Query gi|254781023|ref|YP_003065436.1| hypothetical protein CLIBASIA_04625 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 34
No_of_seqs 1 out of 3
Neff 1.0
Searched_HMMs 39220
Date Mon May 30 03:04:51 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254781023.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01966 RNasePH ribonuclease 34.9 14 0.00036 19.7 0.6 16 16-31 40-55 (237)
2 TIGR01968 minD_bact septum sit 26.7 21 0.00053 18.9 0.3 18 7-24 6-24 (272)
3 KOG3259 consensus 13.2 86 0.0022 16.1 1.0 26 5-30 94-119 (163)
4 TIGR01873 cas_CT1978 CRISPR-as 9.9 94 0.0024 15.9 0.3 12 18-29 5-16 (91)
5 TIGR00716 rnhC ribonuclease HI 7.4 1.4E+02 0.0037 15.1 0.4 10 8-17 98-107 (298)
6 pfam09041 Aurora-A_bind Aurora 7.3 1.8E+02 0.0046 14.6 0.9 19 14-32 34-53 (67)
7 TIGR02670 cas_csx8 CRISPR-asso 5.4 2.1E+02 0.0053 14.3 0.3 10 10-19 6-15 (493)
8 pfam07254 DUF1434 Protein of u 5.3 1.4E+02 0.0036 15.1 -0.6 16 2-17 55-70 (132)
9 pfam02088 Ornatin Ornatin. 4.7 3.2E+02 0.0081 13.5 0.9 20 11-30 4-23 (41)
10 TIGR02178 yeiP elongation fact 4.7 2.8E+02 0.0071 13.7 0.6 10 20-29 136-145 (187)
No 1
>TIGR01966 RNasePH ribonuclease PH; InterPro: IPR002381 Prokaryotic ribonuclease PH (2.7.7.56 from EC) (RNase PH) is a phosphorolytic exoribonuclease that removes nucleotide residues following the -CCA terminus of tRNA and adds nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates . There is a similar protein in Caenorhabditis elegans that belongs to this group. More information about these proteins can be found at Protein of the Month: RNA Exosomes .; GO: 0000049 tRNA binding, 0004549 tRNA-specific ribonuclease activity, 0008033 tRNA processing.
Probab=34.87 E-value=14 Score=19.72 Aligned_cols=16 Identities=44% Similarity=0.927 Sum_probs=13.9
Q ss_pred HHHHCCCCCCCCCCCC
Q ss_conf 1121048864246742
Q gi|254781023|r 16 ESATENIPPSIKGKGE 31 (34)
Q Consensus 16 esatenippsikgkge 31 (34)
-|-.|+.||-.||+|+
T Consensus 40 ASv~e~VP~flrG~G~ 55 (237)
T TIGR01966 40 ASVEEKVPPFLRGSGE 55 (237)
T ss_pred EEECCCCCCCCCCCCC
T ss_conf 8755872852358894
No 2
>TIGR01968 minD_bact septum site-determining protein MinD; InterPro: IPR010223 This entry describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. In Escherichia coli, the cell division site is determined by the cooperative activity of min operon products MinC, MinD, and MinE . MinD is a membrane-associated ATPase and is a septum site-determining factor through the activation and regulation of MinC and MinE. MinD is also known to undergo a rapid pole-to-pole oscillation movement in vivo as observed by fluorescent microscopy. In plants, chloroplast division requires the dimerisation of stromal MinD . The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.; GO: 0016887 ATPase activity, 0000918 selection of site for barrier septum formation.
Probab=26.72 E-value=21 Score=18.95 Aligned_cols=18 Identities=44% Similarity=0.652 Sum_probs=10.8
Q ss_pred CCCCCCCHHHHH-HCCCCC
Q ss_conf 003765101112-104886
Q gi|254781023|r 7 ITSGKGDFRESA-TENIPP 24 (34)
Q Consensus 7 itsgkgdfresa-tenipp 24 (34)
||||||---.+. |-||--
T Consensus 6 iTSGKGGVGKTTtTANlG~ 24 (272)
T TIGR01968 6 ITSGKGGVGKTTTTANLGT 24 (272)
T ss_pred EEECCCCCCHHHHHHHHHH
T ss_conf 9817889773589899999
No 3
>KOG3259 consensus
Probab=13.21 E-value=86 Score=16.10 Aligned_cols=26 Identities=35% Similarity=0.503 Sum_probs=19.5
Q ss_pred CCCCCCCCCHHHHHHCCCCCCCCCCC
Q ss_conf 00003765101112104886424674
Q gi|254781023|r 5 RRITSGKGDFRESATENIPPSIKGKG 30 (34)
Q Consensus 5 rritsgkgdfresatenippsikgkg 30 (34)
..|.+|.++|.|-|..---+|-...|
T Consensus 94 ~~l~~g~~~f~elA~q~SdCSSaKRG 119 (163)
T KOG3259 94 EDLKSGSGDFEELAKQRSDCSSAKRG 119 (163)
T ss_pred HHHHCCCCCHHHHHHHHCCHHHHCCC
T ss_conf 87605743289998753471332347
No 4
>TIGR01873 cas_CT1978 CRISPR-associated protein Cas2; InterPro: IPR010152 This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas proteins are found adjacent to a characteristic short, palindromic repeat cluster termed CRISPR, a probable mobile DNA element..
Probab=9.92 E-value=94 Score=15.91 Aligned_cols=12 Identities=50% Similarity=1.190 Sum_probs=8.8
Q ss_pred HHCCCCCCCCCC
Q ss_conf 210488642467
Q gi|254781023|r 18 ATENIPPSIKGK 29 (34)
Q Consensus 18 atenippsikgk 29 (34)
-|||+||...|.
T Consensus 5 V~~n~ppr~RGr 16 (91)
T TIGR01873 5 VTENVPPRLRGR 16 (91)
T ss_pred ECCCCCCCHHHH
T ss_conf 514899001257
No 5
>TIGR00716 rnhC ribonuclease HIII; InterPro: IPR004641 Ribonuclease HIII 3.1.26 from EC cleaves RNA from DNA-RNA hybrids. It catalyses endonucleolytic cleavage to 5'-phospho-monoesters. Two types of ribonuclease H in Bacillus subtilis, RNase HII (rnhB) and RNase HIII (rnhC), are both known experimentally and are quite similar to each other. The only RNase H homologue in the Mycoplasmas resembles rnhC. Archaeal forms resemble HII more closely than HIII. This family describes bacterial RNase HIII .; GO: 0004523 ribonuclease H activity, 0016070 RNA metabolic process, 0005737 cytoplasm.
Probab=7.40 E-value=1.4e+02 Score=15.06 Aligned_cols=10 Identities=50% Similarity=0.823 Sum_probs=5.5
Q ss_pred CCCCCCHHHH
Q ss_conf 0376510111
Q gi|254781023|r 8 TSGKGDFRES 17 (34)
Q Consensus 8 tsgkgdfres 17 (34)
-||||||=-+
T Consensus 98 EsGkGD~FGp 107 (298)
T TIGR00716 98 ESGKGDYFGP 107 (298)
T ss_pred CCCCCCCCCC
T ss_conf 5688763414
No 6
>pfam09041 Aurora-A_bind Aurora-A binding. The Aurora-A binding domain binds to two distinct sites on the Aurora kinase: the upstream residues bind at the N-terminal lobe, whilst the downstream residues bind in an alpha-helical conformation between the N- and C-terminal lobes. The two Aurora-A binding motifs are connected by a flexible linker that is variable in length and sequence across species. Binding of the domain results strong activation of Aurora-A and protection from deactivating dephosphorylation by phosphatase PP1.
Probab=7.28 E-value=1.8e+02 Score=14.57 Aligned_cols=19 Identities=58% Similarity=0.997 Sum_probs=13.3
Q ss_pred HHHHH-HCCCCCCCCCCCCC
Q ss_conf 01112-10488642467422
Q gi|254781023|r 14 FRESA-TENIPPSIKGKGEM 32 (34)
Q Consensus 14 fresa-tenippsikgkgem 32 (34)
|.|.| .|||||.-.|-++.
T Consensus 34 FdekaNlEN~pp~~~~~~~~ 53 (67)
T pfam09041 34 FDEKANLENIPPDQRGLGEL 53 (67)
T ss_pred HHHHHCCCCCCCCCCCCCCC
T ss_conf 88762233478565777764
No 7
>TIGR02670 cas_csx8 CRISPR-associated protein Csx8 (provisional); InterPro: IPR013487 Clusters of short DNA repeats with nonhomologous spacers, which are found at regular intervals in the genomes of phylogenetically distinct prokaryotic species, comprise a family with recognizable features . This family is known as CRISPR (short for Clustered, Regularly Interspaced Short Palindromic Repeats). A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This entry describes proteins of unknown function which are encoded in the midst of a cas gene operon. .
Probab=5.44 E-value=2.1e+02 Score=14.32 Aligned_cols=10 Identities=50% Similarity=0.554 Sum_probs=7.1
Q ss_pred CCCCHHHHHH
Q ss_conf 7651011121
Q gi|254781023|r 10 GKGDFRESAT 19 (34)
Q Consensus 10 gkgdfresat 19 (34)
-.||+|+|||
T Consensus 6 e~sDWr~SAt 15 (493)
T TIGR02670 6 EASDWRYSAT 15 (493)
T ss_pred CCCCCHHHHH
T ss_conf 7864037899
No 8
>pfam07254 DUF1434 Protein of unknown function (DUF1434). This family consists of several hypothetical bacterial proteins of around 135 residues in length. Members of this family all appear to be Enterobacterial proteins. The function of this family is unknown.
Probab=5.34 E-value=1.4e+02 Score=15.09 Aligned_cols=16 Identities=38% Similarity=0.561 Sum_probs=12.2
Q ss_pred CCCCCCCCCCCCHHHH
Q ss_conf 7310000376510111
Q gi|254781023|r 2 KTQRRITSGKGDFRES 17 (34)
Q Consensus 2 ktqrritsgkgdfres 17 (34)
+.||||.|-+|+.+--
T Consensus 55 RSQk~I~~~qGei~Ll 70 (132)
T pfam07254 55 RSQRRINSRQGEIVLL 70 (132)
T ss_pred HHHHHHHHHCCEEEEC
T ss_conf 8764177656259983
No 9
>pfam02088 Ornatin Ornatin.
Probab=4.73 E-value=3.2e+02 Score=13.45 Aligned_cols=20 Identities=30% Similarity=0.365 Sum_probs=11.4
Q ss_pred CCCHHHHHHCCCCCCCCCCC
Q ss_conf 65101112104886424674
Q gi|254781023|r 11 KGDFRESATENIPPSIKGKG 30 (34)
Q Consensus 11 kgdfresatenippsikgkg 30 (34)
-|||+|+...|-.-.-.||-
T Consensus 4 c~d~ke~gqp~~kcrc~gkp 23 (41)
T pfam02088 4 CGDFKELGQPDDKCRCDGKP 23 (41)
T ss_pred CCCHHHCCCCCCCCCCCCCC
T ss_conf 00165517997532128964
No 10
>TIGR02178 yeiP elongation factor P-like protein YeiP; InterPro: IPR011897 This entry represents homologs of elongation factor P (IPR011768 from INTERPRO) and probably are translation factors. Member of this family are found only in some gammaproteobacteria, including Escherichia coli (YeiP) and Vibrio cholerae..
Probab=4.73 E-value=2.8e+02 Score=13.73 Aligned_cols=10 Identities=40% Similarity=0.630 Sum_probs=6.9
Q ss_pred CCCCCCCCCC
Q ss_conf 0488642467
Q gi|254781023|r 20 ENIPPSIKGK 29 (34)
Q Consensus 20 enippsikgk 29 (34)
+.-||+|||-
T Consensus 136 veT~P~iKGa 145 (187)
T TIGR02178 136 VETDPEIKGA 145 (187)
T ss_pred EECCCCCCCC
T ss_conf 8479998453
Done!