Query psy10784
Match_columns 69
No_of_seqs 103 out of 248
Neff 4.7
Searched_HMMs 46136
Date Fri Aug 16 18:26:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10784.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10784hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2232|consensus 100.0 2.2E-29 4.8E-34 198.5 5.8 69 1-69 133-201 (734)
2 PTZ00487 ceramidase; Provision 99.8 2.7E-21 5.8E-26 155.3 6.6 69 1-69 142-210 (715)
3 PF04734 Ceramidase_alk: Neutr 99.8 8.2E-21 1.8E-25 151.3 5.4 69 1-69 104-172 (674)
4 cd05145 RIO1_like RIO kinase f 50.3 33 0.00071 22.5 3.8 50 10-59 112-173 (190)
5 KOG2467|consensus 43.5 31 0.00067 27.8 3.3 31 5-35 401-431 (477)
6 KOG2345|consensus 36.9 32 0.0007 26.3 2.4 26 19-44 131-164 (302)
7 cd05147 RIO1_euk RIO kinase fa 33.3 84 0.0018 20.9 3.8 43 9-51 111-162 (190)
8 smart00750 KIND kinase non-cat 32.9 1E+02 0.0023 19.0 4.0 35 10-44 12-46 (176)
9 PF06743 FAST_1: FAST kinase-l 31.9 39 0.00084 19.7 1.8 36 3-38 4-39 (71)
10 smart00138 MeTrc Methyltransfe 31.6 20 0.00044 25.5 0.6 43 6-48 193-246 (264)
11 TIGR00086 smpB SsrA-binding pr 31.2 15 0.00032 25.2 -0.2 44 25-68 29-74 (144)
12 cd05119 RIO RIO kinase family, 30.5 90 0.002 19.7 3.5 34 15-48 114-154 (187)
13 COG1126 GlnQ ABC-type polar am 30.3 29 0.00062 25.8 1.2 61 3-69 158-233 (240)
14 PRK05422 smpB SsrA-binding pro 28.4 21 0.00045 24.6 0.2 44 25-68 33-78 (148)
15 PF09080 K-cyclin_vir_C: K cyc 27.5 62 0.0013 21.1 2.2 33 8-40 13-45 (106)
16 PRK04439 S-adenosylmethionine 27.1 52 0.0011 26.0 2.2 16 18-33 31-46 (399)
17 PF01941 AdoMet_Synthase: S-ad 26.0 56 0.0012 25.8 2.2 16 18-33 31-46 (396)
18 PRK10858 nitrogen regulatory p 25.8 1.3E+02 0.0028 19.2 3.6 26 18-43 67-94 (112)
19 TIGR03724 arch_bud32 Kae1-asso 25.8 1.3E+02 0.0029 19.2 3.6 30 19-48 94-129 (199)
20 PRK10665 nitrogen regulatory p 25.0 1.4E+02 0.0031 19.0 3.6 26 18-43 67-94 (112)
21 COG1812 MetK Archaeal S-adenos 24.8 58 0.0013 25.8 2.0 17 18-34 31-47 (400)
22 PRK01964 4-oxalocrotonate taut 23.8 1.4E+02 0.003 16.4 3.9 39 9-48 9-47 (64)
23 PF06859 Bin3: Bicoid-interact 23.4 79 0.0017 20.7 2.2 26 22-47 21-46 (110)
24 PF07499 RuvA_C: RuvA, C-termi 22.9 72 0.0015 17.1 1.7 19 7-25 10-28 (47)
25 PF11655 DUF2589: Protein of u 22.6 74 0.0016 21.3 2.0 22 17-38 2-23 (169)
26 cd05116 PTKc_Syk Catalytic dom 22.1 1.5E+02 0.0033 19.4 3.5 44 11-54 91-143 (257)
27 COG5014 Predicted Fe-S oxidore 21.8 52 0.0011 24.1 1.2 19 3-21 146-164 (228)
28 PF02582 DUF155: Uncharacteris 21.8 63 0.0014 21.6 1.5 52 16-67 88-155 (175)
29 COG2172 RsbW Anti-sigma regula 21.6 2.1E+02 0.0046 18.9 4.1 29 19-47 44-73 (146)
30 PF00543 P-II: Nitrogen regula 21.2 1.3E+02 0.0028 18.2 2.8 26 19-44 65-92 (102)
31 PLN02557 phosphoribosylformylg 21.2 1.1E+02 0.0024 23.6 3.0 33 7-39 148-180 (379)
No 1
>KOG2232|consensus
Probab=99.96 E-value=2.2e-29 Score=198.52 Aligned_cols=69 Identities=54% Similarity=0.904 Sum_probs=67.9
Q ss_pred CccccccccCCccchhHHHHHHHHHHHHHHHHhcccCceEEeeeeeecCCccCCChHHHhcCCHHHhcC
Q psy10784 1 MDFLFDLNSLGFVPDTFNAMVRGIALSISRAHNNLQEGRLFVSKGELLDANINRSPTAYLQNPEEERMR 69 (69)
Q Consensus 1 ~~~ly~its~Gf~~~~f~aiV~GIv~aI~~Ah~~l~pg~i~~~~g~l~~a~iNRSp~AY~~NP~~Era~ 69 (69)
||++|.+|++||++|+||++|+||.+||++||+||+||+|++++|+|+|++|||||++|++||++||++
T Consensus 133 qy~~y~vtslGFv~QsF~~mv~Gi~~sI~qAhenlrpG~iflnkg~llda~vNRSPssYL~NPa~ERsk 201 (734)
T KOG2232|consen 133 QYVLYIVTSLGFVRQSFDVMVDGIEQSIIQAHENLRPGSIFLNKGELLDAGVNRSPSSYLNNPAEERSK 201 (734)
T ss_pred eeeeeeehhcccchHHHHHHHHHHHHHHHHHHhcCCCCeEEecccceecccccCChhHHhcChHhhhhc
Confidence 799999999999999999999999999999999999999999999999999999999999999999985
No 2
>PTZ00487 ceramidase; Provisional
Probab=99.84 E-value=2.7e-21 Score=155.33 Aligned_cols=69 Identities=42% Similarity=0.768 Sum_probs=66.3
Q ss_pred CccccccccCCccchhHHHHHHHHHHHHHHHHhcccCceEEeeeeeecCCccCCChHHHhcCCHHHhcC
Q psy10784 1 MDFLFDLNSLGFVPDTFNAMVRGIALSISRAHNNLQEGRLFVSKGELLDANINRSPTAYLQNPEEERMR 69 (69)
Q Consensus 1 ~~~ly~its~Gf~~~~f~aiV~GIv~aI~~Ah~~l~pg~i~~~~g~l~~a~iNRSp~AY~~NP~~Era~ 69 (69)
+|.+|+++++||++++|++||+||++||++||++|+||+|.+++|++.++++||||.||++||++||++
T Consensus 142 ~~~l~~~ts~Gf~~qy~~~lvdgIv~AI~~A~~nL~Pa~l~~g~g~~~~aniNRs~~ay~~NP~~er~~ 210 (715)
T PTZ00487 142 FYALYGITTLGFYKKNFDTICEGIVQAIVKAHKSVQPARMYTNSGELWNSNINRSPTAYDNNPEEEKAM 210 (715)
T ss_pred cccccccccccccHHHHHHHHHHHHHHHHHHHhcCCcEEEEEeeEEeccccccCChhhhhcCchhhccc
Confidence 468899999999999999999999999999999999999999999999999999999999999999863
No 3
>PF04734 Ceramidase_alk: Neutral/alkaline non-lysosomal ceramidase; InterPro: IPR006823 This family represents a group of neutral/alkaline ceramidases found in both bacteria and eukaryotes [, , ]. They hydrolyse the sphingolipid ceramide into sphingosine and free fatty acid.; PDB: 2ZXC_A 2ZWS_A.
Probab=99.82 E-value=8.2e-21 Score=151.33 Aligned_cols=69 Identities=54% Similarity=0.837 Sum_probs=57.7
Q ss_pred CccccccccCCccchhHHHHHHHHHHHHHHHHhcccCceEEeeeeeecCCccCCChHHHhcCCHHHhcC
Q psy10784 1 MDFLFDLNSLGFVPDTFNAMVRGIALSISRAHNNLQEGRLFVSKGELLDANINRSPTAYLQNPEEERMR 69 (69)
Q Consensus 1 ~~~ly~its~Gf~~~~f~aiV~GIv~aI~~Ah~~l~pg~i~~~~g~l~~a~iNRSp~AY~~NP~~Era~ 69 (69)
++.+|+++++||++++|++||+||++||++||++|+||+|.+++|++.++++|||+.+|++||++||++
T Consensus 104 ~~~~~~~~~~gf~~~~~~~lv~gIv~aI~~A~~~L~pa~l~~g~g~~~~a~~NRs~~ay~~NP~~er~~ 172 (674)
T PF04734_consen 104 HYLLYNITSGGFDPEYYDALVDGIVEAIEQAHENLQPARLGFGTGELSDANINRSPSAYLRNPAEERAR 172 (674)
T ss_dssp SSHHHHGGGTB--HHHHHHHHHHHHHHHHHHHTT-EEEEEEEEEEE--SSEEETTHHHHTT-T--T-TT
T ss_pred cccccccccccchHHHHHHHHHHHHHHHHHHHHhCCcEEEEEeEEEecceeecCCchhhhcCccccccc
Confidence 468899999999999999999999999999999999999999999999999999999999999999864
No 4
>cd05145 RIO1_like RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase (PI3K). RIO kinases are atypical protein serine kinases containing a kinase catalytic signature, but otherwise show very little sequence similarity to typical PKs. Serine kinases catalyze the transfer of the gamma-phosphoryl group from ATP to serine residues in protein substrates. The RIO catalytic domain is truncated compared to the catalytic domains of typical PKs, with deletions of the loops responsible for substrate binding. RIO1 is present in archaea, bacteria and eukaryotes. In addition, RIO3 is present in multicellular eukaryotes. RIO1 is essential for survival and is required for 18S rRNA processing, proper cell cycle pro
Probab=50.32 E-value=33 Score=22.53 Aligned_cols=50 Identities=14% Similarity=0.244 Sum_probs=33.2
Q ss_pred CCccchhHHHHHHHHHHHHHHHHh-------cccCceEEeeeeeec--CCccC---CChHHH
Q psy10784 10 LGFVPDTFNAMVRGIALSISRAHN-------NLQEGRLFVSKGELL--DANIN---RSPTAY 59 (69)
Q Consensus 10 ~Gf~~~~f~aiV~GIv~aI~~Ah~-------~l~pg~i~~~~g~l~--~a~iN---RSp~AY 59 (69)
.....+....+...+++++...|. ++.|+.|.+..+.+. |-++- .+|.||
T Consensus 112 ~~~~~~~~~~i~~~l~~~l~~lH~~~givHrDlkP~NIll~~~~~~liDFG~a~~~~~~~~~ 173 (190)
T cd05145 112 VPLEEEEAEELYEQVVEQMRRLYQEAGLVHGDLSEYNILYHDGKPYIIDVSQAVELDHPNAL 173 (190)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHhCCEecCCCChhhEEEECCCEEEEEcccceecCCCCHH
Confidence 344556677777788888877665 689999999866543 54433 344554
No 5
>KOG2467|consensus
Probab=43.46 E-value=31 Score=27.78 Aligned_cols=31 Identities=19% Similarity=0.172 Sum_probs=26.4
Q ss_pred cccccCCccchhHHHHHHHHHHHHHHHHhcc
Q psy10784 5 FDLNSLGFVPDTFNAMVRGIALSISRAHNNL 35 (69)
Q Consensus 5 y~its~Gf~~~~f~aiV~GIv~aI~~Ah~~l 35 (69)
+-+|+-||.++-|+.++|=|-+++..|-+-.
T Consensus 401 PAmTsRG~~e~df~~v~~fi~~av~i~~~~~ 431 (477)
T KOG2467|consen 401 PAMTSRGFGEEDFEKVADFIDRAVKIALEIQ 431 (477)
T ss_pred hhhcccCccHHHHHHHHHHHHHHHHHHHHHH
Confidence 4579999999999999999999988776533
No 6
>KOG2345|consensus
Probab=36.86 E-value=32 Score=26.28 Aligned_cols=26 Identities=19% Similarity=0.413 Sum_probs=19.9
Q ss_pred HHHHHHHHHHH--------HHHhcccCceEEeee
Q psy10784 19 AMVRGIALSIS--------RAHNNLQEGRLFVSK 44 (69)
Q Consensus 19 aiV~GIv~aI~--------~Ah~~l~pg~i~~~~ 44 (69)
-|.-||+++++ .||.+++|+.|.++.
T Consensus 131 ~if~gic~gL~~lH~~~~~yAH~DiKP~NILls~ 164 (302)
T KOG2345|consen 131 WIFLGICRGLEALHEKEPPYAHRDIKPANILLSD 164 (302)
T ss_pred HHHHHHHHHHHHHhccCCcccccCCCcceeEecC
Confidence 35567777776 577788999999887
No 7
>cd05147 RIO1_euk RIO kinase family; eukaryotic RIO1, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase (PI3K). RIO kinases are atypical protein serine kinases containing a kinase catalytic signature, but otherwise show very little sequence similarity to typical PKs. Serine kinases catalyze the transfer of the gamma-phosphoryl group from ATP to serine residues in protein substrates. The RIO catalytic domain is truncated compared to the catalytic domains of typical PKs, with deletions of the loops responsible for substrate binding. RIO1 is present in archaea, bacteria and eukaryotes. This subfamily is composed of RIO1 proteins from eukaryotes. RIO1 is essential for survival and is required for 18S rRNA processing, proper cell cycle progression and c
Probab=33.31 E-value=84 Score=20.94 Aligned_cols=43 Identities=16% Similarity=0.216 Sum_probs=29.5
Q ss_pred cCCccchhHHHHHHHHHHHHHHH-------HhcccCceEEeeeeeec--CCc
Q psy10784 9 SLGFVPDTFNAMVRGIALSISRA-------HNNLQEGRLFVSKGELL--DAN 51 (69)
Q Consensus 9 s~Gf~~~~f~aiV~GIv~aI~~A-------h~~l~pg~i~~~~g~l~--~a~ 51 (69)
..+|..+.+-.+..-|+.++... |.++.|+.|.+..+.+. |-+
T Consensus 111 ~~~~~~~~~~~i~~qi~~~L~~l~H~~giiHrDlkP~NIli~~~~v~LiDFG 162 (190)
T cd05147 111 DAPLSESKARELYLQVIQIMRILYQDCRLVHADLSEYNLLYHDGKLYIIDVS 162 (190)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHhCCcccCCCCHHHEEEECCcEEEEEcc
Confidence 34666667777777777777766 34688999999765543 544
No 8
>smart00750 KIND kinase non-catalytic C-lobe domain. It is an interaction domain identified as being similar to the C-terminal protein kinase catalytic fold (C lobe). Its presence at the N terminus of signalling proteins and the absence of the active-site residues in the catalytic and activation loops suggest that it folds independently and is likely to be non-catalytic. The occurrence of KIND only in metazoa implies that it has evolved from the catalytic protein kinase domain into an interaction domain possibly by keeping the substrate-binding features
Probab=32.95 E-value=1e+02 Score=19.01 Aligned_cols=35 Identities=9% Similarity=0.133 Sum_probs=30.1
Q ss_pred CCccchhHHHHHHHHHHHHHHHHhcccCceEEeee
Q psy10784 10 LGFVPDTFNAMVRGIALSISRAHNNLQEGRLFVSK 44 (69)
Q Consensus 10 ~Gf~~~~f~aiV~GIv~aI~~Ah~~l~pg~i~~~~ 44 (69)
.++..+.--.++..|++++...|+.-+|..|.+..
T Consensus 12 ~~l~~~~~~~i~~qi~~~L~~lH~~~kp~Nil~~~ 46 (176)
T smart00750 12 RPLNEEEIWAVCLQCLRALRELHRQAKSGNILLTW 46 (176)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhcCCcccEeEcC
Confidence 35788888899999999999999999999888753
No 9
>PF06743 FAST_1: FAST kinase-like protein, subdomain 1; InterPro: IPR010622 This entry represents a conserved region of eukaryotic Fas-activated serine/threonine (FAST) kinases that contains several conserved leucine residues. FAST kinase is rapidly activated during Fas-mediated apoptosis, when it phosphorylates TIA-1, a nuclear RNA-binding protein that has been implicated as an effector of apoptosis []. Note that many family members are hypothetical proteins.; GO: 0004672 protein kinase activity
Probab=31.93 E-value=39 Score=19.66 Aligned_cols=36 Identities=8% Similarity=0.229 Sum_probs=28.2
Q ss_pred cccccccCCccchhHHHHHHHHHHHHHHHHhcccCc
Q psy10784 3 FLFDLNSLGFVPDTFNAMVRGIALSISRAHNNLQEG 38 (69)
Q Consensus 3 ~ly~its~Gf~~~~f~aiV~GIv~aI~~Ah~~l~pg 38 (69)
+++-..+++|.|.+-+.+-+.+.+.+..--..+.|-
T Consensus 4 il~~fa~LNy~P~~~~~f~~~~~~~L~~~l~~~~p~ 39 (71)
T PF06743_consen 4 ILLPFARLNYQPPNAEEFFEKLIERLESYLDEFSPE 39 (71)
T ss_pred HHHHHHhcCCCCCCHHHHHHHHHHHHHHhcccCCHH
Confidence 355678899999999999888888888776666653
No 10
>smart00138 MeTrc Methyltransferase, chemotaxis proteins. Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.
Probab=31.59 E-value=20 Score=25.54 Aligned_cols=43 Identities=21% Similarity=0.235 Sum_probs=30.7
Q ss_pred ccccCCccchhHHHHHH----------HHHHHHHHHHhcccCc-eEEeeeeeec
Q psy10784 6 DLNSLGFVPDTFNAMVR----------GIALSISRAHNNLQEG-RLFVSKGELL 48 (69)
Q Consensus 6 ~its~Gf~~~~f~aiV~----------GIv~aI~~Ah~~l~pg-~i~~~~g~l~ 48 (69)
|+....+....||.|+- -..+.+.+.+..|+|| .|.++.+|-.
T Consensus 193 dl~~~~~~~~~fD~I~crnvl~yf~~~~~~~~l~~l~~~L~pGG~L~lg~~E~~ 246 (264)
T smart00138 193 NLLAESPPLGDFDLIFCRNVLIYFDEPTQRKLLNRFAEALKPGGYLFLGHSESL 246 (264)
T ss_pred cCCCCCCccCCCCEEEechhHHhCCHHHHHHHHHHHHHHhCCCeEEEEECcccC
Confidence 44555555567887665 3346899999999995 8888887765
No 11
>TIGR00086 smpB SsrA-binding protein. This model describes the SsrA-binding protein, also called tmRNA binding protein, small protein B, and SmpB. The small, stable RNA SsrA (also called tmRNA or 10Sa RNA) recognizes stalled ribosomes such as occur during translation from message that lacks a stop codon. It becomes charged with Ala like a tRNA, then acts as mRNA to resume translation started with the defective mRNA. The short C-terminal peptide tag added by the SsrA system marks the abortively translated protein for degradation. SmpB binds SsrA after its aminoacylation but before the coupling of the Ala to the nascent polypeptide chain and is an essential part of the SsrA peptide tagging system. SmpB has been associated with the survival of bacterial pathogens in conditions of stress. It is universal in the first 100 sequenced bacterial genomes.
Probab=31.17 E-value=15 Score=25.19 Aligned_cols=44 Identities=25% Similarity=0.379 Sum_probs=33.8
Q ss_pred HHHHHHHHhcccCceEEeeeeeecCCccCCChHHH--hcCCHHHhc
Q psy10784 25 ALSISRAHNNLQEGRLFVSKGELLDANINRSPTAY--LQNPEEERM 68 (69)
Q Consensus 25 v~aI~~Ah~~l~pg~i~~~~g~l~~a~iNRSp~AY--~~NP~~Era 68 (69)
|+||+.-+-|+..+-+.+..|+++=.+.+=||..+ ..|++..|.
T Consensus 29 VKSiR~g~v~l~dsy~~~~~gE~~L~n~~I~~y~~~~~~~h~p~R~ 74 (144)
T TIGR00086 29 VKSIRAGKVSLKDSYVIIKKGELWLKNMHIAPYKFGNYFNHDPRRP 74 (144)
T ss_pred ehhhhcCCCceeeeEEEEECCEEEEEcCCcCchhccCcCCCCCCch
Confidence 68999999999999999999999966666667654 225544443
No 12
>cd05119 RIO RIO kinase family, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase (PI3K). RIO kinases are atypical protein serine kinases present in archaea, bacteria and eukaryotes. Serine kinases catalyze the transfer of the gamma-phosphoryl group from ATP to serine residues in protein substrates. RIO kinases contain a kinase catalytic signature, but otherwise show very little sequence similarity to typical PKs. The RIO catalytic domain is truncated compared to the catalytic domains of typical PKs, with deletions of the loops responsible for substrate binding. Most organisms contain at least two RIO kinases, RIO1 and RIO2. A third protein, RIO3, is present in multicellular eukaryotes. In yeast, RIO1 and RIO2 are essential for survival. They funct
Probab=30.51 E-value=90 Score=19.70 Aligned_cols=34 Identities=15% Similarity=0.248 Sum_probs=24.7
Q ss_pred hhHHHHHHHHHHHHHHHHh-------cccCceEEeeeeeec
Q psy10784 15 DTFNAMVRGIALSISRAHN-------NLQEGRLFVSKGELL 48 (69)
Q Consensus 15 ~~f~aiV~GIv~aI~~Ah~-------~l~pg~i~~~~g~l~ 48 (69)
+....+...+..++...|. ++.|+.|.++.+.+.
T Consensus 114 ~~~~~~~~~~~~~l~~lh~~~~ivH~Dl~p~Nili~~~~~~ 154 (187)
T cd05119 114 EDPEELYDQILELMRKLYREAGLVHGDLSEYNILVDDGKVY 154 (187)
T ss_pred ccHHHHHHHHHHHHHHHhhccCcCcCCCChhhEEEECCcEE
Confidence 4456677778887777666 888999999855443
No 13
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=30.28 E-value=29 Score=25.77 Aligned_cols=61 Identities=21% Similarity=0.516 Sum_probs=39.6
Q ss_pred cccccccCCccchhHHHHHHHHHHHHHHHHhc---------------ccCceEEeeeeeecCCccCCChHHHhcCCHHHh
Q psy10784 3 FLFDLNSLGFVPDTFNAMVRGIALSISRAHNN---------------LQEGRLFVSKGELLDANINRSPTAYLQNPEEER 67 (69)
Q Consensus 3 ~ly~its~Gf~~~~f~aiV~GIv~aI~~Ah~~---------------l~pg~i~~~~g~l~~a~iNRSp~AY~~NP~~Er 67 (69)
+|||=+|.-.+|+--.-+.+=+.+ .|.+- .+---|++..|.+...+ +|..+..||..||
T Consensus 158 mLFDEPTSALDPElv~EVL~vm~~---LA~eGmTMivVTHEM~FAr~VadrviFmd~G~iie~g---~p~~~f~~p~~~R 231 (240)
T COG1126 158 MLFDEPTSALDPELVGEVLDVMKD---LAEEGMTMIIVTHEMGFAREVADRVIFMDQGKIIEEG---PPEEFFDNPKSER 231 (240)
T ss_pred EeecCCcccCCHHHHHHHHHHHHH---HHHcCCeEEEEechhHHHHHhhheEEEeeCCEEEEec---CHHHHhcCCCCHH
Confidence 567777777777754433332221 12222 22456888999777666 9999999999998
Q ss_pred cC
Q psy10784 68 MR 69 (69)
Q Consensus 68 a~ 69 (69)
.+
T Consensus 232 ~~ 233 (240)
T COG1126 232 TR 233 (240)
T ss_pred HH
Confidence 64
No 14
>PRK05422 smpB SsrA-binding protein; Validated
Probab=28.41 E-value=21 Score=24.55 Aligned_cols=44 Identities=23% Similarity=0.277 Sum_probs=34.4
Q ss_pred HHHHHHHHhcccCceEEeeeeeecCCccCCChHHH--hcCCHHHhc
Q psy10784 25 ALSISRAHNNLQEGRLFVSKGELLDANINRSPTAY--LQNPEEERM 68 (69)
Q Consensus 25 v~aI~~Ah~~l~pg~i~~~~g~l~~a~iNRSp~AY--~~NP~~Era 68 (69)
|+||+.-+-++..+-+.+..|+++=.|.+=||..+ ..|++..|.
T Consensus 33 VKSiR~g~~~l~dsy~~i~~~E~~L~n~~I~~y~~~~~~n~~p~R~ 78 (148)
T PRK05422 33 VKSLRAGKANLKDSYVLIKNGEAWLFNAHISPYEQGNHFNHDPRRT 78 (148)
T ss_pred hHhHhcCCcceeEeEEEEECCEEEEEcCCccccccCCccCCCCCcc
Confidence 78999999999999999999999966666677654 235554543
No 15
>PF09080 K-cyclin_vir_C: K cyclin, C terminal; InterPro: IPR015164 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. This domain adopts a secondary structure consisting of a five alpha-helix cyclin fold. Interaction with cyclin dependent kinases (CDKs) at a PSTAIRE sequence motif within the catalytic cleft of CDK results in the regulation of CDK activity []. ; PDB: 1G3N_C.
Probab=27.54 E-value=62 Score=21.11 Aligned_cols=33 Identities=24% Similarity=0.270 Sum_probs=27.3
Q ss_pred ccCCccchhHHHHHHHHHHHHHHHHhcccCceE
Q psy10784 8 NSLGFVPDTFNAMVRGIALSISRAHNNLQEGRL 40 (69)
Q Consensus 8 ts~Gf~~~~f~aiV~GIv~aI~~Ah~~l~pg~i 40 (69)
-.+||-+|..++.-.-++++|-.|.-|-+.|.+
T Consensus 13 ~K~~~~~e~L~~~H~~V~~~v~KAiV~P~TG~L 45 (106)
T PF09080_consen 13 FKSGFTKEQLFAWHSEVVESVHKAIVNPKTGGL 45 (106)
T ss_dssp HHHS-SSTTHHHHHHHHHHHHHHHHCSTTGGGS
T ss_pred HHHcccHHHHHHHHHHHHHHHHHHhcCcccCCC
Confidence 357999999999999999999999888776654
No 16
>PRK04439 S-adenosylmethionine synthetase; Provisional
Probab=27.13 E-value=52 Score=26.05 Aligned_cols=16 Identities=38% Similarity=0.578 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHh
Q psy10784 18 NAMVRGIALSISRAHN 33 (69)
Q Consensus 18 ~aiV~GIv~aI~~Ah~ 33 (69)
|.|+|||++++.+|..
T Consensus 31 DticD~iaE~~S~~Ls 46 (399)
T PRK04439 31 DTICDGIAEAVSRALS 46 (399)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 7899999999999854
No 17
>PF01941 AdoMet_Synthase: S-adenosylmethionine synthetase (AdoMet synthetase); InterPro: IPR002795 A highly diverged class of S-adenosylmethionine synthetases have been identified in the archaea. S-adenosylmethionine is the primary alkylating agent in all known organisms. ATP:L-methionine S-adenosyltransferase (MAT) catalyses the only known biosynthetic route to this central metabolite. Although the amino acid sequence of MAT is strongly conserved among bacteria and eukarya (see IPR002133 from INTERPRO) no homologues had been recognised in the completed genome sequences of any archaea. The identification of a second major class of MAT emphasises the long evolutionary history of the archaeal lineage and the structural diversity found even in crucial metabolic enzymes []. Three bacterial genomes encode both the archaeal and eukaryotic/bacterial types of MAT [].; GO: 0004478 methionine adenosyltransferase activity, 0005524 ATP binding, 0006730 one-carbon metabolic process
Probab=26.03 E-value=56 Score=25.83 Aligned_cols=16 Identities=38% Similarity=0.578 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHh
Q psy10784 18 NAMVRGIALSISRAHN 33 (69)
Q Consensus 18 ~aiV~GIv~aI~~Ah~ 33 (69)
|.|+|||++++.+|..
T Consensus 31 DtIcD~iaE~vS~~Ls 46 (396)
T PF01941_consen 31 DTICDGIAEAVSRALS 46 (396)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 7899999999999854
No 18
>PRK10858 nitrogen regulatory protein P-II 1; Provisional
Probab=25.77 E-value=1.3e+02 Score=19.19 Aligned_cols=26 Identities=23% Similarity=0.321 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHhcccC--ceEEee
Q psy10784 18 NAMVRGIALSISRAHNNLQE--GRLFVS 43 (69)
Q Consensus 18 ~aiV~GIv~aI~~Ah~~l~p--g~i~~~ 43 (69)
|..|+-|+++|..+-..=.+ |+|++.
T Consensus 67 D~~v~~vv~~I~~~a~TG~~GDGkIfV~ 94 (112)
T PRK10858 67 DDIVDTCVDTIIRTAQTGKIGDGKIFVF 94 (112)
T ss_pred hHhHHHHHHHHHHHhccCCCCCcEEEEE
Confidence 66788889998887666565 688775
No 19
>TIGR03724 arch_bud32 Kae1-associated kinase Bud32. Members of this protein family are the Bud32 protein associated with Kae1 (kinase-associated endopeptidase 1) in the Archaea. In many Archaeal genomes, Kae1 and Bud32 are fused. The complex is homologous to the Kae1 and Bud32 subunits of the eukaryotic KEOPS complex, an apparently ancient protein kinase-containing molecular machine.
Probab=25.75 E-value=1.3e+02 Score=19.18 Aligned_cols=30 Identities=20% Similarity=0.447 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHh------cccCceEEeeeeeec
Q psy10784 19 AMVRGIALSISRAHN------NLQEGRLFVSKGELL 48 (69)
Q Consensus 19 aiV~GIv~aI~~Ah~------~l~pg~i~~~~g~l~ 48 (69)
.++..|.+++...|+ ++.|+.|.+..+++.
T Consensus 94 ~~~~~i~~~l~~lH~~gi~H~Dl~~~Nil~~~~~~~ 129 (199)
T TIGR03724 94 ELLREIGRLVGKLHKAGIVHGDLTTSNIIVRDDKLY 129 (199)
T ss_pred HHHHHHHHHHHHHHHCCeecCCCCcceEEEECCcEE
Confidence 678888888888866 778999998755544
No 20
>PRK10665 nitrogen regulatory protein P-II 2; Provisional
Probab=24.96 E-value=1.4e+02 Score=19.02 Aligned_cols=26 Identities=23% Similarity=0.331 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHhcccC--ceEEee
Q psy10784 18 NAMVRGIALSISRAHNNLQE--GRLFVS 43 (69)
Q Consensus 18 ~aiV~GIv~aI~~Ah~~l~p--g~i~~~ 43 (69)
|..|+-++++|..+-..=.+ |+|++.
T Consensus 67 de~ve~vv~~I~~~a~TG~~GDGkIfV~ 94 (112)
T PRK10665 67 DDQLDEVIDIISKAAYTGKIGDGKIFVA 94 (112)
T ss_pred hHhHHHHHHHHHHHhccCCCCCcEEEEE
Confidence 67888999999887655454 688775
No 21
>COG1812 MetK Archaeal S-adenosylmethionine synthetase [Amino acid transport and metabolism]
Probab=24.84 E-value=58 Score=25.82 Aligned_cols=17 Identities=35% Similarity=0.571 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHhc
Q psy10784 18 NAMVRGIALSISRAHNN 34 (69)
Q Consensus 18 ~aiV~GIv~aI~~Ah~~ 34 (69)
|.|+|||.++|.+|...
T Consensus 31 DsiaDgiAE~vsr~Ls~ 47 (400)
T COG1812 31 DSIADGIAEAVSRALSK 47 (400)
T ss_pred hhHHHHHHHHHHHHHHH
Confidence 78999999999998654
No 22
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=23.75 E-value=1.4e+02 Score=16.39 Aligned_cols=39 Identities=18% Similarity=0.237 Sum_probs=30.4
Q ss_pred cCCccchhHHHHHHHHHHHHHHHHhcccCceEEeeeeeec
Q psy10784 9 SLGFVPDTFNAMVRGIALSISRAHNNLQEGRLFVSKGELL 48 (69)
Q Consensus 9 s~Gf~~~~f~aiV~GIv~aI~~Ah~~l~pg~i~~~~g~l~ 48 (69)
..|-.++.-.+++.+|.+++...- ...|..+++.-.++.
T Consensus 9 ~~grt~eqk~~l~~~it~~l~~~l-g~p~~~v~V~i~e~~ 47 (64)
T PRK01964 9 LEGRPEEKIKNLIREVTEAISATL-DVPKERVRVIVNEVP 47 (64)
T ss_pred eCCCCHHHHHHHHHHHHHHHHHHh-CcChhhEEEEEEEcC
Confidence 458899999999999999998766 556777776655554
No 23
>PF06859 Bin3: Bicoid-interacting protein 3 (Bin3); InterPro: IPR010675 This entry represents a conserved region of approximately 120 residues within eukaryotic Bicoid-interacting protein 3 (Bin3). Bin3, which shows similarity to a number of protein methyltransferases that modify RNA-binding proteins, interacts with Bicoid, which itself directs pattern formation in the early Drosophila embryo. The interaction might allow Bicoid to switch between its dual roles in transcription and translation []. Note that proteins of the entry contain a conserved HLN motif.; GO: 0008168 methyltransferase activity; PDB: 3G07_B.
Probab=23.36 E-value=79 Score=20.70 Aligned_cols=26 Identities=15% Similarity=0.261 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHhcccCceEEeeeeee
Q psy10784 22 RGIALSISRAHNNLQEGRLFVSKGEL 47 (69)
Q Consensus 22 ~GIv~aI~~Ah~~l~pg~i~~~~g~l 47 (69)
+|+..-.++.++.|.||.+.|=.-+=
T Consensus 21 ~Gl~~~f~~~~~~L~pGG~lilEpQ~ 46 (110)
T PF06859_consen 21 EGLKRFFRRIYSLLRPGGILILEPQP 46 (110)
T ss_dssp HHHHHHHHHHHHHEEEEEEEEEE---
T ss_pred HHHHHHHHHHHHhhCCCCEEEEeCCC
Confidence 79999999999999999888755443
No 24
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=22.87 E-value=72 Score=17.14 Aligned_cols=19 Identities=26% Similarity=0.319 Sum_probs=13.2
Q ss_pred cccCCccchhHHHHHHHHH
Q psy10784 7 LNSLGFVPDTFNAMVRGIA 25 (69)
Q Consensus 7 its~Gf~~~~f~aiV~GIv 25 (69)
+.++||.+.--+.+|..+.
T Consensus 10 L~~LGy~~~e~~~av~~~~ 28 (47)
T PF07499_consen 10 LISLGYSKAEAQKAVSKLL 28 (47)
T ss_dssp HHHTTS-HHHHHHHHHHHH
T ss_pred HHHcCCCHHHHHHHHHHhh
Confidence 5689999988777666654
No 25
>PF11655 DUF2589: Protein of unknown function (DUF2589) ; InterPro: IPR024510 This family of proteins has no known function.
Probab=22.58 E-value=74 Score=21.26 Aligned_cols=22 Identities=14% Similarity=0.219 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHhcccCc
Q psy10784 17 FNAMVRGIALSISRAHNNLQEG 38 (69)
Q Consensus 17 f~aiV~GIv~aI~~Ah~~l~pg 38 (69)
|+.|+-|+..|+..|...++-.
T Consensus 2 l~~lI~gpl~A~~~Aq~~~a~~ 23 (169)
T PF11655_consen 2 LEDLIGGPLQAAVDAQQMLAQQ 23 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 7899999999999999887743
No 26
>cd05116 PTKc_Syk Catalytic domain of the Protein Tyrosine Kinase, Spleen tyrosine kinase. Protein Tyrosine Kinase (PTK) family; Spleen tyrosine kinase (Syk); catalytic (c) domain. The PTKc family is part of a larger superfamily that includes the catalytic domains of other kinases such as protein serine/threonine kinases, RIO kinases, and phosphoinositide 3-kinase (PI3K). PTKs catalyze the transfer of the gamma-phosphoryl group from ATP to tyrosine (tyr) residues in protein substrates. Syk, together with Zap-70, form the Syk subfamily of kinases which are cytoplasmic (or nonreceptor) tyr kinases containing two Src homology 2 (SH2) domains N-terminal to the catalytic tyr kinase domain. Syk was first cloned from the spleen, and its function in hematopoietic cells is well-established. Syk is involved in the signaling downstream of activated receptors (including B-cell and Fc receptors) that contain ITAMs (immunoreceptor tyr activation motifs), leading to processes such as cell proliferatio
Probab=22.10 E-value=1.5e+02 Score=19.42 Aligned_cols=44 Identities=9% Similarity=0.304 Sum_probs=30.5
Q ss_pred CccchhHHHHHHHHHHHHHHH------HhcccCceEEeeee---eecCCccCC
Q psy10784 11 GFVPDTFNAMVRGIALSISRA------HNNLQEGRLFVSKG---ELLDANINR 54 (69)
Q Consensus 11 Gf~~~~f~aiV~GIv~aI~~A------h~~l~pg~i~~~~g---~l~~a~iNR 54 (69)
.+..+..-.++.+|+.++..- |.++.|..|.+... .|.|.+..+
T Consensus 91 ~~~~~~~~~i~~qi~~al~~lH~~~i~H~dlkp~nill~~~~~~kl~Dfg~~~ 143 (257)
T cd05116 91 HVTEKNITELVHQVSMGMKYLEETNFVHRDLAARNVLLVTQHYAKISDFGLSK 143 (257)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHCCEeecccchhhEEEcCCCeEEECCCcccc
Confidence 356677778888999999875 45677999887653 345655443
No 27
>COG5014 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=21.82 E-value=52 Score=24.05 Aligned_cols=19 Identities=21% Similarity=0.572 Sum_probs=16.2
Q ss_pred cccccccCCccchhHHHHH
Q psy10784 3 FLFDLNSLGFVPDTFNAMV 21 (69)
Q Consensus 3 ~ly~its~Gf~~~~f~aiV 21 (69)
.+.-++.+|++||+|..|.
T Consensus 146 v~vRVsvKG~dpesF~kIT 164 (228)
T COG5014 146 VLVRVSVKGWDPESFEKIT 164 (228)
T ss_pred eEEEEEecCCCHHHHHHHh
Confidence 4556788999999999987
No 28
>PF02582 DUF155: Uncharacterised ACR, YagE family COG1723; InterPro: IPR003734 This entry describes proteins of unknown function.
Probab=21.82 E-value=63 Score=21.59 Aligned_cols=52 Identities=29% Similarity=0.449 Sum_probs=33.3
Q ss_pred hHHHHHHHHHHHHHHHHhcccC-ceEEeeeeeec---------------CCccCCChHHHhcCCHHHh
Q psy10784 16 TFNAMVRGIALSISRAHNNLQE-GRLFVSKGELL---------------DANINRSPTAYLQNPEEER 67 (69)
Q Consensus 16 ~f~aiV~GIv~aI~~Ah~~l~p-g~i~~~~g~l~---------------~a~iNRSp~AY~~NP~~Er 67 (69)
.|+..|+...+.+..--+.|+- |++.+++.+|. ...+-=.|.-|+.+|+-|+
T Consensus 88 ~~E~~v~~~l~~~~~i~~~L~~~G~~~~~~k~l~k~~G~l~~~r~~i~l~~~ilD~Pe~~We~~~le~ 155 (175)
T PF02582_consen 88 FFEEQVDKLLEETEPIPEELAKTGKLPLSRKELLKLIGELFSLRHDINLNSDILDTPEFFWENPELEP 155 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCcCHHHHHHHHHHHHHHHHHHHHhhhcccCchhccCChhHHH
Confidence 4666666666666666666665 78887776654 2223335777777776553
No 29
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=21.63 E-value=2.1e+02 Score=18.87 Aligned_cols=29 Identities=10% Similarity=0.060 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHhcccC-ceEEeeeeee
Q psy10784 19 AMVRGIALSISRAHNNLQE-GRLFVSKGEL 47 (69)
Q Consensus 19 aiV~GIv~aI~~Ah~~l~p-g~i~~~~g~l 47 (69)
|+.++.+.+|+-||+...+ |.|.+.....
T Consensus 44 av~E~~~N~v~Ha~~~~~~~g~I~i~~~~~ 73 (146)
T COG2172 44 AVSEALTNAVKHAYKLDPSEGEIRIEVSLD 73 (146)
T ss_pred HHHHHHHHHHHHHhhcCCCCceEEEEEEEc
Confidence 5667778889999998876 8888765543
No 30
>PF00543 P-II: Nitrogen regulatory protein P-II members of this family.; InterPro: IPR002187 In Gram-negative bacteria, the activity and concentration of glutamine synthetase (GS) is regulated in response to nitrogen source availability. PII, a tetrameric protein encoded by the glnB gene, is a component of the adenylation cascade involved in the regulation of GS activity []. In nitrogen-limiting conditions, when the ratio of glutamine to 2-ketoglutarate decreases, P-II is uridylylated on a tyrosine residue to form P-II-UMP. P-II-UMP allows the deadenylation of GS, thus activating the enzyme. Conversely, in nitrogen excess, P-II-UMP is deuridylated and then promotes the adenylation of GS. P-II also indirectly controls the transcription of the GS gene (glnA) by preventing NR-II (ntrB) to phosphorylate NR-I (ntrC) which is the transcriptional activator of glnA. Once P-II is uridylylated, these events are reversed. P-II is a protein of about 110 amino acid residues extremely well conserved. The tyrosine which is uridylated is located in the central part of the protein. In cyanobacteria, P-II seems to be phosphorylated on a serine residue rather than being uridylated. In methanogenic archaebacteria, the nitrogenase iron protein gene (nifH) is followed by two open reading frames highly similar to the eubacterial P-II protein []. These proteins could be involved in the regulation of nitrogen fixation. In the red alga, Porphyra purpurea, there is a glnB homologue encoded in the chloroplast genome. Other proteins highly similar to glnB are: Bacillus subtilis protein nrgB []. Escherichia coli hypothetical protein ybaI []. ; GO: 0030234 enzyme regulator activity, 0006808 regulation of nitrogen utilization; PDB: 1V3S_B 1V3R_C 2XZW_A 2XUL_A 2V5H_J 2XG8_C 2JJ4_F 1QY7_C 4AFF_A 2XBP_A ....
Probab=21.25 E-value=1.3e+02 Score=18.24 Aligned_cols=26 Identities=35% Similarity=0.415 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHhcccC--ceEEeee
Q psy10784 19 AMVRGIALSISRAHNNLQE--GRLFVSK 44 (69)
Q Consensus 19 aiV~GIv~aI~~Ah~~l~p--g~i~~~~ 44 (69)
..|+-|+++|..+-.-=.| |+|++..
T Consensus 65 ~~v~~iv~~I~~~~~tg~~GdGkIfV~~ 92 (102)
T PF00543_consen 65 EDVEEIVEAISEAARTGEPGDGKIFVSP 92 (102)
T ss_dssp GGHHHHHHHHHHHH-SSSTTSEEEEEEE
T ss_pred HhHHHHHHHHHHhccCCCCCCEEEEEEE
Confidence 4577788888776555556 6888753
No 31
>PLN02557 phosphoribosylformylglycinamidine cyclo-ligase
Probab=21.24 E-value=1.1e+02 Score=23.62 Aligned_cols=33 Identities=15% Similarity=0.221 Sum_probs=26.8
Q ss_pred cccCCccchhHHHHHHHHHHHHHHHHhcccCce
Q psy10784 7 LNSLGFVPDTFNAMVRGIALSISRAHNNLQEGR 39 (69)
Q Consensus 7 its~Gf~~~~f~aiV~GIv~aI~~Ah~~l~pg~ 39 (69)
+...++..+.++.|++||.++++++.-.+.=|.
T Consensus 148 l~~~~l~~~~l~~i~~Gi~~a~~~~Gv~lVGGd 180 (379)
T PLN02557 148 FATSHLDVDLAEKVIKGIVDGCQQSDCALLGGE 180 (379)
T ss_pred cccCCCCHHHHHHHHHHHHHHHHHhCCEEEeec
Confidence 345678889999999999999999877766444
Done!