Query psy4479
Match_columns 135
No_of_seqs 111 out of 1063
Neff 5.1
Searched_HMMs 46136
Date Fri Aug 16 18:10:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4479.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4479hhsearch_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 6.7E-35 1.4E-39 246.5 8.2 89 5-94 198-286 (363)
2 PRK09256 hypothetical protein; 100.0 7.6E-32 1.7E-36 203.8 11.6 101 21-121 3-135 (138)
3 KOG2726|consensus 100.0 3.3E-32 7.1E-37 232.8 9.2 98 5-102 222-319 (386)
4 PRK08787 peptide chain release 100.0 4.9E-32 1.1E-36 227.3 10.0 89 4-93 150-238 (313)
5 PRK05589 peptide chain release 100.0 7.3E-32 1.6E-36 227.4 10.6 88 5-93 171-258 (325)
6 TIGR00019 prfA peptide chain r 100.0 2E-31 4.4E-36 227.2 12.9 90 2-93 194-283 (360)
7 PRK06746 peptide chain release 100.0 9.8E-32 2.1E-36 226.6 10.4 89 4-93 171-259 (326)
8 PRK07342 peptide chain release 100.0 1.5E-31 3.2E-36 226.5 10.7 88 5-93 174-261 (339)
9 TIGR00020 prfB peptide chain r 100.0 4.1E-31 8.8E-36 225.6 10.6 88 5-93 210-297 (364)
10 PRK00578 prfB peptide chain re 100.0 6.5E-31 1.4E-35 224.5 10.3 88 5-93 210-297 (367)
11 TIGR03072 release_prfH putativ 100.0 6.4E-31 1.4E-35 209.2 9.5 83 5-93 86-168 (200)
12 PRK08179 prfH peptide chain re 100.0 7.1E-31 1.5E-35 208.9 9.1 82 6-93 88-169 (200)
13 PRK00591 prfA peptide chain re 100.0 1.1E-30 2.4E-35 222.6 10.9 89 3-93 195-283 (359)
14 PF00472 RF-1: RF-1 domain; I 100.0 8.5E-31 1.8E-35 191.2 7.7 73 21-93 2-74 (113)
15 COG1186 PrfB Protein chain rel 100.0 6.4E-30 1.4E-34 207.8 7.4 93 2-95 82-174 (239)
16 KOG3429|consensus 99.9 4.6E-23 1E-27 159.8 9.7 75 22-96 31-130 (172)
17 PF10213 MRP-S28: Mitochondria 74.9 28 0.00061 26.0 7.9 47 49-95 23-94 (127)
18 KOG3933|consensus 56.7 1.2E+02 0.0026 26.0 9.1 32 64-95 205-236 (296)
19 cd02394 vigilin_like_KH K homo 52.3 18 0.0004 22.5 2.8 39 42-85 16-61 (62)
20 PF04149 DUF397: Domain of unk 52.0 30 0.00066 22.1 3.8 20 53-72 16-35 (56)
21 smart00322 KH K homology RNA-b 51.3 25 0.00054 20.9 3.3 45 42-89 19-68 (69)
22 COG1186 PrfB Protein chain rel 47.7 3.9 8.5E-05 33.9 -1.1 49 64-112 168-224 (239)
23 cd00105 KH-I K homology RNA-bi 46.9 24 0.00051 21.6 2.7 41 42-85 16-63 (64)
24 PF14048 MBD_C: C-terminal dom 41.4 11 0.00025 26.9 0.6 57 33-89 23-96 (96)
25 PRK13763 putative RNA-processi 34.7 98 0.0021 24.0 4.9 61 41-111 110-172 (180)
26 PF13014 KH_3: KH domain 33.8 12 0.00027 22.0 -0.2 20 42-61 7-28 (43)
27 PF02815 MIR: MIR domain; Int 32.8 84 0.0018 23.9 4.2 39 35-73 121-159 (190)
28 cd00552 RaiA RaiA ("ribosome-a 30.6 1.6E+02 0.0035 19.4 8.2 55 32-92 35-90 (93)
29 PF07292 NID: Nmi/IFP 35 domai 30.2 94 0.002 21.9 3.8 16 30-45 70-85 (88)
30 COG0193 Pth Peptidyl-tRNA hydr 27.2 50 0.0011 26.6 2.2 23 24-48 93-115 (190)
31 cd02406 CRS2 Chloroplast RNA s 24.8 53 0.0012 26.1 1.9 68 24-94 92-176 (191)
32 PHA00437 tail assembly protein 24.6 48 0.001 23.9 1.5 13 34-47 81-93 (94)
33 PF11653 VirionAssem_T7: Bacte 22.5 56 0.0012 23.6 1.5 12 35-47 83-94 (95)
34 KOG1697|consensus 22.3 65 0.0014 27.3 2.0 13 5-17 156-168 (275)
35 PTZ00397 macrophage migration 22.0 2.9E+02 0.0062 19.3 6.0 34 64-98 61-94 (116)
36 KOG4011|consensus 21.4 74 0.0016 27.7 2.3 100 3-108 27-152 (330)
37 PF00013 KH_1: KH domain syndr 21.0 45 0.00097 20.5 0.7 20 42-61 16-37 (60)
38 cd02395 SF1_like-KH Splicing f 20.7 1.2E+02 0.0027 22.1 3.1 18 42-59 22-41 (120)
No 1
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.7e-35 Score=246.47 Aligned_cols=89 Identities=34% Similarity=0.484 Sum_probs=85.5
Q ss_pred eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479 5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL 84 (135)
Q Consensus 5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r 84 (135)
|+|||||+|.|+ |+.+....+.|+++||+|+++||||+||||||+|+|+|+|||+||||+|.||++|||++||+.||..
T Consensus 198 RIHTStaTVaVl-PE~ee~~ei~I~~~DlrIDt~RsSGaGGQhVNtTdSAVRiTHlPTGIvV~cQderSQ~kNk~kAmkv 276 (363)
T COG0216 198 RIHTSAATVAVL-PEVEEVEEIEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKV 276 (363)
T ss_pred ceeecceeEEec-cCCCcccccccChHHceeeeeecCCCCCCCcCccchhheeeecCCceEEEecchhhhhhhHHHHHHH
Confidence 899999999999 6887777899999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhc
Q psy4479 85 LVAQWDVQVN 94 (135)
Q Consensus 85 L~~~L~~~~~ 94 (135)
|+++|.+...
T Consensus 277 L~ARl~~~~~ 286 (363)
T COG0216 277 LRARLYDAER 286 (363)
T ss_pred HHHHHHHHHH
Confidence 9999998763
No 2
>PRK09256 hypothetical protein; Provisional
Probab=99.97 E-value=7.6e-32 Score=203.76 Aligned_cols=101 Identities=34% Similarity=0.508 Sum_probs=91.3
Q ss_pred CCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEE------eC-----------------Ce-eEEEecCcCCHHH
Q psy4479 21 DYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTH------IP-----------------TG-IVIKCHQSRSLSE 76 (135)
Q Consensus 21 ~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h------~p-----------------tg-i~v~~~~~RSq~~ 76 (135)
.....+.||++||+++|+|||||||||||||+|+|+|+| +| +| |+|.|+++|||.+
T Consensus 3 ~~~~~~~i~~~~l~~~~~RSSGPGGQ~VNKt~SkV~l~~~~~~~~lp~~~~~~l~~~~~~r~~~~g~l~i~~~~~RSQ~~ 82 (138)
T PRK09256 3 RITRRLVIPENELEWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHRITKDGVIVIKAQEFRSQER 82 (138)
T ss_pred ccCccCccCHHHeEEEEEEcCCCCcccccccceeeEEEechhhccCCHHHHHHHHHHhcCcccCCCcEEEEECCcCCHHH
Confidence 356678999999999999999999999999999999997 66 34 9999999999999
Q ss_pred HHHHHHHHHHHHHHHhhcC-------CCCHHHHHHHHHHHHHH-HHHHhhhch
Q psy4479 77 NRKTARELLVAQWDVQVNG-------EDSLNAQIRRIDEKRRA-TQEQKKRKL 121 (135)
Q Consensus 77 Nk~~A~~rL~~~L~~~~~~-------~ps~~~~~kRl~~kk~~-~~k~~r~k~ 121 (135)
|+++|+++|.++|..++.+ +|+++++++||+.|+++ ++|+.|++.
T Consensus 83 Nr~~al~kL~~~i~~~~~~p~~r~~tk~~~~~~~rRl~~Kk~~S~~K~~R~~~ 135 (138)
T PRK09256 83 NREDALERLVALIREALKPPKKRRATKPTRGSKERRLESKKQRGEVKALRGKV 135 (138)
T ss_pred HHHHHHHHHHHHHHHHhhccccccCCcccHHHHHHHHHHHHHHhHHHHhhCCC
Confidence 9999999999999998865 47899999999999998 888888653
No 3
>KOG2726|consensus
Probab=99.97 E-value=3.3e-32 Score=232.82 Aligned_cols=98 Identities=43% Similarity=0.520 Sum_probs=88.7
Q ss_pred eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479 5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL 84 (135)
Q Consensus 5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r 84 (135)
|+|||||+|.|+|..........||++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+.+
T Consensus 222 r~htstasV~ViP~~~~~~~~~~~~~~dl~i~~~R~~G~GGQhvNktdsaVrl~HiPTGIvv~cq~eRSq~~Nr~~A~~~ 301 (386)
T KOG2726|consen 222 RRHTSTASVAVIPQPGRDEVDVEIDEKDLRIETFRASGPGGQHVNKTDSAVRLTHIPTGIVVECQEERSQHKNRALALKR 301 (386)
T ss_pred ccccccceEEEeccCCCCccceecCchheeEEecccCCCCcccccccccceEEEeecCceEEEeecHHhHHhhHHHHHHH
Confidence 79999999999953333556778999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCHHHH
Q psy4479 85 LVAQWDVQVNGEDSLNAQ 102 (135)
Q Consensus 85 L~~~L~~~~~~~ps~~~~ 102 (135)
|+++|.+.....++...+
T Consensus 302 L~akL~~~~~~~~~~~~~ 319 (386)
T KOG2726|consen 302 LRAKLAVIYREEKSEEEK 319 (386)
T ss_pred HHHHHHHHHHhhhhHHhh
Confidence 999999999876664443
No 4
>PRK08787 peptide chain release factor 2; Provisional
Probab=99.97 E-value=4.9e-32 Score=227.31 Aligned_cols=89 Identities=36% Similarity=0.511 Sum_probs=84.2
Q ss_pred eeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHH
Q psy4479 4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARE 83 (135)
Q Consensus 4 ~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~ 83 (135)
-|+|||+|+|+|+ |.++....+.|++.||+++|+|||||||||||||+|+|+|+|+||||+|.||++|||++||+.|++
T Consensus 150 ~rrhTsfasV~V~-P~~~~~~~i~i~~~dl~~~~~RssG~GGQ~VNkt~saVri~H~Ptgi~v~~q~eRSQ~~Nk~~A~~ 228 (313)
T PRK08787 150 NRRHTSFTSVFVS-PEVDDNIEIDINPADLRTDVYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRDNAMK 228 (313)
T ss_pred CCEEeeeEEEEEe-cCcCcccccccChhHeEEEEEECCCCCCCCcCCEeeEEEEEECCCcEEEEECCcccHHHHHHHHHH
Confidence 3799999999999 577666678999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhh
Q psy4479 84 LLVAQWDVQV 93 (135)
Q Consensus 84 rL~~~L~~~~ 93 (135)
+|.++|.+..
T Consensus 229 ~L~~~L~~~~ 238 (313)
T PRK08787 229 MLAAKLYELE 238 (313)
T ss_pred HHHHHHHHHH
Confidence 9999999875
No 5
>PRK05589 peptide chain release factor 2; Provisional
Probab=99.97 E-value=7.3e-32 Score=227.35 Aligned_cols=88 Identities=35% Similarity=0.495 Sum_probs=82.9
Q ss_pred eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479 5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL 84 (135)
Q Consensus 5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r 84 (135)
|+|||||+|+|+ |..+....+.|++.||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+++
T Consensus 171 rr~ts~a~V~Vl-P~~~~~~~~~i~~~dl~~~~~rssG~GGQ~VNkt~saVrl~H~ptgi~v~~q~eRSQ~~Nk~~A~~~ 249 (325)
T PRK05589 171 KRQTSFASVEVL-PELTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQNERSQHSNKETAMKM 249 (325)
T ss_pred CeEeeeEEEEEe-cCcCccccccCCchheEEEEeeCCCCCCCcccceeeEEEEEECCCCEEEEECCccCHHHHHHHHHHH
Confidence 799999999999 5665556789999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhh
Q psy4479 85 LVAQWDVQV 93 (135)
Q Consensus 85 L~~~L~~~~ 93 (135)
|+++|.+..
T Consensus 250 L~~kL~~~~ 258 (325)
T PRK05589 250 LKSKLVELK 258 (325)
T ss_pred HHHHHHHHH
Confidence 999999864
No 6
>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=99.97 E-value=2e-31 Score=227.17 Aligned_cols=90 Identities=34% Similarity=0.456 Sum_probs=83.8
Q ss_pred ceeeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHH
Q psy4479 2 SIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTA 81 (135)
Q Consensus 2 ~~~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A 81 (135)
|-.|+|||||+|+|+ |.++. ..+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|
T Consensus 194 s~~R~hTsfa~V~v~-P~~~~-~~~~i~~~dl~~~~~RssG~GGQ~VNkt~SaVrl~h~ptgi~V~~~~eRSQ~~Nk~~A 271 (360)
T TIGR00019 194 SQGRIHTSAATVAVM-PELEE-VEVDINPADLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKDKA 271 (360)
T ss_pred CCCCeecceeEEEEE-cCCCc-cccccCcccEEEEEEECCCCCCCCcCceeeeEEEEECCCcEEEEECCccCHHHHHHHH
Confidence 457999999999999 55544 4588999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhh
Q psy4479 82 RELLVAQWDVQV 93 (135)
Q Consensus 82 ~~rL~~~L~~~~ 93 (135)
+++|.++|....
T Consensus 272 ~~~L~~~L~~~~ 283 (360)
T TIGR00019 272 MKVLRARLYEAE 283 (360)
T ss_pred HHHHHHHHHHHH
Confidence 999999999876
No 7
>PRK06746 peptide chain release factor 2; Provisional
Probab=99.97 E-value=9.8e-32 Score=226.62 Aligned_cols=89 Identities=31% Similarity=0.427 Sum_probs=84.3
Q ss_pred eeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHH
Q psy4479 4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARE 83 (135)
Q Consensus 4 ~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~ 83 (135)
-|+|||||+|+|+ |.++....+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|.||++|||++||+.|+.
T Consensus 171 ~rrhTsfa~V~v~-P~~~~~~~i~i~~~dl~~~~~rssG~GGQ~vNkt~saVrl~h~ptgi~v~~q~~RSQ~~Nk~~A~~ 249 (326)
T PRK06746 171 GRRHTSFVSCEVV-PEFNDEVEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQIKNREHAMK 249 (326)
T ss_pred CCeEeeEEEEEEe-cCcCCccccccChHHeEEEEEeCCCCCCCCccceeeEEEEEEeCCeEEEEECCCCCHHHHHHHHHH
Confidence 4899999999999 577666788999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhh
Q psy4479 84 LLVAQWDVQV 93 (135)
Q Consensus 84 rL~~~L~~~~ 93 (135)
+|.++|.+..
T Consensus 250 ~L~akL~~~~ 259 (326)
T PRK06746 250 MLKAKLYQKK 259 (326)
T ss_pred HHHHHHHHHH
Confidence 9999999875
No 8
>PRK07342 peptide chain release factor 2; Provisional
Probab=99.97 E-value=1.5e-31 Score=226.47 Aligned_cols=88 Identities=40% Similarity=0.543 Sum_probs=83.2
Q ss_pred eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479 5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL 84 (135)
Q Consensus 5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r 84 (135)
|+|||||+|+|+ |.++....+.|++.||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+++
T Consensus 174 rrhTs~a~V~Vl-P~~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptgi~v~~~~eRSQ~~Nk~~A~~~ 252 (339)
T PRK07342 174 RRHTSFASIWVY-PVIDDNIEVDVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQHKNRAKAWSM 252 (339)
T ss_pred CeEeEEEEEEEE-cCCCcccccccCcccEEEEEEECCCCCCCCccceeeeEEEEEcCCcEEEEECCcccHHHHHHHHHHH
Confidence 799999999999 5666556789999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhh
Q psy4479 85 LVAQWDVQV 93 (135)
Q Consensus 85 L~~~L~~~~ 93 (135)
|+++|.+..
T Consensus 253 L~~~L~~~~ 261 (339)
T PRK07342 253 LRARLYEEE 261 (339)
T ss_pred HHHHHHHHH
Confidence 999999875
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=99.97 E-value=4.1e-31 Score=225.60 Aligned_cols=88 Identities=39% Similarity=0.548 Sum_probs=83.4
Q ss_pred eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479 5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL 84 (135)
Q Consensus 5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r 84 (135)
|+|||||+|+|+ |..+....+.|++.||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+++
T Consensus 210 rrhts~a~V~vl-P~~~~~~~~~i~~~d~~~~~~rssG~GGQ~VNkt~saVri~H~ptgi~v~~q~~RSQ~~Nk~~A~~~ 288 (364)
T TIGR00020 210 RRHTSFASVFVM-PEVDDDIDIEIKPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDSAMKV 288 (364)
T ss_pred CeEeeeEEEEEe-cCCCcccceecccccEEEEEeeCCCCCCccccccceEEEEEECCCcEEEEECCccCHHHHHHHHHHH
Confidence 899999999999 5665557789999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhh
Q psy4479 85 LVAQWDVQV 93 (135)
Q Consensus 85 L~~~L~~~~ 93 (135)
|+++|.+..
T Consensus 289 L~~kL~~~~ 297 (364)
T TIGR00020 289 LKAKLYELE 297 (364)
T ss_pred HHHHHHHHH
Confidence 999999875
No 10
>PRK00578 prfB peptide chain release factor 2; Validated
Probab=99.97 E-value=6.5e-31 Score=224.54 Aligned_cols=88 Identities=40% Similarity=0.552 Sum_probs=83.4
Q ss_pred eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479 5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL 84 (135)
Q Consensus 5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r 84 (135)
|+|||||+|+|+ |..+....+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+++
T Consensus 210 r~hts~~~V~vl-P~~~~~~~~~i~~~dl~~~~~rssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~ 288 (367)
T PRK00578 210 RRHTSFASVEVY-PEVDDTIEIEINPKDLRIDTYRSSGAGGQHVNKTDSAVRITHIPTGIVVQCQNERSQHQNKASAMKM 288 (367)
T ss_pred ceecceeeEEec-CCCCCccccccChhhEEEEEeeCCCCCCCcccceeeEEEEEECCCcEEEEECCCCCHHHHHHHHHHH
Confidence 799999999999 5666656789999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhh
Q psy4479 85 LVAQWDVQV 93 (135)
Q Consensus 85 L~~~L~~~~ 93 (135)
|.++|.+..
T Consensus 289 L~~kL~~~~ 297 (367)
T PRK00578 289 LKAKLYELE 297 (367)
T ss_pred HHHHHHHHH
Confidence 999999876
No 11
>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=99.97 E-value=6.4e-31 Score=209.15 Aligned_cols=83 Identities=31% Similarity=0.390 Sum_probs=77.3
Q ss_pred eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479 5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL 84 (135)
Q Consensus 5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r 84 (135)
++||||++|+|+| ..+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+++
T Consensus 86 ~R~ts~~~V~v~~------~~~~i~~~dl~~~~~RssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~ 159 (200)
T TIGR03072 86 RRKNWFIGVQRFS------ASEEATEDEIRFETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLATLL 159 (200)
T ss_pred CeeEEEEEEEEec------CccccChhheEEEEEECCCCCcccccccceeEEEEECCCcEEEEECCccCHHHHHHHHHHH
Confidence 3678999999994 2357999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhh
Q psy4479 85 LVAQWDVQV 93 (135)
Q Consensus 85 L~~~L~~~~ 93 (135)
|.++|.+..
T Consensus 160 L~~~l~~~~ 168 (200)
T TIGR03072 160 LAVRLADLQ 168 (200)
T ss_pred HHHHHHHHH
Confidence 999999875
No 12
>PRK08179 prfH peptide chain release factor-like protein; Reviewed
Probab=99.97 E-value=7.1e-31 Score=208.89 Aligned_cols=82 Identities=30% Similarity=0.373 Sum_probs=77.2
Q ss_pred EeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHHH
Q psy4479 6 RHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELL 85 (135)
Q Consensus 6 ~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~rL 85 (135)
+||||++|+|+++ .+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+++|
T Consensus 88 R~~s~~~V~v~~~------~~~i~~~dl~~~~~RssGpGGQ~VNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L 161 (200)
T PRK08179 88 RKNWFVGIGRFSA------DEEEQSDEIRFETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLARLLI 161 (200)
T ss_pred ceEEEEEEEEeCC------cCccCHHHeEEEEEEccCCcccccccccceEEEEEcCCcEEEEECCCCCHHHHHHHHHHHH
Confidence 7889999999942 3489999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhh
Q psy4479 86 VAQWDVQV 93 (135)
Q Consensus 86 ~~~L~~~~ 93 (135)
.++|.+..
T Consensus 162 ~~~L~~~~ 169 (200)
T PRK08179 162 AWKLEQQQ 169 (200)
T ss_pred HHHHHHHH
Confidence 99999875
No 13
>PRK00591 prfA peptide chain release factor 1; Validated
Probab=99.97 E-value=1.1e-30 Score=222.55 Aligned_cols=89 Identities=34% Similarity=0.441 Sum_probs=83.1
Q ss_pred eeeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHH
Q psy4479 3 IFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAR 82 (135)
Q Consensus 3 ~~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~ 82 (135)
-.|+|||||+|+|+ |.++. ..+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+
T Consensus 195 ~~R~~tsfa~V~v~-P~~~~-~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptGi~v~~~~eRSQ~~Nk~~Al 272 (359)
T PRK00591 195 QGRIHTSAATVAVL-PEAEE-VEVEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAM 272 (359)
T ss_pred CCceecceEEEEEE-cCCCc-cccccCcccEEEEEEECCCCCCCCccceeeeEEEEECCCcEEEEECCcCCHHHHHHHHH
Confidence 36999999999999 45544 47899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhh
Q psy4479 83 ELLVAQWDVQV 93 (135)
Q Consensus 83 ~rL~~~L~~~~ 93 (135)
++|..+|....
T Consensus 273 ~~L~~~L~~~~ 283 (359)
T PRK00591 273 KVLRARLYDAE 283 (359)
T ss_pred HHHHHHHHHHH
Confidence 99999999876
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=8.5e-31 Score=191.21 Aligned_cols=73 Identities=51% Similarity=0.708 Sum_probs=69.4
Q ss_pred CCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHHHHHHHHHhh
Q psy4479 21 DYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAQWDVQV 93 (135)
Q Consensus 21 ~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~rL~~~L~~~~ 93 (135)
+....+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||+.|+++|+++|.++|..+.
T Consensus 2 ~~~~~~~i~~~dl~~~~~RssGpGGQ~VNk~~s~V~l~h~ptgi~v~~~~~Rsq~~Nr~~A~~~L~~~l~~~~ 74 (113)
T PF00472_consen 2 EKEKEIDIPEKDLEISFSRSSGPGGQNVNKTNSKVRLRHIPTGIVVKCQESRSQHQNREDALEKLREKLDEAY 74 (113)
T ss_dssp ETSSSSCC-GGGEEEEEEESSSSSSCHHHSSSEEEEEEETTTTEEEEEESSSSHHHHHHHHHHHHHHHHHHHH
T ss_pred CcccccccCHHHeEEEEEecCCCCCCcccccCCEEEEEEecccEEEEEcccCCHHHHHHHHHHHHHHHHHHHH
Confidence 4567789999999999999999999999999999999999999999999999999999999999999999987
No 15
>COG1186 PrfB Protein chain release factor B [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=6.4e-30 Score=207.79 Aligned_cols=93 Identities=40% Similarity=0.508 Sum_probs=86.5
Q ss_pred ceeeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHH
Q psy4479 2 SIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTA 81 (135)
Q Consensus 2 ~~~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A 81 (135)
|+=|.|||+++|.|+ |.+++...+.|+++||+++|+|||||||||||||+|+|+|+|+||||++.||.+|||+.|++.|
T Consensus 82 ~~~~R~tsf~~v~v~-p~~~~~i~i~I~~~dl~idt~RASGaGGQhVNKt~SAVrlth~ptgivv~cq~eRSq~~n~~~a 160 (239)
T COG1186 82 SNGRRHTSFASVEVF-PELDISIEIEIPDDDLRIDTYRASGAGGQHVNKTDSAVRLTHLPTGIVVLCQNERSQHLNKALA 160 (239)
T ss_pred cCcccccceeeeeec-CCCCcccceecCccceEEEEEEcCCCCCCccccccccEEEEEcCCCCEecCHHHHHHHHHHHHH
Confidence 455899999999999 6777888999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhcC
Q psy4479 82 RELLVAQWDVQVNG 95 (135)
Q Consensus 82 ~~rL~~~L~~~~~~ 95 (135)
+..|...|......
T Consensus 161 ~~~l~~kL~~~~~~ 174 (239)
T COG1186 161 RKMLKGKLYILAQE 174 (239)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999998766543
No 16
>KOG3429|consensus
Probab=99.89 E-value=4.6e-23 Score=159.83 Aligned_cols=75 Identities=29% Similarity=0.332 Sum_probs=67.7
Q ss_pred CCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEE-------eC------------------CeeEEEecCcCCHHH
Q psy4479 22 YSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTH-------IP------------------TGIVIKCHQSRSLSE 76 (135)
Q Consensus 22 ~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h-------~p------------------tgi~v~~~~~RSq~~ 76 (135)
......||.+.|++.|+||||||||||||++|+|.|+| || ..|+|.++.+|||+.
T Consensus 31 ~~~~g~ipld~~~i~y~RSSGPGGQNVNKvNTKv~vrf~vs~a~Wipe~~R~~~~~~~~~rink~gelvI~Sd~TRsq~~ 110 (172)
T KOG3429|consen 31 IHFKGKIPLDQLEISYSRSSGPGGQNVNKVNTKVEVRFKVSNAEWIPEFLRNKLLTTEKNRINKDGELVIYSDKTRSQHK 110 (172)
T ss_pred cccCCCCchhheEEEEeecCCCCCcccccccceEEEEEecchhhhccHHHHHHHHHHHHHhhccCccEEEecchhHHhhc
Confidence 44566899999999999999999999999999999998 33 149999999999999
Q ss_pred HHHHHHHHHHHHHHHhhcCC
Q psy4479 77 NRKTARELLVAQWDVQVNGE 96 (135)
Q Consensus 77 Nk~~A~~rL~~~L~~~~~~~ 96 (135)
|.++||++|..+|.++...+
T Consensus 111 NiaDcleKlr~~I~~~~~~~ 130 (172)
T KOG3429|consen 111 NIADCLEKLRDIIRAAEQTP 130 (172)
T ss_pred cHHHHHHHHHHHHHHHhcCC
Confidence 99999999999999988763
No 17
>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=74.86 E-value=28 Score=25.96 Aligned_cols=47 Identities=21% Similarity=0.148 Sum_probs=40.9
Q ss_pred CccCceEEEEEeC------------------------Ce-eEEEecCcCCHHHHHHHHHHHHHHHHHHhhcC
Q psy4479 49 AKTNNCVVLTHIP------------------------TG-IVIKCHQSRSLSENRKTARELLVAQWDVQVNG 95 (135)
Q Consensus 49 NKt~s~V~l~h~p------------------------tg-i~v~~~~~RSq~~Nk~~A~~rL~~~L~~~~~~ 95 (135)
|..+.+|.|.... +| |.+.|+..-++.+|+.-|...|..++.++...
T Consensus 23 ~p~~rkV~l~v~l~dL~L~~~a~~Kl~~LaG~Ryd~~~d~l~i~sdr~~~~~qN~~~l~~~l~~L~~EA~~~ 94 (127)
T PF10213_consen 23 HPANRKVVLQVKLSDLGLSEKARHKLKLLAGPRYDPETDILKISSDRFPTRAQNKKYLSDLLTRLIHEAKDL 94 (127)
T ss_pred CCccCEEEEEEEHHhcCCCHHHHHHHHHHhhcccCCCCCEEEEecccCCCHHHHHHHHHHHHHHHHHHHhhc
Confidence 6678999998832 22 99999999999999999999999999999884
No 18
>KOG3933|consensus
Probab=56.74 E-value=1.2e+02 Score=26.04 Aligned_cols=32 Identities=16% Similarity=0.134 Sum_probs=29.1
Q ss_pred eEEEecCcCCHHHHHHHHHHHHHHHHHHhhcC
Q psy4479 64 IVIKCHQSRSLSENRKTARELLVAQWDVQVNG 95 (135)
Q Consensus 64 i~v~~~~~RSq~~Nk~~A~~rL~~~L~~~~~~ 95 (135)
++|.|+.--+..+|+.-|+..|..++.+..+.
T Consensus 205 ~tissDR~~~r~QN~~y~~~lLt~L~~ES~k~ 236 (296)
T KOG3933|consen 205 LTISSDRCEHREQNYDYALYLLTVLYHESGKT 236 (296)
T ss_pred EEEeccccchhhHhHHHHHHHHHHHHHHhccc
Confidence 88999988889999999999999999998665
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=52.33 E-value=18 Score=22.46 Aligned_cols=39 Identities=26% Similarity=0.338 Sum_probs=24.6
Q ss_pred CCCCcccCc--cCceEEEEEeC----Ce-eEEEecCcCCHHHHHHHHHHHH
Q psy4479 42 GPGGQAVAK--TNNCVVLTHIP----TG-IVIKCHQSRSLSENRKTARELL 85 (135)
Q Consensus 42 GPGGQ~VNK--t~s~V~l~h~p----tg-i~v~~~~~RSq~~Nk~~A~~rL 85 (135)
|+||.++++ ..+.|.|.+.+ .+ +++... ..+-..|...|
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 999999995 45777777755 23 444444 34555555544
No 20
>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=51.97 E-value=30 Score=22.12 Aligned_cols=20 Identities=25% Similarity=0.707 Sum_probs=14.6
Q ss_pred ceEEEEEeCCeeEEEecCcC
Q psy4479 53 NCVVLTHIPTGIVIKCHQSR 72 (135)
Q Consensus 53 s~V~l~h~ptgi~v~~~~~R 72 (135)
++|++...|.++.|.-+..+
T Consensus 16 ~CVEva~~~~~v~vRDSk~p 35 (56)
T PF04149_consen 16 NCVEVARLPGGVAVRDSKDP 35 (56)
T ss_pred CcEEEEeecceEEEecCCCC
Confidence 48999888888777666543
No 21
>smart00322 KH K homology RNA-binding domain.
Probab=51.33 E-value=25 Score=20.90 Aligned_cols=45 Identities=27% Similarity=0.392 Sum_probs=28.2
Q ss_pred CCCCcccCc--cCceEEEEEeCCe---eEEEecCcCCHHHHHHHHHHHHHHHH
Q psy4479 42 GPGGQAVAK--TNNCVVLTHIPTG---IVIKCHQSRSLSENRKTARELLVAQW 89 (135)
Q Consensus 42 GPGGQ~VNK--t~s~V~l~h~ptg---i~v~~~~~RSq~~Nk~~A~~rL~~~L 89 (135)
|++|.+++. ..+.+.+...+.+ -.+..... ..|...|...|.+.+
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 889998884 4455665554432 33333333 578888888877665
No 22
>COG1186 PrfB Protein chain release factor B [Translation, ribosomal structure and biogenesis]
Probab=47.74 E-value=3.9 Score=33.91 Aligned_cols=49 Identities=22% Similarity=0.149 Sum_probs=38.9
Q ss_pred eEEEecCcCCHHHHHHHHHHHHHHHHHHhhcC--------CCCHHHHHHHHHHHHHH
Q psy4479 64 IVIKCHQSRSLSENRKTARELLVAQWDVQVNG--------EDSLNAQIRRIDEKRRA 112 (135)
Q Consensus 64 i~v~~~~~RSq~~Nk~~A~~rL~~~L~~~~~~--------~ps~~~~~kRl~~kk~~ 112 (135)
|.+..++.|+|..|+..|++++-..+.+.-.. +|.+.+.++++..+-..
T Consensus 168 L~~~~~~~Rsqe~n~~~a~~k~i~wg~qirsyv~~p~~~vKd~Rt~~E~~~~~~v~d 224 (239)
T COG1186 168 LYILAQEKRSQEKNRERALKKLIGWGNQIRSYVLDPYQPTKDLRTGVERRNKSKVLD 224 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHHhccccCCCccccccccccceeeccHHHhhh
Confidence 88899999999999999999999999886643 45666667666555444
No 23
>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=46.92 E-value=24 Score=21.59 Aligned_cols=41 Identities=17% Similarity=0.332 Sum_probs=25.4
Q ss_pred CCCCcccCcc--CceEEEEEeCC-----eeEEEecCcCCHHHHHHHHHHHH
Q psy4479 42 GPGGQAVAKT--NNCVVLTHIPT-----GIVIKCHQSRSLSENRKTARELL 85 (135)
Q Consensus 42 GPGGQ~VNKt--~s~V~l~h~pt-----gi~v~~~~~RSq~~Nk~~A~~rL 85 (135)
||||.+++.. .|.|.+.+.+. .-.+..... ..|...|...|
T Consensus 16 G~~G~~i~~I~~~s~~~I~i~~~~~~~~~~~v~i~G~---~~~v~~a~~~i 63 (64)
T cd00105 16 GKGGSTIKEIREETGAKIKIPDSGSGSEERIVTITGT---PEAVEKAKELI 63 (64)
T ss_pred CCCCHHHHHHHHHHCCEEEEcCCCCCCCceEEEEEcC---HHHHHHHHHHh
Confidence 9999999964 35577777653 233444333 45666666544
No 24
>PF14048 MBD_C: C-terminal domain of methyl-CpG binding protein 2 and 3; PDB: 2L2L_B.
Probab=41.36 E-value=11 Score=26.91 Aligned_cols=57 Identities=18% Similarity=0.134 Sum_probs=18.3
Q ss_pred eEEEEeeccCCCCcccCcc------CceEEEEEeCC-----------eeEEEecCcCCHHHHHHHHHHHHHHHH
Q psy4479 33 IQERFVRGSGPGGQAVAKT------NNCVVLTHIPT-----------GIVIKCHQSRSLSENRKTARELLVAQW 89 (135)
Q Consensus 33 l~~~~~RsSGPGGQ~VNKt------~s~V~l~h~pt-----------gi~v~~~~~RSq~~Nk~~A~~rL~~~L 89 (135)
+.-++.-.|+.+|.|.|.. .+..-+-.+|. .++|+..+=|.|..--..|++||++.|
T Consensus 23 ~~~esl~~s~a~~lh~~~~Pi~gQ~~~~~~~e~~P~~~~~~~QPLc~~~~VT~eDIr~QE~rVk~aR~RLaeAL 96 (96)
T PF14048_consen 23 ITDESLLQSLASALHTSSQPITGQTSSKDALEKNPGVGLNPPQPLCKQFVVTEEDIRRQERRVKKARKRLAEAL 96 (96)
T ss_dssp ----------------------------------------------T-----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCccchHHHHhccccCCCCCCcCCccchhhhccCcccccCCCcccccCCccCHHHHHHHHHHHHHHHHHHHHHC
Confidence 4445666778888887764 12122222332 366777777888888888888888765
No 25
>PRK13763 putative RNA-processing protein; Provisional
Probab=34.68 E-value=98 Score=23.97 Aligned_cols=61 Identities=18% Similarity=0.184 Sum_probs=37.6
Q ss_pred cCCCCcccCc--cCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHH
Q psy4479 41 SGPGGQAVAK--TNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRR 111 (135)
Q Consensus 41 SGPGGQ~VNK--t~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~rL~~~L~~~~~~~ps~~~~~kRl~~kk~ 111 (135)
=||||+.... ..|.|.|......+.+. . ...|.+.|.+.+..++... .| ....+.|+...+
T Consensus 110 IG~~G~~~k~ie~~t~~~i~i~~~~v~i~--G---~~~~~~~A~~~I~~li~g~---~~--~~~~~~l~~~~~ 172 (180)
T PRK13763 110 IGEGGKTRRIIEELTGVDISVYGKTVAII--G---DPEQVEIAREAIEMLIEGA---PH--GTVYKFLERKKR 172 (180)
T ss_pred eCCCcHHHHHHHHHHCcEEEEcCCEEEEE--e---CHHHHHHHHHHHHHHHcCC---Cc--HHHHHHHHHHHH
Confidence 4899999884 45666766554444443 2 6778888888887766332 22 234556655443
No 26
>PF13014 KH_3: KH domain
Probab=33.77 E-value=12 Score=21.96 Aligned_cols=20 Identities=20% Similarity=0.479 Sum_probs=16.4
Q ss_pred CCCCcccC--ccCceEEEEEeC
Q psy4479 42 GPGGQAVA--KTNNCVVLTHIP 61 (135)
Q Consensus 42 GPGGQ~VN--Kt~s~V~l~h~p 61 (135)
|+||+++| ...|.|.|.+.+
T Consensus 7 G~~G~~I~~I~~~tg~~I~i~~ 28 (43)
T PF13014_consen 7 GKGGSTIKEIREETGAKIQIPP 28 (43)
T ss_pred CCCChHHHHHHHHhCcEEEECC
Confidence 89999999 467888888766
No 27
>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=32.80 E-value=84 Score=23.91 Aligned_cols=39 Identities=18% Similarity=0.295 Sum_probs=29.8
Q ss_pred EEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCC
Q psy4479 35 ERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRS 73 (135)
Q Consensus 35 ~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RS 73 (135)
+...-..|.++..+-..+|.|+|.|..||..+.++..+.
T Consensus 121 ~~~~~~~~~~~~~~~~~~s~frL~H~~t~~~L~~~~~~l 159 (190)
T PF02815_consen 121 FEEKSSTGMGEDEIKTLDSYFRLRHVATGCWLHSHDVKL 159 (190)
T ss_dssp EEEEESSSCSSSSBBBTTSEEEEEETTTTEEEEEEEEES
T ss_pred EEecccCCccCCcEEecccEEEEEECCcCEEEecCCccc
Confidence 334445677788887889999999999998888776543
No 28
>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=30.62 E-value=1.6e+02 Score=19.40 Aligned_cols=55 Identities=18% Similarity=0.176 Sum_probs=32.5
Q ss_pred CeEEEEeeccCCCCcccCccCceEEEE-EeCCeeEEEecCcCCHHHHHHHHHHHHHHHHHHh
Q psy4479 32 DIQERFVRGSGPGGQAVAKTNNCVVLT-HIPTGIVIKCHQSRSLSENRKTARELLVAQWDVQ 92 (135)
Q Consensus 32 dl~~~~~RsSGPGGQ~VNKt~s~V~l~-h~ptgi~v~~~~~RSq~~Nk~~A~~rL~~~L~~~ 92 (135)
.+.+.+....+||++. .|+++ +.|.+..+.....-+-+.--..|+++|...|..+
T Consensus 35 ~~~V~l~~~~~~~~~~------~v~i~v~~~g~~~~a~~~~~d~~~Aid~a~~kl~rqL~k~ 90 (93)
T cd00552 35 SVDVVLSVEKNHGKRF------KVEITIHLPGGVLRAEASAEDLYAAIDLAVDKLERQLRKY 90 (93)
T ss_pred eEEEEEEEecCCCCce------EEEEEEEeCCCEEEEEEccCCHHHHHHHHHHHHHHHHHHh
Confidence 3555555555543332 45555 4563333333445678888888888888887654
No 29
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=30.20 E-value=94 Score=21.89 Aligned_cols=16 Identities=25% Similarity=0.513 Sum_probs=12.0
Q ss_pred CCCeEEEEeeccCCCC
Q psy4479 30 EKDIQERFVRGSGPGG 45 (135)
Q Consensus 30 ~~dl~~~~~RsSGPGG 45 (135)
.+-|.+.|.+++--||
T Consensus 70 ~D~LeIhFqK~snGGG 85 (88)
T PF07292_consen 70 RDKLEIHFQKPSNGGG 85 (88)
T ss_pred eeeEEEEEecCCCCCc
Confidence 3568899999877565
No 30
>COG0193 Pth Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=27.22 E-value=50 Score=26.57 Aligned_cols=23 Identities=17% Similarity=0.388 Sum_probs=18.0
Q ss_pred CCCCcCCCCeEEEEeeccCCCCccc
Q psy4479 24 KVPKIDEKDIQERFVRGSGPGGQAV 48 (135)
Q Consensus 24 ~~~~i~~~dl~~~~~RsSGPGGQ~V 48 (135)
+.++++...+++.. +||.||+|-
T Consensus 93 DdLdl~~G~vrlk~--~Gg~gGHNG 115 (190)
T COG0193 93 DELDLPLGKVRLKL--GGGAGGHNG 115 (190)
T ss_pred eccCCCCceEEEEc--CCCCCCccc
Confidence 45677777788777 899999974
No 31
>cd02406 CRS2 Chloroplast RNA splicing 2 (CRS2) is a nuclear-encoded protein required for the splicing of group II introns in the chloroplast. CRS2 forms stable complexes with two CRS2-associated factors, CAF1 and CAF2, which are required for the splicing of distinct subsets of CRS2-dependent introns. CRS2 is closely related to bacterial peptidyl-tRNA hydrolases (PTH).
Probab=24.83 E-value=53 Score=26.14 Aligned_cols=68 Identities=16% Similarity=0.084 Sum_probs=36.3
Q ss_pred CCCCcCCCCeEEEEeeccCCCCcc-----cCcc---CceEEEEE---eCC-e-----eEEEecCcCCHHHHHHHHHHHHH
Q psy4479 24 KVPKIDEKDIQERFVRGSGPGGQA-----VAKT---NNCVVLTH---IPT-G-----IVIKCHQSRSLSENRKTARELLV 86 (135)
Q Consensus 24 ~~~~i~~~dl~~~~~RsSGPGGQ~-----VNKt---~s~V~l~h---~pt-g-----i~v~~~~~RSq~~Nk~~A~~rL~ 86 (135)
++++++...++++ .+||+||+| ...- ..=.||+. -|. + .++ +.-+..+...-+.+++...
T Consensus 92 Ddldl~~G~irlk--~gGs~gGHNGlkSI~~~Lggt~~f~RlrIGIGrP~~~~~v~~yVL-~~f~~~E~~~l~~~~~~a~ 168 (191)
T cd02406 92 DDMSLPNGVLRLQ--PKGGHGRHNGLQSVIEHLDGSREFPRLSIGIGSPPGKMDPRAFLL-QKFSSEEREQIDTALEQGV 168 (191)
T ss_pred ECCCCCCCeEEEc--CCCCCCCcCCHHHHHHHhCCCCCeEEEEEEeCCCCCCCchhhhhc-CCCCHHHHHHHHHHHHHHH
Confidence 3556677777776 678899998 3332 23455554 232 1 111 1123344445555666666
Q ss_pred HHHHHhhc
Q psy4479 87 AQWDVQVN 94 (135)
Q Consensus 87 ~~L~~~~~ 94 (135)
+.+..++.
T Consensus 169 ~~~~~~~~ 176 (191)
T cd02406 169 DAVRTLVL 176 (191)
T ss_pred HHHHHHHH
Confidence 66655553
No 32
>PHA00437 tail assembly protein
Probab=24.55 E-value=48 Score=23.87 Aligned_cols=13 Identities=38% Similarity=0.573 Sum_probs=9.3
Q ss_pred EEEEeeccCCCCcc
Q psy4479 34 QERFVRGSGPGGQA 47 (135)
Q Consensus 34 ~~~~~RsSGPGGQ~ 47 (135)
.++..|||| ||-|
T Consensus 81 sLSVaRSSG-gGiN 93 (94)
T PHA00437 81 SLSVARSSG-GGIN 93 (94)
T ss_pred ceeEeeccC-CCcC
Confidence 356788888 6655
No 33
>PF11653 VirionAssem_T7: Bacteriophage T7 virion assembly protein; InterPro: IPR024281 This family of proteins represents the gene product 7.3 from T7 bacteriophage and T7-like phages. The protein is localised to the tail and is thought to be important in virion assembly. Particles assembled in the absence of the protein fail to adsorb to cells [].
Probab=22.52 E-value=56 Score=23.62 Aligned_cols=12 Identities=42% Similarity=0.614 Sum_probs=8.5
Q ss_pred EEEeeccCCCCcc
Q psy4479 35 ERFVRGSGPGGQA 47 (135)
Q Consensus 35 ~~~~RsSGPGGQ~ 47 (135)
++..|||| ||-|
T Consensus 83 LSVaRSSG-~GiN 94 (95)
T PF11653_consen 83 LSVARSSG-GGIN 94 (95)
T ss_pred eeEEeccC-CCcC
Confidence 56788888 5654
No 34
>KOG1697|consensus
Probab=22.29 E-value=65 Score=27.34 Aligned_cols=13 Identities=23% Similarity=0.238 Sum_probs=9.3
Q ss_pred eEeecceeeeeee
Q psy4479 5 RRHLSLASSLFRK 17 (135)
Q Consensus 5 r~~ts~~~v~v~~ 17 (135)
|+-+|.|.|.|.+
T Consensus 156 ~rK~a~A~V~v~~ 168 (275)
T KOG1697|consen 156 RRKCARATVKVQP 168 (275)
T ss_pred ceecceeEEEEec
Confidence 4567888888864
No 35
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=21.96 E-value=2.9e+02 Score=19.32 Aligned_cols=34 Identities=12% Similarity=0.070 Sum_probs=26.8
Q ss_pred eEEEecCcCCHHHHHHHHHHHHHHHHHHhhcCCCC
Q psy4479 64 IVIKCHQSRSLSENRKTARELLVAQWDVQVNGEDS 98 (135)
Q Consensus 64 i~v~~~~~RSq~~Nk~~A~~rL~~~L~~~~~~~ps 98 (135)
+.|.+-..|+..+|++.+- .|.+.|.+.+..+|.
T Consensus 61 v~i~~~g~~~~e~k~~l~~-~i~~~l~~~lgi~~~ 94 (116)
T PTZ00397 61 VRVTSIGGISRSNNSSIAA-AITKILASHLKVKSE 94 (116)
T ss_pred EEEEEecCCCHHHHHHHHH-HHHHHHHHHhCcCcc
Confidence 6777778899988888876 788888888776654
No 36
>KOG4011|consensus
Probab=21.45 E-value=74 Score=27.67 Aligned_cols=100 Identities=16% Similarity=0.114 Sum_probs=54.9
Q ss_pred eeeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCC-------------------e
Q psy4479 3 IFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPT-------------------G 63 (135)
Q Consensus 3 ~~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~pt-------------------g 63 (135)
|||++-+.+..++.- ... .....+|.|.|.--+--|--.||-.--...|.-+|+ +
T Consensus 27 ILRvPp~~~~~v~~~-~~~-----~~~~~~l~i~~~~D~R~~vV~i~n~~l~akLvDLPtVvEs~KT~D~k~lyKtADIs 100 (330)
T KOG4011|consen 27 ILRVPPDIACRVDRA-ASE-----DGDKDELSIKLKPDGRHAVVRINNQLLPAKLVDLPTVVESNKTLDNKTLYKTADIS 100 (330)
T ss_pred eeecCHHHHHHHHHH-hhc-----ccccccceeeeccCCceeEEEECCEEccceeeccchhhhhhhccccccceeecchh
Confidence 566666555544441 111 144566677775444444445555555566666775 1
Q ss_pred --eEEEec-----CcCCHHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHH
Q psy4479 64 --IVIKCH-----QSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDE 108 (135)
Q Consensus 64 --i~v~~~-----~~RSq~~Nk~~A~~rL~~~L~~~~~~~ps~~~~~kRl~~ 108 (135)
|++.-. ++.+.-.++..|-++...-+.-+-..+|-+..+.||-.+
T Consensus 101 QMLvc~~~~~e~ie~~~p~~~~k~~~~k~k~y~y~HGiTPPmKnvRkRRFRK 152 (330)
T KOG4011|consen 101 QMLVCTEDVEEGIEDEDPDAARKKAKEKEKKYIYPHGITPPMKNVRKRRFRK 152 (330)
T ss_pred eeEEEecCccccccccChhhHHHhhhhhhhceecccCCCcchhHHHHHHhhh
Confidence 333333 456666666666666554444444458888887777643
No 37
>PF00013 KH_1: KH domain syndrome, contains KH motifs.; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....
Probab=21.02 E-value=45 Score=20.48 Aligned_cols=20 Identities=15% Similarity=0.229 Sum_probs=14.8
Q ss_pred CCCCcccCc--cCceEEEEEeC
Q psy4479 42 GPGGQAVAK--TNNCVVLTHIP 61 (135)
Q Consensus 42 GPGGQ~VNK--t~s~V~l~h~p 61 (135)
|+||.+++. ..|.|.+.+.+
T Consensus 16 G~~G~~i~~I~~~t~~~I~i~~ 37 (60)
T PF00013_consen 16 GKKGSNIKEIEEETGVKIQIPD 37 (60)
T ss_dssp TGGGHHHHHHHHHHTSEEEEES
T ss_pred CCCCCcHHHhhhhcCeEEEEcC
Confidence 889999984 56677766654
No 38
>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=20.71 E-value=1.2e+02 Score=22.14 Aligned_cols=18 Identities=17% Similarity=0.446 Sum_probs=11.1
Q ss_pred CCCCcccCc--cCceEEEEE
Q psy4479 42 GPGGQAVAK--TNNCVVLTH 59 (135)
Q Consensus 42 GPGGQ~VNK--t~s~V~l~h 59 (135)
||||.++.. .+|.|.|..
T Consensus 22 GPgG~tiK~i~~eTg~kI~I 41 (120)
T cd02395 22 GPRGNTLKQLEKETGAKISI 41 (120)
T ss_pred CCCChHHHHHHHHHCCEEEE
Confidence 888988874 344444443
Done!