Query 047008
Match_columns 227
No_of_seqs 124 out of 330
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 06:40:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047008.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047008hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10250 O-FucT: GDP-fucose pr 99.9 7.5E-24 1.6E-28 189.3 -3.3 119 29-149 231-349 (351)
2 PF00799 Gemini_AL1: Geminivir 61.5 8.4 0.00018 31.2 2.9 28 40-68 14-41 (114)
3 PF14771 DUF4476: Domain of un 58.7 7.2 0.00016 29.5 1.9 37 42-93 39-75 (95)
4 PF10892 DUF2688: Protein of u 52.6 9.5 0.00021 28.0 1.6 16 39-55 42-57 (60)
5 PF13756 Stimulus_sens_1: Stim 48.0 21 0.00046 28.3 3.1 30 43-72 1-32 (112)
6 smart00874 B5 tRNA synthetase 44.9 16 0.00035 25.8 1.8 24 35-59 12-35 (71)
7 PF08924 DUF1906: Domain of un 43.1 25 0.00055 28.7 3.0 22 47-68 81-102 (136)
8 COG4878 Uncharacterized protei 42.7 30 0.00065 32.7 3.6 59 48-107 93-152 (309)
9 cd06418 GH25_BacA-like BacA is 41.0 29 0.00063 30.5 3.2 24 50-73 96-119 (212)
10 PF04561 RNA_pol_Rpb2_2: RNA p 39.6 8.8 0.00019 31.2 -0.3 17 48-64 54-70 (190)
11 TIGR01182 eda Entner-Doudoroff 38.5 34 0.00074 30.1 3.2 72 43-123 109-180 (204)
12 PF02324 Glyco_hydro_70: Glyco 37.2 30 0.00065 36.4 3.0 45 56-101 695-747 (809)
13 TIGR01354 cyt_deam_tetra cytid 33.8 39 0.00084 27.2 2.6 47 43-93 80-127 (127)
14 COG2907 Predicted NAD/FAD-bind 32.4 33 0.00072 33.8 2.3 25 43-68 281-305 (447)
15 PF03484 B5: tRNA synthetase B 31.6 21 0.00047 25.7 0.7 26 35-61 12-37 (70)
16 PF01081 Aldolase: KDPG and KH 31.4 40 0.00086 29.6 2.5 72 43-123 109-180 (196)
17 TIGR02491 NrdG anaerobic ribon 30.9 1E+02 0.0022 25.2 4.7 41 32-72 35-76 (154)
18 PF07862 Nif11: Nitrogen fixat 30.6 27 0.00059 23.4 1.0 30 30-60 15-44 (49)
19 COG0859 RfaF ADP-heptose:LPS h 30.4 49 0.0011 30.2 3.0 67 46-132 198-264 (334)
20 PF15193 FAM24: FAM24 family 29.1 31 0.00067 26.1 1.2 17 199-215 49-67 (69)
21 PLN02232 ubiquinone biosynthes 29.1 56 0.0012 26.7 2.9 29 42-70 125-153 (160)
22 KOG0011 Nucleotide excision re 28.2 20 0.00044 34.3 0.1 27 43-69 294-324 (340)
23 TIGR00601 rad23 UV excision re 27.7 13 0.00028 35.8 -1.3 29 41-69 331-363 (378)
24 smart00546 CUE Domain that may 27.6 35 0.00075 22.2 1.1 13 75-87 4-16 (43)
25 PF05830 NodZ: Nodulation prot 27.6 73 0.0016 30.4 3.7 108 29-142 169-300 (321)
26 PF12307 DUF3631: Protein of u 26.6 79 0.0017 27.8 3.5 40 40-82 140-179 (184)
27 PRK05578 cytidine deaminase; V 25.8 57 0.0012 26.7 2.3 40 50-93 91-130 (131)
28 PF09851 SHOCT: Short C-termin 25.8 1.3E+02 0.0029 18.7 3.5 24 155-178 6-29 (31)
29 PF00036 EF-hand_1: EF hand; 24.8 52 0.0011 20.1 1.5 21 157-177 5-28 (29)
30 PF14053 DUF4248: Domain of un 24.7 53 0.0012 24.3 1.8 18 40-58 52-69 (69)
31 PF02845 CUE: CUE domain; Int 24.7 43 0.00093 21.8 1.2 12 76-87 4-15 (42)
32 PRK10556 hypothetical protein; 24.7 45 0.00098 27.1 1.5 19 43-61 3-21 (111)
33 PF10861 DUF2784: Protein of U 24.5 51 0.0011 26.6 1.8 15 40-54 52-66 (112)
34 PRK11611 enhanced serine sensi 24.1 75 0.0016 29.0 3.0 81 28-120 92-182 (246)
35 TIGR00600 rad2 DNA excision re 23.2 1.3E+02 0.0029 32.9 5.0 87 40-161 766-860 (1034)
36 KOG3705 Glycoprotein 6-alpha-L 23.1 92 0.002 31.3 3.5 44 50-101 396-439 (580)
37 PRK05718 keto-hydroxyglutarate 22.6 1.2E+02 0.0026 26.7 3.9 41 43-87 116-156 (212)
38 COG4957 Predicted transcriptio 22.0 40 0.00087 28.8 0.8 9 111-119 73-81 (148)
39 PF09400 DUF2002: Protein of u 21.7 42 0.0009 27.4 0.8 19 43-61 3-21 (111)
40 PF13833 EF-hand_8: EF-hand do 21.1 96 0.0021 20.3 2.4 26 152-177 22-53 (54)
41 COG2241 CobL Precorrin-6B meth 20.8 1E+02 0.0022 27.5 3.1 25 43-68 151-175 (210)
42 PF02495 7kD_coat: 7kD viral c 20.5 71 0.0015 22.6 1.7 22 29-51 30-51 (59)
43 PRK06015 keto-hydroxyglutarate 20.4 1.6E+02 0.0034 26.0 4.1 50 43-100 105-154 (201)
No 1
>PF10250 O-FucT: GDP-fucose protein O-fucosyltransferase; InterPro: IPR019378 This is a family of conserved proteins representing the enzyme responsible for adding O-fucose to EGF (epidermal growth factor-like) repeats. Six highly conserved cysteines are present as well as a DXD-like motif (ERD), conserved in mammals, Drosophila, and Caenorhabditis elegans. Both features are characteristic of several glycosyltransferase families. The enzyme is a membrane-bound protein released by proteolysis and, as for most glycosyltransferases, is strongly activated by manganese []. ; PDB: 3ZY6_A 3ZY3_A 3ZY5_A 3ZY2_A 3ZY4_A.
Probab=99.86 E-value=7.5e-24 Score=189.28 Aligned_cols=119 Identities=38% Similarity=0.633 Sum_probs=79.5
Q ss_pred ccCccccccCCCCCCCHHHHHHHHhhcCCCCCceEEEEcccccCccchhhHHHHhCCCccccccCCCccccCCccCcccc
Q 047008 29 VILPGLNRINGKCPLTPLEVGMMLRGMGFDNNTSIYLASGKIYQAERHLASLLKMFPLVYTKESLATPDELAPFEGYSSR 108 (227)
Q Consensus 29 ~i~~~~~R~~G~CPLtP~Evgl~L~alGf~~~T~IYlAageiyGG~~~m~~L~~~fPnl~tKe~l~~~~El~~f~~~ss~ 108 (227)
.+++...+..|.||++|++++.+++++|+.+.|.||||++++|||.+.|++|++.||++++|+++.+.+|+++|.+ .+
T Consensus 231 ~~~~~~~~~~~~~p~~~~~~~~i~~~~~~~~~~~vYiAtd~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~--~~ 308 (351)
T PF10250_consen 231 SINPEKKRRNGCCPSTPQEAKQILRALGKNNTTVVYIATDEIYGGERRLDPLKNMFPNVVTKDDLLSHEELEPLND--DQ 308 (351)
T ss_dssp GTT-----HHHHS--HHHHHHHHHHHHHHHT-SEEEEEESS-----------HHHHHHHHGGGT--EE--S-------S-
T ss_pred cccchhhhhcCCCCChHHHHHHHHHHhccCCCCEEEEecCcccccchhHHHHHHHhhhhEeccccCCHHHhhhccc--cc
Confidence 4667789999999999999999999999999999999999999999999999999999999999999999999877 89
Q ss_pred cccceeeeeecCceeeecCCCCchhhhhhccccccCCCCce
Q 047008 109 LAALDYTVCLFSEVFVTTHGGNFPHFLMGHRRFLFDGHSKT 149 (227)
Q Consensus 109 lAALDYiV~l~SDvFv~t~~Gnm~~~v~GhR~y~~~G~~kT 149 (227)
+|+||++||+.||+||.|....|+..|+++|.|.|..++||
T Consensus 309 ~a~vD~~i~~~s~~Figt~~Stfs~~i~~~R~~~g~~~~~~ 349 (351)
T PF10250_consen 309 LAMVDQEICSRSDVFIGTCGSTFSSNIARERHYRGKPKRKS 349 (351)
T ss_dssp -HHHHHHHHHHSSEEEE-TT-HHHHHHHHHHHHSSSS---E
T ss_pred hhHHHHHHHhcCCEEEecCcchhHHHhhcccCcCCCCCCCC
Confidence 99999999999999999997789999999999994334344
No 2
>PF00799 Gemini_AL1: Geminivirus Rep catalytic domain; InterPro: IPR022690 Geminiviruses are characterised by a genome of circular single-stranded DNA encapsidated in twinned (geminate) quasi-isometric particles, from which the group derives its name []. Most geminiviruses can be divided into two subgroups on the basis of host range and/or insect vector: i.e. those that infect dicotyledenous plants and are transmitted by the same whitefly species, and those that infect monocotyledenous plants and are transmitted by different leafhopper vectors. The genomes of the whitefly-transmitted African cassava mosaic virus, Tomato golden mosaic virus (TGMV) and Bean golden mosaic virus (BGMV) possess a bipartite genome. By contrast, only a single DNA component has been identified for the leafhopper-transmitted Maize streak virus (MSV) and Wheat dwarf virus (WDV) [, ]. Beet curly top virus (BCTV), and Tobacco yellow dwarf virus belong to a third possible subgroup. Like MSV and WDV, BCTV is transmitted by a specific leafhopper species, yet like the whitefly-transmitted geminiviruses it has a host range confined to dicotyledenous plants. Sequence comparison of the whitefly-transmitted Squash leaf curl virus (SqLCV) and Tomato yellow leaf curl virus (TYLCV) with the genomic components of TGMV and BGMV reveals a close evolutionary relationship [, , ]. Amino acid sequence alignments of Potato yellow mosaic virus (PYMV) proteins with those encoded by other geminiviruses show that PYMV is closely related to geminiviruses isolated from the New World, especially in the putative coat protein gene regions []. Comparison of MSV DNA-encoded proteins with those of other geminiviruses infecting monocotyledonous plants, including Panicum streak virus [] and Miscanthus streak virus (MiSV) [], reveal high levels of similarity. The AL1 proteins encodes the replication initiator protein (Rep) of geminiviruses, which is a replicon-specific initiator enzyme and is an essential component of the replisome []. For geminivirus Rep protein, this N-terminal region is crucial for origin recognition and DNA cleavage and nucleotidyl transfer []. It is found in association with PF08283 from PFAM. ; GO: 0006260 DNA replication; PDB: 1L5I_A 1L2M_A.
Probab=61.46 E-value=8.4 Score=31.23 Aligned_cols=28 Identities=21% Similarity=0.261 Sum_probs=15.7
Q ss_pred CCCCCHHHHHHHHhhcCCCCCceEEEEcc
Q 047008 40 KCPLTPLEVGMMLRGMGFDNNTSIYLASG 68 (227)
Q Consensus 40 ~CPLtP~Evgl~L~alGf~~~T~IYlAag 68 (227)
+|||+|||+...|++|--+ ....||...
T Consensus 14 qC~l~ke~~l~~L~~l~~~-~~~~yI~v~ 41 (114)
T PF00799_consen 14 QCSLTKEEALEQLKNLLTP-SNKKYIRVC 41 (114)
T ss_dssp T----HHHHHHHHHH---S-S-EEEEEEE
T ss_pred CCCCCHHHHHHHHHHhCCc-cCceEEEee
Confidence 6999999999999999764 466777543
No 3
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=58.71 E-value=7.2 Score=29.51 Aligned_cols=37 Identities=24% Similarity=0.396 Sum_probs=33.0
Q ss_pred CCCHHHHHHHHhhcCCCCCceEEEEcccccCccchhhHHHHhCCCccccccC
Q 047008 42 PLTPLEVGMMLRGMGFDNNTSIYLASGKIYQAERHLASLLKMFPLVYTKESL 93 (227)
Q Consensus 42 PLtP~Evgl~L~alGf~~~T~IYlAageiyGG~~~m~~L~~~fPnl~tKe~l 93 (227)
++|-.+++-+|+-+-|++ .+|+.|+-++|++++++.-
T Consensus 39 ~~T~~Qv~~il~~f~fd~---------------~kl~~lk~l~p~i~D~~n~ 75 (95)
T PF14771_consen 39 CFTCAQVKQILSLFSFDN---------------DKLKALKLLYPYIVDPQNY 75 (95)
T ss_pred ceeHHHHHHHHHHcCCCH---------------HHHHHHHHHhhhccCHHHH
Confidence 599999999999999985 3799999999999999743
No 4
>PF10892 DUF2688: Protein of unknown function (DUF2688); InterPro: IPR024392 Members of this protein family are annotated as KleB, and may play a role in the regulation of transcription in plasmids.
Probab=52.64 E-value=9.5 Score=27.97 Aligned_cols=16 Identities=38% Similarity=0.692 Sum_probs=13.7
Q ss_pred CCCCCCHHHHHHHHhhc
Q 047008 39 GKCPLTPLEVGMMLRGM 55 (227)
Q Consensus 39 G~CPLtP~Evgl~L~al 55 (227)
|-| +||||-+.+|+++
T Consensus 42 ~~C-itpEE~~~I~e~~ 57 (60)
T PF10892_consen 42 GDC-ITPEEDREILEAT 57 (60)
T ss_pred hcc-CCHHHHHHHHHHH
Confidence 456 9999999999875
No 5
>PF13756 Stimulus_sens_1: Stimulus-sensing domain
Probab=48.02 E-value=21 Score=28.28 Aligned_cols=30 Identities=23% Similarity=0.359 Sum_probs=24.9
Q ss_pred CCHHHHHHHHhhcCCCCCce--EEEEcccccC
Q 047008 43 LTPLEVGMMLRGMGFDNNTS--IYLASGKIYQ 72 (227)
Q Consensus 43 LtP~Evgl~L~alGf~~~T~--IYlAageiyG 72 (227)
|+|+.++-||+-|.-|.+|+ ||=+.|.+-.
T Consensus 1 l~pe~a~plLrrL~~Pt~~RARlyd~dG~Ll~ 32 (112)
T PF13756_consen 1 LNPERARPLLRRLISPTRTRARLYDPDGNLLA 32 (112)
T ss_pred CCHHHHHHHHHHhCCCCCceEEEECCCCCEEe
Confidence 68999999999999999996 5656666544
No 6
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=44.86 E-value=16 Score=25.77 Aligned_cols=24 Identities=33% Similarity=0.613 Sum_probs=20.6
Q ss_pred cccCCCCCCCHHHHHHHHhhcCCCC
Q 047008 35 NRINGKCPLTPLEVGMMLRGMGFDN 59 (227)
Q Consensus 35 ~R~~G~CPLtP~Evgl~L~alGf~~ 59 (227)
.+..|. .++++|+.-+|+.|||.-
T Consensus 12 ~~llG~-~i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 12 NRLLGL-DLSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHHCC-CCCHHHHHHHHHHCCCeE
Confidence 466776 599999999999999975
No 7
>PF08924 DUF1906: Domain of unknown function (DUF1906); InterPro: IPR015020 This entry represents a family of uncharacterised hypothetical bacterial proteins. ; PDB: 1SFS_A.
Probab=43.13 E-value=25 Score=28.72 Aligned_cols=22 Identities=32% Similarity=0.548 Sum_probs=13.9
Q ss_pred HHHHHHhhcCCCCCceEEEEcc
Q 047008 47 EVGMMLRGMGFDNNTSIYLASG 68 (227)
Q Consensus 47 Evgl~L~alGf~~~T~IYlAag 68 (227)
++.-.-++||||..|.||.|--
T Consensus 81 ~A~~~A~~lG~p~gt~IYfavD 102 (136)
T PF08924_consen 81 DAVAAARALGFPAGTPIYFAVD 102 (136)
T ss_dssp HHHHHHHHTT--SS-EEEEE--
T ss_pred HHHHHHHHcCCCCCCEEEEEee
Confidence 4455678899999999999976
No 8
>COG4878 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=42.68 E-value=30 Score=32.68 Aligned_cols=59 Identities=19% Similarity=0.222 Sum_probs=47.9
Q ss_pred HHHHHhhcCCC-CCceEEEEcccccCccchhhHHHHhCCCccccccCCCccccCCccCccc
Q 047008 48 VGMMLRGMGFD-NNTSIYLASGKIYQAERHLASLLKMFPLVYTKESLATPDELAPFEGYSS 107 (227)
Q Consensus 48 vgl~L~alGf~-~~T~IYlAageiyGG~~~m~~L~~~fPnl~tKe~l~~~~El~~f~~~ss 107 (227)
++.++..|--. -+|-||++.+.|-- ++.-..|.+.||++-|=.++.+.+|+.+|...+.
T Consensus 93 L~~y~~~ls~~~y~~~vfVppSnil~-q~gk~alvk~~p~lktissiy~~deykd~~se~g 152 (309)
T COG4878 93 LADYGDILSITGYDTFVFVPPSNILL-QKGKFALVKQAPSLKTISSIYNTDEYKDFNSESG 152 (309)
T ss_pred HHHHHHHHhccccceEEEeCcccccc-hhHHHHHHHhCCCcceeeeEecccccCcccchhe
Confidence 45555556444 57899999999965 6678999999999999999999999999864443
No 9
>cd06418 GH25_BacA-like BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of Bacillus subtilis. BacA has a C-terminal catalytic glycosyl hydrolase family 25 (GH25) domain and an N-terminal peptidoglycan-binding domain comprised of three alpha helices which is similar to a domain found in matrixins.
Probab=40.99 E-value=29 Score=30.48 Aligned_cols=24 Identities=29% Similarity=0.315 Sum_probs=19.1
Q ss_pred HHHhhcCCCCCceEEEEcccccCc
Q 047008 50 MMLRGMGFDNNTSIYLASGKIYQA 73 (227)
Q Consensus 50 l~L~alGf~~~T~IYlAageiyGG 73 (227)
-.-++||||..|.||+|=-.-...
T Consensus 96 ~~A~~lG~p~gs~IYfavD~d~~~ 119 (212)
T cd06418 96 AAARALGFPPGTIIYFAVDFDALD 119 (212)
T ss_pred HHHHHcCCCCCCEEEEEeecCCCc
Confidence 345789999999999998776554
No 10
>PF04561 RNA_pol_Rpb2_2: RNA polymerase Rpb2, domain 2; InterPro: IPR007642 RNA polymerases catalyse the DNA-dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA polymerase. This domain forms one of the two distinctive lobes of the Rpb2 structure. This domain is also known as the lobe domain []. DNA has been demonstrated to bind to the concave surface of the lobe domain, and plays a role in maintaining the transcription bubble. Many of the bacterial members contain large insertions within this domain, a region known as dispensable region 1 (DRI).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_B 3LTI_A 3IYD_C 3LU0_C 2Y0S_R 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C ....
Probab=39.63 E-value=8.8 Score=31.19 Aligned_cols=17 Identities=24% Similarity=0.669 Sum_probs=12.5
Q ss_pred HHHHHhhcCCCCCceEE
Q 047008 48 VGMMLRGMGFDNNTSIY 64 (227)
Q Consensus 48 vgl~L~alGf~~~T~IY 64 (227)
+.++|||||+.++.-||
T Consensus 54 i~ilLrALG~~sd~eI~ 70 (190)
T PF04561_consen 54 IVILLRALGIESDKEII 70 (190)
T ss_dssp HHHHHHHTT--STCHHH
T ss_pred eEEeehhhcCcCccccc
Confidence 68999999998877665
No 11
>TIGR01182 eda Entner-Doudoroff aldolase. 2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida
Probab=38.53 E-value=34 Score=30.14 Aligned_cols=72 Identities=19% Similarity=0.231 Sum_probs=45.1
Q ss_pred CCHHHHHHHHhhcCCCCCceEEEEcccccCccchhhHHHHhCCCccccccCCCccccCCccCcccccccceeeeeecCce
Q 047008 43 LTPLEVGMMLRGMGFDNNTSIYLASGKIYQAERHLASLLKMFPLVYTKESLATPDELAPFEGYSSRLAALDYTVCLFSEV 122 (227)
Q Consensus 43 LtP~Evgl~L~alGf~~~T~IYlAageiyGG~~~m~~L~~~fPnl~tKe~l~~~~El~~f~~~ss~lAALDYiV~l~SDv 122 (227)
+||-|+...++ +|++ --.||= ...+||-..++.|+.-||++ .++......+ .|-...++|=-..|++.|++
T Consensus 109 ~TptEi~~A~~-~Ga~-~vKlFP--A~~~GG~~yikal~~plp~i----~~~ptGGV~~-~N~~~~l~aGa~~vg~Gs~L 179 (204)
T TIGR01182 109 ATPSEIMLALE-LGIT-ALKLFP--AEVSGGVKMLKALAGPFPQV----RFCPTGGINL-ANVRDYLAAPNVACGGGSWL 179 (204)
T ss_pred CCHHHHHHHHH-CCCC-EEEECC--chhcCCHHHHHHHhccCCCC----cEEecCCCCH-HHHHHHHhCCCEEEEEChhh
Confidence 89999866554 4552 124554 56889999999999999987 4554444444 23333344444455555555
Q ss_pred e
Q 047008 123 F 123 (227)
Q Consensus 123 F 123 (227)
|
T Consensus 180 ~ 180 (204)
T TIGR01182 180 V 180 (204)
T ss_pred c
Confidence 4
No 12
>PF02324 Glyco_hydro_70: Glycosyl hydrolase family 70; InterPro: IPR003318 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glucosyltransferases or sucrose 6-glycosyl transferases (GTF-S) (2.4.1.5 from EC, GH70 from CAZY) catalyse the transfer of D-glucopyramnosyl units from sucrose onto acceptor molecules []. This signature roughly corresponds to the N-terminal catalytic domain of the enzyme. Members of this group also contain the putative cell wall binding repeat (IPR002479 from INTERPRO).; GO: 0009250 glucan biosynthetic process; PDB: 3AIE_G 3AIB_D 3AIC_E 3TTQ_A 3TTO_D 3KLL_A 3KLK_A 3HZ3_A.
Probab=37.17 E-value=30 Score=36.40 Aligned_cols=45 Identities=31% Similarity=0.568 Sum_probs=32.8
Q ss_pred CCCCCceEEEEc----cc----ccCccchhhHHHHhCCCccccccCCCccccCC
Q 047008 56 GFDNNTSIYLAS----GK----IYQAERHLASLLKMFPLVYTKESLATPDELAP 101 (227)
Q Consensus 56 Gf~~~T~IYlAa----ge----iyGG~~~m~~L~~~fPnl~tKe~l~~~~El~~ 101 (227)
|-.-...+|+|- |+ -|||+ .|+-|++.||.|+++..+.|..-+-|
T Consensus 695 ~s~i~n~lY~a~T~ggG~dyQ~~YGG~-fLdeLq~~YP~lF~~~qiSTG~~idp 747 (809)
T PF02324_consen 695 GSTINNTLYVANTKGGGKDYQAKYGGA-FLDELQKKYPDLFTTKQISTGVPIDP 747 (809)
T ss_dssp TSSTSSEEEEEEEEB-CHSHHHHHTTT-THHHHHHH-GGGCCSEETTTSSB--T
T ss_pred CCeecceeEEEecccccHhHHHHHhHH-HHHHHHHhChHhhhccccccCCCCCc
Confidence 344456899984 44 57875 89999999999999999988766555
No 13
>TIGR01354 cyt_deam_tetra cytidine deaminase, homotetrameric. This small, homotetrameric zinc metalloprotein is found in humans and most bacteria. A related, homodimeric form with a much larger subunit is found in E. coli and in Arabidopsis. Both types may act on deoxycytidine as well as cytidine.
Probab=33.81 E-value=39 Score=27.22 Aligned_cols=47 Identities=15% Similarity=0.373 Sum_probs=31.8
Q ss_pred CCHHHH-HHHHhhcCCCCCceEEEEcccccCccchhhHHHHhCCCccccccC
Q 047008 43 LTPLEV-GMMLRGMGFDNNTSIYLASGKIYQAERHLASLLKMFPLVYTKESL 93 (227)
Q Consensus 43 LtP~Ev-gl~L~alGf~~~T~IYlAageiyGG~~~m~~L~~~fPnl~tKe~l 93 (227)
++|--+ --+|..++ +.++.|++...+ |......|+++.|.-+.+++|
T Consensus 80 ~sPCG~Crq~l~e~~-~~~~~v~~~~~~---~~~~~~~l~eLLP~~f~~~~l 127 (127)
T TIGR01354 80 VSPCGACRQVLAEFA-GPDTPIYMTNND---GTYKVYTVGELLPFGFGPSDL 127 (127)
T ss_pred cCccHHHHHHHHHhC-CCCcEEEEECCC---CCEEEEEHHHhCcCcCCcCcC
Confidence 444332 34677777 668898888776 344457788889988776654
No 14
>COG2907 Predicted NAD/FAD-binding protein [General function prediction only]
Probab=32.44 E-value=33 Score=33.76 Aligned_cols=25 Identities=20% Similarity=0.377 Sum_probs=22.5
Q ss_pred CCHHHHHHHHhhcCCCCCceEEEEcc
Q 047008 43 LTPLEVGMMLRGMGFDNNTSIYLASG 68 (227)
Q Consensus 43 LtP~Evgl~L~alGf~~~T~IYlAag 68 (227)
=||+|+. +|+|++|..+|.+|.+-.
T Consensus 281 ~sp~e~q-ll~a~~Ys~n~aVlhtd~ 305 (447)
T COG2907 281 PSPEERQ-LLGALRYSANTAVLHTDA 305 (447)
T ss_pred CCHHHHH-HHHhhhhhhceeEEeecc
Confidence 4899999 999999999999998754
No 15
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=31.55 E-value=21 Score=25.67 Aligned_cols=26 Identities=27% Similarity=0.563 Sum_probs=18.2
Q ss_pred cccCCCCCCCHHHHHHHHhhcCCCCCc
Q 047008 35 NRINGKCPLTPLEVGMMLRGMGFDNNT 61 (227)
Q Consensus 35 ~R~~G~CPLtP~Evgl~L~alGf~~~T 61 (227)
.|..|. .++++|+.-+|+.|||.-+-
T Consensus 12 ~~~lG~-~i~~~~i~~~L~~lg~~~~~ 37 (70)
T PF03484_consen 12 NKLLGI-DISPEEIIKILKRLGFKVEK 37 (70)
T ss_dssp HHHHTS----HHHHHHHHHHTT-EEEE
T ss_pred HHHhCC-CCCHHHHHHHHHHCCCEEEE
Confidence 466676 49999999999999997554
No 16
>PF01081 Aldolase: KDPG and KHG aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4.1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related []. They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VCR_A 1FQ0_A 1EUN_A 1EUA_B 1FWR_A 2C0A_B 1WBH_A 1WAU_A 2YW3_B 2YW4_A ....
Probab=31.38 E-value=40 Score=29.57 Aligned_cols=72 Identities=21% Similarity=0.200 Sum_probs=46.5
Q ss_pred CCHHHHHHHHhhcCCCCCceEEEEcccccCccchhhHHHHhCCCccccccCCCccccCCccCcccccccceeeeeecCce
Q 047008 43 LTPLEVGMMLRGMGFDNNTSIYLASGKIYQAERHLASLLKMFPLVYTKESLATPDELAPFEGYSSRLAALDYTVCLFSEV 122 (227)
Q Consensus 43 LtP~Evgl~L~alGf~~~T~IYlAageiyGG~~~m~~L~~~fPnl~tKe~l~~~~El~~f~~~ss~lAALDYiV~l~SDv 122 (227)
+||-|+...+ .+|+ +.|=+=..+.+||-..++.|+.-||++ .++......+ .|....++|=...|+..|..
T Consensus 109 ~TptEi~~A~-~~G~---~~vK~FPA~~~GG~~~ik~l~~p~p~~----~~~ptGGV~~-~N~~~~l~ag~~~vg~Gs~L 179 (196)
T PF01081_consen 109 MTPTEIMQAL-EAGA---DIVKLFPAGALGGPSYIKALRGPFPDL----PFMPTGGVNP-DNLAEYLKAGAVAVGGGSWL 179 (196)
T ss_dssp SSHHHHHHHH-HTT----SEEEETTTTTTTHHHHHHHHHTTTTT-----EEEEBSS--T-TTHHHHHTSTTBSEEEESGG
T ss_pred CCHHHHHHHH-HCCC---CEEEEecchhcCcHHHHHHHhccCCCC----eEEEcCCCCH-HHHHHHHhCCCEEEEECchh
Confidence 8999997766 4676 356677888999999999999999998 4555545444 23333344444455555554
Q ss_pred e
Q 047008 123 F 123 (227)
Q Consensus 123 F 123 (227)
|
T Consensus 180 ~ 180 (196)
T PF01081_consen 180 F 180 (196)
T ss_dssp G
T ss_pred c
Confidence 4
No 17
>TIGR02491 NrdG anaerobic ribonucleoside-triphosphate reductase activating protein. This enzyme is a member of the radical-SAM family (pfam04055) and utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin ) to produce a glycine-centered radical in the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487). The two components form an alpha-2/beta-2 heterodimer.
Probab=30.95 E-value=1e+02 Score=25.23 Aligned_cols=41 Identities=15% Similarity=0.078 Sum_probs=24.5
Q ss_pred ccccccCCCCCCCHHHHHHHHhhcC-CCCCceEEEEcccccC
Q 047008 32 PGLNRINGKCPLTPLEVGMMLRGMG-FDNNTSIYLASGKIYQ 72 (227)
Q Consensus 32 ~~~~R~~G~CPLtP~Evgl~L~alG-f~~~T~IYlAageiyG 72 (227)
++.+...+.-.+|++++.-+++.+- ++.-.-|.+.+||.+-
T Consensus 35 ~~~~~~~~g~~~~~~~~~~i~~~l~~~~~~~gVt~sGGEPll 76 (154)
T TIGR02491 35 KETWNFNGGKEFTEALEKEIIRDLNDNPLIDGLTLSGGDPLY 76 (154)
T ss_pred ccccCCCCCCcCCHHHHHHHHHHHHhcCCcCeEEEeChhhCC
Confidence 4445455556799666655554432 1112469999999886
No 18
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=30.59 E-value=27 Score=23.39 Aligned_cols=30 Identities=30% Similarity=0.418 Sum_probs=23.1
Q ss_pred cCccccccCCCCCCCHHHHHHHHhhcCCCCC
Q 047008 30 ILPGLNRINGKCPLTPLEVGMMLRGMGFDNN 60 (227)
Q Consensus 30 i~~~~~R~~G~CPLtP~Evgl~L~alGf~~~ 60 (227)
-|++.+.....|. +|+|+.-+-+..||.=+
T Consensus 15 ~d~~l~~~l~~~~-~~~e~~~lA~~~Gy~ft 44 (49)
T PF07862_consen 15 SDPELREQLKACQ-NPEEVVALAREAGYDFT 44 (49)
T ss_pred cCHHHHHHHHhcC-CHHHHHHHHHHcCCCCC
Confidence 3455566666685 99999999999999743
No 19
>COG0859 RfaF ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=30.39 E-value=49 Score=30.24 Aligned_cols=67 Identities=24% Similarity=0.291 Sum_probs=44.5
Q ss_pred HHHHHHHhhcCCCCCceEEEEcccccCccchhhHHHHhCCCccccccCCCccccCCccCcccccccceeeeeecCceeee
Q 047008 46 LEVGMMLRGMGFDNNTSIYLASGKIYQAERHLASLLKMFPLVYTKESLATPDELAPFEGYSSRLAALDYTVCLFSEVFVT 125 (227)
Q Consensus 46 ~Evgl~L~alGf~~~T~IYlAageiyGG~~~m~~L~~~fPnl~tKe~l~~~~El~~f~~~ss~lAALDYiV~l~SDvFv~ 125 (227)
.|++..|.+-| .+|.|.+|. -=.+..+-+.+..++.+. |+...-|.. ++||- ..||.||.
T Consensus 198 ~~l~~~l~~~~----~~Vvl~g~~--~e~e~~~~i~~~~~~~~~---l~~k~sL~e-------~~~li----~~a~l~I~ 257 (334)
T COG0859 198 AELAELLIAKG----YQVVLFGGP--DEEERAEEIAKGLPNAVI---LAGKTSLEE-------LAALI----AGADLVIG 257 (334)
T ss_pred HHHHHHHHHCC----CEEEEecCh--HHHHHHHHHHHhcCCccc---cCCCCCHHH-------HHHHH----hcCCEEEc
Confidence 37788888888 889999887 334455678888888665 433333333 23322 56888998
Q ss_pred cCCCCch
Q 047008 126 THGGNFP 132 (227)
Q Consensus 126 t~~Gnm~ 132 (227)
.++|-|.
T Consensus 258 ~DSg~~H 264 (334)
T COG0859 258 NDSGPMH 264 (334)
T ss_pred cCChHHH
Confidence 8888443
No 20
>PF15193 FAM24: FAM24 family
Probab=29.11 E-value=31 Score=26.10 Aligned_cols=17 Identities=35% Similarity=0.745 Sum_probs=12.5
Q ss_pred Cccccc--CCCCcccccCC
Q 047008 199 TSIYTY--PLPECRCLQQS 215 (227)
Q Consensus 199 ~sfy~n--P~peC~C~~~~ 215 (227)
=+.|+. |+|.|+|.++.
T Consensus 49 C~mYad~d~LPPC~Cd~nE 67 (69)
T PF15193_consen 49 CSMYADFDSLPPCFCDTNE 67 (69)
T ss_pred hcccccCCCCCCccccccC
Confidence 345665 99999998743
No 21
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=29.05 E-value=56 Score=26.67 Aligned_cols=29 Identities=21% Similarity=0.250 Sum_probs=25.9
Q ss_pred CCCHHHHHHHHhhcCCCCCceEEEEcccc
Q 047008 42 PLTPLEVGMMLRGMGFDNNTSIYLASGKI 70 (227)
Q Consensus 42 PLtP~Evgl~L~alGf~~~T~IYlAagei 70 (227)
+++|+|..-+|+..||.+-+.-+++.|-+
T Consensus 125 f~~~~el~~ll~~aGF~~~~~~~~~~g~~ 153 (160)
T PLN02232 125 YLTGEELETLALEAGFSSACHYEISGGFM 153 (160)
T ss_pred CcCHHHHHHHHHHcCCCcceEEECcchHh
Confidence 68999999999999999988888887754
No 22
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=28.21 E-value=20 Score=34.29 Aligned_cols=27 Identities=33% Similarity=0.572 Sum_probs=21.9
Q ss_pred CCHHHHHHH--HhhcCCCCCc--eEEEEccc
Q 047008 43 LTPLEVGMM--LRGMGFDNNT--SIYLASGK 69 (227)
Q Consensus 43 LtP~Evgl~--L~alGf~~~T--~IYlAage 69 (227)
+||+|..-| |+||||++.- +.|+|--+
T Consensus 294 vtpee~eAIeRL~alGF~ralViqayfACdK 324 (340)
T KOG0011|consen 294 VTPEEKEAIERLEALGFPRALVIQAYFACDK 324 (340)
T ss_pred cCHHHHHHHHHHHHhCCcHHHHHHHHHhcCc
Confidence 899998776 9999999986 45777654
No 23
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=27.71 E-value=13 Score=35.79 Aligned_cols=29 Identities=34% Similarity=0.558 Sum_probs=24.2
Q ss_pred CCCCHHHHHHH--HhhcCCCCCc--eEEEEccc
Q 047008 41 CPLTPLEVGMM--LRGMGFDNNT--SIYLASGK 69 (227)
Q Consensus 41 CPLtP~Evgl~--L~alGf~~~T--~IYlAage 69 (227)
=+|||+|-.-| |.+|||+++. +.|+|-.+
T Consensus 331 i~lT~eE~~AIeRL~~LGF~r~~viqaY~ACdK 363 (378)
T TIGR00601 331 IQVTPEEKEAIERLCALGFDRGLVIQAYFACDK 363 (378)
T ss_pred cccCHHHHHHHHHHHHcCCCHHHHHHHHHhcCC
Confidence 67999998877 8899999987 56887765
No 24
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=27.61 E-value=35 Score=22.22 Aligned_cols=13 Identities=38% Similarity=0.600 Sum_probs=10.8
Q ss_pred chhhHHHHhCCCc
Q 047008 75 RHLASLLKMFPLV 87 (227)
Q Consensus 75 ~~m~~L~~~fPnl 87 (227)
..++-|++|||++
T Consensus 4 ~~v~~L~~mFP~l 16 (43)
T smart00546 4 EALHDLKDMFPNL 16 (43)
T ss_pred HHHHHHHHHCCCC
Confidence 3568899999998
No 25
>PF05830 NodZ: Nodulation protein Z (NodZ); InterPro: IPR008716 The nodulation genes of Rhizobia are regulated by the nodD gene product in response to host-produced flavonoids and appear to encode enzymes involved in the production of a lipo-chitose signal molecule required for infection and nodule formation. NodZ is required for the addition of a 2-O-methylfucose residue to the terminal reducing N-acetylglucosamine of the nodulation signal. This substitution is essential for the biological activity of this molecule. Mutations in nodZ result in defective nodulation. nodZ represents a unique nodulation gene that is not under the control of NodD and yet is essential for the synthesis of an active nodulation signal [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009312 oligosaccharide biosynthetic process, 0009877 nodulation; PDB: 3SIX_A 2HLH_A 2HHC_A 3SIW_A 2OCX_A.
Probab=27.58 E-value=73 Score=30.41 Aligned_cols=108 Identities=18% Similarity=0.192 Sum_probs=52.8
Q ss_pred ccCccccccCC------CCCCCHHHHHH--------HHhhcCCCCCceEEEEcccccCccchhhHHHHhCCCccccccCC
Q 047008 29 VILPGLNRING------KCPLTPLEVGM--------MLRGMGFDNNTSIYLASGKIYQAERHLASLLKMFPLVYTKESLA 94 (227)
Q Consensus 29 ~i~~~~~R~~G------~CPLtP~Evgl--------~L~alGf~~~T~IYlAageiyGG~~~m~~L~~~fPnl~tKe~l~ 94 (227)
.|--+-|+-+| .|.++=.|..| .++++=.+.++.|+||.-. .+.++-|++.||++++-+.=.
T Consensus 169 ~IGVHVRhGngeD~~~h~~~~~D~e~~L~~V~~ai~~ak~~~~~k~~~IFLATDS----aeVid~fr~~FPdiiti~k~F 244 (321)
T PF05830_consen 169 VIGVHVRHGNGEDIMDHAPYWADEERALRQVCTAIDKAKALAPPKPVRIFLATDS----AEVIDQFRKKFPDIITIPKQF 244 (321)
T ss_dssp EEEEEE---------------HHHHHHHHHHHHHHHHHHTS--SS-EEEEEEES-----HHHHHHHHHHSTTEE------
T ss_pred eEEEEEeccCCcchhccCccccCchHHHHHHHHHHHHHHhccCCCCeeEEEecCc----HHHHHHHHHHCCCeEEccccc
Confidence 34444554544 77888777665 2577878889999999988 678999999999998764432
Q ss_pred CccccCCccCccc-------ccccceeeeeecCceee-ecCCCCchhh--hhhccccc
Q 047008 95 TPDELAPFEGYSS-------RLAALDYTVCLFSEVFV-TTHGGNFPHF--LMGHRRFL 142 (227)
Q Consensus 95 ~~~El~~f~~~ss-------~lAALDYiV~l~SDvFv-~t~~Gnm~~~--v~GhR~y~ 142 (227)
.+..-.+. |+. .-|=+|-+.-..+|+.| .+-..-|.+. +..-|...
T Consensus 245 ~~~~~g~L--hs~~~g~~gg~~ALIDM~LLSrCD~LIr~~ptS~Fsr~asl~~pr~~~ 300 (321)
T PF05830_consen 245 PASQAGPL--HSAAVGIEGGESALIDMYLLSRCDYLIRFPPTSAFSRYASLFVPRVIE 300 (321)
T ss_dssp ------------HHHHHHHHHHHHHHHHHHTTSSEEEEESTT-GGGHHHHHH-SEEEE
T ss_pred CCCCCCcC--cccccccchHHHHHHHHHHHHhCCeEEEcCCCchhhhHHHHhcchhee
Confidence 22221121 221 12567888888888888 4433333332 33355544
No 26
>PF12307 DUF3631: Protein of unknown function (DUF3631); InterPro: IPR022081 This domain is found in uncharacterised proteins and in tripartite motif containing (TRIM) protein 41. This protein functions as an E3 ligase that catalyzes the ubiquitin-mediated degradation of protein kinase C [].
Probab=26.55 E-value=79 Score=27.76 Aligned_cols=40 Identities=20% Similarity=0.389 Sum_probs=30.3
Q ss_pred CCCCCHHHHHHHHhhcCCCCCceEEEEcccccCccchhhHHHH
Q 047008 40 KCPLTPLEVGMMLRGMGFDNNTSIYLASGKIYQAERHLASLLK 82 (227)
Q Consensus 40 ~CPLtP~Evgl~L~alGf~~~T~IYlAageiyGG~~~m~~L~~ 82 (227)
.=||||...+.+|+..|+.+.|.-+ +|...-|=.+ +-|..
T Consensus 140 g~~Lt~r~La~~L~~ygI~s~~ir~--~~~~~KGY~r-~~f~D 179 (184)
T PF12307_consen 140 GKPLTPRQLAKLLKEYGIRSKNIRF--GGSQAKGYRR-EDFAD 179 (184)
T ss_pred CCCCCHHHHHHHHHHCCCCCCceee--CCCCCCceeH-HHHHH
Confidence 5689999999999999998888665 6666666542 44443
No 27
>PRK05578 cytidine deaminase; Validated
Probab=25.79 E-value=57 Score=26.72 Aligned_cols=40 Identities=18% Similarity=0.327 Sum_probs=27.1
Q ss_pred HHHhhcCCCCCceEEEEcccccCccchhhHHHHhCCCccccccC
Q 047008 50 MMLRGMGFDNNTSIYLASGKIYQAERHLASLLKMFPLVYTKESL 93 (227)
Q Consensus 50 l~L~alGf~~~T~IYlAageiyGG~~~m~~L~~~fPnl~tKe~l 93 (227)
-+|.-+. +.+|.||+...+ |......|.++.|+-+++++|
T Consensus 91 Q~l~e~~-~~~~~v~l~~~~---~~~~~~~l~eLLP~~f~~~~l 130 (131)
T PRK05578 91 QVLAEFG-GPDLLVTLVAKD---GPTGEMTLGELLPYAFTPDDL 130 (131)
T ss_pred HHHHHhC-CCCcEEEEEcCC---CCEEEEEHHHhCcCcCChhhc
Confidence 3455554 568888888665 333447788888888887765
No 28
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=25.77 E-value=1.3e+02 Score=18.68 Aligned_cols=24 Identities=21% Similarity=0.260 Sum_probs=20.2
Q ss_pred HHHHHHhhcCCCCHHHHHHHHHHH
Q 047008 155 RKLVLLFQDMNISWVTFKDQMEIM 178 (227)
Q Consensus 155 k~la~lf~~~~~~w~~f~~~v~~~ 178 (227)
+.|..++++|.|+-+||.++-.++
T Consensus 6 ~~L~~l~~~G~IseeEy~~~k~~l 29 (31)
T PF09851_consen 6 EKLKELYDKGEISEEEYEQKKARL 29 (31)
T ss_pred HHHHHHHHcCCCCHHHHHHHHHHH
Confidence 467888889999999999987764
No 29
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=24.76 E-value=52 Score=20.08 Aligned_cols=21 Identities=29% Similarity=0.401 Sum_probs=15.9
Q ss_pred HHHHhh---cCCCCHHHHHHHHHH
Q 047008 157 LVLLFQ---DMNISWVTFKDQMEI 177 (227)
Q Consensus 157 la~lf~---~~~~~w~~f~~~v~~ 177 (227)
+-+.|| ++.|+++||...+++
T Consensus 5 ~F~~~D~d~dG~I~~~Ef~~~~~~ 28 (29)
T PF00036_consen 5 AFREFDKDGDGKIDFEEFKEMMKK 28 (29)
T ss_dssp HHHHHSTTSSSEEEHHHHHHHHHH
T ss_pred HHHHHCCCCCCcCCHHHHHHHHHh
Confidence 344555 678999999998875
No 30
>PF14053 DUF4248: Domain of unknown function (DUF4248)
Probab=24.71 E-value=53 Score=24.32 Aligned_cols=18 Identities=28% Similarity=0.545 Sum_probs=15.4
Q ss_pred CCCCCHHHHHHHHhhcCCC
Q 047008 40 KCPLTPLEVGMMLRGMGFD 58 (227)
Q Consensus 40 ~CPLtP~Evgl~L~alGf~ 58 (227)
+. |||.+|.+|.+.||=|
T Consensus 52 r~-~TP~QV~lIv~~LGeP 69 (69)
T PF14053_consen 52 RS-FTPRQVRLIVRYLGEP 69 (69)
T ss_pred Ee-cCHHHHHHHHHHcCCC
Confidence 44 9999999999999943
No 31
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=24.69 E-value=43 Score=21.77 Aligned_cols=12 Identities=33% Similarity=0.578 Sum_probs=10.4
Q ss_pred hhhHHHHhCCCc
Q 047008 76 HLASLLKMFPLV 87 (227)
Q Consensus 76 ~m~~L~~~fPnl 87 (227)
.+.-|+++||++
T Consensus 4 ~v~~L~~mFP~~ 15 (42)
T PF02845_consen 4 MVQQLQEMFPDL 15 (42)
T ss_dssp HHHHHHHHSSSS
T ss_pred HHHHHHHHCCCC
Confidence 467899999998
No 32
>PRK10556 hypothetical protein; Provisional
Probab=24.66 E-value=45 Score=27.09 Aligned_cols=19 Identities=37% Similarity=0.545 Sum_probs=16.6
Q ss_pred CCHHHHHHHHhhcCCCCCc
Q 047008 43 LTPLEVGMMLRGMGFDNNT 61 (227)
Q Consensus 43 LtP~Evgl~L~alGf~~~T 61 (227)
|-|.||+.+|..-||..+.
T Consensus 3 LRPDEVArVLe~aGF~~D~ 21 (111)
T PRK10556 3 LRPDEVARVLEKAGFTVDV 21 (111)
T ss_pred cChHHHHHHHHhcCceEEE
Confidence 6799999999999997764
No 33
>PF10861 DUF2784: Protein of Unknown function (DUF2784); InterPro: IPR021218 This is a family of uncharacterised protein. The function is not known however it is conserved in Bacteria.
Probab=24.46 E-value=51 Score=26.60 Aligned_cols=15 Identities=47% Similarity=0.629 Sum_probs=12.2
Q ss_pred CCCCCHHHHHHHHhh
Q 047008 40 KCPLTPLEVGMMLRG 54 (227)
Q Consensus 40 ~CPLtP~Evgl~L~a 54 (227)
-||||+-|-.+--+|
T Consensus 52 ~CPLT~lE~~lR~~a 66 (112)
T PF10861_consen 52 YCPLTDLENWLRRRA 66 (112)
T ss_pred CCCCcHHHHHHHHHc
Confidence 799999999876543
No 34
>PRK11611 enhanced serine sensitivity protein SseB; Provisional
Probab=24.15 E-value=75 Score=29.04 Aligned_cols=81 Identities=19% Similarity=0.235 Sum_probs=51.0
Q ss_pred cccCccccccCCCCCCCHHHHHHHHhhcCCCCCceEEEEcccc--------cCccchhhHHHHhCCCc--cccccCCCcc
Q 047008 28 RVILPGLNRINGKCPLTPLEVGMMLRGMGFDNNTSIYLASGKI--------YQAERHLASLLKMFPLV--YTKESLATPD 97 (227)
Q Consensus 28 ~~i~~~~~R~~G~CPLtP~Evgl~L~alGf~~~T~IYlAagei--------yGG~~~m~~L~~~fPnl--~tKe~l~~~~ 97 (227)
..+||. ---|+| ++|+|+..+|..-|....+.+-|-+|.- |. ..-++.|+.+|.+- |.+-.|+.
T Consensus 92 l~LNp~--s~~gk~-f~p~EI~~LL~~~~~~~~~~~~i~~g~~v~lg~p~~~P-~~lv~~L~~lf~~~k~V~rAyL~~-- 165 (246)
T PRK11611 92 LFLNPK--LPTGKE-FMPREISLLLGEEGNPLSSQEVLEGGESLLLSEVAEPP-AQMIDSLTTLFKTIKPVKRAFLAS-- 165 (246)
T ss_pred EEEcCC--CCCCcc-cCHHHHHHHHhccCCCcceeEEeCCCCEEEecCCccch-HHHHHHHHHHHhhcchHHHHHHHH--
Confidence 456643 346787 9999999999999999888887776541 11 22346677777653 33444441
Q ss_pred ccCCccCcccccccceeeeeecC
Q 047008 98 ELAPFEGYSSRLAALDYTVCLFS 120 (227)
Q Consensus 98 El~~f~~~ss~lAALDYiV~l~S 120 (227)
+... + -.+..|+|+++.
T Consensus 166 ----~~~~-~-d~~p~LLI~le~ 182 (246)
T PRK11611 166 ----IKEN-A-DAQPNLLIGIEA 182 (246)
T ss_pred ----Hhcc-C-CCCCceEEEEec
Confidence 1111 1 355668888766
No 35
>TIGR00600 rad2 DNA excision repair protein (rad2). All proteins in this family for which functions are known are flap endonucleases that generate the 3' incision next to DNA damage as part of nucleotide excision repair. This family is related to many other flap endonuclease families including the fen1 family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.18 E-value=1.3e+02 Score=32.89 Aligned_cols=87 Identities=23% Similarity=0.284 Sum_probs=52.8
Q ss_pred CCCCCH---HHHHHHHhhcCCCCCceEEEEcccccCccchhhHHHHhCCCccccccCCCccccCCccCcccccccceeee
Q 047008 40 KCPLTP---LEVGMMLRGMGFDNNTSIYLASGKIYQAERHLASLLKMFPLVYTKESLATPDELAPFEGYSSRLAALDYTV 116 (227)
Q Consensus 40 ~CPLtP---~Evgl~L~alGf~~~T~IYlAageiyGG~~~m~~L~~~fPnl~tKe~l~~~~El~~f~~~ss~lAALDYiV 116 (227)
...+|+ +|+--+|+.||+| ..+|.+| ++..++-| .+.--+|++|
T Consensus 766 ~~~vt~~m~~~~~~LL~~~GIP----~i~AP~E---AEAqcA~L--------------------------~~~G~vd~V~ 812 (1034)
T TIGR00600 766 AAEVTGQMILESQELLRLFGIP----YIVAPME---AEAQCAIL--------------------------DLLDQTSGTI 812 (1034)
T ss_pred cccCCHHHHHHHHHHHHHCCCC----eeeCCcc---HHHHHHHH--------------------------HhCCCeEEEE
Confidence 344555 6888999999998 4577777 56666655 3345789999
Q ss_pred eecCceeeecCCC-Cchhhhhhcccc----ccCCCCceeccChHHHHHHh
Q 047008 117 CLFSEVFVTTHGG-NFPHFLMGHRRF----LFDGHSKTINPDKRKLVLLF 161 (227)
Q Consensus 117 ~l~SDvFv~t~~G-nm~~~v~GhR~y----~~~G~~kTI~Pdrk~la~lf 161 (227)
+--||+|+ +++ ...+.+.+...| ......+.+-.+|..|+.|-
T Consensus 813 TeDsD~ll--FGa~~v~rn~~~~~~~ve~~~~~~i~~~lglt~~qli~la 860 (1034)
T TIGR00600 813 TDDSDIWL--FGARHVYKNFFNQNKFVEYYQYVDIHNQLGLDRNKLINLA 860 (1034)
T ss_pred ccccceec--cCCceeeecccCCCCceEEeeHHHHHHHhCCCHHHHHHHH
Confidence 99999996 444 233332222111 00011122456677777664
No 36
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=23.14 E-value=92 Score=31.26 Aligned_cols=44 Identities=20% Similarity=0.229 Sum_probs=31.9
Q ss_pred HHHhhcCCCCCceEEEEcccccCccchhhHHHHhCCCccccccCCCccccCC
Q 047008 50 MMLRGMGFDNNTSIYLASGKIYQAERHLASLLKMFPLVYTKESLATPDELAP 101 (227)
Q Consensus 50 l~L~alGf~~~T~IYlAageiyGG~~~m~~L~~~fPnl~tKe~l~~~~El~~ 101 (227)
-+|..-|=+-.-+||||+.+. ..+.--+..|||. .+....|.+.
T Consensus 396 ~~le~rg~~~~rRiflAsDDp----~vv~EAk~kYPnY----e~igd~eia~ 439 (580)
T KOG3705|consen 396 KVLEKRGKPLERRIFLASDDP----TVVPEAKNKYPNY----EVIGDTEIAK 439 (580)
T ss_pred HHHHHhCCchhheEEEecCCc----hhchHhhccCCCc----EEeccHHHHH
Confidence 356666888888999999984 4567788899997 3445555543
No 37
>PRK05718 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=22.59 E-value=1.2e+02 Score=26.69 Aligned_cols=41 Identities=22% Similarity=0.248 Sum_probs=28.8
Q ss_pred CCHHHHHHHHhhcCCCCCceEEEEcccccCccchhhHHHHhCCCc
Q 047008 43 LTPLEVGMMLRGMGFDNNTSIYLASGKIYQAERHLASLLKMFPLV 87 (227)
Q Consensus 43 LtP~Evgl~L~alGf~~~T~IYlAageiyGG~~~m~~L~~~fPnl 87 (227)
+||.|+. -...+|++- |=|-..+.+||-..++.|+..||++
T Consensus 116 ~TptEi~-~a~~~Ga~~---vKlFPa~~~gg~~~lk~l~~p~p~~ 156 (212)
T PRK05718 116 STPSELM-LGMELGLRT---FKFFPAEASGGVKMLKALAGPFPDV 156 (212)
T ss_pred CCHHHHH-HHHHCCCCE---EEEccchhccCHHHHHHHhccCCCC
Confidence 8999943 355567643 3334455557888999999999975
No 38
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=22.03 E-value=40 Score=28.77 Aligned_cols=9 Identities=44% Similarity=0.921 Sum_probs=7.6
Q ss_pred cceeeeeec
Q 047008 111 ALDYTVCLF 119 (227)
Q Consensus 111 ALDYiV~l~ 119 (227)
-=|||||++
T Consensus 73 tpD~IicLE 81 (148)
T COG4957 73 TPDYIICLE 81 (148)
T ss_pred CCCeEEEec
Confidence 359999997
No 39
>PF09400 DUF2002: Protein of unknown function (DUF2002); InterPro: IPR018994 This entry represents a group of putative cytoplasmic proteins. The structure of these proteins form an antiparallel beta sheet and contain some alpha helical regions. ; PDB: 2G7J_A.
Probab=21.68 E-value=42 Score=27.45 Aligned_cols=19 Identities=37% Similarity=0.602 Sum_probs=14.3
Q ss_pred CCHHHHHHHHhhcCCCCCc
Q 047008 43 LTPLEVGMMLRGMGFDNNT 61 (227)
Q Consensus 43 LtP~Evgl~L~alGf~~~T 61 (227)
|-|.||+.+|..-||..+.
T Consensus 3 lrpdeva~vle~~gf~~d~ 21 (111)
T PF09400_consen 3 LRPDEVARVLEKAGFERDY 21 (111)
T ss_dssp --HHHHHHHHHHTT-EEEE
T ss_pred cChHHHHHHHHhcCceEEE
Confidence 6799999999999997664
No 40
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=21.13 E-value=96 Score=20.26 Aligned_cols=26 Identities=27% Similarity=0.312 Sum_probs=18.7
Q ss_pred cChHHHHHHh---h---cCCCCHHHHHHHHHH
Q 047008 152 PDKRKLVLLF---Q---DMNISWVTFKDQMEI 177 (227)
Q Consensus 152 Pdrk~la~lf---~---~~~~~w~~f~~~v~~ 177 (227)
++...+..|| | ++.|+|+||...+..
T Consensus 22 ~s~~e~~~l~~~~D~~~~G~I~~~EF~~~~~~ 53 (54)
T PF13833_consen 22 LSEEEVDRLFREFDTDGDGYISFDEFISMMQR 53 (54)
T ss_dssp SCHHHHHHHHHHHTTSSSSSEEHHHHHHHHHH
T ss_pred CCHHHHHHHHHhcccCCCCCCCHHHHHHHHHh
Confidence 5555566666 3 678999999988754
No 41
>COG2241 CobL Precorrin-6B methylase 1 [Coenzyme metabolism]
Probab=20.76 E-value=1e+02 Score=27.53 Aligned_cols=25 Identities=16% Similarity=0.405 Sum_probs=21.6
Q ss_pred CCHHHHHHHHhhcCCCCCceEEEEcc
Q 047008 43 LTPLEVGMMLRGMGFDNNTSIYLASG 68 (227)
Q Consensus 43 LtP~Evgl~L~alGf~~~T~IYlAag 68 (227)
.+|.+++-+|..+||. ++++++---
T Consensus 151 ~~P~~IA~~L~~~G~~-~~~~~VlE~ 175 (210)
T COG2241 151 FGPAEIAKLLTENGIG-DSRVTVLEN 175 (210)
T ss_pred CCHHHHHHHHHhCCCC-CceEEEEcc
Confidence 5699999999999999 888888543
No 42
>PF02495 7kD_coat: 7kD viral coat protein; InterPro: IPR003411 This family consists of a 7 kDa coat protein from Carlavirus and Potexvirus [].
Probab=20.55 E-value=71 Score=22.57 Aligned_cols=22 Identities=32% Similarity=0.474 Sum_probs=18.3
Q ss_pred ccCccccccCCCCCCCHHHHHHH
Q 047008 29 VILPGLNRINGKCPLTPLEVGMM 51 (227)
Q Consensus 29 ~i~~~~~R~~G~CPLtP~Evgl~ 51 (227)
.|+.|.-|-.| |++||+=+..+
T Consensus 30 ~ItGeSv~I~g-C~~~~e~i~~i 51 (59)
T PF02495_consen 30 VITGESVTISG-CEFTPEFIEAI 51 (59)
T ss_pred EEeCcEEEEEC-CCCCHHHHHHH
Confidence 48888889999 99999876665
No 43
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=20.41 E-value=1.6e+02 Score=26.01 Aligned_cols=50 Identities=14% Similarity=0.147 Sum_probs=35.7
Q ss_pred CCHHHHHHHHhhcCCCCCceEEEEcccccCccchhhHHHHhCCCccccccCCCccccC
Q 047008 43 LTPLEVGMMLRGMGFDNNTSIYLASGKIYQAERHLASLLKMFPLVYTKESLATPDELA 100 (227)
Q Consensus 43 LtP~Evgl~L~alGf~~~T~IYlAageiyGG~~~m~~L~~~fPnl~tKe~l~~~~El~ 100 (227)
+||-|+-..++ +|++ .|=|=.++.+||-..++.|+.-||++ .++......
T Consensus 105 ~TptEi~~A~~-~Ga~---~vK~FPa~~~GG~~yikal~~plp~~----~l~ptGGV~ 154 (201)
T PRK06015 105 ATPSEVMALRE-EGYT---VLKFFPAEQAGGAAFLKALSSPLAGT----FFCPTGGIS 154 (201)
T ss_pred CCHHHHHHHHH-CCCC---EEEECCchhhCCHHHHHHHHhhCCCC----cEEecCCCC
Confidence 89999866554 5663 34555577889999999999999977 454444443
Done!