Query 044680
Match_columns 182
No_of_seqs 95 out of 97
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 05:41:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044680.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044680hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK04015 DNA/RNA-binding prote 99.9 3.3E-22 7E-27 151.1 10.1 86 71-159 3-91 (91)
2 TIGR00285 DNA-binding protein 99.9 2.9E-21 6.2E-26 145.1 9.3 81 77-158 4-87 (87)
3 COG1581 Ssh10b Archaeal DNA-bi 99.8 1.7E-20 3.6E-25 141.9 9.0 82 77-159 7-91 (91)
4 PF01918 Alba: Alba; InterPro 99.4 1.4E-12 3E-17 90.8 7.7 52 73-125 1-57 (70)
5 KOG2567 Uncharacterized conser 99.3 5E-12 1.1E-16 105.4 6.6 94 66-160 12-116 (179)
6 PF12328 Rpp20: Rpp20 subunit 98.0 1.5E-05 3.3E-10 64.3 7.1 67 72-140 3-102 (144)
7 PF04232 SpoVS: Stage V sporul 83.4 7.7 0.00017 29.5 7.2 47 73-120 2-49 (86)
8 COG2359 SpoVS Stage V sporulat 50.9 48 0.0011 25.4 5.2 46 74-120 3-49 (87)
9 TIGR00070 hisG ATP phosphoribo 36.8 39 0.00085 28.4 3.2 52 86-137 115-179 (182)
10 PRK01686 hisG ATP phosphoribos 36.7 41 0.0009 29.0 3.4 54 86-139 121-187 (215)
11 PF02780 Transketolase_C: Tran 29.6 59 0.0013 24.2 2.8 30 96-125 7-36 (124)
12 PRK13584 hisG ATP phosphoribos 28.3 64 0.0014 27.9 3.1 54 86-139 111-177 (204)
13 COG0040 HisG ATP phosphoribosy 26.8 73 0.0016 29.0 3.4 52 86-137 122-186 (290)
14 cd04898 ACT_ACR-like_4 ACT dom 24.6 40 0.00086 25.5 1.1 23 73-95 1-24 (77)
15 COG3958 Transketolase, C-termi 21.3 94 0.002 28.8 3.0 58 68-125 156-219 (312)
16 PTZ00067 40S ribosomal S23; Pr 21.2 29 0.00064 28.8 -0.2 39 70-108 67-107 (143)
17 PLN02245 ATP phosphoribosyl tr 20.8 1.7E+02 0.0038 27.8 4.7 51 86-136 202-268 (403)
18 PF12146 Hydrolase_4: Putative 20.4 1E+02 0.0022 22.0 2.4 29 100-128 19-47 (79)
19 cd03367 Ribosomal_S23 S12-like 20.0 31 0.00067 27.8 -0.3 39 70-108 42-82 (115)
No 1
>PRK04015 DNA/RNA-binding protein albA; Provisional
Probab=99.88 E-value=3.3e-22 Score=151.08 Aligned_cols=86 Identities=31% Similarity=0.420 Sum_probs=79.3
Q ss_pred CCCeEEEecCCCchhhhHHHHHHHhhh-CCeEEEeecccchhhHHHHHHhhhhcCc--ceeeEEEEeeEEecCCCCCccc
Q 044680 71 DSNRILVSHTKKPFVFYLDLAKRYIKQ-YNDIELTALGMAIPTVVTIAEALKRDGL--ASNKEVKISTVNSKKDDEGRFF 147 (182)
Q Consensus 71 ~~N~I~VS~~KKPl~fYV~lAK~lLq~-~~EVeLsALG~AIstAV~VAEILKrrgl--atikKI~TsTv~ied~~~GR~~ 147 (182)
.+|.|+|.. ||.|+||.++.++|++ .++|.|+|+|+||++||+|||||+||.+ ..+++|.|+|..++++ +||.+
T Consensus 3 ~en~i~Ig~--kpvmnYV~~~~~~l~~g~~eV~iKa~G~aIskAV~vaEilk~r~~~~v~v~~I~i~se~i~~~-~g~~~ 79 (91)
T PRK04015 3 EENVVLVGK--KPVMNYVLAVLTQFNQGAKEVVIKARGRAISKAVDVAEIVRNRFLPDVEIKEIKIGTEEVTSE-DGRES 79 (91)
T ss_pred CCCEEEEcC--CcHHHHHHHHHHHHhCCCCeEEEEEeccccchhhhHHHHHHHhccCCeEEEEEEeccEEeecC-CCcEE
Confidence 468999984 6999999999999996 9999999999999999999999999988 6799999999999885 79989
Q ss_pred ceeeEEEEEeec
Q 044680 148 QKAKIQIVLGKA 159 (182)
Q Consensus 148 ~kaKIEIvL~Ks 159 (182)
++++|||+|.|.
T Consensus 80 ~VS~IEI~l~k~ 91 (91)
T PRK04015 80 NVSTIEIVLEKK 91 (91)
T ss_pred EEEEEEEEEecC
Confidence 999999999873
No 2
>TIGR00285 DNA-binding protein Alba. This protein appears so far only in the Archaea, but may be universal there. There is a single member in three of the first four completed archaeal genomes, and a second copy in A. fulgidus. In Sulfolobus shibatae there is a tandem second copy that is poorly conserved and scores below the trusted cutoff; all other members of the family are conserved at greater than 50 % pairwise identity.
Probab=99.85 E-value=2.9e-21 Score=145.11 Aligned_cols=81 Identities=28% Similarity=0.385 Sum_probs=75.4
Q ss_pred EecCCCchhhhHHHHHHHhhh-CCeEEEeecccchhhHHHHHHhhhhcCcce--eeEEEEeeEEecCCCCCcccceeeEE
Q 044680 77 VSHTKKPFVFYLDLAKRYIKQ-YNDIELTALGMAIPTVVTIAEALKRDGLAS--NKEVKISTVNSKKDDEGRFFQKAKIQ 153 (182)
Q Consensus 77 VS~~KKPl~fYV~lAK~lLq~-~~EVeLsALG~AIstAV~VAEILKrrglat--ikKI~TsTv~ied~~~GR~~~kaKIE 153 (182)
|..++||.|+||..+.++|++ .++|.|+|+|+||++||+|||+|++|.+.. +++|.++|..++.+ +||.+++++||
T Consensus 4 i~vG~KPvmnYVlavlt~fn~g~~eV~iKarG~aIskAVdvaeiik~r~~~~v~v~~I~i~te~~~~~-~G~~~~VStIE 82 (87)
T TIGR00285 4 VYIGNKPVMNYVLAVLTQLNSGADEVIIKARGRAISRAVDVAEIVRNRFIPDIKIKKIKIGTEEIKSE-QGREVNVSTIE 82 (87)
T ss_pred EEEcCCcHHHHHHHHHHHHhCCCCeEEEEEecchhhhHHHHHHHHHHhccCCceEEEEEeccEEeecC-CCceeeEEEEE
Confidence 456899999999999999988 999999999999999999999999999866 99999999998875 79999999999
Q ss_pred EEEee
Q 044680 154 IVLGK 158 (182)
Q Consensus 154 IvL~K 158 (182)
|+|.|
T Consensus 83 I~l~~ 87 (87)
T TIGR00285 83 IVLAK 87 (87)
T ss_pred EEEeC
Confidence 99975
No 3
>COG1581 Ssh10b Archaeal DNA-binding protein [Transcription]
Probab=99.83 E-value=1.7e-20 Score=141.94 Aligned_cols=82 Identities=28% Similarity=0.378 Sum_probs=75.8
Q ss_pred EecCCCchhhhHHHHHHHhhh-CCeEEEeecccchhhHHHHHHhhhhcCcce--eeEEEEeeEEecCCCCCcccceeeEE
Q 044680 77 VSHTKKPFVFYLDLAKRYIKQ-YNDIELTALGMAIPTVVTIAEALKRDGLAS--NKEVKISTVNSKKDDEGRFFQKAKIQ 153 (182)
Q Consensus 77 VS~~KKPl~fYV~lAK~lLq~-~~EVeLsALG~AIstAV~VAEILKrrglat--ikKI~TsTv~ied~~~GR~~~kaKIE 153 (182)
|..++||.|+||..+.++|++ .+||+|+|+|+|||+||++|||+++|++.. +++|.++|..++.+ +||.++++.||
T Consensus 7 V~vG~KPvmNYVlAvlt~fn~g~~eViiKARGraIskAVDvaeivRnrf~p~v~ik~Iki~se~~~~~-~gr~~~VS~Ie 85 (91)
T COG1581 7 VLVGKKPVMNYVLAVLTQFNEGADEVIIKARGRAISKAVDVAEIVRNRFIPDVQIKDIKIGTEELEGE-DGRTRNVSTIE 85 (91)
T ss_pred EEEcCcchHHHHHHHHHHHHcCCCEEEEEecchhhHhhHhHHHHHHHhcCCCceEEEEEecceeeecC-CCceeeEEEEE
Confidence 445899999999999999999 999999999999999999999999999755 89999999999986 79999999999
Q ss_pred EEEeec
Q 044680 154 IVLGKA 159 (182)
Q Consensus 154 IvL~Ks 159 (182)
|+|.|.
T Consensus 86 I~L~k~ 91 (91)
T COG1581 86 IVLAKK 91 (91)
T ss_pred EEEecC
Confidence 999873
No 4
>PF01918 Alba: Alba; InterPro: IPR002775 Members of this family include the archaeal protein Alba and a number of eukaryotic proteins with no known function. The DNA/RNA-binding protein Alba binds double-stranded DNA tightly but without sequence specificity. It binds rRNA and mRNA in vivo, and may play a role in maintaining the structural and functional stability of RNA, and, perhaps, ribosomes. It is distributed uniformly and abundantly on the chromosome. Alba has been shown to bind DNA and affect DNA supercoiling in a temperature dependent manner []. It is regulated by acetylation (alba = acetylation lowers binding affinity) by the Sir2 protein. Alba is proposed to play a role in establishment or maintenance of chromatin architecture and thereby in transcription repression. For further information see [].; GO: 0003676 nucleic acid binding; PDB: 3TOE_B 3IAB_A 1NFJ_A 1NFH_B 2Q3V_B 1VM0_B 1NH9_A 1Y9X_A 3U6Y_C 2H9U_A ....
Probab=99.39 E-value=1.4e-12 Score=90.78 Aligned_cols=52 Identities=31% Similarity=0.430 Sum_probs=45.8
Q ss_pred CeEEEecCCCchhhhHHHHHHHh-----hhCCeEEEeecccchhhHHHHHHhhhhcCc
Q 044680 73 NRILVSHTKKPFVFYLDLAKRYI-----KQYNDIELTALGMAIPTVVTIAEALKRDGL 125 (182)
Q Consensus 73 N~I~VS~~KKPl~fYV~lAK~lL-----q~~~EVeLsALG~AIstAV~VAEILKrrgl 125 (182)
|.|+|+. ++|.+.||..+..+| ..+++|.|+|+|+||++||++|||||++..
T Consensus 1 n~I~V~~-~~~~~~~v~~~~~~L~~~~~~~~~~V~l~g~G~aI~kaI~vaei~K~~~~ 57 (70)
T PF01918_consen 1 NEIYVSS-NSPIKSYVKRALKLLEGRENGKNDEVVLKGRGKAISKAISVAEILKRRFG 57 (70)
T ss_dssp SEEEE-S-TS-HHHHHHHHHHHHT-TTHTTCSEEEEEEECCHHHHHHHHHHHHHHHTS
T ss_pred CEEEECC-CCCHHHHHHHHHHHHhhhhcCCCCEEEEEEEcHHHHHHHHHHHHHHHhhc
Confidence 6789995 677789999999999 669999999999999999999999999954
No 5
>KOG2567 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.29 E-value=5e-12 Score=105.38 Aligned_cols=94 Identities=20% Similarity=0.222 Sum_probs=82.2
Q ss_pred ccccCCCCeEEEecCCCchhhhHHHHHHHhhh--CCeEEEeecccchhhHHHHHHhhhhcCcceeeEEEEeeEEecCC--
Q 044680 66 TKKKKDSNRILVSHTKKPFVFYLDLAKRYIKQ--YNDIELTALGMAIPTVVTIAEALKRDGLASNKEVKISTVNSKKD-- 141 (182)
Q Consensus 66 ~~~~~~~N~I~VS~~KKPl~fYV~lAK~lLq~--~~EVeLsALG~AIstAV~VAEILKrrglatikKI~TsTv~ied~-- 141 (182)
.+-.-+.|+++|..+.|-+ ||+.+|..+|++ +..|++||+|+||+++|++|||||||--..++.+++++.+++|-
T Consensus 12 ~d~pp~a~emrV~~g~kir-N~i~~A~~~L~~~~~r~VVfsg~Grai~KTVscaEilKrRipgLhQ~t~l~~~sv~d~W~ 90 (179)
T KOG2567|consen 12 PDLPPDANEMRVKSGSKIR-NLIEFATELLQKGSHRCVVFSGSGRAIVKTVSCAEILKRRIPGLHQVTRLRYTSVEDVWE 90 (179)
T ss_pred ccCCCCcceEEEccCchHH-HHHHHHHHHhhCCCeeEEEEecCCcceeeeeeHHHHHhhhCcchhhhceeeeeehhhccc
Confidence 4445578999999999998 999999999999 99999999999999999999999999999999999999887761
Q ss_pred --CCCc-----ccceeeEEEEEeecc
Q 044680 142 --DEGR-----FFQKAKIQIVLGKAE 160 (182)
Q Consensus 142 --~~GR-----~~~kaKIEIvL~Ks~ 160 (182)
.+|- .++++-|-|+|.+.+
T Consensus 91 p~~eGl~pl~vtRhVp~l~IlLS~de 116 (179)
T KOG2567|consen 91 PTEEGLEPLEVTRHVPMLHILLSLDE 116 (179)
T ss_pred ccccCccceEEeeccceEEEEEeccc
Confidence 1333 489999999999854
No 6
>PF12328 Rpp20: Rpp20 subunit of nuclear RNase MRP and P; PDB: 3IAB_B.
Probab=98.05 E-value=1.5e-05 Score=64.33 Aligned_cols=67 Identities=22% Similarity=0.369 Sum_probs=50.3
Q ss_pred CCeEEEecCCCchhhhHHHHHHHhhh---C------------------------------CeEEEeecccchhhHHHHHH
Q 044680 72 SNRILVSHTKKPFVFYLDLAKRYIKQ---Y------------------------------NDIELTALGMAIPTVVTIAE 118 (182)
Q Consensus 72 ~N~I~VS~~KKPl~fYV~lAK~lLq~---~------------------------------~EVeLsALG~AIstAV~VAE 118 (182)
++.|-|| .+.|+|.+|.=+..||.+ + .+|.|+|||+||.+|+.+|-
T Consensus 3 ~~~iyVs-s~TPfmSavKRv~K~L~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~v~gtGkAIeKal~la~ 81 (144)
T PF12328_consen 3 PKVIYVS-SKTPFMSAVKRVRKLLDKAEKRATSSVNLAKKKKSQKKKIAQLAEGSEALKSEEVTVKGTGKAIEKALSLAL 81 (144)
T ss_dssp TTEEE---SS--HHHHHHHHHHHHHHHHHH----------------T-------------SEEEEEEEGGGHHHHHHHHH
T ss_pred CcEEEEe-cCCchHHHHHHHHHHHHhhhccccccccccccccccccccccccccccccCccEEEEEeccHHHHHHHHHHH
Confidence 5677888 788988888888777765 3 69999999999999999999
Q ss_pred hhhhcCcceeeEEEEeeEEecC
Q 044680 119 ALKRDGLASNKEVKISTVNSKK 140 (182)
Q Consensus 119 ILKrrglatikKI~TsTv~ied 140 (182)
-++++. ...-.|+|+|+.+-|
T Consensus 82 ~Fq~~~-~~~V~V~TgTV~vvD 102 (144)
T PF12328_consen 82 WFQRKK-GYKVEVRTGTVEVVD 102 (144)
T ss_dssp HHHHTT----EEEEEEEEEEEE
T ss_pred HHhhcC-CeEEEEEeceEEEEE
Confidence 998886 556688999986544
No 7
>PF04232 SpoVS: Stage V sporulation protein S (SpoVS); InterPro: IPR007347 In Bacillus subtilis this protein interferes with sporulation at an early stage and this inhibitory effect is overcome by SpoIIB and SpoVG. SpoVS seems to play a positive role in allowing progression beyond stage V of sporulation. Null mutations in the spoVS gene block sporulation at stage V, impairing the development of heat resistance and coat assembly [].; PDB: 2EH1_B 2EK0_B.
Probab=83.42 E-value=7.7 Score=29.46 Aligned_cols=47 Identities=19% Similarity=0.229 Sum_probs=35.5
Q ss_pred CeEEEecCCCchhhhHHHHHHHhhhCCeEEEeeccc-chhhHHHHHHhh
Q 044680 73 NRILVSHTKKPFVFYLDLAKRYIKQYNDIELTALGM-AIPTVVTIAEAL 120 (182)
Q Consensus 73 N~I~VS~~KKPl~fYV~lAK~lLq~~~EVeLsALG~-AIstAV~VAEIL 120 (182)
+.+.||.+.+|. ...-..-..|.+++.|+|.|+|- |++.||...-|-
T Consensus 2 e~LKVSs~S~p~-~vAgAIa~~lre~~~v~lqaiGa~AvnqAvKAIAiA 49 (86)
T PF04232_consen 2 EVLKVSSKSNPN-AVAGAIAGVLREGGKVELQAIGAGAVNQAVKAIAIA 49 (86)
T ss_dssp -EEEE-TT--HH-HHHHHHHHHHHHTSEEEEEE-SHHHHHHHHHHHHHH
T ss_pred ceEEEcCCCCHH-HHHHHHHHHHhcCCcEEEEEECHHHHHHHHHHHHHH
Confidence 468999999997 56666677788999999999998 899988887776
No 8
>COG2359 SpoVS Stage V sporulation protein SpoVS [Function unknown]
Probab=50.92 E-value=48 Score=25.42 Aligned_cols=46 Identities=17% Similarity=0.195 Sum_probs=36.6
Q ss_pred eEEEecCCCchhhhHHHHHHHhhhCCeEEEeeccc-chhhHHHHHHhh
Q 044680 74 RILVSHTKKPFVFYLDLAKRYIKQYNDIELTALGM-AIPTVVTIAEAL 120 (182)
Q Consensus 74 ~I~VS~~KKPl~fYV~lAK~lLq~~~EVeLsALG~-AIstAV~VAEIL 120 (182)
.+.||....|- .-.-..--.|.+++.++|.|.|. |++-||...-|-
T Consensus 3 vLKVsa~S~Pn-sVAGAlAgvlr~~g~aEiQAiGagAvNQaVKAiAia 49 (87)
T COG2359 3 VLKVSAKSNPN-SVAGALAGVLRERGKAEIQAIGAGAVNQAVKAIAIA 49 (87)
T ss_pred eEEeccCCCcc-hHHHHHHHHHHhcCceeeeeechHHHHHHHHHHHHH
Confidence 46899999995 23333346688899999999998 999999888776
No 9
>TIGR00070 hisG ATP phosphoribosyltransferase. Members of this family from B. subtilis, Aquifex aeolicus, and Synechocystis PCC6803 (and related taxa) lack the C-terminal third of the sequence. The sole homolog from Archaeoglobus fulgidus lacks the N-terminal 50 residues (as reported) and is otherwise atypical of the rest of the family. This model excludes the C-terminal extension.
Probab=36.77 E-value=39 Score=28.44 Aligned_cols=52 Identities=31% Similarity=0.537 Sum_probs=37.8
Q ss_pred hhHHHHHHHhhh----------CCeEEEee-ccc--chhhHHHHHHhhhhcCcceeeEEEEeeEE
Q 044680 86 FYLDLAKRYIKQ----------YNDIELTA-LGM--AIPTVVTIAEALKRDGLASNKEVKISTVN 137 (182)
Q Consensus 86 fYV~lAK~lLq~----------~~EVeLsA-LG~--AIstAV~VAEILKrrglatikKI~TsTv~ 137 (182)
-|-+++++||.+ ++.||+.- +|. +|-.-|..-.-|+.|+|..+..|..++.-
T Consensus 115 kyp~i~~~~f~~~Gi~v~ii~l~GsvE~aP~~GlaD~IvDiv~TG~TL~~NgL~~ie~i~~s~a~ 179 (182)
T TIGR00070 115 KYPNLARRYFEKKGIDVEIIKLNGSVELAPLLGLADAIVDIVSTGTTLRENGLRIIEVILESSAR 179 (182)
T ss_pred CCHHHHHHHHHHcCCeEEEEECcceeecccCCCceeEEEEEeCCHHHHHHCCCEEeeEEEeeEEE
Confidence 488899999988 34455422 343 56666777888999999999888777653
No 10
>PRK01686 hisG ATP phosphoribosyltransferase catalytic subunit; Reviewed
Probab=36.67 E-value=41 Score=28.99 Aligned_cols=54 Identities=26% Similarity=0.426 Sum_probs=40.9
Q ss_pred hhHHHHHHHhhhC----------CeEEE-eecc--cchhhHHHHHHhhhhcCcceeeEEEEeeEEec
Q 044680 86 FYLDLAKRYIKQY----------NDIEL-TALG--MAIPTVVTIAEALKRDGLASNKEVKISTVNSK 139 (182)
Q Consensus 86 fYV~lAK~lLq~~----------~EVeL-sALG--~AIstAV~VAEILKrrglatikKI~TsTv~ie 139 (182)
-|.+++++||.++ +.||+ =.+| .+|-.-|..-.-|+.|||-.+..|-.++..+=
T Consensus 121 kYp~it~~yf~~~gv~~~iv~l~GsvE~aP~~GlAD~IvDivsTG~TLr~NgL~~ie~Il~s~A~LI 187 (215)
T PRK01686 121 KYPNIARRYFAEKGEQVEIIKLYGSVELAPLVGLADAIVDIVETGNTLRANGLVEVEEIMDISARLI 187 (215)
T ss_pred CCHHHHHHHHHHcCCeEEEEECcCceeeccccCCccEEEEeecChHHHHHCcCEEeeEEEeeEEEEE
Confidence 5999999999882 33444 1234 36778888888999999999998888777544
No 11
>PF02780 Transketolase_C: Transketolase, C-terminal domain; InterPro: IPR005476 Transketolase 2.2.1.1 from EC (TK) catalyzes the reversible transfer of a two-carbon ketol unit from xylulose 5-phosphate to an aldose receptor, such as ribose 5-phosphate, to form sedoheptulose 7-phosphate and glyceraldehyde 3- phosphate. This enzyme, together with transaldolase, provides a link between the glycolytic and pentose-phosphate pathways. TK requires thiamine pyrophosphate as a cofactor. In most sources where TK has been purified, it is a homodimer of approximately 70 Kd subunits. TK sequences from a variety of eukaryotic and prokaryotic sources [, ] show that the enzyme has been evolutionarily conserved. In the peroxisomes of methylotrophic yeast Pichia angusta (Yeast) (Hansenula polymorpha), there is a highly related enzyme, dihydroxy-acetone synthase (DHAS) 2.2.1.3 from EC (also known as formaldehyde transketolase), which exhibits a very unusual specificity by including formaldehyde amongst its substrates. 1-deoxyxylulose-5-phosphate synthase (DXP synthase) [] is an enzyme so far found in bacteria (gene dxs) and plants (gene CLA1) which catalyzes the thiamine pyrophosphoate-dependent acyloin condensation reaction between carbon atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D- xylulose-5-phosphate (dxp), a precursor in the biosynthetic pathway to isoprenoids, thiamine (vitamin B1), and pyridoxol (vitamin B6). DXP synthase is evolutionary related to TK. The N-terminal section, contains a histidine residue which appears to function in proton transfer during catalysis []. In the central section there are conserved acidic residues that are part of the active cleft and may participate in substrate-binding []. This family includes transketolase enzymes 2.2.1.1 from EC and also partially matches to 2-oxoisovalerate dehydrogenase beta subunit P37941 from SWISSPROT 1.2.4.4 from EC. Both these enzymes utilise thiamine pyrophosphate as a cofactor, suggesting there may be common aspects in their mechanism of catalysis.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1NGS_B 1TKA_A 1TRK_B 1TKB_A 1GPU_B 1AY0_B 1TKC_B 2E6K_A 3JU3_A 2R8P_B ....
Probab=29.61 E-value=59 Score=24.18 Aligned_cols=30 Identities=27% Similarity=0.501 Sum_probs=26.9
Q ss_pred hhCCeEEEeecccchhhHHHHHHhhhhcCc
Q 044680 96 KQYNDIELTALGMAIPTVVTIAEALKRDGL 125 (182)
Q Consensus 96 q~~~EVeLsALG~AIstAV~VAEILKrrgl 125 (182)
++-.+|.|=+.|.....|+.+++.|+.+|+
T Consensus 7 ~~g~di~iia~G~~~~~al~A~~~L~~~Gi 36 (124)
T PF02780_consen 7 REGADITIIAYGSMVEEALEAAEELEEEGI 36 (124)
T ss_dssp ESSSSEEEEEETTHHHHHHHHHHHHHHTTC
T ss_pred eCCCCEEEEeehHHHHHHHHHHHHHHHcCC
Confidence 456789999999999999999999999874
No 12
>PRK13584 hisG ATP phosphoribosyltransferase catalytic subunit; Provisional
Probab=28.27 E-value=64 Score=27.88 Aligned_cols=54 Identities=22% Similarity=0.340 Sum_probs=40.6
Q ss_pred hhHHHHHHHhhh----------CCeEEEe---ecccchhhHHHHHHhhhhcCcceeeEEEEeeEEec
Q 044680 86 FYLDLAKRYIKQ----------YNDIELT---ALGMAIPTVVTIAEALKRDGLASNKEVKISTVNSK 139 (182)
Q Consensus 86 fYV~lAK~lLq~----------~~EVeLs---ALG~AIstAV~VAEILKrrglatikKI~TsTv~ie 139 (182)
-|.+++++||.+ ++.|||. ||-.+|-.-|..-.-|+.|||..+..|-.++.-+=
T Consensus 111 kyp~it~~yf~~~Gi~~~ii~l~GsvElaP~~GlAD~IvDiv~TG~TLr~NgL~~~e~I~~ssa~LI 177 (204)
T PRK13584 111 SYVHTAETYFKSKGIDVELIKLNGSVELACVVDMVDGIVDIVQTGTTLKANGLVEKQHISDINARLI 177 (204)
T ss_pred CcHHHHHHHHHHcCCeEEEEECCCceeeccccCCccEEEEEECccHHHHHCCCEEEEEEEeeEEEEE
Confidence 589999999988 2334442 23346777788888899999999999988877543
No 13
>COG0040 HisG ATP phosphoribosyltransferase [Amino acid transport and metabolism]
Probab=26.77 E-value=73 Score=29.01 Aligned_cols=52 Identities=29% Similarity=0.427 Sum_probs=42.0
Q ss_pred hhHHHHHHHhhhC----------CeEEE---eecccchhhHHHHHHhhhhcCcceeeEEEEeeEE
Q 044680 86 FYLDLAKRYIKQY----------NDIEL---TALGMAIPTVVTIAEALKRDGLASNKEVKISTVN 137 (182)
Q Consensus 86 fYV~lAK~lLq~~----------~EVeL---sALG~AIstAV~VAEILKrrglatikKI~TsTv~ 137 (182)
-|.++++.||+++ +.|++ -||..||-.-|..-.-|+-|||..+..|-.++.-
T Consensus 122 kYp~l~~~yf~~~g~~~~Ii~l~GsvE~aP~~GlADaIvDivsTG~TLkaNgL~~id~i~~ssa~ 186 (290)
T COG0040 122 KYPNLARKYFAEKGIDVEIIKLSGSVELAPALGLADAIVDIVSTGTTLKANGLKEIEVIYDSSAR 186 (290)
T ss_pred ccHHHHHHHHHHcCceEEEEEccCcEeeccccCccceEEEeecCCHhHHHCCCEEEEEEEeeEEE
Confidence 5999999999883 23333 2566789999999999999999999888887764
No 14
>cd04898 ACT_ACR-like_4 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.63 E-value=40 Score=25.48 Aligned_cols=23 Identities=35% Similarity=0.589 Sum_probs=16.2
Q ss_pred CeEEEecCCCchhhh-HHHHHHHh
Q 044680 73 NRILVSHTKKPFVFY-LDLAKRYI 95 (182)
Q Consensus 73 N~I~VS~~KKPl~fY-V~lAK~lL 95 (182)
|-|-+|..++|+.|| +.+|++.|
T Consensus 1 nPVElsGkGRPrVfyDvTlALK~L 24 (77)
T cd04898 1 NPVELSGKGRPRVFYDITLALKKL 24 (77)
T ss_pred CcccccCCCCcceeeehHHHHHHh
Confidence 456778888999776 66665555
No 15
>COG3958 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]
Probab=21.31 E-value=94 Score=28.84 Aligned_cols=58 Identities=22% Similarity=0.381 Sum_probs=45.1
Q ss_pred ccCCCCeEEEecCCCchhhhHH-----HHH-HHhhhCCeEEEeecccchhhHHHHHHhhhhcCc
Q 044680 68 KKKDSNRILVSHTKKPFVFYLD-----LAK-RYIKQYNDIELTALGMAIPTVVTIAEALKRDGL 125 (182)
Q Consensus 68 ~~~~~N~I~VS~~KKPl~fYV~-----lAK-~lLq~~~EVeLsALG~AIstAV~VAEILKrrgl 125 (182)
.-+.|--+|++..+-|.-.|-. +.| ..|++-.++.|=|.|--...|+.+|++|+.+|+
T Consensus 156 ~~~GP~Y~Rl~R~~~p~~~~~~~~~F~iGka~vLrdG~D~tiiA~G~mv~~al~AA~~L~~~GI 219 (312)
T COG3958 156 DYKGPVYMRLGRGKVPVVVDEGGYTFEIGKANVLRDGSDLTIIATGVMVAEALEAAEILKKEGI 219 (312)
T ss_pred hcCCCEEEEecCCCCCceecCCCceEeccceeEeecCCceEEEecCcchHHHHHHHHHHHhcCC
Confidence 3456777888877766655544 343 347778899999999999999999999999984
No 16
>PTZ00067 40S ribosomal S23; Provisional
Probab=21.19 E-value=29 Score=28.83 Aligned_cols=39 Identities=10% Similarity=0.307 Sum_probs=27.3
Q ss_pred CCCCeEEEecCCCchhhhHHHH--HHHhhhCCeEEEeeccc
Q 044680 70 KDSNRILVSHTKKPFVFYLDLA--KRYIKQYNDIELTALGM 108 (182)
Q Consensus 70 ~~~N~I~VS~~KKPl~fYV~lA--K~lLq~~~EVeLsALG~ 108 (182)
++--+||.+.+++-..-|+--- .++||+|++|-|.|+|+
T Consensus 67 RK~~rV~L~kngk~vtAyiPg~G~lh~lqEh~~VLV~G~Gr 107 (143)
T PTZ00067 67 RKCVRVQLIKNGKKITAFVPNDGCLNFINENDEVLVSGFGR 107 (143)
T ss_pred ceEEEEEEccCCcEEEEEeCCCCcccccccCCEEEEEecCc
Confidence 3445677774444444676543 48999999999999983
No 17
>PLN02245 ATP phosphoribosyl transferase
Probab=20.78 E-value=1.7e+02 Score=27.81 Aligned_cols=51 Identities=20% Similarity=0.318 Sum_probs=35.9
Q ss_pred hhHHHHHHHhhhCCe--EEEee----------ccc--chhhHHHHHHhhhhcCcceee--EEEEeeE
Q 044680 86 FYLDLAKRYIKQYND--IELTA----------LGM--AIPTVVTIAEALKRDGLASNK--EVKISTV 136 (182)
Q Consensus 86 fYV~lAK~lLq~~~E--VeLsA----------LG~--AIstAV~VAEILKrrglatik--KI~TsTv 136 (182)
-|.+++++||.+++- ++|.- +|. +|...|..-.-|+.|||-.+. .|--++.
T Consensus 202 kYp~ltr~ff~~~Gv~~v~Iv~l~GAvE~AP~lGlADaIvDIVsTGtTLraNgLk~i~~~~Il~S~A 268 (403)
T PLN02245 202 GFTYLGPKFMKDNGFKHVTFSTADGALEAAPAMGIADAILDLVSSGTTLRENNLKEIEGGVVLESQA 268 (403)
T ss_pred CCHHHHHHHHHHcCCCeEEEEECcCceecccccCchhhhcchhccHHHHHHCCCEEccCceEEEEEE
Confidence 599999999999543 44431 333 466667777789999999885 5555544
No 18
>PF12146 Hydrolase_4: Putative lysophospholipase; InterPro: IPR022742 This domain is found in bacteria and eukaryotes and is approximately 110 amino acids in length. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins.
Probab=20.39 E-value=1e+02 Score=21.97 Aligned_cols=29 Identities=21% Similarity=0.194 Sum_probs=26.0
Q ss_pred eEEEeecccchhhHHHHHHhhhhcCccee
Q 044680 100 DIELTALGMAIPTVVTIAEALKRDGLASN 128 (182)
Q Consensus 100 EVeLsALG~AIstAV~VAEILKrrglati 128 (182)
-+.++|+|.-+.+--.+|+-|..+|++++
T Consensus 19 v~i~HG~~eh~~ry~~~a~~L~~~G~~V~ 47 (79)
T PF12146_consen 19 VVIVHGFGEHSGRYAHLAEFLAEQGYAVF 47 (79)
T ss_pred EEEeCCcHHHHHHHHHHHHHHHhCCCEEE
Confidence 37889999999999999999999998875
No 19
>cd03367 Ribosomal_S23 S12-like family, 40S ribosomal protein S23 subfamily; S23 is located at the interface of the large and small ribosomal subunits of eukaryotes, adjacent to the decoding center. It interacts with domain III of the eukaryotic elongation factor 2 (eEF2), which catalyzes the translocation of the growing peptidyl-tRNA to the P site to make room for the next aminoacyl-tRNA at the A (acceptor) site. Through its interaction with eEF2, S23 may play an important role in translocation. Also members of this subfamily are the archaeal 30S ribosomal S12 proteins. Prokaryotic S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as control element for the rRNA- and tRNA-driven movements of translocation. S12 and S23 are also implicated in translation accuracy. Antibiotics such as streptomycin bind S12/S23 and cause the ribosome to misread the genetic code.
Probab=20.03 E-value=31 Score=27.76 Aligned_cols=39 Identities=10% Similarity=0.294 Sum_probs=27.1
Q ss_pred CCCCeEEEecCCCchhhhHHHHH--HHhhhCCeEEEeeccc
Q 044680 70 KDSNRILVSHTKKPFVFYLDLAK--RYIKQYNDIELTALGM 108 (182)
Q Consensus 70 ~~~N~I~VS~~KKPl~fYV~lAK--~lLq~~~EVeLsALG~ 108 (182)
|+--++|.+.+++-.+-|+-=-- ++||+|++|-|.|+|+
T Consensus 42 RK~~rV~L~~ngk~itAyIPG~G~~~~lqeh~~VLV~G~G~ 82 (115)
T cd03367 42 RKCVRVQLIKNGKKITAFVPGDGCLNFIDENDEVLVAGFGR 82 (115)
T ss_pred ceEEEEEEccCCeEEEEEeCCCCcccccccCCEEEEEeccc
Confidence 34557777534444446765443 7999999999999874
Done!