Query 032472
Match_columns 140
No_of_seqs 112 out of 844
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 14:31:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032472.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032472hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02365 NAM: No apical merist 100.0 1.4E-48 3E-53 276.3 7.3 127 3-133 1-129 (129)
2 PHA00692 hypothetical protein 66.1 2.2 4.7E-05 26.2 0.2 9 2-10 36-44 (74)
3 cd00490 Met_repressor_MetJ Met 60.2 10 0.00022 25.2 2.6 37 10-51 50-88 (103)
4 PRK05264 transcriptional repre 56.2 12 0.00026 25.0 2.4 37 10-51 51-89 (105)
5 PF01340 MetJ: Met Apo-repress 52.9 12 0.00027 24.8 2.0 37 10-51 50-88 (104)
6 COG3060 MetJ Transcriptional r 50.8 8.5 0.00018 25.4 1.0 38 10-51 51-89 (105)
7 PF07960 CBP4: CBP4; InterPro 43.5 12 0.00026 26.5 0.9 9 10-18 30-38 (128)
8 PF13822 ACC_epsilon: Acyl-CoA 41.1 15 0.00032 22.5 1.0 9 10-18 10-18 (62)
9 smart00707 RPEL Repeat in Dros 39.1 23 0.00049 18.1 1.3 13 6-18 6-18 (26)
10 PF07131 DUF1382: Protein of u 30.3 53 0.0011 20.1 2.1 20 5-24 22-48 (61)
11 PF01473 CW_binding_1: Putativ 28.7 45 0.00097 15.1 1.3 8 57-64 7-14 (19)
12 PHA02696 hypothetical protein; 28.2 57 0.0012 20.6 2.1 23 16-38 23-45 (79)
13 cd00950 DHDPS Dihydrodipicolin 28.1 60 0.0013 25.2 2.8 27 3-30 102-128 (284)
14 TIGR03874 4cys_cytochr c-type 25.6 69 0.0015 23.0 2.5 27 5-31 93-123 (143)
15 PF02375 JmjN: jmjN domain; I 25.1 40 0.00087 18.1 0.9 15 8-22 2-19 (34)
16 PF08990 Docking: Erythronolid 24.9 39 0.00086 17.3 0.8 14 11-24 2-15 (27)
17 KOG3238 Chloride ion current i 24.8 62 0.0013 24.7 2.1 44 5-48 111-155 (216)
18 PF11208 DUF2992: Protein of u 24.7 60 0.0013 23.0 2.0 21 9-29 31-51 (132)
19 PRK04147 N-acetylneuraminate l 22.8 79 0.0017 24.9 2.6 25 6-30 108-132 (293)
20 PF02755 RPEL: RPEL repeat; I 22.8 52 0.0011 16.6 1.0 11 8-18 8-18 (26)
21 PRK03170 dihydrodipicolinate s 22.6 91 0.002 24.4 2.9 27 3-30 103-129 (292)
22 PF08672 APC2: Anaphase promot 22.5 53 0.0011 19.9 1.2 22 8-29 30-51 (60)
23 PF10924 DUF2711: Protein of u 22.1 47 0.001 25.6 1.1 18 1-18 24-51 (217)
24 smart00265 BH4 BH4 Bcl-2 homol 22.1 1.2E+02 0.0026 15.5 2.3 19 11-29 3-22 (27)
25 cd00954 NAL N-Acetylneuraminic 21.9 81 0.0018 24.7 2.5 24 3-27 103-126 (288)
26 PF05891 Methyltransf_PK: AdoM 21.5 60 0.0013 25.0 1.6 17 10-26 134-150 (218)
No 1
>PF02365 NAM: No apical meristem (NAM) protein; InterPro: IPR003441 The NAC domain (for Petunia hybrida (Petunia) NAM and for Arabidopsis ATAF1, ATAF2, and CUC2) is an N-terminal module of ~160 amino acids, which is found in proteins of the NAC family of plant-specific transcriptional regulators (no apical meristem (NAM) proteins) []. NAC proteins are involved in developmental processes, including formation of the shoot apical meristem, floral organs and lateral shoots, as well as in plant hormonal control and defence. The NAC domain is accompanied by diverse C-terminal transcriptional activation domains. The NAC domain has been shown to be a DNA-binding domain (DBD) and a dimerization domain [,]. The NAC domain can be subdivided into five subdomains (A-E). Each subdomain is distinguishable by blocks of heterogeneous amino acids or gaps. While the NAC domains were rich in basic amino acids (R, K and H) as a whole, the distribution of positive and negative amino acids in each subdomain were unequal. Subdomains C and D are rich in basic amino acids but poor in acidic amino acids, while subdomain B contains a high proportion of acidic amino acids. Putative nuclear localization signals (NLS) have been detected in subdomains C and D []. The DBD is contained within a 60 amino acid region located within subdomains D and E []. The overall structure of the NAC domain monomer consists of a very twisted antiparallel beta-sheet, which packs against an N-terminal alpha-helix on one side and one shorter helix on the other side surrounded by a few helical elements. The structure suggests that the NAC domain mediates dimerization through conserved interactions including a salt bridge, and DNA binding through the NAC dimer face rich in positive charges [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1UT4_A 3SWM_B 4DUL_B 3SWP_D 1UT7_B 3ULX_A.
Probab=100.00 E-value=1.4e-48 Score=276.29 Aligned_cols=127 Identities=40% Similarity=0.734 Sum_probs=95.1
Q ss_pred CCCcceecCCHHHHHH-HHHhhhcCCCCCc-ccEEeccCCCCCCCCCCCcccccccCceEEEEEeeccccccCccccccC
Q 032472 3 SLVGFRFKPTNEEIIS-LLKKKRLDPDFSV-HTIKEIDFYSFDPWDLPRHSEIQCEEKVWYFYCERYYKSAKSKQAHRRT 80 (140)
Q Consensus 3 lp~G~rF~PtdeELv~-yL~~ki~g~~~~~-~~I~~~Dvy~~~P~~L~~~~~~~~~~~~wyFF~~~~~~~~~~~r~~R~~ 80 (140)
|||||||+|||+|||. ||++|+.|.+++. ++|+++|||++|||+|+.... .++++||||+++.+++.++.|.+|++
T Consensus 1 LP~G~rF~PtD~ELi~~yL~~k~~g~~~~~~~~i~~~Diy~~~P~~L~~~~~--~~~~~~yFF~~~~~~~~~~~r~~R~~ 78 (129)
T PF02365_consen 1 LPPGFRFRPTDEELINHYLRPKILGEPLPCEDVIHDVDIYSAHPWELPAKFK--GGDEEWYFFSPRKKKYPNGGRPNRVT 78 (129)
T ss_dssp --TTEEE---HHHHHHCTHHHHHTT-HHCS-CHSEE--GGGS-GGGCHHHSS--S-SSEEEEEEE----------S-EEE
T ss_pred CCCceEecCChHHHHHHHHHHHhcCCCCCcccceeecccCccChHHhhhhcc--CCCceEEEEEecccccCCcccccccc
Confidence 8999999999999999 9999999999987 699999999999999994222 25679999999999998899999999
Q ss_pred CCcEEEecCCceeEEeCCCCeEEEeEEEeeeeecCCCCCCCCcCeEEEEEEeC
Q 032472 81 KSGYWKVTGKGSDIKRKNSTEVIGTKKILPFCPRRSASKKAKTEWVMHEISVG 133 (140)
Q Consensus 81 ~~G~W~~~g~~~~i~~~~~g~~vG~k~~~~f~~~~~~~~~~kt~W~M~EY~l~ 133 (140)
++|+||++|+.+.|... ++.++|+|++|+||.++ .+++.+|+|+||||+|.
T Consensus 79 ~~G~Wk~~g~~~~i~~~-~g~~iG~k~~l~f~~~~-~~~~~kt~W~M~EY~L~ 129 (129)
T PF02365_consen 79 GGGYWKSTGKEKPIKDP-GGKVIGFKKTLVFYSGK-SPNGKKTGWVMHEYSLE 129 (129)
T ss_dssp TTEEEEEECEEEEEEE--TTCEEEEEEEEEEEESS-TTS-EEEEEEEEEEEE-
T ss_pred cceEEeecccccccccc-cceeeeeEEEEEEEecc-CCCCCcCCeEEEEEEeC
Confidence 99999999999999975 79999999999999887 77889999999999984
No 2
>PHA00692 hypothetical protein
Probab=66.09 E-value=2.2 Score=26.17 Aligned_cols=9 Identities=44% Similarity=0.774 Sum_probs=7.5
Q ss_pred CCCCcceec
Q 032472 2 DSLVGFRFK 10 (140)
Q Consensus 2 ~lp~G~rF~ 10 (140)
..||||||-
T Consensus 36 eyppgfrfg 44 (74)
T PHA00692 36 EYPPGFRFG 44 (74)
T ss_pred ecCCCcccc
Confidence 579999995
No 3
>cd00490 Met_repressor_MetJ Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence. MetJ forms sufficiently strong interactions with the sugar-phosphate backbone to accomodate sequence variation in natural operators. However, it is very sensitive to particular base changes in the operator. MetJ exists as a homodimer.
Probab=60.23 E-value=10 Score=25.15 Aligned_cols=37 Identities=16% Similarity=0.240 Sum_probs=29.0
Q ss_pred cCCHHHHHH--HHHhhhcCCCCCcccEEeccCCCCCCCCCCCcc
Q 032472 10 KPTNEEIIS--LLKKKRLDPDFSVHTIKEIDFYSFDPWDLPRHS 51 (140)
Q Consensus 10 ~PtdeELv~--yL~~ki~g~~~~~~~I~~~Dvy~~~P~~L~~~~ 51 (140)
|-|..||++ || .-..|+|+|.+ .|+-...|..||...
T Consensus 50 HATNSELLCEAFL-HAfTGQPLP~D----~Dl~K~~~d~iP~~a 88 (103)
T cd00490 50 HATNSELLCEAFL-HAFTGQPLPDD----ADLRKERSDEIPEAA 88 (103)
T ss_pred hcccHHHHHHHHH-HHhcCCCCCCh----hhhhhcCcccccHHH
Confidence 457889999 65 45789999964 788888899998654
No 4
>PRK05264 transcriptional repressor protein MetJ; Provisional
Probab=56.19 E-value=12 Score=25.02 Aligned_cols=37 Identities=16% Similarity=0.223 Sum_probs=28.7
Q ss_pred cCCHHHHHH--HHHhhhcCCCCCcccEEeccCCCCCCCCCCCcc
Q 032472 10 KPTNEEIIS--LLKKKRLDPDFSVHTIKEIDFYSFDPWDLPRHS 51 (140)
Q Consensus 10 ~PtdeELv~--yL~~ki~g~~~~~~~I~~~Dvy~~~P~~L~~~~ 51 (140)
|-|..||++ ||. -..|+|+|.+ .|+-...|..+|...
T Consensus 51 HATNSELLCEAFLH-A~TGQPLP~D----~Dl~Kd~~d~ip~~a 89 (105)
T PRK05264 51 HATNSELLCEAFLH-AFTGQPLPDD----EDLRKERSDEIPEAA 89 (105)
T ss_pred hcccHHHHHHHHHH-HHcCCCCCCh----hhhhhcCcccchHHH
Confidence 457889999 654 5789999964 788888888888654
No 5
>PF01340 MetJ: Met Apo-repressor, MetJ; InterPro: IPR002084 Binding of a specific DNA fragment and S-adenosyl methionine (SAM) co-repressor molecules to the Escherichia coli methionine repressor (MetJ) leads to a significant reduction in dynamic flexibility of the ternary complex, with considerable entropy-enthalpy compensation, not necessarily involving any overall conformational change []. MetJ is a regulatory protein which when combined with S-adenosylmethionine (SAM) represses the expression of the methionine regulon and of enzymes involved in SAM synthesis. It is also autoregulated. The crystal structure of the met repressor-operator complex shows two dimeric repressor molecules bound to adjacent sites 8 base pairs apart on an 18-base-pair DNA fragment. Sequence specificity is achieved by insertion of double-stranded antiparallel protein beta-ribbons into the major groove of B-form DNA, with direct hydrogen-bonding between amino-acid side chains and the base pairs. The repressor also recognises sequence-dependent distortion or flexibility of the operator phosphate backbone, conferring specificity even for inaccessible base pairs [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006555 methionine metabolic process; PDB: 1MJO_D 1CMB_A 1MJQ_C 1CMC_B 1MJK_A 1MJ2_A 1MJP_A 1MJM_B 1CMA_B 1MJL_A ....
Probab=52.91 E-value=12 Score=24.85 Aligned_cols=37 Identities=19% Similarity=0.301 Sum_probs=22.2
Q ss_pred cCCHHHHHH--HHHhhhcCCCCCcccEEeccCCCCCCCCCCCcc
Q 032472 10 KPTNEEIIS--LLKKKRLDPDFSVHTIKEIDFYSFDPWDLPRHS 51 (140)
Q Consensus 10 ~PtdeELv~--yL~~ki~g~~~~~~~I~~~Dvy~~~P~~L~~~~ 51 (140)
|-|..||++ ||. -..|+|+|.+ .|+-...|..+|...
T Consensus 50 HATNSeLLcEAFLH-AfTGQPLP~D----~dl~kd~~d~ip~~~ 88 (104)
T PF01340_consen 50 HATNSELLCEAFLH-AFTGQPLPTD----DDLRKDRPDEIPAEA 88 (104)
T ss_dssp S-SHHHHHHHHHHH-HHH------T----TGGGSTSGSSS-HHH
T ss_pred hcccHHHHHHHHHH-HhcCCCCCCh----hhhhhcCCccchHHH
Confidence 468899999 664 5689999864 788888999998654
No 6
>COG3060 MetJ Transcriptional regulator of met regulon [Transcription / Amino acid transport and metabolism]
Probab=50.75 E-value=8.5 Score=25.38 Aligned_cols=38 Identities=13% Similarity=0.216 Sum_probs=28.7
Q ss_pred cCCHHHHHH-HHHhhhcCCCCCcccEEeccCCCCCCCCCCCcc
Q 032472 10 KPTNEEIIS-LLKKKRLDPDFSVHTIKEIDFYSFDPWDLPRHS 51 (140)
Q Consensus 10 ~PtdeELv~-yL~~ki~g~~~~~~~I~~~Dvy~~~P~~L~~~~ 51 (140)
+-|..||++ -......|+|+|. +.|+...-|.+||+..
T Consensus 51 hatnsellceaflhaftgqplpt----d~dl~ker~deipe~a 89 (105)
T COG3060 51 HATNSELLCEAFLHAFTGQPLPT----DADLRKERSDEIPEAA 89 (105)
T ss_pred hhhhHHHHHHHHHHHHcCCCCCC----cHHHHHhccccchHHH
Confidence 457889999 4445578999985 4788888888888754
No 7
>PF07960 CBP4: CBP4; InterPro: IPR012420 The CBP4 gene in Saccharomyces cerevisiae is essential for the expression and activity of ubiquinol-cytochrome c reductase [, ]. This family appears to be fungal specific.
Probab=43.50 E-value=12 Score=26.50 Aligned_cols=9 Identities=44% Similarity=0.822 Sum_probs=8.3
Q ss_pred cCCHHHHHH
Q 032472 10 KPTNEEIIS 18 (140)
Q Consensus 10 ~PtdeELv~ 18 (140)
.||||||+.
T Consensus 30 tPTeEeL~~ 38 (128)
T PF07960_consen 30 TPTEEELFK 38 (128)
T ss_pred CCCHHHHHH
Confidence 699999998
No 8
>PF13822 ACC_epsilon: Acyl-CoA carboxylase epsilon subunit
Probab=41.13 E-value=15 Score=22.49 Aligned_cols=9 Identities=44% Similarity=0.866 Sum_probs=8.0
Q ss_pred cCCHHHHHH
Q 032472 10 KPTNEEIIS 18 (140)
Q Consensus 10 ~PtdeELv~ 18 (140)
+||||||-.
T Consensus 10 nPt~eElAA 18 (62)
T PF13822_consen 10 NPTDEELAA 18 (62)
T ss_pred CCCHHHHHH
Confidence 799999976
No 9
>smart00707 RPEL Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2.
Probab=39.15 E-value=23 Score=18.05 Aligned_cols=13 Identities=31% Similarity=0.480 Sum_probs=10.9
Q ss_pred cceecCCHHHHHH
Q 032472 6 GFRFKPTNEEIIS 18 (140)
Q Consensus 6 G~rF~PtdeELv~ 18 (140)
....+|+.+|||.
T Consensus 6 kl~~RP~~eeLv~ 18 (26)
T smart00707 6 KLSQRPTREELEE 18 (26)
T ss_pred HHHcCCCHHHHHH
Confidence 4567999999997
No 10
>PF07131 DUF1382: Protein of unknown function (DUF1382); InterPro: IPR009814 This entry is represented by Bacteriophage lambda, Xis. This entry overlaps with IPR009750, both representing lambda Xis. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Escherichia coli and Bacteriophage lambda-like proteins of around 60 residues in length. The function of this family is unknown.
Probab=30.31 E-value=53 Score=20.13 Aligned_cols=20 Identities=45% Similarity=0.758 Sum_probs=13.4
Q ss_pred CcceecC----CHHHHHH---HHHhhh
Q 032472 5 VGFRFKP----TNEEIIS---LLKKKR 24 (140)
Q Consensus 5 ~G~rF~P----tdeELv~---yL~~ki 24 (140)
.|+||.| ||+|... -|..|+
T Consensus 22 ~GIRFVpiPv~~dee~~~L~s~~~~kL 48 (61)
T PF07131_consen 22 IGIRFVPIPVVTDEEFHTLSSQLSQKL 48 (61)
T ss_pred cCceeeccccccHHHHHHHHHHHHHHH
Confidence 4899998 6776654 455554
No 11
>PF01473 CW_binding_1: Putative cell wall binding repeat; InterPro: IPR018337 The cell wall-binding repeat (CW) is an about 20 amino acid residue module, essentially found in two bacterial Gram-positive protein families; the choline binding proteins and glucosyltransferases (2.4.1.5 from EC). In choline-binding proteins cell wall binding repeats bind to choline moieties of both teichoic and lipoteichoic acids, two components peculiar to the cell surface of Gram-positive bacteria [, ]. In glucosyltransferases the region spanning the CW repeats is a glucan binding domain []. Several crystal structures of CW have been solved [, ]. In the choline binding protein LytA, the repeats adopt a solenoid fold consisting exclusively of beta-hairpins that stack to form a left-handed superhelix with a boomerang-like shape. The choline groups bind between beta-hairpin 'steps' of the superhelix []. In Cpl-1 CW repeats assemble in two sub-domains: an N-terminal superhelical moiety similar to the LytA one and a C-terminal beta-sheet involved in interactions with the lysozyme domain. Choline is bound between repeats 1 and 2, and, 2 and 3 of the superhelical sub-domain []. Some proteins known to contain cell-wall binding repeats include: Pneumococcal N-acetylmuramoyl-L-alanine amidase (autolysin, lytA) (3.5.1.28 from EC). It is a surface-exposed enzyme that rules the self-destruction of pneumococcal cells through degradation of their peptidoglycan backbone. It mediates the release of toxic substances that damage the host tissues. Pneumococcal endo-beta-N-acetylglucosaminidase (lytB) (3.2.1.96 from EC). It plays an important role in cell wall degradation and cell separation. Pneumococcal teichoic acid phosphorylcholine esterase (pce or cbpE), a cell wall hydrolase important for cellular adhesion and colonisation. Lactobacillales glucosyltransferase. It catalyses the transfer of glucosyl units from the cleavage of sucrose to a growing chain of glucan. Clostridium difficile toxin A (tcdA) and toxin B (tcdb). They are the causative agents of the antibiotic-associated pseudomembranous colitis. They are intracellular acting toxins that reach their targets after receptor-mediated endocytosis. Clostridium acetobutylicum cspA protein. Siphoviridae bacteriophages N-acetylmuramoyl-L-alanine amidase. It lyses the bacterial host cell wall. Podoviridae lysozyme protein (cpl-1). It is capable of digesting the pneumococcal cell wall. The cell wall binding repeats are also known as the choline-binding repeats (ChBr) or the choline-binding domain (ChBD). ; PDB: 1GVM_C 2BML_B 1HCX_A 1OBA_A 1H09_A 2J8F_A 2IXU_A 2J8G_A 2IXV_A 2X8O_A ....
Probab=28.65 E-value=45 Score=15.05 Aligned_cols=8 Identities=25% Similarity=1.107 Sum_probs=6.2
Q ss_pred CceEEEEE
Q 032472 57 EKVWYFYC 64 (140)
Q Consensus 57 ~~~wyFF~ 64 (140)
++.||||.
T Consensus 7 ~~~wYy~~ 14 (19)
T PF01473_consen 7 NGNWYYFD 14 (19)
T ss_dssp TTEEEEET
T ss_pred CCEEEEeC
Confidence 57899993
No 12
>PHA02696 hypothetical protein; Provisional
Probab=28.20 E-value=57 Score=20.62 Aligned_cols=23 Identities=17% Similarity=0.125 Sum_probs=19.1
Q ss_pred HHHHHHhhhcCCCCCcccEEecc
Q 032472 16 IISLLKKKRLDPDFSVHTIKEID 38 (140)
Q Consensus 16 Lv~yL~~ki~g~~~~~~~I~~~D 38 (140)
|+..|++++.++|--..+|+.+|
T Consensus 23 Lc~~lRrrv~r~~gYVsViQtCd 45 (79)
T PHA02696 23 LCIWLRRRVGREPGYVSVIQTCD 45 (79)
T ss_pred HHHHHHHHhcCCCceEEeeeecc
Confidence 55589999999998888898873
No 13
>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.
Probab=28.09 E-value=60 Score=25.24 Aligned_cols=27 Identities=19% Similarity=0.214 Sum_probs=19.2
Q ss_pred CCCcceecCCHHHHHHHHHhhhcCCCCC
Q 032472 3 SLVGFRFKPTNEEIISLLKKKRLDPDFS 30 (140)
Q Consensus 3 lp~G~rF~PtdeELv~yL~~ki~g~~~~ 30 (140)
+||.| |.|+++||+.|.+.-+...++|
T Consensus 102 ~~P~~-~~~~~~~l~~~~~~ia~~~~~p 128 (284)
T cd00950 102 VTPYY-NKPSQEGLYAHFKAIAEATDLP 128 (284)
T ss_pred ccccc-CCCCHHHHHHHHHHHHhcCCCC
Confidence 56644 8899999999777666654443
No 14
>TIGR03874 4cys_cytochr c-type cytochrome, methanol metabolism-related. This family represents a c-type cytochrome related to (but excluding) cytochrome c-555 of Methylococcus capsulatus. Members contain four invariant Cys residues, including two from a heme-binding motif shared with c-555, and two others.
Probab=25.61 E-value=69 Score=23.03 Aligned_cols=27 Identities=15% Similarity=0.031 Sum_probs=20.2
Q ss_pred CcceecCCHH-H---HHHHHHhhhcCCCCCc
Q 032472 5 VGFRFKPTNE-E---IISLLKKKRLDPDFSV 31 (140)
Q Consensus 5 ~G~rF~Ptde-E---Lv~yL~~ki~g~~~~~ 31 (140)
|+|.-..+|+ | |+.||+....|.--|.
T Consensus 93 PaF~~~LsD~~eIa~L~~YLR~~~~g~~~~~ 123 (143)
T TIGR03874 93 PAFGDNPNVMCYLDDLYVYLRARGTDALGRG 123 (143)
T ss_pred CCccccCCcHHHHHHHHHHHHhccCCCcCCC
Confidence 7888889987 4 4449999988865543
No 15
>PF02375 JmjN: jmjN domain; InterPro: IPR003349 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with JmjC (see IPR003347 from INTERPRO).; PDB: 2XML_A 2W2I_C 3DXT_A 3DXU_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=25.12 E-value=40 Score=18.13 Aligned_cols=15 Identities=33% Similarity=0.454 Sum_probs=7.7
Q ss_pred eecCCHHHHHH---HHHh
Q 032472 8 RFKPTNEEIIS---LLKK 22 (140)
Q Consensus 8 rF~PtdeELv~---yL~~ 22 (140)
-|.||.||--+ ||..
T Consensus 2 vf~Pt~eEF~dp~~yi~~ 19 (34)
T PF02375_consen 2 VFYPTMEEFKDPIKYISS 19 (34)
T ss_dssp EE---HHHHS-HHHHHHH
T ss_pred cccCCHHHHhCHHHHHHH
Confidence 38999999877 5543
No 16
>PF08990 Docking: Erythronolide synthase docking; InterPro: IPR015083 The N-terminal docking domain found in modular polyketide synthase assumes an alpha-helical structure, wherein two alpha-helices are connected by a short loop. Two such N-terminal domains dimerise to form amphipathic parallel alpha-helical coiled coils: dimerisation is essential for protein function []. ; GO: 0016740 transferase activity, 0048037 cofactor binding; PDB: 2HG4_E.
Probab=24.93 E-value=39 Score=17.27 Aligned_cols=14 Identities=14% Similarity=0.347 Sum_probs=8.5
Q ss_pred CCHHHHHHHHHhhh
Q 032472 11 PTNEEIISLLKKKR 24 (140)
Q Consensus 11 PtdeELv~yL~~ki 24 (140)
++++.|..||++-.
T Consensus 2 ~~e~kLr~YLkr~t 15 (27)
T PF08990_consen 2 ANEDKLRDYLKRVT 15 (27)
T ss_dssp --HCHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHH
Confidence 35667777998643
No 17
>KOG3238 consensus Chloride ion current inducer protein [Inorganic ion transport and metabolism]
Probab=24.76 E-value=62 Score=24.74 Aligned_cols=44 Identities=16% Similarity=0.335 Sum_probs=25.3
Q ss_pred CcceecCCHHHHHH-HHHhhhcCCCCCcccEEeccCCCCCCCCCC
Q 032472 5 VGFRFKPTNEEIIS-LLKKKRLDPDFSVHTIKEIDFYSFDPWDLP 48 (140)
Q Consensus 5 ~G~rF~PtdeELv~-yL~~ki~g~~~~~~~I~~~Dvy~~~P~~L~ 48 (140)
-++||+|+|.--+. ---.....+.+-.....+.|-|.-+=|+.-
T Consensus 111 ~e~rfvpsDk~~l~a~f~qfcecqel~p~P~ED~~~~dgee~~me 155 (216)
T KOG3238|consen 111 TEFRFVPSDKSALEAMFTQFCECQELNPDPDEDEDDYDGEEYDME 155 (216)
T ss_pred ccceecCCchhHHHHHHHHHHhhhhcCCCccccccccccchhhhh
Confidence 48999999988777 444444443332222445555555555554
No 18
>PF11208 DUF2992: Protein of unknown function (DUF2992); InterPro: IPR016787 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=24.65 E-value=60 Score=23.01 Aligned_cols=21 Identities=24% Similarity=0.401 Sum_probs=14.5
Q ss_pred ecCCHHHHHHHHHhhhcCCCC
Q 032472 9 FKPTNEEIISLLKKKRLDPDF 29 (140)
Q Consensus 9 F~PtdeELv~yL~~ki~g~~~ 29 (140)
-.|+|.||..||........+
T Consensus 31 ~EP~d~Ei~~fi~~~~~~L~f 51 (132)
T PF11208_consen 31 AEPKDPEIYEFILKHWYKLRF 51 (132)
T ss_pred CCCCcHHHHHHHHHHHHHhcC
Confidence 479999999966555544433
No 19
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=22.85 E-value=79 Score=24.88 Aligned_cols=25 Identities=20% Similarity=0.155 Sum_probs=17.9
Q ss_pred cceecCCHHHHHHHHHhhhcCCCCC
Q 032472 6 GFRFKPTNEEIISLLKKKRLDPDFS 30 (140)
Q Consensus 6 G~rF~PtdeELv~yL~~ki~g~~~~ 30 (140)
-+-|.||+++|+.|++.-+...++|
T Consensus 108 P~y~~~~~~~l~~~f~~va~a~~lP 132 (293)
T PRK04147 108 PFYYPFSFEEICDYYREIIDSADNP 132 (293)
T ss_pred CcCCCCCHHHHHHHHHHHHHhCCCC
Confidence 3448999999999777666554444
No 20
>PF02755 RPEL: RPEL repeat; InterPro: IPR004018 The RPEL repeat is named after four conserved amino acids it contains. The function of the RPEL repeat is unknown however it might be a DNA binding repeat based on the observation that Q9VZY2 from SWISSPROT contains a SAP domain that is also implicated in DNA binding.; PDB: 2YJE_M 2V52_M 2YJF_M 2V51_E.
Probab=22.82 E-value=52 Score=16.61 Aligned_cols=11 Identities=36% Similarity=0.715 Sum_probs=6.5
Q ss_pred eecCCHHHHHH
Q 032472 8 RFKPTNEEIIS 18 (140)
Q Consensus 8 rF~PtdeELv~ 18 (140)
..+|+-+|||.
T Consensus 8 ~~RP~~~eLv~ 18 (26)
T PF02755_consen 8 SQRPTREELVE 18 (26)
T ss_dssp HT---HHHHHH
T ss_pred hcCCCHHHHHH
Confidence 35799999997
No 21
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=22.56 E-value=91 Score=24.41 Aligned_cols=27 Identities=22% Similarity=0.215 Sum_probs=18.8
Q ss_pred CCCcceecCCHHHHHHHHHhhhcCCCCC
Q 032472 3 SLVGFRFKPTNEEIISLLKKKRLDPDFS 30 (140)
Q Consensus 3 lp~G~rF~PtdeELv~yL~~ki~g~~~~ 30 (140)
+||-| |.|+++||+.|...-+...++|
T Consensus 103 ~pP~~-~~~~~~~i~~~~~~ia~~~~~p 129 (292)
T PRK03170 103 VTPYY-NKPTQEGLYQHFKAIAEATDLP 129 (292)
T ss_pred CCCcC-CCCCHHHHHHHHHHHHhcCCCC
Confidence 46655 8999999999776665544443
No 22
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=22.50 E-value=53 Score=19.92 Aligned_cols=22 Identities=14% Similarity=0.225 Sum_probs=15.5
Q ss_pred eecCCHHHHHHHHHhhhcCCCC
Q 032472 8 RFKPTNEEIISLLKKKRLDPDF 29 (140)
Q Consensus 8 rF~PtdeELv~yL~~ki~g~~~ 29 (140)
.|..|.+||-.||..++....+
T Consensus 30 ~~~~s~~eL~~fL~~lv~e~~L 51 (60)
T PF08672_consen 30 GYDISLEELQEFLDRLVEEGKL 51 (60)
T ss_dssp -TT--HHHHHHHHHHHHHTTSE
T ss_pred CCCCCHHHHHHHHHHHHHCCcE
Confidence 3567888888899999987654
No 23
>PF10924 DUF2711: Protein of unknown function (DUF2711); InterPro: IPR024250 Some members in this family of proteins are annotated as ywbB. The function of these proteins is unknown.
Probab=22.13 E-value=47 Score=25.62 Aligned_cols=18 Identities=33% Similarity=0.573 Sum_probs=14.3
Q ss_pred CCCCCcceec----------CCHHHHHH
Q 032472 1 MDSLVGFRFK----------PTNEEIIS 18 (140)
Q Consensus 1 ~~lp~G~rF~----------PtdeELv~ 18 (140)
+++|.|.... |+|||++.
T Consensus 24 i~MP~gwe~~~r~~~ye~~YPsdeEIi~ 51 (217)
T PF10924_consen 24 IQMPDGWEKSKRKRPYEHIYPSDEEIIE 51 (217)
T ss_pred hcCCcchhhhcccCCCcccCCCHHHHHh
Confidence 4677777777 99999987
No 24
>smart00265 BH4 BH4 Bcl-2 homology region 4.
Probab=22.09 E-value=1.2e+02 Score=15.50 Aligned_cols=19 Identities=16% Similarity=0.253 Sum_probs=14.5
Q ss_pred CCHHHHHH-HHHhhhcCCCC
Q 032472 11 PTNEEIIS-LLKKKRLDPDF 29 (140)
Q Consensus 11 PtdeELv~-yL~~ki~g~~~ 29 (140)
.+..|||. |+.-|+.-...
T Consensus 3 ~~nRelV~~yv~yKLsQrgy 22 (27)
T smart00265 3 LDNRELVVDYVTYKLSQNGY 22 (27)
T ss_pred cchHHHHHHHHHHHHhhcCC
Confidence 35689999 99999875543
No 25
>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid). It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.
Probab=21.90 E-value=81 Score=24.73 Aligned_cols=24 Identities=17% Similarity=-0.014 Sum_probs=16.8
Q ss_pred CCCcceecCCHHHHHHHHHhhhcCC
Q 032472 3 SLVGFRFKPTNEEIISLLKKKRLDP 27 (140)
Q Consensus 3 lp~G~rF~PtdeELv~yL~~ki~g~ 27 (140)
+||- .|.||++||+.|...-+...
T Consensus 103 ~~P~-y~~~~~~~i~~~~~~v~~a~ 126 (288)
T cd00954 103 ITPF-YYKFSFEEIKDYYREIIAAA 126 (288)
T ss_pred eCCC-CCCCCHHHHHHHHHHHHHhc
Confidence 3554 47899999999766655544
No 26
>PF05891 Methyltransf_PK: AdoMet dependent proline di-methyltransferase; InterPro: IPR008576 This family consists of several eukaryotic proteins of unknown function that are S-adenosyl-L-methionine-dependent methyltransferase-like.; GO: 0008168 methyltransferase activity; PDB: 1XTP_A 2EX4_B.
Probab=21.50 E-value=60 Score=25.03 Aligned_cols=17 Identities=24% Similarity=0.515 Sum_probs=11.7
Q ss_pred cCCHHHHHHHHHhhhcC
Q 032472 10 KPTNEEIISLLKKKRLD 26 (140)
Q Consensus 10 ~PtdeELv~yL~~ki~g 26 (140)
+=||++||.||++=..+
T Consensus 134 hLTD~dlv~fL~RCk~~ 150 (218)
T PF05891_consen 134 HLTDEDLVAFLKRCKQA 150 (218)
T ss_dssp GS-HHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHHh
Confidence 35899999988754443
Done!