Query 045057
Match_columns 231
No_of_seqs 127 out of 465
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 09:25:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045057.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045057hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00101 14_3_3 14-3-3 homol 100.0 9.5E-50 2.1E-54 354.3 12.9 191 5-195 8-210 (244)
2 PF00244 14-3-3: 14-3-3 protei 100.0 2.7E-47 5.9E-52 334.6 9.8 187 7-194 7-207 (236)
3 COG5040 BMH1 14-3-3 family pro 100.0 3.2E-45 6.9E-50 320.7 10.4 169 6-175 13-192 (268)
4 KOG0841 Multifunctional chaper 100.0 8E-42 1.7E-46 303.3 8.6 194 7-204 11-216 (247)
5 PF12854 PPR_1: PPR repeat 93.3 0.1 2.3E-06 33.0 3.0 25 3-27 9-33 (34)
6 TIGR00756 PPR pentatricopeptid 86.8 1.2 2.5E-05 26.0 3.4 26 3-28 2-27 (35)
7 PF01535 PPR: PPR repeat; Int 82.9 1.8 4E-05 25.0 3.0 26 3-28 2-27 (31)
8 PF13041 PPR_2: PPR repeat fam 80.2 2.4 5.2E-05 28.0 3.2 35 3-37 5-39 (50)
9 PF13812 PPR_3: Pentatricopept 76.1 3.9 8.4E-05 24.1 3.0 27 2-28 2-28 (34)
10 COG0233 Frr Ribosome recycling 53.3 28 0.0006 30.9 4.9 73 30-103 105-177 (187)
11 PF01765 RRF: Ribosome recycli 52.3 20 0.00043 30.2 3.8 73 30-103 85-157 (165)
12 TIGR00496 frr ribosome recycli 47.7 31 0.00066 29.8 4.3 73 30-103 94-166 (176)
13 cd00520 RRF Ribosome recycling 46.4 31 0.00067 29.7 4.1 73 30-103 99-171 (179)
14 PRK00083 frr ribosome recyclin 45.1 36 0.00079 29.6 4.4 73 30-103 103-175 (185)
15 KOG4759 Ribosome recycling fac 41.2 77 0.0017 29.6 6.0 71 30-103 183-253 (263)
16 PF14338 Mrr_N: Mrr N-terminal 31.6 50 0.0011 24.9 2.8 38 3-42 5-45 (92)
17 PF05010 TACC: Transforming ac 30.4 82 0.0018 28.2 4.3 76 11-100 127-206 (207)
18 PF07719 TPR_2: Tetratricopept 27.8 95 0.0021 17.9 3.1 25 3-27 3-27 (34)
19 PHA02103 hypothetical protein 24.9 21 0.00045 29.7 -0.4 16 121-136 79-94 (135)
20 PF09969 DUF2203: Uncharacteri 23.9 3.1E+02 0.0067 22.3 6.3 66 32-97 3-68 (120)
21 PF12345 DUF3641: Protein of u 23.8 37 0.00081 28.7 0.9 43 6-48 37-81 (134)
22 PLN03081 pentatricopeptide (PP 22.9 2.7E+02 0.0059 27.9 6.9 25 3-27 261-285 (697)
23 PLN03077 Protein ECB2; Provisi 21.8 1.4E+02 0.003 30.7 4.7 41 4-52 628-668 (857)
24 PLN03081 pentatricopeptide (PP 21.6 2E+02 0.0044 28.8 5.7 56 3-61 160-215 (697)
25 PF14559 TPR_19: Tetratricopep 20.9 1.1E+02 0.0025 20.3 2.8 25 3-27 27-51 (68)
No 1
>smart00101 14_3_3 14-3-3 homologues. 14-3-3 homologues mediates signal transduction by binding to phosphoserine-containing proteins. They are involved in growth factor signalling and also interact with MEK kinases.
Probab=100.00 E-value=9.5e-50 Score=354.32 Aligned_cols=191 Identities=37% Similarity=0.522 Sum_probs=170.4
Q ss_pred HHHHHHHhhhccHHHHHHHHHhhcC-CCCCCCcchhHHHHHhhhhhhhhhHHHHHHhHHhhhhhcCCchhHHHHHHHHHH
Q 045057 5 SEFITVMGKKGQTRMAMRHFSEMRN-SRFRPDASPLLHEADKNVIGARRASWRIMSSIKQKEELRGNQDYVSVIKEYRSK 83 (231)
Q Consensus 5 ~~~ikv~~k~Gr~~daMK~vve~~~-~eLs~EERNLLSVAYKNVIg~rR~SwRiLssiEqkee~kgne~~~~~I~~Yrkk 83 (231)
++|..-..+-++|..+||.++++.+ .+||.||||||||||||+||++|+|||+|+++|++++.+|++++++++++||++
T Consensus 8 Aklaeq~eRyddm~~~mk~~~~~~~~~eLt~EERnLLSvayKn~i~~~R~s~R~i~sie~ke~~~~~~~~~~~~~~yr~k 87 (244)
T smart00101 8 AKLAEQAERYEEMVEFMEKVAKTVDSEELTVEERNLLSVAYKNVIGARRASWRIISSIEQKEESRGNEDHVASIKEYRGK 87 (244)
T ss_pred HHHHHHhcCHHHHHHHHHHHHhhcCCccCCHHHHHHHHHHHhhhhcccHHHHHHHhHHHHhhhccCchHHHHHHHHHHHH
Confidence 3444444555567788999888633 599999999999999999999999999999999998888888889999999999
Q ss_pred HHHHHHHHHHHHHHHHhhcccCCCCCCchhhhhhhhhccccchhhhhccccceehhhhHH--HhhhchhhhcCCcchhhh
Q 045057 84 IKAELTEICGGILKLLDQKLVPATAAAYSKVFYLKMKGDYHRYFIITVLHFSVFTGVQTA--VAKRTPILASSSEAEEED 161 (231)
Q Consensus 84 IE~EL~~iC~eIL~LID~~LIp~at~~ESKVFYlKMKGDYYRYlAEv~~~~~~~~~v~qa--ayk~a~~lA~~~~~~~~~ 161 (231)
|++||..+|+|||+|||++|||.+++++++|||+|||||||||+|||...+++...++.| +|++|..+|++++.|-.-
T Consensus 88 ie~EL~~iC~eil~lid~~Lip~~~~~eskVFy~KmKGDYyRYlaE~~~~~e~~~~~~~a~~aY~~A~e~a~~~L~pt~P 167 (244)
T smart00101 88 IETELSKICDGILKLLESHLIPSASAAESKVFYLKMKGDYHRYLAEFKTGAERKEAAENTLVAYKSAQDIALAELPPTHP 167 (244)
T ss_pred HHHHHHHHHHHHHHHHHHhCccccCcHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHccCCCCCH
Confidence 999999999999999999999999999999999999999999999999998887778777 999999999998888763
Q ss_pred h------h---HHhhccccchhhhHhhHHHHhhhhhhhhhhcc
Q 045057 162 S------N---CINSFNKFTDENLKILSDALERKAPALLKFSQ 195 (231)
Q Consensus 162 ~------~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 195 (231)
- | |+|+.-+.+.+|+++..+|+|..+|.|=..+.
T Consensus 168 irLgLaLN~SVF~yEI~~~~~~A~~lAk~afd~Ai~~ld~l~e 210 (244)
T smart00101 168 IRLGLALNFSVFYYEILNSPDRACNLAKQAFDEAIAELDTLGE 210 (244)
T ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhhccCh
Confidence 3 5 99999999999999999999999887765543
No 2
>PF00244 14-3-3: 14-3-3 protein; InterPro: IPR023410 The 14-3-3 proteins are a large family of approximately 30kDa acidic proteins which exist primarily as homo- and heterodimeric within all eukaryotic cells [, ]. There is a high degree of sequence identity and conservation between all the 14-3-3 isotypes, particularly in the regions which form the dimer interface or line the central ligand binding channel of the dimeric molecule. Each 14-3-3 protein sequence can be roughly divided into three sections: a divergent amino terminus, the conserved core region and a divergent carboxyl terminus. The conserved middle core region of the 14-3-3s encodes an amphipathic groove that forms the main functional domain, a cradle for interacting with client proteins. The monomer consists of nine helices organised in an antiparallel manner, forming an L-shaped structure. The interior of the L-structure is composed of four helices: H3 and H5, which contain many charged and polar amino acids, and H7 and H9, which contain hydrophobic amino acids. These four helices form the concave amphipathic groove that interacts with target peptides. 14-3-3 proteins mainly bind proteins containing phosphothreonine or phosphoserine motifs however exceptions to this rule do exist. Extensive investigation of the 14-3-3 binding site of the mammalian serine/threonine kinase Raf-1 has produced a consensus sequence for 14-3-3-binding, RSxpSxP (in the single-letter amino-acid code, where x denotes any amino acid and p indicates that the next residue is phosphorylated). 14-3-3 proteins appear to effect intracellular signalling in one of three ways - by direct regulation of the catalytic activity of the bound protein, by regulating interactions between the bound protein and other molecules in the cell by sequestration or modification or by controlling the subcellular localisation of the bound ligand. Proteins appear to initially bind to a single dominant site and then subsequently to many, much weaker secondary interaction sites. The 14-3-3 dimer is capable of changing the conformation of its bound ligand whilst itself undergoing minimal structural alteration. This entry represents the structural domain found in 14-3-3 proteins.; PDB: 2O8P_A 3AXY_D 2C74_A 2C63_A 4DX0_A 1YWT_A 3P1O_A 3P1N_A 4DAU_A 3U9X_A ....
Probab=100.00 E-value=2.7e-47 Score=334.64 Aligned_cols=187 Identities=34% Similarity=0.500 Sum_probs=164.1
Q ss_pred HHHHHhhhcc---HHHHHHHHHhhcCCCCCCCcchhHHHHHhhhhhhhhhHHHHHHhHHhhhhhcCCchhHHHHHHHHHH
Q 045057 7 FITVMGKKGQ---TRMAMRHFSEMRNSRFRPDASPLLHEADKNVIGARRASWRIMSSIKQKEELRGNQDYVSVIKEYRSK 83 (231)
Q Consensus 7 ~ikv~~k~Gr---~~daMK~vve~~~~eLs~EERNLLSVAYKNVIg~rR~SwRiLssiEqkee~kgne~~~~~I~~Yrkk 83 (231)
++++...+|| |..+||.++++ +++||.|||||||+||||+||++|+|||+|++++++++.+|++.+++.+++||++
T Consensus 7 ~Aklaeq~eRy~dmv~~mk~~~~~-~~eLt~eERnLlsvayKn~i~~~R~s~R~l~~~e~~~~~~~~~~~~~~i~~yk~k 85 (236)
T PF00244_consen 7 LAKLAEQAERYDDMVEYMKQLIEM-NPELTEEERNLLSVAYKNVIGSRRASWRILSSIEQKEENKGNEKQVKLIKDYKKK 85 (236)
T ss_dssp HHHHHHHTTHHHHHHHHHHHHHHT-SS---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHH
T ss_pred HHHHHHHhcCHHHHHHHHHHHHcc-CCCCCHHHHHHHHHHHHhccccchHHHHhhhhHhhhhcccchhHHHHHHHHHHHH
Confidence 4555555555 55577788887 7999999999999999999999999999999999999998899999999999999
Q ss_pred HHHHHHHHHHHHHHHHhhcccCCCCCCchhhhhhhhhccccchhhhhccccceehhhhHH--HhhhchhhhcCCcchhhh
Q 045057 84 IKAELTEICGGILKLLDQKLVPATAAAYSKVFYLKMKGDYHRYFIITVLHFSVFTGVQTA--VAKRTPILASSSEAEEED 161 (231)
Q Consensus 84 IE~EL~~iC~eIL~LID~~LIp~at~~ESKVFYlKMKGDYYRYlAEv~~~~~~~~~v~qa--ayk~a~~lA~~~~~~~~~ 161 (231)
|++||..+|++|+++||++|+|.+++++++|||+|||||||||+|||...+.+...+++| +|++|..+|+.++.|-..
T Consensus 86 ie~EL~~~C~eii~lId~~Lip~~~~~eskvfy~KmkgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~~~L~~~~p 165 (236)
T PF00244_consen 86 IEDELIDICNEIIRLIDKSLIPSATSPESKVFYYKMKGDYYRYLAEFDSGDEKKEAAEKALEAYEEALEIAKKELPPTHP 165 (236)
T ss_dssp HHHHHHHHHHHHHHHHHHTCHHHS-SHHHHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHHHHSCTTSH
T ss_pred HHHHHHHHHHHHHHHHHHHHhccccchhHHHHHHHHhccccccccccccchhhHHHHHHHHHhhhhHHHHHhcccCCCCc
Confidence 999999999999999999999999999999999999999999999999988887777777 999999999999887654
Q ss_pred h------h---HHhhccccchhhhHhhHHHHhhhhhhhhhhc
Q 045057 162 S------N---CINSFNKFTDENLKILSDALERKAPALLKFS 194 (231)
Q Consensus 162 ~------~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 194 (231)
- | |+|+..+-+.+|+++...|+|..++.+=..+
T Consensus 166 ~rLgl~LN~svF~yei~~~~~~A~~ia~~afd~a~~~l~~l~ 207 (236)
T PF00244_consen 166 LRLGLALNYSVFYYEILNDPEKAIEIAKQAFDEAISELDTLS 207 (236)
T ss_dssp HHHHHHHHHHHHHHHTSS-HHHHHHHHHHHHHHHHHGGGGSH
T ss_pred HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhhhcccc
Confidence 4 4 9999999999999999999999888765443
No 3
>COG5040 BMH1 14-3-3 family protein [Signal transduction mechanisms]
Probab=100.00 E-value=3.2e-45 Score=320.68 Aligned_cols=169 Identities=37% Similarity=0.520 Sum_probs=144.8
Q ss_pred HHHHHHhhhccHHHHHHHHHhhcCCCCCCCcchhHHHHHhhhhhhhhhHHHHHHhHHhhhhhcCCchhHHHHHHHHHHHH
Q 045057 6 EFITVMGKKGQTRMAMRHFSEMRNSRFRPDASPLLHEADKNVIGARRASWRIMSSIKQKEELRGNQDYVSVIKEYRSKIK 85 (231)
Q Consensus 6 ~~ikv~~k~Gr~~daMK~vve~~~~eLs~EERNLLSVAYKNVIg~rR~SwRiLssiEqkee~kgne~~~~~I~~YrkkIE 85 (231)
+|..-.-+-..|..-||.++-. +.+|++||||||||||||+||+||+|||++++++||++++||..++.+|++||++||
T Consensus 13 kLaeqAERYe~MvenMk~vas~-~~eLsVeeRNLlSVAYKNvigaRRaSWRivsSieQKeEsk~~~~qv~lI~eyrkkiE 91 (268)
T COG5040 13 KLAEQAERYEEMVENMKLVASS-GQELSVEERNLLSVAYKNVIGARRASWRIVSSIEQKEESKGNTHQVELIKEYRKKIE 91 (268)
T ss_pred HHHHHHHHHHHHHHHHHHHhhc-cchhhHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHhcCCChhHHHHHHHHHHHHH
Confidence 3444444556677888888877 699999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhcccCCCCCCchhhhhhhhhccccchhhhhccccceehhhhHH--HhhhchhhhcCCcchhhhh-
Q 045057 86 AELTEICGGILKLLDQKLVPATAAAYSKVFYLKMKGDYHRYFIITVLHFSVFTGVQTA--VAKRTPILASSSEAEEEDS- 162 (231)
Q Consensus 86 ~EL~~iC~eIL~LID~~LIp~at~~ESKVFYlKMKGDYYRYlAEv~~~~~~~~~v~qa--ayk~a~~lA~~~~~~~~~~- 162 (231)
+||..||+|||++|++||||++++.|++|||+|||||||||+|||......--...++ +||.|-.+|.-.+.|-.--
T Consensus 92 ~EL~~icddiL~vl~~hlipaa~~~EskvFyyKMKGDYyRYlAEf~~G~~~~e~a~~slE~YK~AseiA~teLpPT~Pir 171 (268)
T COG5040 92 TELTKICDDILSVLEKHLIPAATTGESKVFYYKMKGDYYRYLAEFSVGEAREEAADSSLEAYKAASEIATTELPPTHPIR 171 (268)
T ss_pred HHHHHHHHHHHHHHHHhcccccccccceEEEEeecchHHHHHHHhccchHhHHHHHhHHHHHHHHHHHhhccCCCCCchh
Confidence 9999999999999999999999999999999999999999999999876553333333 9999999999999886432
Q ss_pred -----h---HHhhccccchhh
Q 045057 163 -----N---CINSFNKFTDEN 175 (231)
Q Consensus 163 -----~---~~~~~~~~~~~~ 175 (231)
| |-|+.-|-.+.+
T Consensus 172 LGLALNfSVFyYEIlnspdkA 192 (268)
T COG5040 172 LGLALNFSVFYYEILNSPDKA 192 (268)
T ss_pred hhheecceeeeeecccCcHHH
Confidence 3 555555544433
No 4
>KOG0841 consensus Multifunctional chaperone (14-3-3 family) [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=8e-42 Score=303.34 Aligned_cols=194 Identities=35% Similarity=0.516 Sum_probs=170.4
Q ss_pred HHHHHhhhccHHHHHHHHHhhcCCCCCCCcchhHHHHHhhhhhhhhhHHHHHHhHHhhhhhcCCchhHHHHHHHHHHHHH
Q 045057 7 FITVMGKKGQTRMAMRHFSEMRNSRFRPDASPLLHEADKNVIGARRASWRIMSSIKQKEELRGNQDYVSVIKEYRSKIKA 86 (231)
Q Consensus 7 ~ikv~~k~Gr~~daMK~vve~~~~eLs~EERNLLSVAYKNVIg~rR~SwRiLssiEqkee~kgne~~~~~I~~YrkkIE~ 86 (231)
|..-.++=.+|..+||.++++ +.+||.||||||||+||||||+||+|||+|++||||++.+|++.+++.|..||++||.
T Consensus 11 l~eqaery~~m~~~Mk~v~~~-~~eLtveernllsvayknVigarrasWriisSiEqKees~~~e~~v~~i~~yr~~vE~ 89 (247)
T KOG0841|consen 11 LAEQAERYDEMVEAMKKVAEL-DVELTVEERNLLSVAYKNVIGARRASWRIISSIEQKEESKGNEEKVKMIKEYRQKVET 89 (247)
T ss_pred HHHHHHhHHHHHHHHHhhccc-chhhhHHHHhhhhhhhccccchhHHHHHHhhhhhhcccCCCcchHHHHHHHHHHHHHH
Confidence 334444557889999999998 7999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhcccCCCCC-CchhhhhhhhhccccchhhhhccccceehhhhHH--HhhhchhhhcCCcchhhhh-
Q 045057 87 ELTEICGGILKLLDQKLVPATAA-AYSKVFYLKMKGDYHRYFIITVLHFSVFTGVQTA--VAKRTPILASSSEAEEEDS- 162 (231)
Q Consensus 87 EL~~iC~eIL~LID~~LIp~at~-~ESKVFYlKMKGDYYRYlAEv~~~~~~~~~v~qa--ayk~a~~lA~~~~~~~~~~- 162 (231)
||..+|++|+.++|++|+|+++. .|++|||+|||||||||+|||.+.++.-..+.++ ||+.|--+|+..+.|-..-
T Consensus 90 El~~ic~~iL~lld~~Li~sa~~~~es~vf~~kmKgdy~rylae~~sg~erke~~~~sl~aYk~a~~ia~~~l~PthPir 169 (247)
T KOG0841|consen 90 ELAKICDDILSLLDKHLIPSATLPGESKVFYLKMKGDYYRYLAEFASGDERKEAADQSLEAYKEASEIAKAELQPTHPIR 169 (247)
T ss_pred HHHHHHHHHHHHHHHHHhhhcccccccceeeeeccchhHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHhcCCCCCchH
Confidence 99999999999999999999988 8899999999999999999999988887777666 9999999999988876543
Q ss_pred -----h---HHhhccccchhhhHhhHHHHhhhhhhhhhhcccccccccCC
Q 045057 163 -----N---CINSFNKFTDENLKILSDALERKAPALLKFSQVSSSRYVGS 204 (231)
Q Consensus 163 -----~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 204 (231)
| |-|+.-|+.+++-.+..+++|-. |.-+.-.|+..|+.|
T Consensus 170 LgLaLnfSvf~yeilnsPe~ac~lak~a~d~a---i~eldtl~e~sykdS 216 (247)
T KOG0841|consen 170 LGLALNFSVFYYEILNSPERACSLAKQAFDEA---IAELDTLSEESYKDS 216 (247)
T ss_pred HHHHHHHHHHHHHHHcChHHHHHHHHHHHHHH---HHhhccccHHHHhhh
Confidence 4 66999999999999999996654 444444555555544
No 5
>PF12854 PPR_1: PPR repeat
Probab=93.34 E-value=0.1 Score=33.00 Aligned_cols=25 Identities=32% Similarity=0.468 Sum_probs=23.4
Q ss_pred chHHHHHHHhhhccHHHHHHHHHhh
Q 045057 3 IYSEFITVMGKKGQTRMAMRHFSEM 27 (231)
Q Consensus 3 ~y~~~ikv~~k~Gr~~daMK~vve~ 27 (231)
.|.-||..+||.|+.++|++.+-+|
T Consensus 9 ty~~lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 9 TYNTLIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHhC
Confidence 5999999999999999999998876
No 6
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=86.80 E-value=1.2 Score=26.03 Aligned_cols=26 Identities=31% Similarity=0.479 Sum_probs=24.0
Q ss_pred chHHHHHHHhhhccHHHHHHHHHhhc
Q 045057 3 IYSEFITVMGKKGQTRMAMRHFSEMR 28 (231)
Q Consensus 3 ~y~~~ikv~~k~Gr~~daMK~vve~~ 28 (231)
.|.-+|..+++.|++++|++.+.+|.
T Consensus 2 ~~n~li~~~~~~~~~~~a~~~~~~M~ 27 (35)
T TIGR00756 2 TYNTLIDGLCKAGRVEEALELFKEML 27 (35)
T ss_pred cHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 48899999999999999999999885
No 7
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=82.85 E-value=1.8 Score=24.97 Aligned_cols=26 Identities=38% Similarity=0.530 Sum_probs=23.7
Q ss_pred chHHHHHHHhhhccHHHHHHHHHhhc
Q 045057 3 IYSEFITVMGKKGQTRMAMRHFSEMR 28 (231)
Q Consensus 3 ~y~~~ikv~~k~Gr~~daMK~vve~~ 28 (231)
.|.-+|..+++.|++++|.+.+.+|.
T Consensus 2 ~y~~li~~~~~~~~~~~a~~~~~~M~ 27 (31)
T PF01535_consen 2 TYNSLISGYCKMGQFEEALEVFDEMR 27 (31)
T ss_pred cHHHHHHHHHccchHHHHHHHHHHHh
Confidence 48899999999999999999998873
No 8
>PF13041 PPR_2: PPR repeat family
Probab=80.22 E-value=2.4 Score=27.97 Aligned_cols=35 Identities=29% Similarity=0.530 Sum_probs=29.3
Q ss_pred chHHHHHHHhhhccHHHHHHHHHhhcCCCCCCCcc
Q 045057 3 IYSEFITVMGKKGQTRMAMRHFSEMRNSRFRPDAS 37 (231)
Q Consensus 3 ~y~~~ikv~~k~Gr~~daMK~vve~~~~eLs~EER 37 (231)
.|.-+|..+++.|++++|.+.+.+|....+.++..
T Consensus 5 ~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~ 39 (50)
T PF13041_consen 5 TYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSY 39 (50)
T ss_pred HHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHH
Confidence 48889999999999999999999986555666543
No 9
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=76.06 E-value=3.9 Score=24.14 Aligned_cols=27 Identities=26% Similarity=0.535 Sum_probs=24.1
Q ss_pred cchHHHHHHHhhhccHHHHHHHHHhhc
Q 045057 2 GIYSEFITVMGKKGQTRMAMRHFSEMR 28 (231)
Q Consensus 2 ~~y~~~ikv~~k~Gr~~daMK~vve~~ 28 (231)
-.|.-++..+.+.|++++|...+.+|.
T Consensus 2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~ 28 (34)
T PF13812_consen 2 HTYNALLRACAKAGDPDAALQLFDEMK 28 (34)
T ss_pred cHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 358899999999999999999988874
No 10
>COG0233 Frr Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=53.34 E-value=28 Score=30.92 Aligned_cols=73 Identities=11% Similarity=0.166 Sum_probs=51.7
Q ss_pred CCCCCCcchhHHHHHhhhhhhhhhHHHHHHhHHhhhhhcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 045057 30 SRFRPDASPLLHEADKNVIGARRASWRIMSSIKQKEELRGNQDYVSVIKEYRSKIKAELTEICGGILKLLDQKL 103 (231)
Q Consensus 30 ~eLs~EERNLLSVAYKNVIg~rR~SwRiLssiEqkee~kgne~~~~~I~~YrkkIE~EL~~iC~eIL~LID~~L 103 (231)
|+||.|-|-=|.---|.+.-.-|-|.|-|.-- .+++.+..++...+.++-.++.++|+..+.++-+.-||..+
T Consensus 105 P~lTeErRkelvK~~k~~~EeakvaiRniRrd-a~d~iKK~~K~~~isEDe~k~~e~~iQKlTd~yi~~iD~~~ 177 (187)
T COG0233 105 PPLTEERRKELVKVAKKYAEEAKVAVRNIRRD-ANDKIKKLEKDKEISEDEVKKAEEEIQKLTDEYIKKIDELL 177 (187)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67888888888888888888888888888431 11111112222234577888899999999999999998765
No 11
>PF01765 RRF: Ribosome recycling factor; InterPro: IPR023584 The ribosome recycling factor or ribosome release factor (RRF) dissociates ribosomes from mRNA after termination of translation, and is essential for bacterial growth []. Thus ribosomes are 'recycled' and ready for another round of protein synthesis. This entry represents a domain found in ribosome recycling factors.; PDB: 3R8N_Y 1Y69_8 1ISE_A 1EK8_A 1DD5_A 1WIH_A 2Z4L_6 2QBE_6 2V46_Y 1EH1_A ....
Probab=52.33 E-value=20 Score=30.16 Aligned_cols=73 Identities=14% Similarity=0.148 Sum_probs=49.1
Q ss_pred CCCCCCcchhHHHHHhhhhhhhhhHHHHHHhHHhhhhhcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 045057 30 SRFRPDASPLLHEADKNVIGARRASWRIMSSIKQKEELRGNQDYVSVIKEYRSKIKAELTEICGGILKLLDQKL 103 (231)
Q Consensus 30 ~eLs~EERNLLSVAYKNVIg~rR~SwRiLssiEqkee~kgne~~~~~I~~YrkkIE~EL~~iC~eIL~LID~~L 103 (231)
|.+|.|-|.-|.-.-|......|.+.|-+..--.+.- +...+....-++-.++.+++|..+-++.+.-||..+
T Consensus 85 P~~T~E~R~~l~k~~k~~~E~~k~~iR~iR~~~~~~l-kk~~~~~~~s~D~~~~~~~~iq~l~~~~~~~id~~~ 157 (165)
T PF01765_consen 85 PPPTEERRKELVKQAKKIAEEAKVSIRNIRRDAMKKL-KKLKKSKEISEDDIKKLEKEIQKLTDKYIKKIDELL 157 (165)
T ss_dssp -SSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHTTSS-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhccCCCCchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 5688899999999999999999999999865322221 111111114456667788888888888888887644
No 12
>TIGR00496 frr ribosome recycling factor. This model finds only eubacterial proteins. Mitochondrial and/or chloroplast forms might be expected but are not currently known. This protein was previously called ribosome releasing factor. By releasing ribosomes from mRNA at the end of protein biosynthesis, it prevents inappropriate translation from 3-prime regions of the mRNA and frees the ribosome for new rounds of translation. EGAD|53116|YHR038W is part of the frr superfamily.
Probab=47.74 E-value=31 Score=29.82 Aligned_cols=73 Identities=10% Similarity=0.186 Sum_probs=47.3
Q ss_pred CCCCCCcchhHHHHHhhhhhhhhhHHHHHHhHHhhhhhcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 045057 30 SRFRPDASPLLHEADKNVIGARRASWRIMSSIKQKEELRGNQDYVSVIKEYRSKIKAELTEICGGILKLLDQKL 103 (231)
Q Consensus 30 ~eLs~EERNLLSVAYKNVIg~rR~SwRiLssiEqkee~kgne~~~~~I~~YrkkIE~EL~~iC~eIL~LID~~L 103 (231)
|.||.|-|.=|.-.-|...-.-|.+.|-+..---+. -+...+...+-++-.++.++|+..+.++.+.-||..+
T Consensus 94 P~lT~E~RkelvK~~k~~~E~aKv~iRniRr~~~~~-iKk~~k~~~iseD~~k~~~~~iQkltd~~i~~id~~~ 166 (176)
T TIGR00496 94 PPLTEERRKELVKHAKKIAEQAKVAVRNVRRDANDK-VKKLEKDKEISEDEERRLQEEIQKLTDEYIKKIDEIL 166 (176)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhcCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678999998888888888888888888874311110 0100000113356667778888888888888887654
No 13
>cd00520 RRF Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another round of protein synthesis. RRF is believed to bind the ribosome at the A-site in a manner that mimics tRNA, but the specific mechanisms remain unclear. RRF is essential for bacterial growth. It is not necessary for cell growth in archaea or eukaryotes, but is found in mitochondria or chloroplasts of some eukaryotic species.
Probab=46.44 E-value=31 Score=29.71 Aligned_cols=73 Identities=11% Similarity=0.178 Sum_probs=46.2
Q ss_pred CCCCCCcchhHHHHHhhhhhhhhhHHHHHHhHHhhhhhcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 045057 30 SRFRPDASPLLHEADKNVIGARRASWRIMSSIKQKEELRGNQDYVSVIKEYRSKIKAELTEICGGILKLLDQKL 103 (231)
Q Consensus 30 ~eLs~EERNLLSVAYKNVIg~rR~SwRiLssiEqkee~kgne~~~~~I~~YrkkIE~EL~~iC~eIL~LID~~L 103 (231)
|.||.|-|.=|.-.-|...-.-|.+.|-+..--.+. .+........-++-.++.++|+..+.++.+.-||..+
T Consensus 99 P~lT~E~R~~lvK~~k~~~E~~Kv~iRniR~~~~~~-lKk~~k~~~iseD~~k~~~~~iqkltd~~i~~id~~~ 171 (179)
T cd00520 99 PPLTEERRKELVKDAKKIAEEAKVAIRNIRRDANDK-IKKLEKEKEISEDEVKKAEEDLQKLTDEYIKKIDELL 171 (179)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhccCCCCchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678889898888888888888888888874311111 1111111112345566777788888888777777654
No 14
>PRK00083 frr ribosome recycling factor; Reviewed
Probab=45.08 E-value=36 Score=29.60 Aligned_cols=73 Identities=11% Similarity=0.141 Sum_probs=46.9
Q ss_pred CCCCCCcchhHHHHHhhhhhhhhhHHHHHHhHHhhhhhcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 045057 30 SRFRPDASPLLHEADKNVIGARRASWRIMSSIKQKEELRGNQDYVSVIKEYRSKIKAELTEICGGILKLLDQKL 103 (231)
Q Consensus 30 ~eLs~EERNLLSVAYKNVIg~rR~SwRiLssiEqkee~kgne~~~~~I~~YrkkIE~EL~~iC~eIL~LID~~L 103 (231)
|.||.|-|.=|.-.-|...-.-|.+.|-+..--.++ -+...+...+-++-.++.++|+..+.++.+.-||..+
T Consensus 103 P~lT~E~R~elvK~~k~~~E~aKv~iRniRr~~~~~-iKk~~k~~~iseD~~k~~e~eiQkltd~~i~~id~~~ 175 (185)
T PRK00083 103 PPLTEERRKELVKQVKKEAEEAKVAIRNIRRDANDK-LKKLEKDKEISEDELKRAEDEIQKLTDKYIKKIDELL 175 (185)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhcCCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 679999998888888888888888888875321111 1100001112355667777888888888877777654
No 15
>KOG4759 consensus Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=41.15 E-value=77 Score=29.62 Aligned_cols=71 Identities=20% Similarity=0.229 Sum_probs=52.0
Q ss_pred CCCCCCcchhHHHHHhhhhhhhhhHHHHHHhHHhhhhhcCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 045057 30 SRFRPDASPLLHEADKNVIGARRASWRIMSSIKQKEELRGNQDYVSVIKEYRSKIKAELTEICGGILKLLDQKL 103 (231)
Q Consensus 30 ~eLs~EERNLLSVAYKNVIg~rR~SwRiLssiEqkee~kgne~~~~~I~~YrkkIE~EL~~iC~eIL~LID~~L 103 (231)
|..|.|-|.-|+-.-|.+....|.|.|-+..=--+.-.+ +.. ..-++=.+++|.||..+.++.+..+|..|
T Consensus 183 P~~T~E~Re~laK~~~~~~ee~K~slr~ir~~~~kk~~k-~~~--~~~~D~vkkae~~l~~l~k~~v~~ld~ll 253 (263)
T KOG4759|consen 183 PPVTKESREKLAKVLKRYFEEYKQSLRKIRTKSIKKSKK-NKK--SLSEDEVKKAEAELQKLAKDAVNKLDDLL 253 (263)
T ss_pred CCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-ccc--cCChhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346778899999888888889999999886433232211 111 14467778899999999999999998765
No 16
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=31.62 E-value=50 Score=24.88 Aligned_cols=38 Identities=3% Similarity=0.041 Sum_probs=28.3
Q ss_pred chHHHHHHHhh---hccHHHHHHHHHhhcCCCCCCCcchhHHH
Q 045057 3 IYSEFITVMGK---KGQTRMAMRHFSEMRNSRFRPDASPLLHE 42 (231)
Q Consensus 3 ~y~~~ikv~~k---~Gr~~daMK~vve~~~~eLs~EERNLLSV 42 (231)
++.++++++.. .....+....+++. .+||.||++...-
T Consensus 5 ~~~piL~~L~~~g~~~~~~ei~~~v~~~--~~ls~e~~~~~~~ 45 (92)
T PF14338_consen 5 LMPPILEALKDLGGSASRKEIYERVAER--FGLSDEERNERLP 45 (92)
T ss_pred HHHHHHHHHHHcCCCcCHHHHHHHHHHH--hCCCHHHHHHHcc
Confidence 45677888876 44567888888876 4899999998643
No 17
>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules. The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].
Probab=30.37 E-value=82 Score=28.16 Aligned_cols=76 Identities=20% Similarity=0.258 Sum_probs=44.6
Q ss_pred HhhhccHHHHHHHHHhhcCCCCCCCcchhHHHHHhhhhhhhhhHHHHHH----hHHhhhhhcCCchhHHHHHHHHHHHHH
Q 045057 11 MGKKGQTRMAMRHFSEMRNSRFRPDASPLLHEADKNVIGARRASWRIMS----SIKQKEELRGNQDYVSVIKEYRSKIKA 86 (231)
Q Consensus 11 ~~k~Gr~~daMK~vve~~~~eLs~EERNLLSVAYKNVIg~rR~SwRiLs----siEqkee~kgne~~~~~I~~YrkkIE~ 86 (231)
+-+.++--++||.-++. .-+...+|-.-+-..++.-+.+.++.+|--- |++..- +-+.+=-.
T Consensus 127 l~~~eqry~aLK~hAee-kL~~ANeei~~v~~~~~~e~~aLqa~lkk~e~~~~SLe~~L-------------eQK~kEn~ 192 (207)
T PF05010_consen 127 LKKEEQRYQALKAHAEE-KLEKANEEIAQVRSKHQAELLALQASLKKEEMKVQSLEESL-------------EQKTKENE 192 (207)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHH
Confidence 33445555677766653 2345566666666777777777788877641 111111 11122236
Q ss_pred HHHHHHHHHHHHHh
Q 045057 87 ELTEICGGILKLLD 100 (231)
Q Consensus 87 EL~~iC~eIL~LID 100 (231)
||..||+|+|.=++
T Consensus 193 ELtkICDeLI~k~~ 206 (207)
T PF05010_consen 193 ELTKICDELISKMG 206 (207)
T ss_pred HHHHHHHHHHHHhc
Confidence 99999999876443
No 18
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=27.82 E-value=95 Score=17.89 Aligned_cols=25 Identities=12% Similarity=0.084 Sum_probs=20.5
Q ss_pred chHHHHHHHhhhccHHHHHHHHHhh
Q 045057 3 IYSEFITVMGKKGQTRMAMRHFSEM 27 (231)
Q Consensus 3 ~y~~~ikv~~k~Gr~~daMK~vve~ 27 (231)
+|..+-.++.+.|+.++|++.+.+.
T Consensus 3 ~~~~lg~~~~~~~~~~~A~~~~~~a 27 (34)
T PF07719_consen 3 AWYYLGQAYYQLGNYEEAIEYFEKA 27 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 4567889999999999999998875
No 19
>PHA02103 hypothetical protein
Probab=24.87 E-value=21 Score=29.71 Aligned_cols=16 Identities=31% Similarity=0.395 Sum_probs=12.2
Q ss_pred ccccchhhhhccccce
Q 045057 121 GDYHRYFIITVLHFSV 136 (231)
Q Consensus 121 GDYYRYlAEv~~~~~~ 136 (231)
-|||||.+|-...-+.
T Consensus 79 pdyyryf~ee~e~ie~ 94 (135)
T PHA02103 79 PDYYRYFGEEAEGVEL 94 (135)
T ss_pred hHHHHHhcccchhhhH
Confidence 5999999987665444
No 20
>PF09969 DUF2203: Uncharacterized conserved protein (DUF2203); InterPro: IPR018699 This family has no known function.
Probab=23.88 E-value=3.1e+02 Score=22.31 Aligned_cols=66 Identities=12% Similarity=0.115 Sum_probs=43.4
Q ss_pred CCCCcchhHHHHHhhhhhhhhhHHHHHHhHHhhhhhcCCchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 045057 32 FRPDASPLLHEADKNVIGARRASWRIMSSIKQKEELRGNQDYVSVIKEYRSKIKAELTEICGGILK 97 (231)
Q Consensus 32 Ls~EERNLLSVAYKNVIg~rR~SwRiLssiEqkee~kgne~~~~~I~~YrkkIE~EL~~iC~eIL~ 97 (231)
+|.+|-|-|--.-+.++...+...+.+..+++.-............+...+..+.++...+++|-+
T Consensus 3 FTl~EA~~lLP~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~ 68 (120)
T PF09969_consen 3 FTLEEANALLPLLRPILEEIRELKAELEELEERLQELEDSLEVNGLEAELEELEARLRELIDEIEE 68 (120)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 577777777777788888888888888776554332211112345566667777777777777644
No 21
>PF12345 DUF3641: Protein of unknown function (DUF3641) ; InterPro: IPR024521 This domain is found in bacteria and eukaryotes, and is approximately 140 amino acids in length. It is found in association with an N-terminal radical_SAM domain (Pfam:PF04055 from PFAM).
Probab=23.78 E-value=37 Score=28.69 Aligned_cols=43 Identities=9% Similarity=0.064 Sum_probs=33.2
Q ss_pred HHHHHHhhhccHHHHHHHHHhhcCCC-C-CCCcchhHHHHHhhhh
Q 045057 6 EFITVMGKKGQTRMAMRHFSEMRNSR-F-RPDASPLLHEADKNVI 48 (231)
Q Consensus 6 ~~ikv~~k~Gr~~daMK~vve~~~~e-L-s~EERNLLSVAYKNVI 48 (231)
.+-.-|.+.|+++++|+.+....++. + ..--|+++||.|.-.+
T Consensus 37 RF~~~L~~~g~~~~Ym~lL~~~fNp~~v~~vMCR~~iSV~wdG~l 81 (134)
T PF12345_consen 37 RFGSFLERSGNLEDYMELLVDAFNPANVEGVMCRSQISVDWDGYL 81 (134)
T ss_pred HHHHHHHHccCHHHHHHHHHHhcCHHHHhhcccccceeECCCCeE
Confidence 45667889999999999999876432 1 2448999999987655
No 22
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=22.86 E-value=2.7e+02 Score=27.90 Aligned_cols=25 Identities=24% Similarity=0.286 Sum_probs=18.7
Q ss_pred chHHHHHHHhhhccHHHHHHHHHhh
Q 045057 3 IYSEFITVMGKKGQTRMAMRHFSEM 27 (231)
Q Consensus 3 ~y~~~ikv~~k~Gr~~daMK~vve~ 27 (231)
+|.-||..++|.|++++|.+.+-++
T Consensus 261 ~~n~Li~~y~k~g~~~~A~~vf~~m 285 (697)
T PLN03081 261 VSCALIDMYSKCGDIEDARCVFDGM 285 (697)
T ss_pred eHHHHHHHHHHCCCHHHHHHHHHhC
Confidence 4667777777777777777777766
No 23
>PLN03077 Protein ECB2; Provisional
Probab=21.84 E-value=1.4e+02 Score=30.75 Aligned_cols=41 Identities=22% Similarity=0.420 Sum_probs=0.0
Q ss_pred hHHHHHHHhhhccHHHHHHHHHhhcCCCCCCCcchhHHHHHhhhhhhhh
Q 045057 4 YSEFITVMGKKGQTRMAMRHFSEMRNSRFRPDASPLLHEADKNVIGARR 52 (231)
Q Consensus 4 y~~~ikv~~k~Gr~~daMK~vve~~~~eLs~EERNLLSVAYKNVIg~rR 52 (231)
|.-+|..++++|+.++|.+.+.+| ++.++ .+.|..++++.|
T Consensus 628 y~~lv~~l~r~G~~~eA~~~~~~m---~~~pd-----~~~~~aLl~ac~ 668 (857)
T PLN03077 628 YACVVDLLGRAGKLTEAYNFINKM---PITPD-----PAVWGALLNACR 668 (857)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHC---CCCCC-----HHHHHHHHHHHH
No 24
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=21.62 E-value=2e+02 Score=28.80 Aligned_cols=56 Identities=16% Similarity=0.159 Sum_probs=30.2
Q ss_pred chHHHHHHHhhhccHHHHHHHHHhhcCCCCCCCcchhHHHHHhhhhhhhhhHHHHHHhH
Q 045057 3 IYSEFITVMGKKGQTRMAMRHFSEMRNSRFRPDASPLLHEADKNVIGARRASWRIMSSI 61 (231)
Q Consensus 3 ~y~~~ikv~~k~Gr~~daMK~vve~~~~eLs~EERNLLSVAYKNVIg~rR~SwRiLssi 61 (231)
.|..|+..+++.|++++|.+.+-+|. +.+..--|.|-.+|-.. |....+++.+..+
T Consensus 160 ~~n~Li~~y~k~g~~~~A~~lf~~m~--~~~~~t~n~li~~~~~~-g~~~~A~~lf~~M 215 (697)
T PLN03081 160 MMNRVLLMHVKCGMLIDARRLFDEMP--ERNLASWGTIIGGLVDA-GNYREAFALFREM 215 (697)
T ss_pred HHHHHHHHHhcCCCHHHHHHHHhcCC--CCCeeeHHHHHHHHHHC-cCHHHHHHHHHHH
Confidence 36667777777777777777776663 22333333333333322 4444555555443
No 25
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=20.94 E-value=1.1e+02 Score=20.28 Aligned_cols=25 Identities=16% Similarity=0.045 Sum_probs=20.4
Q ss_pred chHHHHHHHhhhccHHHHHHHHHhh
Q 045057 3 IYSEFITVMGKKGQTRMAMRHFSEM 27 (231)
Q Consensus 3 ~y~~~ikv~~k~Gr~~daMK~vve~ 27 (231)
++-.++.++.+.|++++|...+.+.
T Consensus 27 ~~~~la~~~~~~g~~~~A~~~l~~~ 51 (68)
T PF14559_consen 27 ARLLLAQCYLKQGQYDEAEELLERL 51 (68)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 3457899999999999999998875
Done!