Query 031580
Match_columns 157
No_of_seqs 51 out of 53
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 02:29:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031580.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031580hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3262 H/ACA small nucleolar 21.9 39 0.00085 28.8 0.7 36 2-41 86-124 (215)
2 PF13684 Dak1_2: Dihydroxyacet 13.6 84 0.0018 27.4 0.8 12 104-115 295-306 (313)
3 PF11983 DUF3484: Domain of un 12.7 55 0.0012 23.2 -0.5 7 30-36 66-72 (73)
4 PF08765 Mor: Mor transcriptio 10.6 78 0.0017 23.2 -0.3 12 107-118 42-53 (108)
5 KOG0905 Phosphoinositide 3-kin 9.6 1.7E+02 0.0036 31.6 1.5 21 101-121 658-678 (1639)
6 TIGR03599 YloV DAK2 domain fus 9.4 1.4E+02 0.003 28.3 0.8 10 106-115 514-523 (530)
7 KOG2199 Signal transducing ada 8.2 1.4E+02 0.0029 28.3 0.2 10 146-155 246-255 (462)
8 TIGR02593 CRISPR_cas5 CRISPR-a 7.9 69 0.0015 19.8 -1.3 12 33-44 23-34 (42)
9 KOG2780 Ribosome biogenesis pr 6.5 1.7E+02 0.0036 26.3 -0.1 18 31-48 216-233 (302)
10 COG1708 Predicted nucleotidylt 6.3 2.6E+02 0.0056 19.3 0.9 12 143-154 33-44 (128)
No 1
>KOG3262 consensus H/ACA small nucleolar RNP component GAR1 [Translation, ribosomal structure and biogenesis]
Probab=21.86 E-value=39 Score=28.77 Aligned_cols=36 Identities=22% Similarity=0.396 Sum_probs=24.7
Q ss_pred CCCCcccCCCcccccccCCCCCC---CCCCccccccccCCCCc
Q 031580 2 DGKREMSSSFSFTTDLFGTKKSP---PPSSTGIFASILSPPST 41 (157)
Q Consensus 2 e~kK~~sSsss~~~~LFG~k~s~---sssssgiF~SIFppps~ 41 (157)
|+|+|+ --+|||||+-... --.+.+|-.|+|.|=.+
T Consensus 86 enk~qI----GKVDEIfG~i~d~~fsIK~~dgv~assfk~g~k 124 (215)
T KOG3262|consen 86 ENKEQI----GKVDEIFGPINDVHFSIKPSDGVQASSFKPGDK 124 (215)
T ss_pred cchhhh----cchhhhcccccccEEEEecCCCceeecccCCCe
Confidence 666666 3589999997654 22357888888876443
No 2
>PF13684 Dak1_2: Dihydroxyacetone kinase family
Probab=13.56 E-value=84 Score=27.42 Aligned_cols=12 Identities=42% Similarity=0.888 Sum_probs=9.1
Q ss_pred ccceeecccccc
Q 031580 104 SSSLYYGGQDIY 115 (157)
Q Consensus 104 sSSiyYGGqd~Y 115 (157)
-=-+|||||.+|
T Consensus 295 eve~~~GgQ~~y 306 (313)
T PF13684_consen 295 EVEVYDGGQPLY 306 (313)
T ss_pred EEEEEECCCcce
Confidence 335899999877
No 3
>PF11983 DUF3484: Domain of unknown function (DUF3484); InterPro: IPR021873 FtsA is essential for bacterial cell division, and co-localizes to the septal ring with FtsZ. It has been suggested that the interaction of FtsA-FtsZ has arisen through coevolution in different bacterial strains []. This C-terminal domain is found in FtsA from Firmicutes (Gram-positive bacteria). It is typically between 65 to 81 amino acids in length.
Probab=12.74 E-value=55 Score=23.18 Aligned_cols=7 Identities=43% Similarity=1.037 Sum_probs=5.8
Q ss_pred ccccccc
Q 031580 30 GIFASIL 36 (157)
Q Consensus 30 giF~SIF 36 (157)
|||++||
T Consensus 66 ~~fgsmF 72 (73)
T PF11983_consen 66 GFFGSMF 72 (73)
T ss_pred HHHhhhc
Confidence 7888888
No 4
>PF08765 Mor: Mor transcription activator family; InterPro: IPR014875 Mor (Middle operon regulator) is a sequence specific DNA binding protein. It mediates transcription activation through its interactions with the C-terminal domains of the alpha and sigma subunits of bacterial RNA polymerase. The N-terminal region of Mor is the dimerisation region, and the C-terminal contains a helix-turn-helix motif which binds DNA []. ; PDB: 1RR7_A.
Probab=10.65 E-value=78 Score=23.19 Aligned_cols=12 Identities=50% Similarity=1.013 Sum_probs=4.0
Q ss_pred eeeccccccCCC
Q 031580 107 LYYGGQDIYSHS 118 (157)
Q Consensus 107 iyYGGqd~Ys~~ 118 (157)
-||||+.+|-|.
T Consensus 42 ~~~gG~~iyiP~ 53 (108)
T PF08765_consen 42 RYFGGQQIYIPK 53 (108)
T ss_dssp HHH-SS------
T ss_pred HHHCCEeEEeeC
Confidence 379999999874
No 5
>KOG0905 consensus Phosphoinositide 3-kinase [Signal transduction mechanisms]
Probab=9.59 E-value=1.7e+02 Score=31.56 Aligned_cols=21 Identities=29% Similarity=0.248 Sum_probs=15.5
Q ss_pred CccccceeeccccccCCCCCC
Q 031580 101 CHLSSSLYYGGQDIYSHSLDT 121 (157)
Q Consensus 101 c~~sSSiyYGGqd~Ys~~~~~ 121 (157)
-||+.||+|||||...+-++.
T Consensus 658 fyl~~~l~hg~k~l~~p~~t~ 678 (1639)
T KOG0905|consen 658 FYLSCSLSHGTKDLDKPNQTP 678 (1639)
T ss_pred heEEEeeecCceecccccccc
Confidence 357888889999888774433
No 6
>TIGR03599 YloV DAK2 domain fusion protein YloV. This model describes a protein family that contains an N-terminal DAK2 domain (pfam02734), so named because of similarity to the dihydroxyacetone kinase family family. The GTP-binding protein CgtA (a member of the obg family) is a bacterial GTPase associated with ribosome biogenesis, and it has a characteristic extension (TIGR03595) in certain lineages. This protein family described here was found, by the method of partial phylognetic profiling, to have a phylogenetic distribution strongly correlated to that of TIGR03595. This correlation implies some form of functional coupling.
Probab=9.40 E-value=1.4e+02 Score=28.27 Aligned_cols=10 Identities=50% Similarity=1.129 Sum_probs=6.5
Q ss_pred ceeecccccc
Q 031580 106 SLYYGGQDIY 115 (157)
Q Consensus 106 SiyYGGqd~Y 115 (157)
-+|||||.+|
T Consensus 514 e~~~GgQ~~y 523 (530)
T TIGR03599 514 EIYEGGQPLY 523 (530)
T ss_pred EEEECCCCce
Confidence 4667777765
No 7
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=8.22 E-value=1.4e+02 Score=28.29 Aligned_cols=10 Identities=50% Similarity=1.258 Sum_probs=7.3
Q ss_pred CCcccCCccc
Q 031580 146 SRGNWWQGSL 155 (157)
Q Consensus 146 SRGnWWqGsl 155 (157)
+--|||+|.+
T Consensus 246 s~~~WWKG~~ 255 (462)
T KOG2199|consen 246 SDPNWWKGEN 255 (462)
T ss_pred CCcchhcccc
Confidence 3359999974
No 8
>TIGR02593 CRISPR_cas5 CRISPR-associated protein Cas5, N-terminal domain. This model represents a shared N-terminal domain, about 43 amino acids in length, common to a number of related protein families each of which is associated with a distinct subtype of CRISPR/cas system, where CRISPR is an acronym for Clustered Regularly Interspaced Short Palindromic Repeat and Cas is an abbreviation for CRISPR-associated. Members of this family are widely distributed enough that we designated the family Cas5. Homology appears remote, or absent, between the more C-terminal regions different subfamilies of these proteins, which typically are 210 to 265 amino acids in total length. Cas5 proteins of six different CRISPR/cas subtypes so far defined are described by respective full-length models TIGR01868, TIGR01876, TIGR01895, TIGR01874, TIGR02586, and TIGR02592. The best characterized protein in this family is DevS or Myxococcus xanthus, a Cas protein that appears to participate in a species-specific
Probab=7.87 E-value=69 Score=19.77 Aligned_cols=12 Identities=33% Similarity=0.681 Sum_probs=7.5
Q ss_pred ccccCCCCccCC
Q 031580 33 ASILSPPSTAMG 44 (157)
Q Consensus 33 ~SIFppps~v~G 44 (157)
.--|||||++.|
T Consensus 23 ty~~Pp~Stv~G 34 (42)
T TIGR02593 23 TYPVPPPSALLG 34 (42)
T ss_pred cCCCCCHHHHHH
Confidence 345777777654
No 9
>KOG2780 consensus Ribosome biogenesis protein RPF1, contains IMP4 domain [RNA processing and modification]
Probab=6.48 E-value=1.7e+02 Score=26.32 Aligned_cols=18 Identities=28% Similarity=0.462 Sum_probs=14.8
Q ss_pred ccccccCCCCccCCCCCc
Q 031580 31 IFASILSPPSTAMGRNSS 48 (157)
Q Consensus 31 iF~SIFppps~v~Gr~s~ 48 (157)
+|.||||+++.-.||..+
T Consensus 216 ~f~sLfp~~p~f~gRrvv 233 (302)
T KOG2780|consen 216 LFASLFPHDPQFTGRRVV 233 (302)
T ss_pred HHHHhCCCCccccceeEE
Confidence 689999999987777653
No 10
>COG1708 Predicted nucleotidyltransferases [General function prediction only]
Probab=6.33 E-value=2.6e+02 Score=19.31 Aligned_cols=12 Identities=25% Similarity=0.476 Sum_probs=9.0
Q ss_pred CCCCCcccCCcc
Q 031580 143 NGASRGNWWQGS 154 (157)
Q Consensus 143 ~sASRGnWWqGs 154 (157)
||+-||+|+..|
T Consensus 33 GS~arG~~~~~S 44 (128)
T COG1708 33 GSYARGDFVKES 44 (128)
T ss_pred ccCcccccccCC
Confidence 678888888644
Done!