Query 031435
Match_columns 159
No_of_seqs 51 out of 53
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 14:03:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031435.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031435hhsearch_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 21.5 44 0.00095 28.6 0.9 34 2-39 86-124 (215)
2 PF06462 Hyd_WA: Propeller; I 15.0 72 0.0016 19.0 0.6 12 147-158 8-19 (32)
3 PF13684 Dak1_2: Dihydroxyacet 12.5 96 0.0021 27.2 0.8 11 105-115 297-307 (313)
4 PRK03187 tgl transglutaminase; 11.9 95 0.0021 27.6 0.6 15 145-159 184-206 (272)
5 PF08765 Mor: Mor transcriptio 11.5 67 0.0015 23.6 -0.4 10 107-116 43-52 (108)
6 PF11983 DUF3484: Domain of un 11.3 62 0.0013 23.0 -0.6 8 27-34 65-72 (73)
7 KOG4357 Uncharacterized conser 9.3 85 0.0018 25.6 -0.6 10 146-155 94-103 (164)
8 PF14046 NR_Repeat: Nuclear re 9.1 1.3E+02 0.0028 20.1 0.4 9 147-155 8-16 (46)
9 TIGR03599 YloV DAK2 domain fus 8.7 1.5E+02 0.0033 28.1 0.8 10 105-114 514-523 (530)
10 TIGR02593 CRISPR_cas5 CRISPR-a 6.9 97 0.0021 19.2 -1.0 12 31-42 23-34 (42)
No 1
>KOG3262 consensus H/ACA small nucleolar RNP component GAR1 [Translation, ribosomal structure and biogenesis]
Probab=21.51 E-value=44 Score=28.63 Aligned_cols=34 Identities=35% Similarity=0.632 Sum_probs=23.6
Q ss_pred CCCCCCCCCCCccccccCCCCC-----CCCCcccccccCCCcc
Q 031435 2 EGRKQTGSSSSLTNELFGSKES-----SSSSGIFGSIFSPPSK 39 (159)
Q Consensus 2 E~kKk~~sSsS~~~~LFG~k~s-----ssssgiF~SIFppps~ 39 (159)
|+|+|.+ -+|||||+-.. -.+.+|-.|+|.|=.+
T Consensus 86 enk~qIG----KVDEIfG~i~d~~fsIK~~dgv~assfk~g~k 124 (215)
T KOG3262|consen 86 ENKEQIG----KVDEIFGPINDVHFSIKPSDGVQASSFKPGDK 124 (215)
T ss_pred cchhhhc----chhhhcccccccEEEEecCCCceeecccCCCe
Confidence 4555544 58999999865 4457888888876544
No 2
>PF06462 Hyd_WA: Propeller; InterPro: IPR006624 Tectonins I and II are two dominant proteins in the nuclei and nuclear matrix from plasmodia of Physarum polycephalum (Slime mold) which encode 217 and 353 amino acids, respectively. Tectonin I is homologous to the C-terminal two-thirds of tectonin II. Both proteins contain six tandem repeats that are each 33-37 amino acids in length and define a new consensus sequence. Homologous repeats are found in L-6, a bacterial lipopolysaccharide-binding lectin from horseshoe crab hemocytes. The repetitive sequences of the tectonins and L-6 are reminiscent of the WD repeats of the beta-subunit of G proteins, suggesting that they form beta-propeller domains. The tectonins may be lectins that function as part of a transmembrane signalling complex during phagocytosis [].
Probab=15.01 E-value=72 Score=19.02 Aligned_cols=12 Identities=25% Similarity=0.440 Sum_probs=9.6
Q ss_pred cccccccccccc
Q 031435 147 WQGIVLYNHSID 158 (159)
Q Consensus 147 WqGSlYY~~~~~ 158 (159)
++|.+|||.+|.
T Consensus 8 ~~G~v~~R~Gis 19 (32)
T PF06462_consen 8 SDGSVYFRTGIS 19 (32)
T ss_pred CCCCEEEECcCC
Confidence 468899998874
No 3
>PF13684 Dak1_2: Dihydroxyacetone kinase family
Probab=12.48 E-value=96 Score=27.16 Aligned_cols=11 Identities=45% Similarity=1.014 Sum_probs=8.7
Q ss_pred ceeeccccccC
Q 031435 105 SIYYGGQDVYS 115 (159)
Q Consensus 105 SIyYGGqD~Ys 115 (159)
-+|||||.+|.
T Consensus 297 e~~~GgQ~~y~ 307 (313)
T PF13684_consen 297 EVYDGGQPLYP 307 (313)
T ss_pred EEEECCCcceE
Confidence 48899998873
No 4
>PRK03187 tgl transglutaminase; Provisional
Probab=11.89 E-value=95 Score=27.60 Aligned_cols=15 Identities=40% Similarity=0.831 Sum_probs=11.9
Q ss_pred ccccc--------cccccccccC
Q 031435 145 NWWQG--------IVLYNHSIDV 159 (159)
Q Consensus 145 nWWqG--------SlYY~~~~~~ 159 (159)
-|||| .+||-|+|-+
T Consensus 184 p~WqGeNaiyLgn~~yyGHGiGI 206 (272)
T PRK03187 184 PEWQGENVIYLGNGLYYGHGIGI 206 (272)
T ss_pred CcccceeEEEecCCceeeccccc
Confidence 48998 4899999854
No 5
>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=11.46 E-value=67 Score=23.59 Aligned_cols=10 Identities=60% Similarity=1.544 Sum_probs=3.6
Q ss_pred eeccccccCC
Q 031435 107 YYGGQDVYSP 116 (159)
Q Consensus 107 yYGGqD~Ys~ 116 (159)
||||+.+|-|
T Consensus 43 ~~gG~~iyiP 52 (108)
T PF08765_consen 43 YFGGQQIYIP 52 (108)
T ss_dssp HH-SS-----
T ss_pred HHCCEeEEee
Confidence 7999999984
No 6
>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=11.35 E-value=62 Score=23.01 Aligned_cols=8 Identities=63% Similarity=1.360 Sum_probs=6.3
Q ss_pred Cccccccc
Q 031435 27 SGIFGSIF 34 (159)
Q Consensus 27 sgiF~SIF 34 (159)
-|||++||
T Consensus 65 R~~fgsmF 72 (73)
T PF11983_consen 65 RGFFGSMF 72 (73)
T ss_pred HHHHhhhc
Confidence 37888888
No 7
>KOG4357 consensus Uncharacterized conserved protein (involved in mesoderm differentiation in humans) [General function prediction only]
Probab=9.27 E-value=85 Score=25.60 Aligned_cols=10 Identities=40% Similarity=0.930 Sum_probs=7.6
Q ss_pred cccccccccc
Q 031435 146 WWQGIVLYNH 155 (159)
Q Consensus 146 WWqGSlYY~~ 155 (159)
-|||+||-+|
T Consensus 94 iwq~qlfn~~ 103 (164)
T KOG4357|consen 94 IWQGQLFNAH 103 (164)
T ss_pred HHHHHhhccc
Confidence 3999996555
No 8
>PF14046 NR_Repeat: Nuclear receptor repeat
Probab=9.14 E-value=1.3e+02 Score=20.14 Aligned_cols=9 Identities=44% Similarity=0.756 Sum_probs=7.4
Q ss_pred ccccccccc
Q 031435 147 WQGIVLYNH 155 (159)
Q Consensus 147 WqGSlYY~~ 155 (159)
||||+.|+-
T Consensus 8 rqgSIly~~ 16 (46)
T PF14046_consen 8 RQGSILYSM 16 (46)
T ss_pred cccceeecC
Confidence 799988874
No 9
>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=8.74 E-value=1.5e+02 Score=28.06 Aligned_cols=10 Identities=60% Similarity=1.135 Sum_probs=6.6
Q ss_pred ceeecccccc
Q 031435 105 SIYYGGQDVY 114 (159)
Q Consensus 105 SIyYGGqD~Y 114 (159)
-+|||||..|
T Consensus 514 e~~~GgQ~~y 523 (530)
T TIGR03599 514 EIYEGGQPLY 523 (530)
T ss_pred EEEECCCCce
Confidence 3677777766
No 10
>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=6.92 E-value=97 Score=19.19 Aligned_cols=12 Identities=42% Similarity=0.675 Sum_probs=7.8
Q ss_pred ccccCCCccccC
Q 031435 31 GSIFSPPSKVLG 42 (159)
Q Consensus 31 ~SIFppps~v~g 42 (159)
.--||||+++.|
T Consensus 23 ty~~Pp~Stv~G 34 (42)
T TIGR02593 23 TYPVPPPSALLG 34 (42)
T ss_pred cCCCCCHHHHHH
Confidence 335777777665
Done!