Q ss_pred hHHHHHHhHHHHHHcCCeeeeeeccCCCCCC-eeEEEEeecCCCCccccCC----CCCCCCccccChhhh----------
Q 029341 3 LAAQFLLRIPQLRRKNINFPSYKHRGNYQPL-FLSCNYSTNDNCSSSSSSS----SSSSRNYLELTDDEL---------- 67 (195)
Q Consensus 3 ~~~~f~~~~~~a~r~~~~~~~v~~~~~~~~g-~~S~~~~~~g~~~~~~g~~----~~~~~~~~~i~~~dL---------- 67 (195)
+..+...-.+.+..+++.+-+.|++.| | +-+.+.++.|...+-.|.. ...+..+++++++.|
T Consensus 12 ~~~l~~~v~~~L~~~~~tla~AES~TG---Glias~lt~vpGaS~~f~Gg~VtYs~~~K~~lLgV~~~~i~~~gavS~e~ 88 (170)
T PRK03657 12 IENLTKALSQRLIADQLRLTTAESCTG---GKLASALCAAEDTPKFYGAGFVTFTDEAKMKILSVSQQSLERYSAVSEAV 88 (170)
T ss_pred HHHHHHHHHHHHHHCCCEEEeeHhhhh---HHHHHHHhcCCCchhhcCCeEEEEcHHHHhHhcCCCHHHHHhcCCCCHHH
Confidence 344556667788899999999999875 6 6666777777755444422 344455556555433
Q ss_pred ------------hccceeeeeecCCCCCCCCCccCceEEEE-EcccccEEE-EcccCCHHHHHHHHHHHHHHHHHH
Q 029341 68 ------------FRECEMDAYKSPGPGGQHRNKRESAVRLK-HVPTGVIAQ-AAEDRSQHKNRASALSRLRTLLAL 129 (195)
Q Consensus 68 ------------~~~~~i~~~RssGpGGQ~VNk~~taVrl~-h~PtGi~v~-~~~~RSq~~Nk~~Al~rL~~~l~~ 129 (195)
..|+-+.+.=--||+|..-+|.--.|-+- +.|.++.+. ..-..+...||..+....-.+|..
T Consensus 89 A~~MA~g~~~~~~aDiala~TG~AGP~g~~~~kpvGtV~iai~~~~~~~~~~~~~~g~R~~ir~~a~~~al~~L~~ 164 (170)
T PRK03657 89 VAEMATGAIERADADISIAISGYGGPEGGEDGTPAGTVWFAWNIKGQTYTARMHFAGDCETVLAKAVRFALAQLLQ 164 (170)
T ss_pred HHHHHHHHHHHcCCCEEEEeccccCCCCCCCCCCCeEEEEEEEcCCcEEEEEEecCCCHHHHHHHHHHHHHHHHHH
Confidence 12444554444578775545443334333 456554432 333356677777765555444433
No 20
>PRK03661 hypothetical protein; Validated
Probab=55.16 E-value=60 Score=26.82 Aligned_cols=122 Identities=10% Similarity=0.043 Sum_probs=71.9
Q ss_pred HHHHhHHHHHHcCCeeeeeeccCCCCCC-eeEEEEeecCCCCccccCC----CCCCCCccccChhhh-------------
Q 029341 6 QFLLRIPQLRRKNINFPSYKHRGNYQPL-FLSCNYSTNDNCSSSSSSS----SSSSRNYLELTDDEL------------- 67 (195)
Q Consensus 6 ~f~~~~~~a~r~~~~~~~v~~~~~~~~g-~~S~~~~~~g~~~~~~g~~----~~~~~~~~~i~~~dL------------- 67 (195)
|-..-.+.++++++.+-+.|++.| | +-+.+.++.|...+-.|.. ...+..+++++++.|
T Consensus 9 l~~~v~~~L~~~~~tla~AES~Tg---Glia~~lt~vpGaS~~f~Gg~VtYs~~~K~~lLgV~~~~i~~~gavS~e~a~~ 85 (164)
T PRK03661 9 LSEQVGQALKARGATVTTAESCTG---GWVAKVITDIAGSSAWFERGFVTYSNEAKAQMIGVREETLAQHGAVSEPVVVE 85 (164)
T ss_pred HHHHHHHHHHHCCCEEEeeHhhhh---HHHHHHHHcCCCchhhcCCceEEEcHHHHHHHcCCCHHHHHhcCCCCHHHHHH
Confidence 444556778899999999999874 6 6667777877765444422 344455555555433
Q ss_pred ---------hccceeeeeecCCCCCCCCCccCceEEEE-Ecccc-cEE-EEcccCCHHHHHHHHHHHHHHHHHHH
Q 029341 68 ---------FRECEMDAYKSPGPGGQHRNKRESAVRLK-HVPTG-VIA-QAAEDRSQHKNRASALSRLRTLLALK 130 (195)
Q Consensus 68 ---------~~~~~i~~~RssGpGGQ~VNk~~taVrl~-h~PtG-i~v-~~~~~RSq~~Nk~~Al~rL~~~l~~~ 130 (195)
..|+-+.+.=--||+|..-+|.--.|-|- +.|.| ..+ .+.-.+++..||+.|....-.+|...
T Consensus 86 MA~g~~~~~~ad~~ia~TG~AGP~g~~~~kpvGtv~i~i~~~~~~~~~~~~~~~g~R~~ir~~~~~~AL~~L~~~ 160 (164)
T PRK03661 86 MAIGALKAARADYAVSISGIAGPDGGSEEKPVGTVWFGFASASGEGITRRECFSGDRDAVRRQATAYALQTLWQQ 160 (164)
T ss_pred HHHHHHHHcCCCEEEEecccCCCCCCCCCCCceEEEEEEEeCCCcEEEEEEecCCCHHHHHHHHHHHHHHHHHHH
Confidence 12444555444578765545544444443 35666 333 34444677888887766555544433
No 21
>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=39.51 E-value=31 Score=22.92 Aligned_cols=39 Identities=18% Similarity=0.348 Sum_probs=23.2
Q ss_pred CCCCCCCCc--cCceEEEEEcc----cc-cEEEEcccCCHHHHHHHHHHHH
Q 029341 80 GPGGQHRNK--RESAVRLKHVP----TG-VIAQAAEDRSQHKNRASALSRL 123 (195)
Q Consensus 80 GpGGQ~VNk--~~taVrl~h~P----tG-i~v~~~~~RSq~~Nk~~Al~rL 123 (195)
|+||.++++ .+|.|.|..-+ .+ ++|... ..+-..|...|
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 799999995 34677776544 34 555544 23444554443
No 22
>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=39.19 E-value=58 Score=26.59 Aligned_cols=38 Identities=26% Similarity=0.374 Sum_probs=29.4
Q ss_pred eeeecCCCCCCCCCccCceEEEEEcccccEEEEcccCC
Q 029341 74 DAYKSPGPGGQHRNKRESAVRLKHVPTGVIAQAAEDRS 111 (195)
Q Consensus 74 ~~~RssGpGGQ~VNk~~taVrl~h~PtGi~v~~~~~RS 111 (195)
+..-..|.++..+-..+|.|||+|..||..+.+++.+.
T Consensus 122 ~~~~~~~~~~~~~~~~~s~frL~H~~t~~~L~~~~~~l 159 (190)
T PF02815_consen 122 EEKSSTGMGEDEIKTLDSYFRLRHVATGCWLHSHDVKL 159 (190)
T ss_dssp EEEESSSCSSSSBBBTTSEEEEEETTTTEEEEEEEEES
T ss_pred EecccCCccCCcEEecccEEEEEECCcCEEEecCCccc
Confidence 33445567778888889999999999998877776554
No 23
>smart00322 KH K homology RNA-binding domain.
Probab=31.30 E-value=78 Score=20.01 Aligned_cols=45 Identities=22% Similarity=0.356 Sum_probs=26.1
Q ss_pred CCCCCCCCc--cCceEEEEEcccc---cEEEEcccCCHHHHHHHHHHHHHHHH
Q 029341 80 GPGGQHRNK--RESAVRLKHVPTG---VIAQAAEDRSQHKNRASALSRLRTLL 127 (195)
Q Consensus 80 GpGGQ~VNk--~~taVrl~h~PtG---i~v~~~~~RSq~~Nk~~Al~rL~~~l 127 (195)
|++|.+++. -.+.+.+.-.+.+ -.+..... ..|...|...|...+
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 788888774 3344554443321 33444433 577788887777654
No 24
>PRK13556 azoreductase; Provisional
Probab=25.78 E-value=48 Score=27.49 Aligned_cols=23 Identities=9% Similarity=0.030 Sum_probs=20.5
Q ss_pred CCCCChhHHHHHHHHHHHhcCCC
Q 029341 167 PNNPKFALGMQALLDLIFAVEGS 189 (195)
Q Consensus 167 tyn~~fp~~l~~~ld~~~~~~~~ 189 (195)
-||+.+|..|...+|.++..|+-
T Consensus 99 ~yn~~~Pa~LK~~iD~v~~~g~t 121 (208)
T PRK13556 99 LWNFTIPAVLHTYIDYLNRAGKT 121 (208)
T ss_pred ccccCCcHHHHHHHHHHhcCCce
Confidence 59999999999999999988653
No 25
>PF13710 ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.
Probab=24.96 E-value=1.1e+02 Score=20.96 Aligned_cols=33 Identities=15% Similarity=0.163 Sum_probs=26.3
Q ss_pred HHHHHcCCeeeeeeccCCCCCCeeEEEEeecCC
Q 029341 12 PQLRRKNINFPSYKHRGNYQPLFLSCNYSTNDN 44 (195)
Q Consensus 12 ~~a~r~~~~~~~v~~~~~~~~g~~S~~~~~~g~ 44 (195)
.-..|+||.++-+...+.+.+++..+++.++|+
T Consensus 11 ~vf~rRg~nI~sl~v~~~~~~~~~riti~v~~~ 43 (63)
T PF13710_consen 11 GVFRRRGFNIESLSVGPTEDPGISRITIVVSGD 43 (63)
T ss_dssp HHHHTTT-EECEEEEEE-SSTTEEEEEEEEES-
T ss_pred HHHhcCCeEEeeEEeeecCCCCEEEEEEEEeeC
Confidence 345789999999999999999999999999875
No 26
>smart00472 MIR Domain in ryanodine and inositol trisphosphate receptors and protein O-mannosyltransferases.
Probab=24.94 E-value=75 Score=20.61 Aligned_cols=22 Identities=36% Similarity=0.564 Sum_probs=17.4
Q ss_pred CceEEEEEcccccEEEEcccCC
Q 029341 90 ESAVRLKHVPTGVIAQAAEDRS 111 (195)
Q Consensus 90 ~taVrl~h~PtGi~v~~~~~RS 111 (195)
.+.|||+|.-||--+.+++.+.
T Consensus 7 g~~vrL~H~~tg~yL~s~~~~~ 28 (57)
T smart00472 7 GDVVRLRHVTTGRYLHSHENKL 28 (57)
T ss_pred CCEEEEEEhhhCcEeecCCCCC
Confidence 4899999999997777776653
No 27
>KOG3933 consensus Mitochondrial ribosomal protein S28 [Translation, ribosomal structure and biogenesis]
Probab=23.92 E-value=2.9e+02 Score=25.40 Aligned_cols=31 Identities=19% Similarity=0.122 Sum_probs=27.4
Q ss_pred cc-cEEEEcccCCHHHHHHHHHHHHHHHHHHH
Q 029341 100 TG-VIAQAAEDRSQHKNRASALSRLRTLLALK 130 (195)
Q Consensus 100 tG-i~v~~~~~RSq~~Nk~~Al~rL~~~l~~~ 130 (195)
|+ ++|+|+.--+..||+.-|+..|..+|.+.
T Consensus 202 tD~~tissDR~~~r~QN~~y~~~lLt~L~~ES 233 (296)
T KOG3933|consen 202 TDLLTISSDRCEHREQNYDYALYLLTVLYHES 233 (296)
T ss_pred CCeEEEeccccchhhHhHHHHHHHHHHHHHHh
Confidence 56 88999888889999999999999999775
No 28
>PRK00549 competence damage-inducible protein A; Provisional
Probab=23.22 E-value=2e+02 Score=26.99 Aligned_cols=117 Identities=15% Similarity=0.144 Sum_probs=61.7
Q ss_pred HHhHHHHHHcCCeeeeeeccCCCCCC-eeEEEEeecCCCCccccC---C-CCCCCCccccChhhh---------------
Q 029341 8 LLRIPQLRRKNINFPSYKHRGNYQPL-FLSCNYSTNDNCSSSSSS---S-SSSSRNYLELTDDEL--------------- 67 (195)
Q Consensus 8 ~~~~~~a~r~~~~~~~v~~~~~~~~g-~~S~~~~~~g~~~~~~g~---~-~~~~~~~~~i~~~dL--------------- 67 (195)
..-.+.++++++.+-+.|++.| | +-+.+..+.|...+..|. + ...+..+++++++.|
T Consensus 261 ~~v~~~L~~~~~tla~aEScTg---G~ia~~lt~vpGaS~~f~gg~V~Ys~~~K~~~LgV~~~~l~~~gavS~e~a~~MA 337 (414)
T PRK00549 261 EVVAKLLKEKGLTIATAESCTG---GLLAARLTDFPGSSSYFKGGVVTYSNEAKAKLLGVPPETLEEHGAVSEETAEEMA 337 (414)
T ss_pred HHHHHHHHhCCCeEEEecchhH---HHHHHHHHhCCChHhhcCCeEEEecHHHHHHhcCCCHHHHhhcCCCCHHHHHHHH
Confidence 3445667788999999998874 4 444555666654443331 1 233444555555432
Q ss_pred -------hccceeeeeecCCCCCCCCCccCceEEEEE-cccc-cEEEEc-ccCCHHHHHHHHHHHHHHHH
Q 029341 68 -------FRECEMDAYKSPGPGGQHRNKRESAVRLKH-VPTG-VIAQAA-EDRSQHKNRASALSRLRTLL 127 (195)
Q Consensus 68 -------~~~~~i~~~RssGpGGQ~VNk~~taVrl~h-~PtG-i~v~~~-~~RSq~~Nk~~Al~rL~~~l 127 (195)
..|+-+.+.=--||+|..-+|.-..|.+-. .|.+ +.+... -.-+...||..+-.....+|
T Consensus 338 ~g~~~~~~ad~~ia~tG~aGP~g~~~~~pvG~v~i~i~~~~~~~~~~~~~~~g~r~~ir~~~~~~aL~~l 407 (414)
T PRK00549 338 EGARKLLGADIGISITGVAGPDGGTEEKPVGTVYIGLATPGGETVVKELILGGSRSDIRERAVTYALDLL 407 (414)
T ss_pred HHHHHHcCCCEEEEeccccCCCCCCCCCCCeeEEEEEEeCCCcEEEEEEecCCCHHHHHHHHHHHHHHHH
Confidence 123344444335788765555444554443 4666 333322 22356666666544333333
No 29
>TIGR00199 cinA_cterm competence/damage-inducible protein CinA C-terminal domain. CinA is a DNA damage- or competence-inducible protein that is polycistronic with recA in a number of species. Several bacterial species have a protein consisting largely of the C-terminal domain of CinA but lacking the N-terminal domain.
Probab=22.33 E-value=1.8e+02 Score=23.54 Aligned_cols=109 Identities=13% Similarity=0.118 Sum_probs=59.2
Q ss_pred HHHHHcCCeeeeeeccCCCCCC-eeEEEEeecCCCCccccCC----CCCCCCccccChhhh-------------------
Q 029341 12 PQLRRKNINFPSYKHRGNYQPL-FLSCNYSTNDNCSSSSSSS----SSSSRNYLELTDDEL------------------- 67 (195)
Q Consensus 12 ~~a~r~~~~~~~v~~~~~~~~g-~~S~~~~~~g~~~~~~g~~----~~~~~~~~~i~~~dL------------------- 67 (195)
+.++++++.+-+.|++.| | +-+.+.++.|...+..|.. ...+..++.++++.|
T Consensus 3 ~~L~~~~~tla~aES~Tg---Glia~~l~~vpGas~~f~gg~VtYs~~~K~~lLgV~~~~i~~~gavS~e~a~~MA~g~~ 79 (146)
T TIGR00199 3 ERLKALGLTVATAESCTG---GLLAHALTDISGASKYFGGGVVCYTNQVKINLLGVSQETLARFGAVSEECAAEMALGVK 79 (146)
T ss_pred HHHHhCCCcEEEehhhhh---HHHHHHHHcCCChHHHhCCceEEEcHHHHHHHhCCCHHHHHhcCCCCHHHHHHHHHHHH
Confidence 456677888888888764 5 5556666666654444422 234444455554432
Q ss_pred ---hccceeeeeecCCCCCCCCCccCceEEE-EEcccc-cE-EEEcccCCHHHHHHHHHHHH
Q 029341 68 ---FRECEMDAYKSPGPGGQHRNKRESAVRL-KHVPTG-VI-AQAAEDRSQHKNRASALSRL 123 (195)
Q Consensus 68 ---~~~~~i~~~RssGpGGQ~VNk~~taVrl-~h~PtG-i~-v~~~~~RSq~~Nk~~Al~rL 123 (195)
..|+-+.+.=--||+|..-+|.--.|-+ .+.|.| .. ....-..++..||+.+...-
T Consensus 80 ~~~~adi~ia~TG~AGP~~~~~~~pvGtv~ial~~~~~~~~~~~~~~~g~R~~ir~~~~~~A 141 (146)
T TIGR00199 80 ERFGADVGIAISGIAGPDGGEEEKPGGTVWFIWIIAKGQAYTAEMHFAGDRETIRALAVRYA 141 (146)
T ss_pred HHcCCCEEEEeeccCCCCCCCCCCCCeEEEEEEEeCCCcEEEEEEecCCCHHHHHHHHHHHH
Confidence 1244455544457876554444444444 345666 32 23333357777777765543
No 30
>PRK09739 hypothetical protein; Provisional
Probab=21.64 E-value=59 Score=26.67 Aligned_cols=24 Identities=8% Similarity=-0.009 Sum_probs=21.0
Q ss_pred CCCCChhHHHHHHHHHHHhcCCCc
Q 029341 167 PNNPKFALGMQALLDLIFAVEGSV 190 (195)
Q Consensus 167 tyn~~fp~~l~~~ld~~~~~~~~~ 190 (195)
-||+.+|..|...+|.++..|+.+
T Consensus 89 ~y~~~~Pa~LK~~iD~v~~~g~~y 112 (199)
T PRK09739 89 LWWYSFPAMLKGYIDRVWNNGLAY 112 (199)
T ss_pred hhhhcchHHHHHHHHHHccccccc
Confidence 589999999999999999877654
No 31
>COG1546 CinA Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]
Probab=21.59 E-value=4.2e+02 Score=22.18 Aligned_cols=115 Identities=13% Similarity=0.137 Sum_probs=68.1
Q ss_pred hHHHHHHcCCeeeeeeccCCCCCC-eeEEEEeecCCCCcccc---CC-CCCCCCccccChhhh-----------------
Q 029341 10 RIPQLRRKNINFPSYKHRGNYQPL-FLSCNYSTNDNCSSSSS---SS-SSSSRNYLELTDDEL----------------- 67 (195)
Q Consensus 10 ~~~~a~r~~~~~~~v~~~~~~~~g-~~S~~~~~~g~~~~~~g---~~-~~~~~~~~~i~~~dL----------------- 67 (195)
-...++.+|..+...|++.+ | +-+.+.++.|...+-.| ++ +..|...+.++++.|
T Consensus 13 v~~~L~~~g~tlatAEScTg---Glla~~lt~i~GaS~~f~gg~VtYSneaK~~lLgV~~~tL~~~GaVSe~~a~eMA~G 89 (162)
T COG1546 13 VGELLKERGLTLATAESCTG---GLLAAALTDIPGASAVFEGGFVTYSNEAKAKLLGVSPETLEEHGAVSEEVAREMARG 89 (162)
T ss_pred HHHHHHHcCCEEEEEecchh---HHHHHHHHcCCCcHHHhCCceEEEcHHHHHHHhCCCHHHHHHcCCcCHHHHHHHHHH
Confidence 34556678899999999875 5 77788888877654433 22 445555566666544
Q ss_pred -----hccceeeeeecCCCCCCCCCccCceEEEEEcccc--cEEEEcccCCHHHHHHH----HHHHHHHHH
Q 029341 68 -----FRECEMDAYKSPGPGGQHRNKRESAVRLKHVPTG--VIAQAAEDRSQHKNRAS----ALSRLRTLL 127 (195)
Q Consensus 68 -----~~~~~i~~~RssGpGGQ~VNk~~taVrl~h~PtG--i~v~~~~~RSq~~Nk~~----Al~rL~~~l 127 (195)
..|+-|.+.=--||+|-.=+|.--.|.+-..-.| ++.++.-.-....||.. |++.|..+|
T Consensus 90 a~~~~~ad~aiaiTGiAGP~Gg~~~kpvGtV~ig~~~~~~~~~~~~~~~g~R~~vR~~a~~~Al~~l~~~L 160 (162)
T COG1546 90 AKERAGADIAIAITGIAGPDGGSEGKPVGTVYIGLAIGGEAITIRVNFGGDREQVRERAVRAALELLLRLL 160 (162)
T ss_pred HHHhcCCCEEEEEEEeeCCCCCCCCCCceEEEEEEEcCCceEEEEEEcCCCHHHHHHHHHHHHHHHHHHHh
Confidence 1245566666668886666777777777433244 44444332334455554 444444433
No 32
>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=20.55 E-value=91 Score=20.23 Aligned_cols=42 Identities=14% Similarity=0.169 Sum_probs=24.2
Q ss_pred CCCCCCCCCccC--ceEEEEEccc-----ccEEEEcccCCHHHHHHHHHHHH
Q 029341 79 PGPGGQHRNKRE--SAVRLKHVPT-----GVIAQAAEDRSQHKNRASALSRL 123 (195)
Q Consensus 79 sGpGGQ~VNk~~--taVrl~h~Pt-----Gi~v~~~~~RSq~~Nk~~Al~rL 123 (195)
=||||.+++... |.|.|...|. .-.|..... ..|...|...|
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 378999998644 4577776552 233444433 45666665544
Done!