Query gi|254780175|ref|YP_003064588.1| hypothetical protein CLIBASIA_00290 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 38
No_of_seqs 1 out of 3
Neff 1.0
Searched_HMMs 39220
Date Mon May 23 01:36:20 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780175.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01748 rhaA L-rhamnose isom 36.2 21 0.00053 17.6 1.6 18 18-35 198-215 (415)
2 TIGR00904 mreB cell shape dete 24.1 28 0.00072 16.9 0.6 16 19-34 293-308 (337)
3 TIGR01962 NuoD NADH dehydrogen 19.3 26 0.00068 17.0 -0.4 20 13-32 387-406 (408)
4 pfam03039 IL12 Interleukin-12 17.1 98 0.0025 14.2 2.1 23 10-32 148-170 (219)
5 COG4127 Uncharacterized conser 10.0 1.6E+02 0.0042 13.1 2.8 29 10-38 189-217 (318)
6 pfam04714 BCL_N BCL7, N-termin 9.8 1.7E+02 0.0043 13.0 2.4 19 12-30 11-29 (52)
7 TIGR02930 vnfG_nitrog V-contai 9.2 1.8E+02 0.0045 12.9 1.9 22 3-33 74-95 (109)
8 KOG2706 consensus 8.8 1E+02 0.0026 14.1 0.1 16 6-21 132-147 (476)
9 pfam10750 DUF2536 Protein of u 7.9 1.2E+02 0.0029 13.8 0.1 25 3-27 19-43 (68)
10 PRK08412 flgL flagellar hook-a 7.4 2.1E+02 0.0055 12.5 3.4 29 2-30 742-770 (777)
No 1
>TIGR01748 rhaA L-rhamnose isomerase; InterPro: IPR009308 This family consists of several bacterial L-rhamnose isomerase proteins (5.3.1.14 from EC). This enzyme interconverts L-rhamnose and L-rhamnulose. In some species, including Escherichia coli, this is the first step in rhamnose catabolism. Sequential steps are catalyzed by rhamnulose kinase (rhaB), then rhamnulose-1-phosphate aldolase (rhaD) to yield glycerone phosphate and (S)-lactaldehyde. ; GO: 0008740 L-rhamnose isomerase activity, 0030145 manganese ion binding, 0019299 rhamnose metabolic process.
Probab=36.18 E-value=21 Score=17.56 Aligned_cols=18 Identities=44% Similarity=0.684 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q ss_conf 899999999997445430
Q gi|254780175|r 18 HKALLASIDKVMSEKTKD 35 (38)
Q Consensus 18 hkallasidkvmsektkd 35 (38)
.|-|++|.|.|.|||-..
T Consensus 198 RkRL~eaLDevfsEkl~e 215 (415)
T TIGR01748 198 RKRLLEALDEVFSEKLDE 215 (415)
T ss_pred HHHHHHHHHHHHHHHCCC
T ss_conf 589999742686430572
No 2
>TIGR00904 mreB cell shape determining protein, MreB/Mrl family; InterPro: IPR004753 Bacterial cell shape varies greatly between species, and characteristic morphologies are used for identification purposes. In addition to individual cell shape, the way in which groups of cells are arranged is also typical of some bacterial species, especially Gram-positive coccoids. For many years, it was believed that micro-organisms with other than spheroidal cell shapes maintained morphology by means of their external cell walls. Recently, however, studies of the Gram-positive rod Bacillus subtilis have revealed two related genes that are essential for the integrity of cell morphogenesis . Termed mreB and mbl, the gene products localise close to the cell surface, forming filamentous helical structures. Many homologues have been found in diverse bacterial groups, suggesting a common ancestor . The crystal structure of MreB from Thermotoga maritima has been resolved using X-ray crystallography . It consists of 19 beta-strands and 15 alpha- helices, and shows remarkable structural similarity to eukaryotic actin. MreB crystals also contain proto-filaments, with individual proteins assembling into polymers like F-actin, in the same orientation. It is hypothesised therefore, that MreB was the forerunner of actin in early eukaryotes .; GO: 0000902 cell morphogenesis.
Probab=24.07 E-value=28 Score=16.90 Aligned_cols=16 Identities=44% Similarity=0.644 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHH
Q ss_conf 9999999999744543
Q gi|254780175|r 19 KALLASIDKVMSEKTK 34 (38)
Q Consensus 19 kallasidkvmsektk 34 (38)
-|||-.+||+.|+.|+
T Consensus 293 GaLLrnLDk~lS~eTg 308 (337)
T TIGR00904 293 GALLRNLDKLLSKETG 308 (337)
T ss_pred HHHHHCCCHHHHHHCC
T ss_conf 0545210158777348
No 3
>TIGR01962 NuoD NADH dehydrogenase I, D subunit; InterPro: IPR010219 This entry recognises specifically the D subunit of NADH dehydrogenase I complex. It excludes the related chain of NAD(P)H-quinone oxidoreductases from chloroplast and Synechocystis, where the quinone may be plastoquinone rather than ubiquinone. This subunit often appears as a subunit C/D fusion.; GO: 0016651 oxidoreductase activity acting on NADH or NADPH, 0006118 electron transport.
Probab=19.32 E-value=26 Score=17.03 Aligned_cols=20 Identities=40% Similarity=0.396 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q ss_conf 65667899999999997445
Q gi|254780175|r 13 QQRDNHKALLASIDKVMSEK 32 (38)
Q Consensus 13 qqrdnhkallasidkvmsek 32 (38)
++--.--|.++|||-||+|-
T Consensus 387 ~~lAD~ia~~gs~D~V~GeV 406 (408)
T TIGR01962 387 HYLADLIAILGSIDIVMGEV 406 (408)
T ss_pred HHHHHHHHHHHHCCCCCCCC
T ss_conf 06888899876057333466
No 4
>pfam03039 IL12 Interleukin-12 alpha subunit. Interleukin 12 (IL-12) is a disulphide-bonded heterodimer consisting of a 35kDa alpha subunit and a 40kDa beta subunit. It is involved in the stimulation and maintenance of Th1 cellular immune responses, including the normal host defence against various intracellular pathogens, such as Leishmania, Toxoplasma, measles virus and HIV. IL-12 also has an important role in pathological Th1 responses, such as in inflammatory bowel disease and multiple sclerosis. Suppression of IL-12 activity in such diseases may have therapeutic benefit. On the other hand, administration of recombinant IL-12 may have therapeutic benefit in conditions associated with pathological Th2 responses.
Probab=17.06 E-value=98 Score=14.20 Aligned_cols=23 Identities=30% Similarity=0.338 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 76665667899999999997445
Q gi|254780175|r 10 KENQQRDNHKALLASIDKVMSEK 32 (38)
Q Consensus 10 kenqqrdnhkallasidkvmsek 32 (38)
...+|+--++..|++||..|-.-
T Consensus 148 dp~~Qi~lD~nmLaAidELMQal 170 (219)
T pfam03039 148 DPKQQIILDKGMLVAIDELMQAL 170 (219)
T ss_pred CCHHHHHCCHHHHHHHHHHHHHH
T ss_conf 92753010176999999999983
No 5
>COG4127 Uncharacterized conserved protein [Function unknown]
Probab=10.00 E-value=1.6e+02 Score=13.09 Aligned_cols=29 Identities=31% Similarity=0.369 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf 76665667899999999997445430169
Q gi|254780175|r 10 KENQQRDNHKALLASIDKVMSEKTKDDEN 38 (38)
Q Consensus 10 kenqqrdnhkallasidkvmsektkdden 38 (38)
|+.-.-+.-.-|.|-+-|+|++||-+|.+
T Consensus 189 ks~fd~~e~~~LvAe~lki~gyktg~D~~ 217 (318)
T COG4127 189 KSRFDWDEMQNLVAEVLKIMGYKTGADRE 217 (318)
T ss_pred HHHHCHHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf 75411278999999999985365578777
No 6
>pfam04714 BCL_N BCL7, N-terminal conserver region. Members of the BCL family have significant sequence similarity at their N-terminus, represented in this family. The function of BCL7 proteins is unknown. They may be involved in early development. In addition, BCL7B is commonly hemizygously deleted in patients with Williams syndrome.
Probab=9.75 E-value=1.7e+02 Score=13.04 Aligned_cols=19 Identities=32% Similarity=0.578 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q ss_conf 6656678999999999974
Q gi|254780175|r 12 NQQRDNHKALLASIDKVMS 30 (38)
Q Consensus 12 nqqrdnhkallasidkvms 30 (38)
+...|.-|-.+.+||||-.
T Consensus 11 sRaKddiKrvm~~~dkVR~ 29 (52)
T pfam04714 11 NRAKDDIKKVINALDKVRH 29 (52)
T ss_pred HHHHHHHHHHHHHHHHHHH
T ss_conf 4427899999999999988
No 7
>TIGR02930 vnfG_nitrog V-containing nitrogenase, delta subunit; InterPro: IPR014279 Nitrogenase, also called dinitrogenase, is the enzyme which catalyses the conversion of molecular nitrogen to ammonia (biological nitrogen fixation). The most widespread and most efficient nitrogenase contains a molybdenum cofactor. This entry, also known as the VnfG family, represents the delta subunit of the vanadium-containing V nitrogenase. It is homologous to AnfG, the delta subunit of the iron-only nitrogenase..
Probab=9.24 E-value=1.8e+02 Score=12.93 Aligned_cols=22 Identities=45% Similarity=0.614 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 4788886766656678999999999974454
Q gi|254780175|r 3 DIAKAQIKENQQRDNHKALLASIDKVMSEKT 33 (38)
Q Consensus 3 diakaqikenqqrdnhkallasidkvmsekt 33 (38)
++.|+||+| |++||-+-+-+-|
T Consensus 74 ~l~k~~i~e---------l~~svK~~L~~ia 95 (109)
T TIGR02930 74 ELDKDQIKE---------LLESVKKRLVEIA 95 (109)
T ss_pred CCCHHHHHH---------HHHHHHHHHHHHH
T ss_conf 079767899---------9998876678876
No 8
>KOG2706 consensus
Probab=8.83 E-value=1e+02 Score=14.15 Aligned_cols=16 Identities=44% Similarity=0.507 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHH
Q ss_conf 8886766656678999
Q gi|254780175|r 6 KAQIKENQQRDNHKAL 21 (38)
Q Consensus 6 kaqikenqqrdnhkal 21 (38)
...-|.|.|||-||.-
T Consensus 132 hdeqkkndqrdVHke~ 147 (476)
T KOG2706 132 HDEQKKNDQRDVHKED 147 (476)
T ss_pred HHHHHCCCHHHCCCCC
T ss_conf 1444203100002268
No 9
>pfam10750 DUF2536 Protein of unknown function (DUF2536). This family of proteins with unknown function appears to be restricted to Bacillus spp.
Probab=7.89 E-value=1.2e+02 Score=13.84 Aligned_cols=25 Identities=28% Similarity=0.445 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 4788886766656678999999999
Q gi|254780175|r 3 DIAKAQIKENQQRDNHKALLASIDK 27 (38)
Q Consensus 3 diakaqikenqqrdnhkallasidk 27 (38)
|+..-.-|-|+|-+|.||||-....
T Consensus 19 dl~~LEkkIn~qIe~NkAllL~Vh~ 43 (68)
T pfam10750 19 DLQELEKKINEQIEHNKAILLEVHS 43 (68)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEEEE
T ss_conf 4999999999887327046899767
No 10
>PRK08412 flgL flagellar hook-associated protein FlgL; Validated
Probab=7.39 E-value=2.1e+02 Score=12.50 Aligned_cols=29 Identities=34% Similarity=0.367 Sum_probs=22.9
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 24788886766656678999999999974
Q gi|254780175|r 2 TDIAKAQIKENQQRDNHKALLASIDKVMS 30 (38)
Q Consensus 2 tdiakaqikenqqrdnhkallasidkvms 30 (38)
+|+|++-.+-.|.--+-.|.|+++-|++.
T Consensus 742 ~D~AE~mm~ft~l~~~yQAmLas~~kI~Q 770 (777)
T PRK08412 742 TDMAETYNKFSNLTNNYNAVLASTNKINQ 770 (777)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 07999999999999999999998531134
Done!