Query psy1690
Match_columns 218
No_of_seqs 208 out of 1593
Neff 4.9
Searched_HMMs 46136
Date Fri Aug 16 16:34:38 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1690.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1690hhsearch_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 4.4E-57 9.5E-62 410.9 14.5 173 1-217 187-361 (363)
2 TIGR00019 prfA peptide chain r 100.0 1.5E-49 3.3E-54 366.3 19.4 174 1-218 186-359 (360)
3 PRK00591 prfA peptide chain re 100.0 5.4E-48 1.2E-52 356.0 19.5 173 1-217 186-358 (359)
4 KOG2726|consensus 100.0 2.9E-47 6.2E-52 351.4 14.4 174 1-218 211-386 (386)
5 PRK06746 peptide chain release 100.0 2.7E-46 5.8E-51 340.8 17.6 161 1-206 161-323 (326)
6 PRK05589 peptide chain release 100.0 3.2E-46 7E-51 340.3 17.5 162 1-207 160-323 (325)
7 PRK00578 prfB peptide chain re 100.0 6.6E-46 1.4E-50 343.1 17.5 165 1-210 199-365 (367)
8 PRK08787 peptide chain release 100.0 7.1E-46 1.5E-50 336.1 16.9 162 1-209 140-304 (313)
9 PRK07342 peptide chain release 100.0 9.8E-46 2.1E-50 338.5 17.0 164 1-209 163-328 (339)
10 TIGR00020 prfB peptide chain r 100.0 2.4E-45 5.1E-50 339.0 17.5 162 1-207 199-362 (364)
11 PRK08179 prfH peptide chain re 100.0 5.5E-36 1.2E-40 257.6 13.4 115 2-124 77-191 (200)
12 TIGR03072 release_prfH putativ 100.0 7.8E-36 1.7E-40 256.6 14.2 115 2-124 76-190 (200)
13 COG1186 PrfB Protein chain rel 100.0 2.7E-36 5.8E-41 264.7 11.1 159 1-203 74-233 (239)
14 PF00472 RF-1: RF-1 domain; I 100.0 3.4E-32 7.3E-37 214.8 11.8 110 28-179 4-113 (113)
15 PRK09256 hypothetical protein; 99.9 8E-24 1.7E-28 173.0 7.6 72 29-100 6-101 (138)
16 COG0216 PrfA Protein chain rel 99.9 1.3E-23 2.7E-28 192.3 7.0 105 108-216 184-293 (363)
17 COG1186 PrfB Protein chain rel 99.9 2.4E-22 5.1E-27 176.8 8.5 95 122-216 81-180 (239)
18 PRK08787 peptide chain release 99.9 2.9E-22 6.3E-27 182.3 8.0 96 120-215 145-245 (313)
19 PRK05589 peptide chain release 99.9 5.3E-22 1.1E-26 181.6 8.5 94 122-215 167-265 (325)
20 PRK07342 peptide chain release 99.9 7.2E-22 1.6E-26 181.5 8.7 95 121-215 169-268 (339)
21 TIGR03072 release_prfH putativ 99.9 7.5E-22 1.6E-26 170.1 8.0 92 119-213 79-173 (200)
22 PRK06746 peptide chain release 99.9 7E-22 1.5E-26 180.8 8.2 97 120-216 166-267 (326)
23 PRK08179 prfH peptide chain re 99.8 1.2E-21 2.7E-26 168.8 7.6 92 121-215 82-176 (200)
24 TIGR00019 prfA peptide chain r 99.8 1.7E-21 3.7E-26 180.4 8.2 89 127-215 198-290 (360)
25 TIGR00020 prfB peptide chain r 99.8 3.4E-21 7.3E-26 178.7 8.5 95 121-215 205-304 (364)
26 PRK00578 prfB peptide chain re 99.8 5.4E-21 1.2E-25 177.5 8.6 94 122-215 206-304 (367)
27 PRK00591 prfA peptide chain re 99.8 8.2E-21 1.8E-25 175.8 8.3 90 127-216 198-291 (359)
28 PF00472 RF-1: RF-1 domain; I 99.8 8.5E-21 1.9E-25 149.8 6.5 73 142-214 5-80 (113)
29 KOG2726|consensus 99.8 3.1E-20 6.7E-25 172.3 7.1 83 131-213 227-315 (386)
30 KOG3429|consensus 99.7 1.3E-18 2.8E-23 145.5 6.3 73 28-100 32-129 (172)
31 PRK09256 hypothetical protein; 99.7 1.6E-16 3.4E-21 130.1 6.1 71 139-209 3-100 (138)
32 KOG3429|consensus 99.0 3.8E-10 8.3E-15 94.9 6.3 67 143-209 34-128 (172)
33 cd00552 RaiA RaiA ("ribosome-a 52.6 87 0.0019 22.7 7.6 55 37-97 35-90 (93)
34 PF10213 MRP-S28: Mitochondria 48.3 1.5E+02 0.0032 24.1 8.6 33 67-99 60-93 (127)
35 KOG1697|consensus 35.8 29 0.00064 31.8 2.4 30 8-39 152-181 (275)
36 PF02482 Ribosomal_S30AE: Sigm 31.8 1.9E+02 0.004 21.0 5.9 37 60-97 54-90 (97)
37 smart00472 MIR Domain in ryano 28.8 60 0.0013 21.5 2.6 24 55-78 5-28 (57)
38 PF02815 MIR: MIR domain; Int 25.1 1.3E+02 0.0029 24.9 4.6 38 41-78 122-159 (190)
39 cd02394 vigilin_like_KH K homo 23.3 1.2E+02 0.0025 20.4 3.2 39 47-90 16-61 (62)
40 smart00322 KH K homology RNA-b 22.8 1.7E+02 0.0036 18.8 3.8 45 47-94 19-68 (69)
No 1
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.4e-57 Score=410.95 Aligned_cols=173 Identities=45% Similarity=0.692 Sum_probs=167.8
Q ss_pred CeecCCCCCCCceEEeeeEEEEeCCCCCc-ccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCCH
Q psy1690 1 VQRVPKTEKSGRLHTSTVSVAVLPQPKDI-EVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRSQ 79 (218)
Q Consensus 1 v~rv~~~~~~~~~~ts~asV~V~P~~~~~-~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RSQ 79 (218)
|||||.||++||+|||||+|+|+|+.++. +++|+++||+|++|||||+||||||+|+||||||||||||+|.||++|||
T Consensus 187 VQRVP~TEsqGRIHTStaTVaVlPE~ee~~ei~I~~~DlrIDt~RsSGaGGQhVNtTdSAVRiTHlPTGIvV~cQderSQ 266 (363)
T COG0216 187 VQRVPATESQGRIHTSAATVAVLPEVEEVEEIEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQ 266 (363)
T ss_pred eeccccccCCCceeecceeEEeccCCCcccccccChHHceeeeeecCCCCCCCcCccchhheeeecCCceEEEecchhhh
Confidence 89999999999999999999999999875 79999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHhhhccccccccCCCccccccccceeccCCCCCccccCCCeEEEEEeec
Q psy1690 80 IKNRANALAKLKRLIYEIQFEEQENRWVVRLVTKRSARTIIHRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKRAT 159 (218)
Q Consensus 80 ~~Nk~~A~~~L~~~L~~~~~~~~~~~~~v~~~~rk~~~~~~~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~rss 159 (218)
++||+.||..|+++|++...+++.++. ...||+|+|+++||| +||||
T Consensus 267 ~kNk~kAmkvL~ARl~~~~~~~~~~~~---~~~RksqVGSGDRSE---------------------------rIRTY--- 313 (363)
T COG0216 267 HKNKAKAMKVLRARLYDAERQKAQAEE---ASERKSQVGSGDRSE---------------------------RIRTY--- 313 (363)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHhcCCCchhh---------------------------hhhcc---
Confidence 999999999999999999999988888 999999999999999 99999
Q ss_pred CCCCCcccccCCceeeeeeccceeEechhhhhcc-hHHHHHHHHHHHHHHHHHHHHhhh
Q psy1690 160 GAGGQHVNTTDSADRITDHRIQRTVYNVAEFMSG-GAMLHELISDIRQHDYQFRIDQLL 217 (218)
Q Consensus 160 GpGgQ~vNk~~s~vrv~h~~tgi~v~~~~~~~n~-~~al~~l~~~l~~~~~~~r~~~~~ 217 (218)
| +++.||+|||.|++++.++++|.| + |+.+|+.|...++.++++++.
T Consensus 314 -------N--fPQnRVTDHRI~lTl~kLd~vm~gG~--LDeii~aLi~~~q~~~L~~l~ 361 (363)
T COG0216 314 -------N--FPQNRVTDHRINLTLYKLDEVMEGGK--LDEIIDALIAEDQAEQLAELG 361 (363)
T ss_pred -------C--CCCCcccchhcccccccHHHHhccCc--HHHHHHHHHHHHHHHHHHHhh
Confidence 9 999999999999999999999995 6 999999999999999998864
No 2
>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=1.5e-49 Score=366.31 Aligned_cols=174 Identities=45% Similarity=0.694 Sum_probs=167.5
Q ss_pred CeecCCCCCCCceEEeeeEEEEeCCCCCcccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCCHH
Q psy1690 1 VQRVPKTEKSGRLHTSTVSVAVLPQPKDIEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRSQI 80 (218)
Q Consensus 1 v~rv~~~~~~~~~~ts~asV~V~P~~~~~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RSQ~ 80 (218)
|||||+|++.||+|||||+|+|+|.+++.++.|+++||+|+|+|||||||||||||+|||+|+|+||||+|.|+++|||+
T Consensus 186 v~Rvp~~~s~~R~hTsfa~V~v~P~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~SaVrl~h~ptgi~V~~~~eRSQ~ 265 (360)
T TIGR00019 186 VQRVPVTESQGRIHTSAATVAVMPELEEVEVDINPADLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQH 265 (360)
T ss_pred EECCCCCCCCCCeecceeEEEEEcCCCccccccCcccEEEEEEECCCCCCCCcCceeeeEEEEECCCcEEEEECCccCHH
Confidence 68999999999999999999999999888899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHhhhccccccccCCCccccccccceeccCCCCCccccCCCeEEEEEeecC
Q psy1690 81 KNRANALAKLKRLIYEIQFEEQENRWVVRLVTKRSARTIIHRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKRATG 160 (218)
Q Consensus 81 ~Nk~~A~~~L~~~L~~~~~~~~~~~~~v~~~~rk~~~~~~~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~rssG 160 (218)
+||+.||++|+++|++...+++.++. ...|+.+++.++||+ +||+|
T Consensus 266 ~Nk~~A~~~L~~~L~~~~~~~~~~~~---~~~r~~~~~~~~Rs~---------------------------~IRtY---- 311 (360)
T TIGR00019 266 KNKDKAMKVLRARLYEAEQEKQQAAQ---ASTRKSQVGSGDRSE---------------------------RIRTY---- 311 (360)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHhhhcceecccC---------------------------CeEEE----
Confidence 99999999999999999988778887 888999999999999 99999
Q ss_pred CCCCcccccCCceeeeeeccceeEechhhhhcchHHHHHHHHHHHHHHHHHHHHhhhC
Q psy1690 161 AGGQHVNTTDSADRITDHRIQRTVYNVAEFMSGGAMLHELISDIRQHDYQFRIDQLLS 218 (218)
Q Consensus 161 pGgQ~vNk~~s~vrv~h~~tgi~v~~~~~~~n~~~al~~l~~~l~~~~~~~r~~~~~~ 218 (218)
| ++.-||+|||||+++++++.+|+|+ |+.||+.+...+.+++++++++
T Consensus 312 ------~--~~~~rV~DhRtg~~~~~l~~vl~G~--Ld~~I~~~l~~~~~~~l~~~~~ 359 (360)
T TIGR00019 312 ------N--FPQNRVTDHRINLTLYKLDEVLEGD--LDELIEALIAEDQAQQLAALSE 359 (360)
T ss_pred ------E--CCCCeeeeeccCCeEcChHHHhCCc--hHHHHHHHHHHHHHHHHHHHhh
Confidence 7 7889999999999999999999998 9999999999999999999874
No 3
>PRK00591 prfA peptide chain release factor 1; Validated
Probab=100.00 E-value=5.4e-48 Score=356.01 Aligned_cols=173 Identities=46% Similarity=0.703 Sum_probs=166.7
Q ss_pred CeecCCCCCCCceEEeeeEEEEeCCCCCcccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCCHH
Q psy1690 1 VQRVPKTEKSGRLHTSTVSVAVLPQPKDIEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRSQI 80 (218)
Q Consensus 1 v~rv~~~~~~~~~~ts~asV~V~P~~~~~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RSQ~ 80 (218)
|||||+|++.||+|||||+|+|+|.+++.++.|+++||+|+|+|||||||||||||+|||+|+|+||||+|.|+++|||+
T Consensus 186 v~R~p~~~s~~R~~tsfa~V~v~P~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptGi~v~~~~eRSQ~ 265 (359)
T PRK00591 186 VQRVPATESQGRIHTSAATVAVLPEAEEVEVEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQH 265 (359)
T ss_pred EEeeCCCCCCCceecceEEEEEEcCCCccccccCcccEEEEEEECCCCCCCCccceeeeEEEEECCCcEEEEECCcCCHH
Confidence 68999999999999999999999999888999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHhhhccccccccCCCccccccccceeccCCCCCccccCCCeEEEEEeecC
Q psy1690 81 KNRANALAKLKRLIYEIQFEEQENRWVVRLVTKRSARTIIHRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKRATG 160 (218)
Q Consensus 81 ~Nk~~A~~~L~~~L~~~~~~~~~~~~~v~~~~rk~~~~~~~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~rssG 160 (218)
+||+.|+++|+++|++...++..++. ..+|+.+++.++||+ +||+|
T Consensus 266 ~Nk~~Al~~L~~~L~~~~~~~~~~~~---~~~r~~~~~~~~Rse---------------------------~IRtY---- 311 (359)
T PRK00591 266 KNKAKAMKVLRARLYDAERQKAQAEE---AATRKSQVGSGDRSE---------------------------RIRTY---- 311 (359)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHhhcccccccC---------------------------CeeeE----
Confidence 99999999999999999999988888 889999999999999 99999
Q ss_pred CCCCcccccCCceeeeeeccceeEechhhhhcchHHHHHHHHHHHHHHHHHHHHhhh
Q psy1690 161 AGGQHVNTTDSADRITDHRIQRTVYNVAEFMSGGAMLHELISDIRQHDYQFRIDQLL 217 (218)
Q Consensus 161 pGgQ~vNk~~s~vrv~h~~tgi~v~~~~~~~n~~~al~~l~~~l~~~~~~~r~~~~~ 217 (218)
| +..-||+|||||+++.+++.+|+|+ |+.||+.+.....+++++++-
T Consensus 312 ------~--f~~~~V~DhRtg~~~~~l~~vl~G~--Ld~fI~~~l~~~~~~~l~~~~ 358 (359)
T PRK00591 312 ------N--FPQGRVTDHRINLTLYKLDEVMEGD--LDELIDALIAEDQAEKLAALG 358 (359)
T ss_pred ------E--CCCCeeeeeccCCEEcChHHHhCCC--hHHHHHHHHHHHHHHHHHhhc
Confidence 7 7889999999999999999999998 999999999999999998763
No 4
>KOG2726|consensus
Probab=100.00 E-value=2.9e-47 Score=351.45 Aligned_cols=174 Identities=51% Similarity=0.702 Sum_probs=167.9
Q ss_pred CeecCCCCCCCceEEeeeEEEEeCCC--CCcccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCC
Q psy1690 1 VQRVPKTEKSGRLHTSTVSVAVLPQP--KDIEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRS 78 (218)
Q Consensus 1 v~rv~~~~~~~~~~ts~asV~V~P~~--~~~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RS 78 (218)
|||+|+||++||+||||++|+|+|.+ ++.++.|+++||+|+|+|||||||||||||+|||||+||||||+|+|+++||
T Consensus 211 v~r~p~~e~~gr~htstasV~ViP~~~~~~~~~~~~~~dl~i~~~R~~G~GGQhvNktdsaVrl~HiPTGIvv~cq~eRS 290 (386)
T KOG2726|consen 211 VQRVPSTETSGRRHTSTASVAVIPQPGRDEVDVEIDEKDLRIETFRASGPGGQHVNKTDSAVRLTHIPTGIVVECQEERS 290 (386)
T ss_pred eeecCCcccccccccccceEEEeccCCCCccceecCchheeEEecccCCCCcccccccccceEEEeecCceEEEeecHHh
Confidence 79999999999999999999999999 7889999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHhhhccccccccCCCccccccccceeccCCCCCccccCCCeEEEEEee
Q psy1690 79 QIKNRANALAKLKRLIYEIQFEEQENRWVVRLVTKRSARTIIHRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKRA 158 (218)
Q Consensus 79 Q~~Nk~~A~~~L~~~L~~~~~~~~~~~~~v~~~~rk~~~~~~~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~rs 158 (218)
|++||+.||.+|+++|++...++...+. ...|+.++++..|++ +||+|
T Consensus 291 q~~Nr~~A~~~L~akL~~~~~~~~~~~~---~~~r~~qv~s~~rse---------------------------kiRTy-- 338 (386)
T KOG2726|consen 291 QHKNRALALKRLRAKLAVIYREEKSEEE---KKKRKAQVGSLKRSE---------------------------KIRTY-- 338 (386)
T ss_pred HHhhHHHHHHHHHHHHHHHHHhhhhHHh---hhhhHHhhcccCchh---------------------------ceeec--
Confidence 9999999999999999999999988887 899999999999999 99999
Q ss_pred cCCCCCcccccCCceeeeeeccceeEechhhhhcchHHHHHHHHHHHHHHHHHHHHhhhC
Q psy1690 159 TGAGGQHVNTTDSADRITDHRIQRTVYNVAEFMSGGAMLHELISDIRQHDYQFRIDQLLS 218 (218)
Q Consensus 159 sGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~~~~n~~~al~~l~~~l~~~~~~~r~~~~~~ 218 (218)
| +...||+||++|+++.+.+.||.| .|+.||.++....+..+++++++
T Consensus 339 --------~--~~q~rv~D~r~~~~~~d~~~~l~G--~Ld~li~~~~~~~~~~~~~e~~~ 386 (386)
T KOG2726|consen 339 --------N--FKQDRVTDHRIGLESHDLESFLDG--NLDELIEALLSLRREEDLAELLE 386 (386)
T ss_pred --------c--cCccchhhhhhcccccchHHHHhc--cHHHHHHHHHHHhhHHHHHHhhC
Confidence 8 888899999999999999999999 49999999999999999999874
No 5
>PRK06746 peptide chain release factor 2; Provisional
Probab=100.00 E-value=2.7e-46 Score=340.77 Aligned_cols=161 Identities=39% Similarity=0.561 Sum_probs=151.0
Q ss_pred CeecCCCCCCCceEEeeeEEEEeCCCC-CcccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCCH
Q psy1690 1 VQRVPKTEKSGRLHTSTVSVAVLPQPK-DIEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRSQ 79 (218)
Q Consensus 1 v~rv~~~~~~~~~~ts~asV~V~P~~~-~~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RSQ 79 (218)
|||+|||+++||+|||||+|+|+|.++ +++++|+++||+|+|+|||||||||||||+|||+|+|+||||+|+|+++|||
T Consensus 161 v~Rvsp~~s~~rrhTsfa~V~v~P~~~~~~~i~i~~~dl~~~~~rssG~GGQ~vNkt~saVrl~h~ptgi~v~~q~~RSQ 240 (326)
T PRK06746 161 LVRISPFDSSGRRHTSFVSCEVVPEFNDEVEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQ 240 (326)
T ss_pred EEecCCCCCCCCeEeeEEEEEEecCcCCccccccChHHeEEEEEeCCCCCCCCccceeeEEEEEEeCCeEEEEECCCCCH
Confidence 699999999999999999999999984 6899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHhhhccccccccCCCccccccccceeccCCCCCccccCCCeEEEEEeec
Q psy1690 80 IKNRANALAKLKRLIYEIQFEEQENRWVVRLVTKRSARTIIHRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKRAT 159 (218)
Q Consensus 80 ~~Nk~~A~~~L~~~L~~~~~~~~~~~~~v~~~~rk~~~~~~~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~rss 159 (218)
++||+.|+++|+++|++...++..++. ...|+.+++. .|++ +||+|
T Consensus 241 ~~Nk~~A~~~L~akL~~~~~~~~~~~~---~~~r~~~~~~-~rg~---------------------------~IRtY--- 286 (326)
T PRK06746 241 IKNREHAMKMLKAKLYQKKLEEQQAEL---DEIRGEQKEI-GWGS---------------------------QIRSY--- 286 (326)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHhhhccC-ccCC---------------------------CeEEE---
Confidence 999999999999999999999988887 7777777655 6888 99999
Q ss_pred CCCCCcccccC-CceeeeeeccceeEechhhhhcchHHHHHHHHHHHH
Q psy1690 160 GAGGQHVNTTD-SADRITDHRIQRTVYNVAEFMSGGAMLHELISDIRQ 206 (218)
Q Consensus 160 GpGgQ~vNk~~-s~vrv~h~~tgi~v~~~~~~~n~~~al~~l~~~l~~ 206 (218)
| + +.-||+|||||+++.+++.+|+|+ |+.||+.+..
T Consensus 287 -------n--f~p~~rVtDhR~~~~~~~l~~vl~G~--ld~~I~~~~~ 323 (326)
T PRK06746 287 -------V--FHPYSLVKDHRTNTEVGNVQAVMDGE--IDPFIDAYLR 323 (326)
T ss_pred -------E--CCCCceeeeeecCceecChHHhhCCC--HHHHHHHHHH
Confidence 7 6 779999999999999999999998 9999998874
No 6
>PRK05589 peptide chain release factor 2; Provisional
Probab=100.00 E-value=3.2e-46 Score=340.31 Aligned_cols=162 Identities=33% Similarity=0.482 Sum_probs=149.2
Q ss_pred CeecCCCCCCCceEEeeeEEEEeCCCCC-cccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCCH
Q psy1690 1 VQRVPKTEKSGRLHTSTVSVAVLPQPKD-IEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRSQ 79 (218)
Q Consensus 1 v~rv~~~~~~~~~~ts~asV~V~P~~~~-~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RSQ 79 (218)
|||+|+|+++||+|||||+|+|+|.+++ .++.|+++||+|+++|||||||||||||+|||||+|+||||+|+|+++|||
T Consensus 160 v~r~s~~~~~~rr~ts~a~V~VlP~~~~~~~~~i~~~dl~~~~~rssG~GGQ~VNkt~saVrl~H~ptgi~v~~q~eRSQ 239 (325)
T PRK05589 160 LVRISPFNANGKRQTSFASVEVLPELTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQNERSQ 239 (325)
T ss_pred EEEcCCCCCCCCeEeeeEEEEEecCcCccccccCCchheEEEEeeCCCCCCCcccceeeEEEEEECCCCEEEEECCccCH
Confidence 6999999999999999999999999965 589999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHhhhccccccccCCCccccccccceeccCCCCCccccCCCeEEEEEeec
Q psy1690 80 IKNRANALAKLKRLIYEIQFEEQENRWVVRLVTKRSARTIIHRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKRAT 159 (218)
Q Consensus 80 ~~Nk~~A~~~L~~~L~~~~~~~~~~~~~v~~~~rk~~~~~~~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~rss 159 (218)
++||+.|+++|+++|++...++..++. ...+ .++...+||+ +||+|
T Consensus 240 ~~Nk~~A~~~L~~kL~~~~~~~~~~~~---~~~r-~~~~~~~~g~---------------------------~IRtY--- 285 (325)
T PRK05589 240 HSNKETAMKMLKSKLVELKERAHKEKI---EDLT-GELKDMGWGS---------------------------QIRSY--- 285 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHh-cccccccccC---------------------------Cceee---
Confidence 999999999999999999888777765 5544 5666778888 99999
Q ss_pred CCCCCcccccC-CceeeeeeccceeEechhhhhcchHHHHHHHHHHHHH
Q psy1690 160 GAGGQHVNTTD-SADRITDHRIQRTVYNVAEFMSGGAMLHELISDIRQH 207 (218)
Q Consensus 160 GpGgQ~vNk~~-s~vrv~h~~tgi~v~~~~~~~n~~~al~~l~~~l~~~ 207 (218)
| + +.-||+|||||+++.+++.+|+|+ |+.||+.+..+
T Consensus 286 -------~--~~p~~rVtDhR~g~~~~~l~~vl~G~--Ld~~I~a~l~~ 323 (325)
T PRK05589 286 -------V--FHPYNLVKDHRTGVETSNVDSVMDGD--IDNFITQYLKG 323 (325)
T ss_pred -------E--CCCCceeeeeccCceecChHHhhCCC--HHHHHHHHHhh
Confidence 7 6 789999999999999999999998 99999988754
No 7
>PRK00578 prfB peptide chain release factor 2; Validated
Probab=100.00 E-value=6.6e-46 Score=343.06 Aligned_cols=165 Identities=36% Similarity=0.530 Sum_probs=152.2
Q ss_pred CeecCCCCCCCceEEeeeEEEEeCCCCC-cccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCCH
Q psy1690 1 VQRVPKTEKSGRLHTSTVSVAVLPQPKD-IEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRSQ 79 (218)
Q Consensus 1 v~rv~~~~~~~~~~ts~asV~V~P~~~~-~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RSQ 79 (218)
|||||+|+++||+|||||+|+|+|.+++ .++.|+++||+|+|+|||||||||||||+|+|+|+|+||||+|.|+++|||
T Consensus 199 vqrvs~~~~~~r~hts~~~V~vlP~~~~~~~~~i~~~dl~~~~~rssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ 278 (367)
T PRK00578 199 LVRISPFDSAGRRHTSFASVEVYPEVDDTIEIEINPKDLRIDTYRSSGAGGQHVNKTDSAVRITHIPTGIVVQCQNERSQ 278 (367)
T ss_pred EEecCCCCCCCceecceeeEEecCCCCCccccccChhhEEEEEeeCCCCCCCcccceeeEEEEEECCCcEEEEECCCCCH
Confidence 6999999999999999999999999975 488999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHhhhccccccccCCCccccccccceeccCCCCCccccCCCeEEEEEeec
Q psy1690 80 IKNRANALAKLKRLIYEIQFEEQENRWVVRLVTKRSARTIIHRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKRAT 159 (218)
Q Consensus 80 ~~Nk~~A~~~L~~~L~~~~~~~~~~~~~v~~~~rk~~~~~~~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~rss 159 (218)
++||+.|+++|+++|++...+++.++. ...|+. +...+||+ +||+|
T Consensus 279 ~~Nk~~A~~~L~~kL~~~~~~~~~~~~---~~~r~~-~~~~~rg~---------------------------~IRtY--- 324 (367)
T PRK00578 279 HQNKASAMKMLKAKLYELELEKRAAEK---DALKGE-KKEIGWGS---------------------------QIRSY--- 324 (367)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHhh-hccccccC---------------------------CeEEE---
Confidence 999999999999999999999887776 555544 47788999 99999
Q ss_pred CCCCCcccccC-CceeeeeeccceeEechhhhhcchHHHHHHHHHHHHHHHH
Q psy1690 160 GAGGQHVNTTD-SADRITDHRIQRTVYNVAEFMSGGAMLHELISDIRQHDYQ 210 (218)
Q Consensus 160 GpGgQ~vNk~~-s~vrv~h~~tgi~v~~~~~~~n~~~al~~l~~~l~~~~~~ 210 (218)
| + +.-||+|||||+++++++.+|+|+ |+.||+.|..+..+
T Consensus 325 -------n--~~p~~rVtDhR~g~~~~~l~~vl~G~--ld~~I~~l~~~~~~ 365 (367)
T PRK00578 325 -------V--LHPYQMVKDLRTGYETGNTQAVLDGD--LDGFIEAYLRWRAS 365 (367)
T ss_pred -------E--CCCCceeeeeccCceecCHHHhhCCC--hHHHHHHHHHHHhc
Confidence 7 6 779999999999999999999998 99999999887553
No 8
>PRK08787 peptide chain release factor 2; Provisional
Probab=100.00 E-value=7.1e-46 Score=336.15 Aligned_cols=162 Identities=33% Similarity=0.460 Sum_probs=147.0
Q ss_pred CeecCCCCCCCceEEeeeEEEEeCCCCC-cccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCCH
Q psy1690 1 VQRVPKTEKSGRLHTSTVSVAVLPQPKD-IEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRSQ 79 (218)
Q Consensus 1 v~rv~~~~~~~~~~ts~asV~V~P~~~~-~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RSQ 79 (218)
|||+|||+++||+|||||+|+|+|.+++ .++.|+++||+|+|+|||||||||||||+|||+|+|+||||+|.|+++|||
T Consensus 140 v~R~sp~~s~~rrhTsfasV~V~P~~~~~~~i~i~~~dl~~~~~RssG~GGQ~VNkt~saVri~H~Ptgi~v~~q~eRSQ 219 (313)
T PRK08787 140 LVRKSPFDSDNRRHTSFTSVFVSPEVDDNIEIDINPADLRTDVYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQ 219 (313)
T ss_pred EEecCCCCCCCCEEeeeEEEEEecCcCcccccccChhHeEEEEEECCCCCCCCcCCEeeEEEEEECCCcEEEEECCcccH
Confidence 6899999999999999999999999865 689999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHhh--hccccccccCCCccccccccceeccCCCCCccccCCCeEEEEEe
Q psy1690 80 IKNRANALAKLKRLIYEIQFEEQENRWVVRLVTK--RSARTIIHRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKR 157 (218)
Q Consensus 80 ~~Nk~~A~~~L~~~L~~~~~~~~~~~~~v~~~~r--k~~~~~~~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~r 157 (218)
++||+.|+++|+++|++...+++.++. ...+ ++++ .||+ +||+|
T Consensus 220 ~~Nk~~A~~~L~~~L~~~~~e~~~~~~---~~~~~~k~~i---~~g~---------------------------qIRtY- 265 (313)
T PRK08787 220 HQNRDNAMKMLAAKLYELEVQKRNAEK---DALEATKSDI---GWGS---------------------------QIRNY- 265 (313)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHhhhhhhC---cccc---------------------------cccce-
Confidence 999999999999999999888877765 4443 3333 3777 99999
Q ss_pred ecCCCCCcccccCCceeeeeeccceeEechhhhhcchHHHHHHHHHHHHHHH
Q psy1690 158 ATGAGGQHVNTTDSADRITDHRIQRTVYNVAEFMSGGAMLHELISDIRQHDY 209 (218)
Q Consensus 158 ssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~~~~n~~~al~~l~~~l~~~~~ 209 (218)
| +..-||+|||||+++.+++.+|+|+ |+.||+.+.....
T Consensus 266 ---------~--f~~~~V~DhRtg~~~~~l~~vldG~--ld~fI~a~l~~~~ 304 (313)
T PRK08787 266 ---------V--LDQSRIKDLRTGIERSDTQKVLDGD--LDEFVEASLKAGL 304 (313)
T ss_pred ---------e--CCCCcceeeccCceEcChhHhhCCC--hHHHHHHHHHHHH
Confidence 8 7778999999999999999999998 9999998876543
No 9
>PRK07342 peptide chain release factor 2; Provisional
Probab=100.00 E-value=9.8e-46 Score=338.50 Aligned_cols=164 Identities=37% Similarity=0.532 Sum_probs=147.5
Q ss_pred CeecCCCCCCCceEEeeeEEEEeCCCCC-cccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCCH
Q psy1690 1 VQRVPKTEKSGRLHTSTVSVAVLPQPKD-IEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRSQ 79 (218)
Q Consensus 1 v~rv~~~~~~~~~~ts~asV~V~P~~~~-~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RSQ 79 (218)
|||+|||+++||+|||||+|+|+|.+++ ++++|+++||+|+|+|||||||||||||+|||||+|+||||+|+|+++|||
T Consensus 163 v~rvsp~~~~~rrhTs~a~V~VlP~~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptgi~v~~~~eRSQ 242 (339)
T PRK07342 163 LVRISPYDSNARRHTSFASIWVYPVIDDNIEVDVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQ 242 (339)
T ss_pred EEecCCCCCCCCeEeEEEEEEEEcCCCcccccccCcccEEEEEEECCCCCCCCccceeeeEEEEEcCCcEEEEECCcccH
Confidence 6999999999999999999999999965 589999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHhhhccccccccCCCccccccccceeccCCCCCccccCCCeEEEEEeec
Q psy1690 80 IKNRANALAKLKRLIYEIQFEEQENRWVVRLVTKRSARTIIHRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKRAT 159 (218)
Q Consensus 80 ~~Nk~~A~~~L~~~L~~~~~~~~~~~~~v~~~~rk~~~~~~~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~rss 159 (218)
++||+.||++|+++|++...+++.++. ...+ .+.....||+ +||+|
T Consensus 243 ~~Nk~~A~~~L~~~L~~~~~~~~~~~~---~~~~-~~~~~i~~g~---------------------------~IRtY--- 288 (339)
T PRK07342 243 HKNRAKAWSMLRARLYEEELKKREEAT---NAAA-ASKTDIGWGH---------------------------QIRSY--- 288 (339)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHH-hhhhhccccC---------------------------CcCCc---
Confidence 999999999999999999888876665 4333 2223344777 99999
Q ss_pred CCCCCcccccC-CceeeeeeccceeEechhhhhcchHHHHHHHHHHHHHHH
Q psy1690 160 GAGGQHVNTTD-SADRITDHRIQRTVYNVAEFMSGGAMLHELISDIRQHDY 209 (218)
Q Consensus 160 GpGgQ~vNk~~-s~vrv~h~~tgi~v~~~~~~~n~~~al~~l~~~l~~~~~ 209 (218)
| + +.-||+|||||+++.+++.+|+|+ |+.||+.+..+..
T Consensus 289 -------~--~~p~~rVtDhRtg~~~~~l~~vl~G~--Ld~~I~a~l~~~~ 328 (339)
T PRK07342 289 -------V--LQPYQLVKDLRTGVESTNPQDVLDGD--LNEFMEAALAHRI 328 (339)
T ss_pred -------c--CCCCceeeeeccCceecChHHhhCCC--HHHHHHHHHHHHh
Confidence 6 6 889999999999999999999998 9999999887643
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=2.4e-45 Score=339.03 Aligned_cols=162 Identities=36% Similarity=0.555 Sum_probs=148.6
Q ss_pred CeecCCCCCCCceEEeeeEEEEeCCC-CCcccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCCH
Q psy1690 1 VQRVPKTEKSGRLHTSTVSVAVLPQP-KDIEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRSQ 79 (218)
Q Consensus 1 v~rv~~~~~~~~~~ts~asV~V~P~~-~~~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RSQ 79 (218)
|||+|||+++||+|||||+|+|+|.+ ++.++.|+++||+|+++|||||||||||||+|||+|+|+||||+|.|+++|||
T Consensus 199 v~rvs~~~~~~rrhts~a~V~vlP~~~~~~~~~i~~~d~~~~~~rssG~GGQ~VNkt~saVri~H~ptgi~v~~q~~RSQ 278 (364)
T TIGR00020 199 LVRISPFDANGRRHTSFASVFVMPEVDDDIDIEIKPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQ 278 (364)
T ss_pred EEecCCCCCCCCeEeeeEEEEEecCCCcccceecccccEEEEEeeCCCCCCccccccceEEEEEECCCcEEEEECCccCH
Confidence 69999999999999999999999998 46789999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHhhhccccccccCCCccccccccceeccCCCCCccccCCCeEEEEEeec
Q psy1690 80 IKNRANALAKLKRLIYEIQFEEQENRWVVRLVTKRSARTIIHRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKRAT 159 (218)
Q Consensus 80 ~~Nk~~A~~~L~~~L~~~~~~~~~~~~~v~~~~rk~~~~~~~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~rss 159 (218)
++||+.|+++|+++|++...+++.++. ...+ .++...+||+ +||+|
T Consensus 279 ~~Nk~~A~~~L~~kL~~~~~~~~~~~~---~~~r-~~~~~~~rg~---------------------------~IRtY--- 324 (364)
T TIGR00020 279 HKNKDSAMKVLKAKLYELEMEKEQAEK---DAKE-GEKSEIGWGS---------------------------QIRSY--- 324 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHH-hhhhccCccC---------------------------CeEEE---
Confidence 999999999999999999888877776 5555 4445557898 99999
Q ss_pred CCCCCcccccC-CceeeeeeccceeEechhhhhcchHHHHHHHHHHHHH
Q psy1690 160 GAGGQHVNTTD-SADRITDHRIQRTVYNVAEFMSGGAMLHELISDIRQH 207 (218)
Q Consensus 160 GpGgQ~vNk~~-s~vrv~h~~tgi~v~~~~~~~n~~~al~~l~~~l~~~ 207 (218)
| + +.-||+|||||+++.+++.+|+|+ |+.||+.+..+
T Consensus 325 -------~--~~~~~rVtDhR~g~~~~~l~~vl~G~--Ld~~I~a~~~~ 362 (364)
T TIGR00020 325 -------V--LHPYSMVKDLRTGYETGNVQAVLDGD--IDQFIEAYLKW 362 (364)
T ss_pred -------E--CCCCCcccccccCCeecChHHHhCCC--hHHHHHHHHhh
Confidence 6 6 668999999999999999999998 99999988754
No 11
>PRK08179 prfH peptide chain release factor-like protein; Reviewed
Probab=100.00 E-value=5.5e-36 Score=257.57 Aligned_cols=115 Identities=30% Similarity=0.339 Sum_probs=104.6
Q ss_pred eecCCCCCCCceEEeeeEEEEeCCCCCcccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCCHHH
Q psy1690 2 QRVPKTEKSGRLHTSTVSVAVLPQPKDIEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRSQIK 81 (218)
Q Consensus 2 ~rv~~~~~~~~~~ts~asV~V~P~~~~~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RSQ~~ 81 (218)
++.||++..+++||||++|+|+|. +++|+++||+|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++
T Consensus 77 V~~sp~~~~~~R~~s~~~V~v~~~----~~~i~~~dl~~~~~RssGpGGQ~VNkt~saVrl~h~ptgi~v~~~~~RSQ~~ 152 (200)
T PRK08179 77 ICPSPYRPHHGRKNWFVGIGRFSA----DEEEQSDEIRFETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHA 152 (200)
T ss_pred EecCCCCCCCCceEEEEEEEEeCC----cCccCHHHeEEEEEEccCCcccccccccceEEEEEcCCcEEEEECCCCCHHH
Confidence 355777888889999999999976 3689999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHhHHHHhhhccccccccCC
Q psy1690 82 NRANALAKLKRLIYEIQFEEQENRWVVRLVTKRSARTIIHRTE 124 (218)
Q Consensus 82 Nk~~A~~~L~~~L~~~~~~~~~~~~~v~~~~rk~~~~~~~Rse 124 (218)
||+.|+++|+++|++...++..++ ...++.++.+.+||+
T Consensus 153 Nk~~A~~~L~~~L~~~~~~~~~~~----~~~~~~~~~~~~Rg~ 191 (200)
T PRK08179 153 NKRLARLLIAWKLEQQQQEQSAAL----KSQRRMFHHQIERGN 191 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHhccccccccC
Confidence 999999999999999988766544 577788889999999
No 12
>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=7.8e-36 Score=256.64 Aligned_cols=115 Identities=32% Similarity=0.401 Sum_probs=105.3
Q ss_pred eecCCCCCCCceEEeeeEEEEeCCCCCcccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCCHHH
Q psy1690 2 QRVPKTEKSGRLHTSTVSVAVLPQPKDIEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRSQIK 81 (218)
Q Consensus 2 ~rv~~~~~~~~~~ts~asV~V~P~~~~~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RSQ~~ 81 (218)
++.||++..+++||||++|+|+|. +++|+++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++
T Consensus 76 v~~sp~r~~~~R~ts~~~V~v~~~----~~~i~~~dl~~~~~RssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~ 151 (200)
T TIGR03072 76 ICPSPYRPHHRRKNWFIGVQRFSA----SEEATEDEIRFETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHA 151 (200)
T ss_pred EEcCCCCCCCCeeEEEEEEEEecC----ccccChhheEEEEEECCCCCcccccccceeEEEEECCCcEEEEECCccCHHH
Confidence 456788888899999999999984 4679999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHhHHHHhhhccccccccCC
Q psy1690 82 NRANALAKLKRLIYEIQFEEQENRWVVRLVTKRSARTIIHRTE 124 (218)
Q Consensus 82 Nk~~A~~~L~~~L~~~~~~~~~~~~~v~~~~rk~~~~~~~Rse 124 (218)
||+.|+++|+++|++...++. ++. ...++.++.+.+||+
T Consensus 152 Nk~~A~~~L~~~l~~~~~~~~-~~~---~~~~r~~~~~~~Rg~ 190 (200)
T TIGR03072 152 NKRLATLLLAVRLADLQQEQA-AAL---RAERRTAHHQIERGN 190 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHH---HHHHHhccccccccC
Confidence 999999999999999987775 444 577888889999999
No 13
>COG1186 PrfB Protein chain release factor B [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.7e-36 Score=264.72 Aligned_cols=159 Identities=36% Similarity=0.509 Sum_probs=138.4
Q ss_pred CeecCCCCCCCceEEeeeEEEEeCCCC-CcccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCCH
Q psy1690 1 VQRVPKTEKSGRLHTSTVSVAVLPQPK-DIEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRSQ 79 (218)
Q Consensus 1 v~rv~~~~~~~~~~ts~asV~V~P~~~-~~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RSQ 79 (218)
+.|++|+++.||+||||++|.++|.++ ..+++|+++||+|+|+|||||||||||||+|||+|+|+||||+|.|+.+|||
T Consensus 74 lvr~Spf~~~~~R~tsf~~v~v~p~~~~~i~i~I~~~dl~idt~RASGaGGQhVNKt~SAVrlth~ptgivv~cq~eRSq 153 (239)
T COG1186 74 LVRISPFDSNGRRHTSFASVEVFPELDISIEIEIPDDDLRIDTYRASGAGGQHVNKTDSAVRLTHLPTGIVVLCQNERSQ 153 (239)
T ss_pred EEeecCCCcCcccccceeeeeecCCCCcccceecCccceEEEEEEcCCCCCCccccccccEEEEEcCCCCEecCHHHHHH
Confidence 369999999999999999999999995 5689999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHhhhccccccccCCCccccccccceeccCCCCCccccCCCeEEEEEeec
Q psy1690 80 IKNRANALAKLKRLIYEIQFEEQENRWVVRLVTKRSARTIIHRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKRAT 159 (218)
Q Consensus 80 ~~Nk~~A~~~L~~~L~~~~~~~~~~~~~v~~~~rk~~~~~~~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~rss 159 (218)
+.|++.|+..|+.+|+....+.+.++. +..+ .......|++ +++.|
T Consensus 154 ~~n~~~a~~~l~~kL~~~~~~~Rsqe~---n~~~-a~~k~i~wg~---------------------------qirsy--- 199 (239)
T COG1186 154 HLNKALARKMLKGKLYILAQEKRSQEK---NRER-ALKKLIGWGN---------------------------QIRSY--- 199 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHH-HHhhhHHHHH---------------------------hcccc---
Confidence 999999999999999999888877776 4444 3333445665 77777
Q ss_pred CCCCCcccccCCceeeeeeccceeEechhhhhcchHHHHHHHHH
Q psy1690 160 GAGGQHVNTTDSADRITDHRIQRTVYNVAEFMSGGAMLHELISD 203 (218)
Q Consensus 160 GpGgQ~vNk~~s~vrv~h~~tgi~v~~~~~~~n~~~al~~l~~~ 203 (218)
|. .+.-.+++++|+++..+.+.+|+|. ++.+++.
T Consensus 200 ------v~--~p~~~vKd~Rt~~E~~~~~~v~dg~--~~~~~~~ 233 (239)
T COG1186 200 ------VL--DPYQPTKDLRTGVERRNKSKVLDGD--KDGFIKA 233 (239)
T ss_pred ------CC--CccccccccccceeeccHHHhhhhh--HHHHHHh
Confidence 23 4566788999999999999999995 7777654
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=99.98 E-value=3.4e-32 Score=214.76 Aligned_cols=110 Identities=41% Similarity=0.610 Sum_probs=99.3
Q ss_pred CcccccCCCCeEEEeeecCCCCCccccccCcceEEEEcCCceEEEEcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhHHh
Q psy1690 28 DIEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRSQIKNRANALAKLKRLIYEIQFEEQENRWV 107 (218)
Q Consensus 28 ~~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RSQ~~Nk~~A~~~L~~~L~~~~~~~~~~~~~ 107 (218)
..+++|+++||+|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||+.|+++|+++|+++|.++..++...+.
T Consensus 4 ~~~~~i~~~dl~~~~~RssGpGGQ~VNk~~s~V~l~h~ptgi~v~~~~~Rsq~~Nr~~A~~~L~~~l~~~~~~~~~~~~- 82 (113)
T PF00472_consen 4 EKEIDIPEKDLEISFSRSSGPGGQNVNKTNSKVRLRHIPTGIVVKCQESRSQHQNREDALEKLREKLDEAYREKRREKT- 82 (113)
T ss_dssp SSSSCC-GGGEEEEEEESSSSSSCHHHSSSEEEEEEETTTTEEEEEESSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHT-
T ss_pred ccccccCHHHeEEEEEecCCCCCCcccccCCEEEEEEecccEEEEEcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence 4578999999999999999999999999999999999999999999999999999999999999999999877766666
Q ss_pred HHHHhhhccccccccCCCccccccccceeccCCCCCccccCCCeEEEEEeecCCCCCcccccCCceeeeeec
Q psy1690 108 VRLVTKRSARTIIHRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHR 179 (218)
Q Consensus 108 v~~~~rk~~~~~~~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~ 179 (218)
...++.+....+|++ +|++| | ...-+|++||
T Consensus 83 --~~~~~~~~~~~~~~~---------------------------~iR~y----------~--~~~~~vk~~R 113 (113)
T PF00472_consen 83 --REIRKSQVKRLERKK---------------------------KIRTY----------N--FPRSRVKDHR 113 (113)
T ss_dssp --TTTTTTSCCCSSTTS---------------------------EEEEE----------E--TTTTEEEETT
T ss_pred --HHHHHHHHhHHhhhc---------------------------ceecc----------c--CChhhcccCC
Confidence 778888888888998 99999 7 4777888875
No 15
>PRK09256 hypothetical protein; Provisional
Probab=99.90 E-value=8e-24 Score=173.04 Aligned_cols=72 Identities=39% Similarity=0.548 Sum_probs=66.4
Q ss_pred cccccCCCCeEEEeeecCCCCCccccccCcceEEEE------cC-----------------Cc-eEEEEcccCCHHHHHH
Q psy1690 29 IEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTH------IP-----------------TG-ISVESQEDRSQIKNRA 84 (218)
Q Consensus 29 ~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~H------lP-----------------tG-i~v~~~~~RSQ~~Nk~ 84 (218)
.++.|+++||+++|+|||||||||||||+|+|+|+| +| +| |+|.|+++|||++|++
T Consensus 6 ~~~~i~~~~l~~~~~RSSGPGGQ~VNKt~SkV~l~~~~~~~~lp~~~~~~l~~~~~~r~~~~g~l~i~~~~~RSQ~~Nr~ 85 (138)
T PRK09256 6 RRLVIPENELEWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHRITKDGVIVIKAQEFRSQERNRE 85 (138)
T ss_pred ccCccCHHHeEEEEEEcCCCCcccccccceeeEEEechhhccCCHHHHHHHHHHhcCcccCCCcEEEEECCcCCHHHHHH
Confidence 357899999999999999999999999999999995 77 35 9999999999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q psy1690 85 NALAKLKRLIYEIQFE 100 (218)
Q Consensus 85 ~A~~~L~~~L~~~~~~ 100 (218)
+|+++|.++|.++...
T Consensus 86 ~al~kL~~~i~~~~~~ 101 (138)
T PRK09256 86 DALERLVALIREALKP 101 (138)
T ss_pred HHHHHHHHHHHHHhhc
Confidence 9999999999987653
No 16
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=1.3e-23 Score=192.30 Aligned_cols=105 Identities=29% Similarity=0.315 Sum_probs=91.8
Q ss_pred HHHHhhhccccccccCCCccccccccceeccCCCC--CccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEe
Q psy1690 108 VRLVTKRSARTIIHRTESPIIAFREPCTTLPSSCP--AVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVY 185 (218)
Q Consensus 108 v~~~~rk~~~~~~~Rse~~v~~w~~~V~v~p~~~~--~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~ 185 (218)
||+..|-....+..|-+ +=+++|.|||+++. .++|+++||+|++|||||+||||||+|+|||||+|+||||.|.
T Consensus 184 vHRVQRVP~TEsqGRIH----TStaTVaVlPE~ee~~ei~I~~~DlrIDt~RsSGaGGQhVNtTdSAVRiTHlPTGIvV~ 259 (363)
T COG0216 184 VHRVQRVPATESQGRIH----TSAATVAVLPEVEEVEEIEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVE 259 (363)
T ss_pred ccceeccccccCCCcee----ecceeEEeccCCCcccccccChHHceeeeeecCCCCCCCcCccchhheeeecCCceEEE
Confidence 34556666666666766 33479999999973 7999999999999999999999999999999999999999999
Q ss_pred chh---hhhcchHHHHHHHHHHHHHHHHHHHHhh
Q psy1690 186 NVA---EFMSGGAMLHELISDIRQHDYQFRIDQL 216 (218)
Q Consensus 186 ~~~---~~~n~~~al~~l~~~l~~~~~~~r~~~~ 216 (218)
|++ ++.|++-||..|.++|++.+.+++.++.
T Consensus 260 cQderSQ~kNk~kAmkvL~ARl~~~~~~~~~~~~ 293 (363)
T COG0216 260 CQDERSQHKNKAKAMKVLRARLYDAERQKAQAEE 293 (363)
T ss_pred ecchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 995 5999999999999999999999887653
No 17
>COG1186 PrfB Protein chain release factor B [Translation, ribosomal structure and biogenesis]
Probab=99.87 E-value=2.4e-22 Score=176.84 Aligned_cols=95 Identities=24% Similarity=0.277 Sum_probs=85.9
Q ss_pred cCCCccccccccceeccCCCC--CccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEechh---hhhcchHH
Q psy1690 122 RTESPIIAFREPCTTLPSSCP--AVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVYNVA---EFMSGGAM 196 (218)
Q Consensus 122 Rse~~v~~w~~~V~v~p~~~~--~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~---~~~n~~~a 196 (218)
++.-..-+|++.++++|+++. .+.|+++|++|++||||||||||||||+|||||+|.||||.|.|++ +++|++.|
T Consensus 81 ~~~~~R~tsf~~v~v~p~~~~~i~i~I~~~dl~idt~RASGaGGQhVNKt~SAVrlth~ptgivv~cq~eRSq~~n~~~a 160 (239)
T COG1186 81 DSNGRRHTSFASVEVFPELDISIEIEIPDDDLRIDTYRASGAGGQHVNKTDSAVRLTHLPTGIVVLCQNERSQHLNKALA 160 (239)
T ss_pred CcCcccccceeeeeecCCCCcccceecCccceEEEEEEcCCCCCCccccccccEEEEEcCCCCEecCHHHHHHHHHHHHH
Confidence 344445689999999999974 7888899999999999999999999999999999999999999995 59999999
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q psy1690 197 LHELISDIRQHDYQFRIDQL 216 (218)
Q Consensus 197 l~~l~~~l~~~~~~~r~~~~ 216 (218)
|..|..+|++.++++|-+++
T Consensus 161 ~~~l~~kL~~~~~~~Rsqe~ 180 (239)
T COG1186 161 RKMLKGKLYILAQEKRSQEK 180 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999988765
No 18
>PRK08787 peptide chain release factor 2; Provisional
Probab=99.86 E-value=2.9e-22 Score=182.31 Aligned_cols=96 Identities=23% Similarity=0.275 Sum_probs=86.5
Q ss_pred cccCCCccccccccceeccCCCC--CccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEechh---hhhcch
Q psy1690 120 IHRTESPIIAFREPCTTLPSSCP--AVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVYNVA---EFMSGG 194 (218)
Q Consensus 120 ~~Rse~~v~~w~~~V~v~p~~~~--~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~---~~~n~~ 194 (218)
+.++....-+|+++|+++|+++. .++|+++||+|+|+||||||||||||++|+|||+|+||||.|.|++ ++.|++
T Consensus 145 p~~s~~rrhTsfasV~V~P~~~~~~~i~i~~~dl~~~~~RssG~GGQ~VNkt~saVri~H~Ptgi~v~~q~eRSQ~~Nk~ 224 (313)
T PRK08787 145 PFDSDNRRHTSFTSVFVSPEVDDNIEIDINPADLRTDVYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRD 224 (313)
T ss_pred CCCCCCCEEeeeEEEEEecCcCcccccccChhHeEEEEEECCCCCCCCcCCEeeEEEEEECCCcEEEEECCcccHHHHHH
Confidence 33444456789999999999964 6899999999999999999999999999999999999999999995 599999
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q psy1690 195 AMLHELISDIRQHDYQFRIDQ 215 (218)
Q Consensus 195 ~al~~l~~~l~~~~~~~r~~~ 215 (218)
.||.+|.++|++.+.+++.++
T Consensus 225 ~A~~~L~~~L~~~~~e~~~~~ 245 (313)
T PRK08787 225 NAMKMLAAKLYELEVQKRNAE 245 (313)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999988877764
No 19
>PRK05589 peptide chain release factor 2; Provisional
Probab=99.86 E-value=5.3e-22 Score=181.60 Aligned_cols=94 Identities=27% Similarity=0.305 Sum_probs=84.4
Q ss_pred cCCCccccccccceeccCCCC--CccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEechh---hhhcchHH
Q psy1690 122 RTESPIIAFREPCTTLPSSCP--AVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVYNVA---EFMSGGAM 196 (218)
Q Consensus 122 Rse~~v~~w~~~V~v~p~~~~--~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~---~~~n~~~a 196 (218)
++.-...+|+++|+++|+.+. .+.|+++|++|+++|||||||||||||+|+||++|+||||.|.|++ ++.|++.|
T Consensus 167 ~~~~rr~ts~a~V~VlP~~~~~~~~~i~~~dl~~~~~rssG~GGQ~VNkt~saVrl~H~ptgi~v~~q~eRSQ~~Nk~~A 246 (325)
T PRK05589 167 NANGKRQTSFASVEVLPELTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQNERSQHSNKETA 246 (325)
T ss_pred CCCCCeEeeeEEEEEecCcCccccccCCchheEEEEeeCCCCCCCcccceeeEEEEEECCCCEEEEECCccCHHHHHHHH
Confidence 444456789999999999964 6899999999999999999999999999999999999999999995 59999999
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q psy1690 197 LHELISDIRQHDYQFRIDQ 215 (218)
Q Consensus 197 l~~l~~~l~~~~~~~r~~~ 215 (218)
|.+|.++|++.+.+++.++
T Consensus 247 ~~~L~~kL~~~~~~~~~~~ 265 (325)
T PRK05589 247 MKMLKSKLVELKERAHKEK 265 (325)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 9999999999887666554
No 20
>PRK07342 peptide chain release factor 2; Provisional
Probab=99.86 E-value=7.2e-22 Score=181.50 Aligned_cols=95 Identities=26% Similarity=0.280 Sum_probs=85.7
Q ss_pred ccCCCccccccccceeccCCCC--CccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEechh---hhhcchH
Q psy1690 121 HRTESPIIAFREPCTTLPSSCP--AVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVYNVA---EFMSGGA 195 (218)
Q Consensus 121 ~Rse~~v~~w~~~V~v~p~~~~--~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~---~~~n~~~ 195 (218)
-++.-...+|+++|+++|.++. .+.|+++|++|+++||||||||||||++|+||++|.||||.|.|++ ++.|++.
T Consensus 169 ~~~~~rrhTs~a~V~VlP~~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptgi~v~~~~eRSQ~~Nk~~ 248 (339)
T PRK07342 169 YDSNARRHTSFASIWVYPVIDDNIEVDVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQHKNRAK 248 (339)
T ss_pred CCCCCCeEeEEEEEEEEcCCCcccccccCcccEEEEEEECCCCCCCCccceeeeEEEEEcCCcEEEEECCcccHHHHHHH
Confidence 3444466799999999999964 6899999999999999999999999999999999999999999995 5999999
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q psy1690 196 MLHELISDIRQHDYQFRIDQ 215 (218)
Q Consensus 196 al~~l~~~l~~~~~~~r~~~ 215 (218)
||.+|.++|++.+.+++..+
T Consensus 249 A~~~L~~~L~~~~~~~~~~~ 268 (339)
T PRK07342 249 AWSMLRARLYEEELKKREEA 268 (339)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 99999999999988877654
No 21
>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=99.86 E-value=7.5e-22 Score=170.12 Aligned_cols=92 Identities=21% Similarity=0.177 Sum_probs=81.3
Q ss_pred ccccCCCccccccccceeccCCCCCccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEechh---hhhcchH
Q psy1690 119 IIHRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVYNVA---EFMSGGA 195 (218)
Q Consensus 119 ~~~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~---~~~n~~~ 195 (218)
++.|......+|+++|+++|. .++|+++||+++++||||||||||||++|+|||+|.||||.|.|++ ++.|++.
T Consensus 79 sp~r~~~~R~ts~~~V~v~~~---~~~i~~~dl~~~~~RssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~ 155 (200)
T TIGR03072 79 SPYRPHHRRKNWFIGVQRFSA---SEEATEDEIRFETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRL 155 (200)
T ss_pred CCCCCCCCeeEEEEEEEEecC---ccccChhheEEEEEECCCCCcccccccceeEEEEECCCcEEEEECCccCHHHHHHH
Confidence 334545555689999999984 5789999999999999999999999999999999999999999995 5999999
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy1690 196 MLHELISDIRQHDYQFRI 213 (218)
Q Consensus 196 al~~l~~~l~~~~~~~r~ 213 (218)
||++|.++|++.+.+++.
T Consensus 156 A~~~L~~~l~~~~~~~~~ 173 (200)
T TIGR03072 156 ATLLLAVRLADLQQEQAA 173 (200)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 999999999998877653
No 22
>PRK06746 peptide chain release factor 2; Provisional
Probab=99.86 E-value=7e-22 Score=180.79 Aligned_cols=97 Identities=29% Similarity=0.363 Sum_probs=87.2
Q ss_pred cccCCCccccccccceeccCCC--CCccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEechh---hhhcch
Q psy1690 120 IHRTESPIIAFREPCTTLPSSC--PAVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVYNVA---EFMSGG 194 (218)
Q Consensus 120 ~~Rse~~v~~w~~~V~v~p~~~--~~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~---~~~n~~ 194 (218)
..++.-...+|+++|+++|+++ ..++|+++||+|+++||||||||||||++|+|||+|.||||.|.|++ ++.|++
T Consensus 166 p~~s~~rrhTsfa~V~v~P~~~~~~~i~i~~~dl~~~~~rssG~GGQ~vNkt~saVrl~h~ptgi~v~~q~~RSQ~~Nk~ 245 (326)
T PRK06746 166 PFDSSGRRHTSFVSCEVVPEFNDEVEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQIKNRE 245 (326)
T ss_pred CCCCCCCeEeeEEEEEEecCcCCccccccChHHeEEEEEeCCCCCCCCccceeeEEEEEEeCCeEEEEECCCCCHHHHHH
Confidence 3444456779999999999995 47899999999999999999999999999999999999999999995 599999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q psy1690 195 AMLHELISDIRQHDYQFRIDQL 216 (218)
Q Consensus 195 ~al~~l~~~l~~~~~~~r~~~~ 216 (218)
.||.+|.++|++.+.+++.++.
T Consensus 246 ~A~~~L~akL~~~~~~~~~~~~ 267 (326)
T PRK06746 246 HAMKMLKAKLYQKKLEEQQAEL 267 (326)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999998887653
No 23
>PRK08179 prfH peptide chain release factor-like protein; Reviewed
Probab=99.85 E-value=1.2e-21 Score=168.81 Aligned_cols=92 Identities=21% Similarity=0.178 Sum_probs=80.8
Q ss_pred ccCCCccccccccceeccCCCCCccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEechh---hhhcchHHH
Q psy1690 121 HRTESPIIAFREPCTTLPSSCPAVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVYNVA---EFMSGGAML 197 (218)
Q Consensus 121 ~Rse~~v~~w~~~V~v~p~~~~~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~---~~~n~~~al 197 (218)
.|......+|+++|+++|. .++|+++||+++|+||||||||||||++|+|||+|+||||+|.|++ ++.|++.||
T Consensus 82 ~~~~~~R~~s~~~V~v~~~---~~~i~~~dl~~~~~RssGpGGQ~VNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~ 158 (200)
T PRK08179 82 YRPHHGRKNWFVGIGRFSA---DEEEQSDEIRFETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLAR 158 (200)
T ss_pred CCCCCCceEEEEEEEEeCC---cCccCHHHeEEEEEEccCCcccccccccceEEEEEcCCcEEEEECCCCCHHHHHHHHH
Confidence 3444445679999999964 5699999999999999999999999999999999999999999995 599999999
Q ss_pred HHHHHHHHHHHHHHHHHh
Q psy1690 198 HELISDIRQHDYQFRIDQ 215 (218)
Q Consensus 198 ~~l~~~l~~~~~~~r~~~ 215 (218)
++|.++|++.+.+++.++
T Consensus 159 ~~L~~~L~~~~~~~~~~~ 176 (200)
T PRK08179 159 LLIAWKLEQQQQEQSAAL 176 (200)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 999999999888666543
No 24
>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=99.85 E-value=1.7e-21 Score=180.40 Aligned_cols=89 Identities=28% Similarity=0.333 Sum_probs=81.5
Q ss_pred cccccccceeccCCC-CCccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEechh---hhhcchHHHHHHHH
Q psy1690 127 IIAFREPCTTLPSSC-PAVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVYNVA---EFMSGGAMLHELIS 202 (218)
Q Consensus 127 v~~w~~~V~v~p~~~-~~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~---~~~n~~~al~~l~~ 202 (218)
.-+|+++|+++|.++ ..+.|+++|++|+++|||||||||||||+|+||++|.||||.|.|++ ++.|++.||.+|.+
T Consensus 198 ~hTsfa~V~v~P~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~SaVrl~h~ptgi~V~~~~eRSQ~~Nk~~A~~~L~~ 277 (360)
T TIGR00019 198 IHTSAATVAVMPELEEVEVDINPADLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKDKAMKVLRA 277 (360)
T ss_pred eecceeEEEEEcCCCccccccCcccEEEEEEECCCCCCCCcCceeeeEEEEECCCcEEEEECCccCHHHHHHHHHHHHHH
Confidence 347889999999996 47899999999999999999999999999999999999999999985 59999999999999
Q ss_pred HHHHHHHHHHHHh
Q psy1690 203 DIRQHDYQFRIDQ 215 (218)
Q Consensus 203 ~l~~~~~~~r~~~ 215 (218)
+|++...+++..+
T Consensus 278 ~L~~~~~~~~~~~ 290 (360)
T TIGR00019 278 RLYEAEQEKQQAA 290 (360)
T ss_pred HHHHHHHHHHHHH
Confidence 9999998766554
No 25
>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=99.84 E-value=3.4e-21 Score=178.66 Aligned_cols=95 Identities=24% Similarity=0.295 Sum_probs=85.3
Q ss_pred ccCCCccccccccceeccCCC--CCccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEechh---hhhcchH
Q psy1690 121 HRTESPIIAFREPCTTLPSSC--PAVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVYNVA---EFMSGGA 195 (218)
Q Consensus 121 ~Rse~~v~~w~~~V~v~p~~~--~~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~---~~~n~~~ 195 (218)
-++.....+|+++|+++|..+ ..+.|++.|++|++|||||||||||||++|+||++|+||||.|.|++ ++.|++.
T Consensus 205 ~~~~~rrhts~a~V~vlP~~~~~~~~~i~~~d~~~~~~rssG~GGQ~VNkt~saVri~H~ptgi~v~~q~~RSQ~~Nk~~ 284 (364)
T TIGR00020 205 FDANGRRHTSFASVFVMPEVDDDIDIEIKPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDS 284 (364)
T ss_pred CCCCCCeEeeeEEEEEecCCCcccceecccccEEEEEeeCCCCCCccccccceEEEEEECCCcEEEEECCccCHHHHHHH
Confidence 344446678999999999995 46899999999999999999999999999999999999999999985 5999999
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q psy1690 196 MLHELISDIRQHDYQFRIDQ 215 (218)
Q Consensus 196 al~~l~~~l~~~~~~~r~~~ 215 (218)
||.+|.++|++.+.+++..+
T Consensus 285 A~~~L~~kL~~~~~~~~~~~ 304 (364)
T TIGR00020 285 AMKVLKAKLYELEMEKEQAE 304 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 99999999999988777554
No 26
>PRK00578 prfB peptide chain release factor 2; Validated
Probab=99.84 E-value=5.4e-21 Score=177.49 Aligned_cols=94 Identities=26% Similarity=0.327 Sum_probs=85.0
Q ss_pred cCCCccccccccceeccCCCC--CccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEechh---hhhcchHH
Q psy1690 122 RTESPIIAFREPCTTLPSSCP--AVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVYNVA---EFMSGGAM 196 (218)
Q Consensus 122 Rse~~v~~w~~~V~v~p~~~~--~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~---~~~n~~~a 196 (218)
++.-...+|+++|+++|..+. .+.|+++|++++++||||||||||||++|+||++|.||||.|.|++ ++.|++.|
T Consensus 206 ~~~~r~hts~~~V~vlP~~~~~~~~~i~~~dl~~~~~rssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A 285 (367)
T PRK00578 206 DSAGRRHTSFASVEVYPEVDDTIEIEINPKDLRIDTYRSSGAGGQHVNKTDSAVRITHIPTGIVVQCQNERSQHQNKASA 285 (367)
T ss_pred CCCCceecceeeEEecCCCCCccccccChhhEEEEEeeCCCCCCCcccceeeEEEEEECCCcEEEEECCCCCHHHHHHHH
Confidence 444466789999999999974 6899999999999999999999999999999999999999999985 59999999
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q psy1690 197 LHELISDIRQHDYQFRIDQ 215 (218)
Q Consensus 197 l~~l~~~l~~~~~~~r~~~ 215 (218)
|.+|.++|++.+.+++..+
T Consensus 286 ~~~L~~kL~~~~~~~~~~~ 304 (367)
T PRK00578 286 MKMLKAKLYELELEKRAAE 304 (367)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 9999999999988777554
No 27
>PRK00591 prfA peptide chain release factor 1; Validated
Probab=99.83 E-value=8.2e-21 Score=175.83 Aligned_cols=90 Identities=31% Similarity=0.349 Sum_probs=82.4
Q ss_pred cccccccceeccCCC-CCccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEechh---hhhcchHHHHHHHH
Q psy1690 127 IIAFREPCTTLPSSC-PAVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVYNVA---EFMSGGAMLHELIS 202 (218)
Q Consensus 127 v~~w~~~V~v~p~~~-~~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~---~~~n~~~al~~l~~ 202 (218)
.-+|+++|+++|.++ ..+.|+++|++|+++||||||||||||++|+||++|.||||.|.|++ ++.|++.||.+|..
T Consensus 198 ~~tsfa~V~v~P~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptGi~v~~~~eRSQ~~Nk~~Al~~L~~ 277 (359)
T PRK00591 198 IHTSAATVAVLPEAEEVEVEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRA 277 (359)
T ss_pred eecceEEEEEEcCCCccccccCcccEEEEEEECCCCCCCCccceeeeEEEEECCCcEEEEECCcCCHHHHHHHHHHHHHH
Confidence 347889999999996 57899999999999999999999999999999999999999999984 59999999999999
Q ss_pred HHHHHHHHHHHHhh
Q psy1690 203 DIRQHDYQFRIDQL 216 (218)
Q Consensus 203 ~l~~~~~~~r~~~~ 216 (218)
+|++.+.+++..+.
T Consensus 278 ~L~~~~~~~~~~~~ 291 (359)
T PRK00591 278 RLYDAERQKAQAEE 291 (359)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999988776653
No 28
>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=99.83 E-value=8.5e-21 Score=149.84 Aligned_cols=73 Identities=25% Similarity=0.333 Sum_probs=65.8
Q ss_pred CCccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEechh---hhhcchHHHHHHHHHHHHHHHHHHHH
Q psy1690 142 PAVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVYNVA---EFMSGGAMLHELISDIRQHDYQFRID 214 (218)
Q Consensus 142 ~~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~---~~~n~~~al~~l~~~l~~~~~~~r~~ 214 (218)
..+.|+++||+|+|+||||||||||||++|+|+|+|+||||.|.|.+ +..|++.||..|.++|.+...+.+-.
T Consensus 5 ~~~~i~~~dl~~~~~RssGpGGQ~VNk~~s~V~l~h~ptgi~v~~~~~Rsq~~Nr~~A~~~L~~~l~~~~~~~~~~ 80 (113)
T PF00472_consen 5 KEIDIPEKDLEISFSRSSGPGGQNVNKTNSKVRLRHIPTGIVVKCQESRSQHQNREDALEKLREKLDEAYREKRRE 80 (113)
T ss_dssp SSSCC-GGGEEEEEEESSSSSSCHHHSSSEEEEEEETTTTEEEEEESSSSHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccCHHHeEEEEEecCCCCCCcccccCCEEEEEEecccEEEEEcccCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47899999999999999999999999999999999999999999985 59999999999999999987554433
No 29
>KOG2726|consensus
Probab=99.81 E-value=3.1e-20 Score=172.34 Aligned_cols=83 Identities=31% Similarity=0.378 Sum_probs=76.3
Q ss_pred cccceeccCC--C-CCccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccceeEechh---hhhcchHHHHHHHHHH
Q psy1690 131 REPCTTLPSS--C-PAVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQRTVYNVA---EFMSGGAMLHELISDI 204 (218)
Q Consensus 131 ~~~V~v~p~~--~-~~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tgi~v~~~~---~~~n~~~al~~l~~~l 204 (218)
.++|.|||.+ + ..+.+|++|++|+++||||||||||||++|+|||+|+||||.|.|++ +++|++-||.+|.++|
T Consensus 227 tasV~ViP~~~~~~~~~~~~~~dl~i~~~R~~G~GGQhvNktdsaVrl~HiPTGIvv~cq~eRSq~~Nr~~A~~~L~akL 306 (386)
T KOG2726|consen 227 TASVAVIPQPGRDEVDVEIDEKDLRIETFRASGPGGQHVNKTDSAVRLTHIPTGIVVECQEERSQHKNRALALKRLRAKL 306 (386)
T ss_pred cceEEEeccCCCCccceecCchheeEEecccCCCCcccccccccceEEEeecCceEEEeecHHhHHhhHHHHHHHHHHHH
Confidence 4689999999 4 58899999999999999999999999999999999999999999996 4999999999999999
Q ss_pred HHHHHHHHH
Q psy1690 205 RQHDYQFRI 213 (218)
Q Consensus 205 ~~~~~~~r~ 213 (218)
++....+..
T Consensus 307 ~~~~~~~~~ 315 (386)
T KOG2726|consen 307 AVIYREEKS 315 (386)
T ss_pred HHHHHhhhh
Confidence 988776544
No 30
>KOG3429|consensus
Probab=99.75 E-value=1.3e-18 Score=145.55 Aligned_cols=73 Identities=32% Similarity=0.516 Sum_probs=66.4
Q ss_pred CcccccCCCCeEEEeeecCCCCCccccccCcceEEEE-------cC-----------------Cc-eEEEEcccCCHHHH
Q psy1690 28 DIEVHLDEKDLKVETKRATGAGGQHVNTTDSAVRMTH-------IP-----------------TG-ISVESQEDRSQIKN 82 (218)
Q Consensus 28 ~~~~~I~~~dl~i~~~RsSGpGGQ~VNkt~saV~l~H-------lP-----------------tG-i~v~~~~~RSQ~~N 82 (218)
.++-.||.+.|++.|+||||||||||||++|+|.+++ || .| |++.++.+|||+.|
T Consensus 32 ~~~g~ipld~~~i~y~RSSGPGGQNVNKvNTKv~vrf~vs~a~Wipe~~R~~~~~~~~~rink~gelvI~Sd~TRsq~~N 111 (172)
T KOG3429|consen 32 HFKGKIPLDQLEISYSRSSGPGGQNVNKVNTKVEVRFKVSNAEWIPEFLRNKLLTTEKNRINKDGELVIYSDKTRSQHKN 111 (172)
T ss_pred ccCCCCchhheEEEEeecCCCCCcccccccceEEEEEecchhhhccHHHHHHHHHHHHHhhccCccEEEecchhHHhhcc
Confidence 4677899999999999999999999999999999984 66 23 99999999999999
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy1690 83 RANALAKLKRLIYEIQFE 100 (218)
Q Consensus 83 k~~A~~~L~~~L~~~~~~ 100 (218)
.++||++|+..|+++...
T Consensus 112 iaDcleKlr~~I~~~~~~ 129 (172)
T KOG3429|consen 112 IADCLEKLRDIIRAAEQT 129 (172)
T ss_pred HHHHHHHHHHHHHHHhcC
Confidence 999999999999988654
No 31
>PRK09256 hypothetical protein; Provisional
Probab=99.65 E-value=1.6e-16 Score=130.14 Aligned_cols=71 Identities=21% Similarity=0.188 Sum_probs=62.1
Q ss_pred CCCCCccccCCCeEEEEEeecCCCCCcccccCCceeeee------ec-----------------cc-eeEechh---hhh
Q psy1690 139 SSCPAVHLEEKDLKVETKRATGAGGQHVNTTDSADRITD------HR-----------------IQ-RTVYNVA---EFM 191 (218)
Q Consensus 139 ~~~~~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h------~~-----------------tg-i~v~~~~---~~~ 191 (218)
.+.+.+.|+++|++++|+||||||||||||++|+|+|+| +| .| +.+.|.+ +..
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 345778999999999999999999999999999999996 44 24 8888885 599
Q ss_pred cchHHHHHHHHHHHHHHH
Q psy1690 192 SGGAMLHELISDIRQHDY 209 (218)
Q Consensus 192 n~~~al~~l~~~l~~~~~ 209 (218)
|+++||+.|.+.|.+...
T Consensus 83 Nr~~al~kL~~~i~~~~~ 100 (138)
T PRK09256 83 NREDALERLVALIREALK 100 (138)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 999999999999987653
No 32
>KOG3429|consensus
Probab=99.04 E-value=3.8e-10 Score=94.90 Aligned_cols=67 Identities=19% Similarity=0.281 Sum_probs=52.3
Q ss_pred CccccCCCeEEEEEeecCCCCCcccccCCceeeeeeccc-------------------------eeEech---hhhhcch
Q psy1690 143 AVHLEEKDLKVETKRATGAGGQHVNTTDSADRITDHRIQ-------------------------RTVYNV---AEFMSGG 194 (218)
Q Consensus 143 ~~~i~~~d~~i~~~rssGpGgQ~vNk~~s~vrv~h~~tg-------------------------i~v~~~---~~~~n~~ 194 (218)
.-.|+.+.++++|.||||||||||||++|.|.|+.+-.. +.+.+. ++++|-+
T Consensus 34 ~g~ipld~~~i~y~RSSGPGGQNVNKvNTKv~vrf~vs~a~Wipe~~R~~~~~~~~~rink~gelvI~Sd~TRsq~~Nia 113 (172)
T KOG3429|consen 34 KGKIPLDQLEISYSRSSGPGGQNVNKVNTKVEVRFKVSNAEWIPEFLRNKLLTTEKNRINKDGELVIYSDKTRSQHKNIA 113 (172)
T ss_pred CCCCchhheEEEEeecCCCCCcccccccceEEEEEecchhhhccHHHHHHHHHHHHHhhccCccEEEecchhHHhhccHH
Confidence 446788999999999999999999999999999863111 222332 3588999
Q ss_pred HHHHHHHHHHHHHHH
Q psy1690 195 AMLHELISDIRQHDY 209 (218)
Q Consensus 195 ~al~~l~~~l~~~~~ 209 (218)
++|+.|.+.|++.++
T Consensus 114 DcleKlr~~I~~~~~ 128 (172)
T KOG3429|consen 114 DCLEKLRDIIRAAEQ 128 (172)
T ss_pred HHHHHHHHHHHHHhc
Confidence 999999888887654
No 33
>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=52.62 E-value=87 Score=22.69 Aligned_cols=55 Identities=20% Similarity=0.280 Sum_probs=33.1
Q ss_pred CeEEEeeecCCCCCccccccCcceEEE-EcCCceEEEEcccCCHHHHHHHHHHHHHHHHHHH
Q psy1690 37 DLKVETKRATGAGGQHVNTTDSAVRMT-HIPTGISVESQEDRSQIKNRANALAKLKRLIYEI 97 (218)
Q Consensus 37 dl~i~~~RsSGpGGQ~VNkt~saV~l~-HlPtGi~v~~~~~RSQ~~Nk~~A~~~L~~~L~~~ 97 (218)
.+++.+..-.+||+.. .|+++ ++|.+.++...+.-+-+.--..|+++|...|...
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 3455555544443333 36664 7885555555556677777777777777777654
No 34
>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=48.30 E-value=1.5e+02 Score=24.05 Aligned_cols=33 Identities=24% Similarity=0.244 Sum_probs=30.1
Q ss_pred Cc-eEEEEcccCCHHHHHHHHHHHHHHHHHHHHH
Q psy1690 67 TG-ISVESQEDRSQIKNRANALAKLKRLIYEIQF 99 (218)
Q Consensus 67 tG-i~v~~~~~RSQ~~Nk~~A~~~L~~~L~~~~~ 99 (218)
+| |.+.|+..-++.+|+.-|...|..++.++..
T Consensus 60 ~d~l~i~sdr~~~~~qN~~~l~~~l~~L~~EA~~ 93 (127)
T PF10213_consen 60 TDILKISSDRFPTRAQNKKYLSDLLTRLIHEAKD 93 (127)
T ss_pred CCEEEEecccCCCHHHHHHHHHHHHHHHHHHHhh
Confidence 45 7899999999999999999999999999866
No 35
>KOG1697|consensus
Probab=35.81 E-value=29 Score=31.80 Aligned_cols=30 Identities=23% Similarity=0.350 Sum_probs=19.7
Q ss_pred CCCCceEEeeeEEEEeCCCCCcccccCCCCeE
Q psy1690 8 EKSGRLHTSTVSVAVLPQPKDIEVHLDEKDLK 39 (218)
Q Consensus 8 ~~~~~~~ts~asV~V~P~~~~~~~~I~~~dl~ 39 (218)
...||+.+|.|.|.|.|=- -.+.|+-.|+.
T Consensus 152 ~~~g~rK~a~A~V~v~~Gt--Gk~~vNg~~~~ 181 (275)
T KOG1697|consen 152 IAVGRRKCARATVKVQPGT--GKFDVNGRDLD 181 (275)
T ss_pred eeccceecceeEEEEecCc--eeEEecchhHH
Confidence 3458999999999996643 23344444443
No 36
>PF02482 Ribosomal_S30AE: Sigma 54 modulation protein / S30EA ribosomal protein; InterPro: IPR003489 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 family contains the sigma-54 modulation protein family and the S30Ae family of ribosomal proteins which includes the light-repressed protein (lrtA) [].; GO: 0005488 binding, 0044238 primary metabolic process; PDB: 1L4S_A 1VOX_a 1VOV_a 3V2E_Y 3V2C_Y 1N3G_A 1VOS_a 1VOZ_a 1VOQ_a 1IMU_A ....
Probab=31.75 E-value=1.9e+02 Score=20.96 Aligned_cols=37 Identities=19% Similarity=0.353 Sum_probs=22.6
Q ss_pred eEEEEcCCceEEEEcccCCHHHHHHHHHHHHHHHHHHH
Q psy1690 60 VRMTHIPTGISVESQEDRSQIKNRANALAKLKRLIYEI 97 (218)
Q Consensus 60 V~l~HlPtGi~v~~~~~RSQ~~Nk~~A~~~L~~~L~~~ 97 (218)
+.| +.|.+.++.....-.-..--..|+++|...|...
T Consensus 54 i~i-~~~~~~l~a~~~~~d~~~Aid~a~dkl~rql~k~ 90 (97)
T PF02482_consen 54 ITI-HVPGHVLVAEESAEDLYAAIDEAFDKLERQLRKY 90 (97)
T ss_dssp EEE-EETTEEEEEEEEESSHHHHHHHHHHHHHHHHHHH
T ss_pred EEE-EeCCceEEEEEecCCHHHHHHHHHHHHHHHHHHH
Confidence 444 7777755544455566666667777776666543
No 37
>smart00472 MIR Domain in ryanodine and inositol trisphosphate receptors and protein O-mannosyltransferases.
Probab=28.83 E-value=60 Score=21.47 Aligned_cols=24 Identities=29% Similarity=0.469 Sum_probs=19.0
Q ss_pred ccCcceEEEEcCCceEEEEcccCC
Q psy1690 55 TTDSAVRMTHIPTGISVESQEDRS 78 (218)
Q Consensus 55 kt~saV~l~HlPtGi~v~~~~~RS 78 (218)
+..+.|||.|+-||--+.+++.+.
T Consensus 5 ~~g~~vrL~H~~tg~yL~s~~~~~ 28 (57)
T smart00472 5 RWGDVVRLRHVTTGRYLHSHENKL 28 (57)
T ss_pred ccCCEEEEEEhhhCcEeecCCCCC
Confidence 456889999999997777777653
No 38
>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=25.13 E-value=1.3e+02 Score=24.86 Aligned_cols=38 Identities=34% Similarity=0.531 Sum_probs=29.0
Q ss_pred EeeecCCCCCccccccCcceEEEEcCCceEEEEcccCC
Q psy1690 41 ETKRATGAGGQHVNTTDSAVRMTHIPTGISVESQEDRS 78 (218)
Q Consensus 41 ~~~RsSGpGGQ~VNkt~saV~l~HlPtGi~v~~~~~RS 78 (218)
+..-..|.++..+-..+|.++|.|..||..+.++..+.
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 34445566778887788999999999998887776543
No 39
>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=23.28 E-value=1.2e+02 Score=20.40 Aligned_cols=39 Identities=15% Similarity=0.360 Sum_probs=22.7
Q ss_pred CCCCcccccc--CcceEEEEcC----Cc-eEEEEcccCCHHHHHHHHHHHH
Q psy1690 47 GAGGQHVNTT--DSAVRMTHIP----TG-ISVESQEDRSQIKNRANALAKL 90 (218)
Q Consensus 47 GpGGQ~VNkt--~saV~l~HlP----tG-i~v~~~~~RSQ~~Nk~~A~~~L 90 (218)
|+||.++++- ++.|.|..-+ .+ +++... ..+-..|..+|
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 8999999953 3667765544 34 344443 23555555544
No 40
>smart00322 KH K homology RNA-binding domain.
Probab=22.81 E-value=1.7e+02 Score=18.77 Aligned_cols=45 Identities=20% Similarity=0.332 Sum_probs=26.2
Q ss_pred CCCCcccccc--CcceEEEEcCCc---eEEEEcccCCHHHHHHHHHHHHHHHH
Q psy1690 47 GAGGQHVNTT--DSAVRMTHIPTG---ISVESQEDRSQIKNRANALAKLKRLI 94 (218)
Q Consensus 47 GpGGQ~VNkt--~saV~l~HlPtG---i~v~~~~~RSQ~~Nk~~A~~~L~~~L 94 (218)
|++|.++..- .+.+.+.-.+.+ -.+..... ..+...|...|...+
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 7899888743 345554433321 23333333 468888888877654
Done!