Query psy2490
Match_columns 64
No_of_seqs 133 out of 1099
Neff 4.9
Searched_HMMs 46136
Date Fri Aug 16 17:34:35 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2490.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2490hhsearch_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 99.9 6E-28 1.3E-32 178.3 4.4 60 4-64 197-256 (363)
2 COG1186 PrfB Protein chain rel 99.9 6.1E-27 1.3E-31 165.8 5.6 62 2-64 82-143 (239)
3 PRK05589 peptide chain release 99.9 3E-26 6.4E-31 167.5 6.0 60 4-64 170-229 (325)
4 PRK08787 peptide chain release 99.9 2.6E-26 5.6E-31 167.3 5.3 60 4-64 150-209 (313)
5 PRK07342 peptide chain release 99.9 5.8E-26 1.3E-30 166.8 6.1 60 4-64 173-232 (339)
6 PRK06746 peptide chain release 99.9 6.1E-26 1.3E-30 166.0 5.1 60 4-64 171-230 (326)
7 TIGR00019 prfA peptide chain r 99.9 1.7E-25 3.7E-30 165.2 6.1 59 4-64 196-254 (360)
8 TIGR00020 prfB peptide chain r 99.9 2.6E-25 5.6E-30 164.3 6.0 60 4-64 209-268 (364)
9 PRK00578 prfB peptide chain re 99.9 3.7E-25 8.1E-30 163.5 5.6 60 4-64 209-268 (367)
10 PRK00591 prfA peptide chain re 99.9 7E-25 1.5E-29 161.8 6.3 59 4-64 196-254 (359)
11 KOG2726|consensus 99.9 4.9E-25 1.1E-29 164.1 5.0 62 3-64 220-281 (386)
12 TIGR03072 release_prfH putativ 99.9 1.4E-24 3E-29 150.2 5.4 55 4-64 85-139 (200)
13 PRK08179 prfH peptide chain re 99.9 1.4E-24 3.1E-29 150.1 4.5 55 4-64 86-140 (200)
14 PF00472 RF-1: RF-1 domain; I 99.8 4.5E-22 9.7E-27 126.3 3.3 43 22-64 3-45 (113)
15 PRK09256 hypothetical protein; 99.7 3.6E-17 7.8E-22 107.8 3.3 38 22-59 4-41 (138)
16 KOG3429|consensus 99.3 1.3E-12 2.9E-17 89.2 3.8 36 25-60 34-69 (172)
17 KOG1697|consensus 71.9 3.4 7.4E-05 30.5 2.3 15 3-17 154-168 (275)
18 PF02815 MIR: MIR domain; Int 58.4 28 0.0006 22.9 4.5 29 35-63 121-149 (190)
19 smart00472 MIR Domain in ryano 54.5 11 0.00023 20.0 1.7 13 51-63 6-18 (57)
20 PF13014 KH_3: KH domain 37.3 12 0.00027 19.1 0.2 20 42-61 7-28 (43)
21 PF02817 E3_binding: e3 bindin 31.3 4.7 0.0001 21.2 -2.1 17 31-47 16-32 (39)
22 cd04911 ACT_AKiii-YclM-BS_1 AC 29.8 23 0.0005 21.2 0.5 11 54-64 29-39 (76)
23 cd02406 CRS2 Chloroplast RNA s 28.2 43 0.00093 23.1 1.7 21 25-47 93-113 (191)
24 COG0193 Pth Peptidyl-tRNA hydr 27.2 51 0.0011 23.1 1.9 23 24-48 93-115 (190)
25 PF08399 VWA_N: VWA N-terminal 26.3 46 0.00099 21.4 1.5 18 44-64 55-72 (123)
26 PRK04293 adenylosuccinate synt 25.7 1E+02 0.0022 23.3 3.4 33 30-64 28-61 (333)
27 PHA00437 tail assembly protein 20.5 68 0.0015 20.3 1.4 12 35-47 82-93 (94)
No 1
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=6e-28 Score=178.26 Aligned_cols=60 Identities=33% Similarity=0.423 Sum_probs=57.1
Q ss_pred eeeEeCceeEEEeecccCCCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 4 ~r~~tS~a~V~V~~~~l~~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
.|+|||+|+|.|+ |+.+....++|+++||+|+++||||+||||||+|+|||||+|+||||
T Consensus 197 GRIHTStaTVaVl-PE~ee~~ei~I~~~DlrIDt~RsSGaGGQhVNtTdSAVRiTHlPTGI 256 (363)
T COG0216 197 GRIHTSAATVAVL-PEVEEVEEIEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGI 256 (363)
T ss_pred CceeecceeEEec-cCCCcccccccChHHceeeeeecCCCCCCCcCccchhheeeecCCce
Confidence 4899999999999 88877777999999999999999999999999999999999999997
No 2
>COG1186 PrfB Protein chain release factor B [Translation, ribosomal structure and biogenesis]
Probab=99.93 E-value=6.1e-27 Score=165.82 Aligned_cols=62 Identities=44% Similarity=0.489 Sum_probs=58.4
Q ss_pred ceeeeEeCceeEEEeecccCCCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 2 SIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 2 ~~~r~~tS~a~V~V~~~~l~~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
++.||||||++|.|+ |.+++...++|+++||+++++|||||||||||||+|||+|+|+||||
T Consensus 82 ~~~~R~tsf~~v~v~-p~~~~~i~i~I~~~dl~idt~RASGaGGQhVNKt~SAVrlth~ptgi 143 (239)
T COG1186 82 SNGRRHTSFASVEVF-PELDISIEIEIPDDDLRIDTYRASGAGGQHVNKTDSAVRLTHLPTGI 143 (239)
T ss_pred cCcccccceeeeeec-CCCCcccceecCccceEEEEEEcCCCCCCccccccccEEEEEcCCCC
Confidence 457999999999999 77778888999999999999999999999999999999999999996
No 3
>PRK05589 peptide chain release factor 2; Provisional
Probab=99.93 E-value=3e-26 Score=167.47 Aligned_cols=60 Identities=35% Similarity=0.418 Sum_probs=55.7
Q ss_pred eeeEeCceeEEEeecccCCCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 4 ~r~~tS~a~V~V~~~~l~~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
.||||||++|+|+ |..+...++.|+++||+|+++|||||||||||||+|+|||+|+||||
T Consensus 170 ~rr~ts~a~V~Vl-P~~~~~~~~~i~~~dl~~~~~rssG~GGQ~VNkt~saVrl~H~ptgi 229 (325)
T PRK05589 170 GKRQTSFASVEVL-PELTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGI 229 (325)
T ss_pred CCeEeeeEEEEEe-cCcCccccccCCchheEEEEeeCCCCCCCcccceeeEEEEEECCCCE
Confidence 5899999999999 66665557899999999999999999999999999999999999997
No 4
>PRK08787 peptide chain release factor 2; Provisional
Probab=99.93 E-value=2.6e-26 Score=167.33 Aligned_cols=60 Identities=38% Similarity=0.561 Sum_probs=56.2
Q ss_pred eeeEeCceeEEEeecccCCCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 4 ~r~~tS~a~V~V~~~~l~~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
.|||||||+|+|+ |.++...+++|+++||+|+++|||||||||||||+|+|||+|+||||
T Consensus 150 ~rrhTsfasV~V~-P~~~~~~~i~i~~~dl~~~~~RssG~GGQ~VNkt~saVri~H~Ptgi 209 (313)
T PRK08787 150 NRRHTSFTSVFVS-PEVDDNIEIDINPADLRTDVYRSSGAGGQHVNKTESAVRITHIPTNT 209 (313)
T ss_pred CCEEeeeEEEEEe-cCcCcccccccChhHeEEEEEECCCCCCCCcCCEeeEEEEEECCCcE
Confidence 5899999999999 67766667899999999999999999999999999999999999997
No 5
>PRK07342 peptide chain release factor 2; Provisional
Probab=99.92 E-value=5.8e-26 Score=166.79 Aligned_cols=60 Identities=38% Similarity=0.481 Sum_probs=55.6
Q ss_pred eeeEeCceeEEEeecccCCCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 4 ~r~~tS~a~V~V~~~~l~~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
.|||||||+|+|+ |.++...+++|+++||+++++|||||||||||||+|+|||+|+||||
T Consensus 173 ~rrhTs~a~V~Vl-P~~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptgi 232 (339)
T PRK07342 173 ARRHTSFASIWVY-PVIDDNIEVDVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGI 232 (339)
T ss_pred CCeEeEEEEEEEE-cCCCcccccccCcccEEEEEEECCCCCCCCccceeeeEEEEEcCCcE
Confidence 5899999999999 66665557889999999999999999999999999999999999996
No 6
>PRK06746 peptide chain release factor 2; Provisional
Probab=99.92 E-value=6.1e-26 Score=166.00 Aligned_cols=60 Identities=32% Similarity=0.436 Sum_probs=56.2
Q ss_pred eeeEeCceeEEEeecccCCCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 4 ~r~~tS~a~V~V~~~~l~~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
.|||||||+|+|+ |.++...+++|+++||+++++|||||||||||||+|||||+|+||||
T Consensus 171 ~rrhTsfa~V~v~-P~~~~~~~i~i~~~dl~~~~~rssG~GGQ~vNkt~saVrl~h~ptgi 230 (326)
T PRK06746 171 GRRHTSFVSCEVV-PEFNDEVEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNT 230 (326)
T ss_pred CCeEeeEEEEEEe-cCcCCccccccChHHeEEEEEeCCCCCCCCccceeeEEEEEEeCCeE
Confidence 6999999999999 67765677899999999999999999999999999999999999997
No 7
>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=99.92 E-value=1.7e-25 Score=165.17 Aligned_cols=59 Identities=34% Similarity=0.415 Sum_probs=54.2
Q ss_pred eeeEeCceeEEEeecccCCCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 4 ~r~~tS~a~V~V~~~~l~~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
.|+||||++|+|+ |.++. ..+.|+++||+|+++|||||||||||||+|||||+|+||||
T Consensus 196 ~R~hTsfa~V~v~-P~~~~-~~~~i~~~dl~~~~~RssG~GGQ~VNkt~SaVrl~h~ptgi 254 (360)
T TIGR00019 196 GRIHTSAATVAVM-PELEE-VEVDINPADLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGI 254 (360)
T ss_pred CCeecceeEEEEE-cCCCc-cccccCcccEEEEEEECCCCCCCCcCceeeeEEEEECCCcE
Confidence 5999999999999 56554 45789999999999999999999999999999999999997
No 8
>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=99.92 E-value=2.6e-25 Score=164.31 Aligned_cols=60 Identities=40% Similarity=0.497 Sum_probs=55.6
Q ss_pred eeeEeCceeEEEeecccCCCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 4 ~r~~tS~a~V~V~~~~l~~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
.|+|||||+|+|+ |..+...+++|+++||+++++|||||||||||||+|+|||+|+||||
T Consensus 209 ~rrhts~a~V~vl-P~~~~~~~~~i~~~d~~~~~~rssG~GGQ~VNkt~saVri~H~ptgi 268 (364)
T TIGR00020 209 GRRHTSFASVFVM-PEVDDDIDIEIKPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGI 268 (364)
T ss_pred CCeEeeeEEEEEe-cCCCcccceecccccEEEEEeeCCCCCCccccccceEEEEEECCCcE
Confidence 5899999999999 66655567899999999999999999999999999999999999997
No 9
>PRK00578 prfB peptide chain release factor 2; Validated
Probab=99.91 E-value=3.7e-25 Score=163.51 Aligned_cols=60 Identities=42% Similarity=0.501 Sum_probs=55.7
Q ss_pred eeeEeCceeEEEeecccCCCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 4 ~r~~tS~a~V~V~~~~l~~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
.|+||||++|+|+ |..+....+.|+++||+++++|||||||||||||+|+|||+|+||||
T Consensus 209 ~r~hts~~~V~vl-P~~~~~~~~~i~~~dl~~~~~rssGpGGQ~vNkt~saVrl~h~ptgi 268 (367)
T PRK00578 209 GRRHTSFASVEVY-PEVDDTIEIEINPKDLRIDTYRSSGAGGQHVNKTDSAVRITHIPTGI 268 (367)
T ss_pred CceecceeeEEec-CCCCCccccccChhhEEEEEeeCCCCCCCcccceeeEEEEEECCCcE
Confidence 5899999999999 67665557789999999999999999999999999999999999997
No 10
>PRK00591 prfA peptide chain release factor 1; Validated
Probab=99.91 E-value=7e-25 Score=161.80 Aligned_cols=59 Identities=34% Similarity=0.407 Sum_probs=54.3
Q ss_pred eeeEeCceeEEEeecccCCCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 4 ~r~~tS~a~V~V~~~~l~~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
.|+||||++|+|+ |.++. ..+.|+++||+++++|||||||||||||+|+|||+|+||||
T Consensus 196 ~R~~tsfa~V~v~-P~~~~-~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptGi 254 (359)
T PRK00591 196 GRIHTSAATVAVL-PEAEE-VEVEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGI 254 (359)
T ss_pred CceecceEEEEEE-cCCCc-cccccCcccEEEEEEECCCCCCCCccceeeeEEEEECCCcE
Confidence 5899999999999 56554 37889999999999999999999999999999999999997
No 11
>KOG2726|consensus
Probab=99.91 E-value=4.9e-25 Score=164.13 Aligned_cols=62 Identities=45% Similarity=0.475 Sum_probs=55.9
Q ss_pred eeeeEeCceeEEEeecccCCCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 3 IFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 3 ~~r~~tS~a~V~V~~~~l~~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
..|+|||+|+|.|+|........+.++++||+++++||||||||||||++|||||+|+||||
T Consensus 220 ~gr~htstasV~ViP~~~~~~~~~~~~~~dl~i~~~R~~G~GGQhvNktdsaVrl~HiPTGI 281 (386)
T KOG2726|consen 220 SGRRHTSTASVAVIPQPGRDEVDVEIDEKDLRIETFRASGPGGQHVNKTDSAVRLTHIPTGI 281 (386)
T ss_pred ccccccccceEEEeccCCCCccceecCchheeEEecccCCCCcccccccccceEEEeecCce
Confidence 35899999999999433446677889999999999999999999999999999999999997
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=99.90 E-value=1.4e-24 Score=150.24 Aligned_cols=55 Identities=31% Similarity=0.381 Sum_probs=50.3
Q ss_pred eeeEeCceeEEEeecccCCCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 4 ~r~~tS~a~V~V~~~~l~~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
.+|||||++|+|+| . .++|+++||+++++|||||||||||||+|+|+|+|+||||
T Consensus 85 ~~R~ts~~~V~v~~-~-----~~~i~~~dl~~~~~RssGpGGQ~vNkt~saVrl~h~ptgi 139 (200)
T TIGR03072 85 HRRKNWFIGVQRFS-A-----SEEATEDEIRFETLRSSGPGGQHVNKTESAVRATHLASGI 139 (200)
T ss_pred CCeeEEEEEEEEec-C-----ccccChhheEEEEEECCCCCcccccccceeEEEEECCCcE
Confidence 36899999999994 1 3579999999999999999999999999999999999997
No 13
>PRK08179 prfH peptide chain release factor-like protein; Reviewed
Probab=99.90 E-value=1.4e-24 Score=150.14 Aligned_cols=55 Identities=27% Similarity=0.300 Sum_probs=50.3
Q ss_pred eeeEeCceeEEEeecccCCCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 4 ~r~~tS~a~V~V~~~~l~~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
.+|||||++|+|++ . +++|+++||+++|+|||||||||||||+|+|+|+|+||||
T Consensus 86 ~~R~~s~~~V~v~~-~-----~~~i~~~dl~~~~~RssGpGGQ~VNkt~saVrl~h~ptgi 140 (200)
T PRK08179 86 HGRKNWFVGIGRFS-A-----DEEEQSDEIRFETLRSSGPGGQHVNKTDSAVRATHLASGI 140 (200)
T ss_pred CCceEEEEEEEEeC-C-----cCccCHHHeEEEEEEccCCcccccccccceEEEEEcCCcE
Confidence 46899999999994 2 3479999999999999999999999999999999999997
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=99.85 E-value=4.5e-22 Score=126.32 Aligned_cols=43 Identities=53% Similarity=0.706 Sum_probs=39.5
Q ss_pred CCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEecCCCC
Q psy2490 22 YSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 22 ~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ptgi 64 (64)
....+.|+++||+++|+||||||||||||++|+|+|+|+||||
T Consensus 3 ~~~~~~i~~~dl~~~~~RssGpGGQ~VNk~~s~V~l~h~ptgi 45 (113)
T PF00472_consen 3 KEKEIDIPEKDLEISFSRSSGPGGQNVNKTNSKVRLRHIPTGI 45 (113)
T ss_dssp TSSSSCC-GGGEEEEEEESSSSSSCHHHSSSEEEEEEETTTTE
T ss_pred cccccccCHHHeEEEEEecCCCCCCcccccCCEEEEEEecccE
Confidence 4567899999999999999999999999999999999999995
No 15
>PRK09256 hypothetical protein; Provisional
Probab=99.67 E-value=3.6e-17 Score=107.82 Aligned_cols=38 Identities=39% Similarity=0.645 Sum_probs=35.1
Q ss_pred CCCCCccCCCCeEEEEEeecCCCcccccccCCeEEEEe
Q psy2490 22 YSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTH 59 (64)
Q Consensus 22 ~~~~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h 59 (64)
...+++|+++||+++|+|||||||||||||+|+|+|+|
T Consensus 4 ~~~~~~i~~~~l~~~~~RSSGPGGQ~VNKt~SkV~l~~ 41 (138)
T PRK09256 4 ITRRLVIPENELEWRFIRASGPGGQNVNKVSTAVELRF 41 (138)
T ss_pred cCccCccCHHHeEEEEEEcCCCCcccccccceeeEEEe
Confidence 34567899999999999999999999999999999997
No 16
>KOG3429|consensus
Probab=99.32 E-value=1.3e-12 Score=89.25 Aligned_cols=36 Identities=36% Similarity=0.494 Sum_probs=32.8
Q ss_pred CCccCCCCeEEEEEeecCCCcccccccCCeEEEEec
Q psy2490 25 VPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHI 60 (64)
Q Consensus 25 ~~~i~~~dl~~~~~rssGpGGQ~vNk~~s~V~l~h~ 60 (64)
...|+.+.++++|.||||||||||||++|+|.+++.
T Consensus 34 ~g~ipld~~~i~y~RSSGPGGQNVNKvNTKv~vrf~ 69 (172)
T KOG3429|consen 34 KGKIPLDQLEISYSRSSGPGGQNVNKVNTKVEVRFK 69 (172)
T ss_pred CCCCchhheEEEEeecCCCCCcccccccceEEEEEe
Confidence 346888999999999999999999999999999963
No 17
>KOG1697|consensus
Probab=71.94 E-value=3.4 Score=30.49 Aligned_cols=15 Identities=20% Similarity=0.160 Sum_probs=12.2
Q ss_pred eeeeEeCceeEEEee
Q psy2490 3 IFRRHLSLASSLFRK 17 (64)
Q Consensus 3 ~~r~~tS~a~V~V~~ 17 (64)
.-||.+|.|.|.|.+
T Consensus 154 ~g~rK~a~A~V~v~~ 168 (275)
T KOG1697|consen 154 VGRRKCARATVKVQP 168 (275)
T ss_pred ccceecceeEEEEec
Confidence 357899999999963
No 18
>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=58.40 E-value=28 Score=22.88 Aligned_cols=29 Identities=17% Similarity=0.249 Sum_probs=21.9
Q ss_pred EEEEeecCCCcccccccCCeEEEEecCCC
Q psy2490 35 ERFVRGSGPGGQAVAKTNNCVVLTHIPTD 63 (64)
Q Consensus 35 ~~~~rssGpGGQ~vNk~~s~V~l~h~ptg 63 (64)
++..-..|.++..+-.-++.+||+|..||
T Consensus 121 ~~~~~~~~~~~~~~~~~~s~frL~H~~t~ 149 (190)
T PF02815_consen 121 FEEKSSTGMGEDEIKTLDSYFRLRHVATG 149 (190)
T ss_dssp EEEEESSSCSSSSBBBTTSEEEEEETTTT
T ss_pred EEecccCCccCCcEEecccEEEEEECCcC
Confidence 33333456667788788999999999987
No 19
>smart00472 MIR Domain in ryanodine and inositol trisphosphate receptors and protein O-mannosyltransferases.
Probab=54.50 E-value=11 Score=20.03 Aligned_cols=13 Identities=31% Similarity=0.414 Sum_probs=10.7
Q ss_pred cCCeEEEEecCCC
Q psy2490 51 TNNCVVLTHIPTD 63 (64)
Q Consensus 51 ~~s~V~l~h~ptg 63 (64)
-.+.|||+|.-||
T Consensus 6 ~g~~vrL~H~~tg 18 (57)
T smart00472 6 WGDVVRLRHVTTG 18 (57)
T ss_pred cCCEEEEEEhhhC
Confidence 3588999999887
No 20
>PF13014 KH_3: KH domain
Probab=37.34 E-value=12 Score=19.07 Aligned_cols=20 Identities=20% Similarity=0.479 Sum_probs=12.0
Q ss_pred CCCccccc--ccCCeEEEEecC
Q psy2490 42 GPGGQAVA--KTNNCVVLTHIP 61 (64)
Q Consensus 42 GpGGQ~vN--k~~s~V~l~h~p 61 (64)
|++|+++| ..++.|+|...+
T Consensus 7 G~~G~~I~~I~~~tg~~I~i~~ 28 (43)
T PF13014_consen 7 GKGGSTIKEIREETGAKIQIPP 28 (43)
T ss_pred CCCChHHHHHHHHhCcEEEECC
Confidence 67777777 344556655433
No 21
>PF02817 E3_binding: e3 binding domain; InterPro: IPR004167 A small domain of the E2 subunit of 2-oxo-acid dehydrogenases that is responsible for the binding of the E3 subunit. Proteins containing this domain include the branched-chain alpha-keto acid dehydrogenase complex of bacteria, which catalyses the overall conversion of alpha-keto acids to acyl-CoA and carbon dioxide; and the E-3 binding protein of eukaryotic pyruvate dehydrogenase.; GO: 0016746 transferase activity, transferring acyl groups, 0008152 metabolic process; PDB: 1BBL_A 1W4H_A 1BAL_A 2WXC_A 2BTH_A 2BTG_A 2CYU_A 2EQ7_C 2EQ8_C 3RNM_E ....
Probab=31.34 E-value=4.7 Score=21.24 Aligned_cols=17 Identities=41% Similarity=0.777 Sum_probs=10.9
Q ss_pred CCeEEEEEeecCCCccc
Q psy2490 31 KDIQERFVRGSGPGGQA 47 (64)
Q Consensus 31 ~dl~~~~~rssGpGGQ~ 47 (64)
..+.++.+.++||+|+-
T Consensus 16 ~gidl~~v~gtG~~GrI 32 (39)
T PF02817_consen 16 LGIDLSQVKGTGPGGRI 32 (39)
T ss_dssp TT--GGGSSSSSTTSBB
T ss_pred cCCCcccccccCCCCcE
Confidence 44455577899999864
No 22
>cd04911 ACT_AKiii-YclM-BS_1 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Bacillus subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from Bacillus subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.83 E-value=23 Score=21.15 Aligned_cols=11 Identities=18% Similarity=0.483 Sum_probs=7.6
Q ss_pred eEEEEecCCCC
Q psy2490 54 CVVLTHIPTDS 64 (64)
Q Consensus 54 ~V~l~h~ptgi 64 (64)
.+.+-|+||||
T Consensus 29 ~is~Eh~PSGI 39 (76)
T cd04911 29 GISYEHMPSGI 39 (76)
T ss_pred CCCEeeecCCC
Confidence 34566888886
No 23
>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=28.18 E-value=43 Score=23.14 Aligned_cols=21 Identities=10% Similarity=0.117 Sum_probs=14.8
Q ss_pred CCccCCCCeEEEEEeecCCCccc
Q psy2490 25 VPKIDEKDIQERFVRGSGPGGQA 47 (64)
Q Consensus 25 ~~~i~~~dl~~~~~rssGpGGQ~ 47 (64)
+++++...++++ .+||+||+|
T Consensus 93 dldl~~G~irlk--~gGs~gGHN 113 (191)
T cd02406 93 DMSLPNGVLRLQ--PKGGHGRHN 113 (191)
T ss_pred CCCCCCCeEEEc--CCCCCCCcC
Confidence 455666666666 578889876
No 24
>COG0193 Pth Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=27.17 E-value=51 Score=23.07 Aligned_cols=23 Identities=17% Similarity=0.388 Sum_probs=16.4
Q ss_pred CCCccCCCCeEEEEEeecCCCcccc
Q psy2490 24 KVPKIDEKDIQERFVRGSGPGGQAV 48 (64)
Q Consensus 24 ~~~~i~~~dl~~~~~rssGpGGQ~v 48 (64)
.+++++...++++. +||.||+|-
T Consensus 93 DdLdl~~G~vrlk~--~Gg~gGHNG 115 (190)
T COG0193 93 DELDLPLGKVRLKL--GGGAGGHNG 115 (190)
T ss_pred eccCCCCceEEEEc--CCCCCCccc
Confidence 34566677777776 888999763
No 25
>PF08399 VWA_N: VWA N-terminal; InterPro: IPR013608 This domain is found at the N terminus of proteins containing von Willebrand factor type A (VWA, IPR002035 from INTERPRO) and Cache (IPR004010 from INTERPRO) domains. It has been found in vertebrates, Drosophila melanogaster (Fruit fly) and Caenorhabditis elegans but has not yet been identified in other eukaryotes. It is probably involved in the function of some voltage-dependent calcium channel subunits [].
Probab=26.29 E-value=46 Score=21.41 Aligned_cols=18 Identities=28% Similarity=0.425 Sum_probs=12.9
Q ss_pred CcccccccCCeEEEEecCCCC
Q psy2490 44 GGQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 44 GGQ~vNk~~s~V~l~h~ptgi 64 (64)
+++.||...++ .|+||+|
T Consensus 55 ~~i~Vn~~~S~---VhiPt~V 72 (123)
T PF08399_consen 55 YNIPVNTSQSA---VHIPTNV 72 (123)
T ss_pred CCcccccccce---EEccCCc
Confidence 45588888886 4778875
No 26
>PRK04293 adenylosuccinate synthetase; Provisional
Probab=25.66 E-value=1e+02 Score=23.30 Aligned_cols=33 Identities=27% Similarity=0.306 Sum_probs=20.5
Q ss_pred CCCeEEEEEeecCCC-cccccccCCeEEEEecCCCC
Q psy2490 30 EKDIQERFVRGSGPG-GQAVAKTNNCVVLTHIPTDS 64 (64)
Q Consensus 30 ~~dl~~~~~rssGpG-GQ~vNk~~s~V~l~h~ptgi 64 (64)
+.|+.+.|- ||+- |-.|-.-..+..+.++|+|+
T Consensus 28 ~~d~VvR~~--GG~NAGHTvv~~g~k~~lhliPSGi 61 (333)
T PRK04293 28 KPSIIARGG--VGPNAGHTVEYNGKKYGLRMIPSGF 61 (333)
T ss_pred CCCEEEEcC--CCCCCCcEEEECCEEEEEEecCccc
Confidence 577777662 2322 33333345677899999996
No 27
>PHA00437 tail assembly protein
Probab=20.50 E-value=68 Score=20.29 Aligned_cols=12 Identities=42% Similarity=0.614 Sum_probs=8.2
Q ss_pred EEEEeecCCCccc
Q psy2490 35 ERFVRGSGPGGQA 47 (64)
Q Consensus 35 ~~~~rssGpGGQ~ 47 (64)
++..|||| ||-|
T Consensus 82 LSVaRSSG-gGiN 93 (94)
T PHA00437 82 LSVARSSG-GGIN 93 (94)
T ss_pred eeEeeccC-CCcC
Confidence 56678888 6654
Done!