Query 031041
Match_columns 167
No_of_seqs 28 out of 30
Neff 2.4
Searched_HMMs 46136
Date Fri Mar 29 08:21:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031041.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031041hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05697 Trigger_N: Bacterial 98.2 3.6E-06 7.8E-11 63.4 6.1 53 97-156 2-54 (145)
2 PRK01490 tig trigger factor; P 96.9 0.0023 4.9E-08 55.8 5.8 53 97-156 2-54 (435)
3 COG0544 Tig FKBP-type peptidyl 96.0 0.014 3E-07 53.2 5.9 53 97-156 2-54 (441)
4 TIGR00115 tig trigger factor. 92.8 0.13 2.8E-06 44.6 3.8 33 109-142 2-34 (408)
5 PRK02103 malonate decarboxylas 65.0 25 0.00055 27.4 5.9 56 95-151 30-88 (105)
6 PF13103 TonB_2: TonB C termin 64.2 11 0.00025 25.3 3.5 48 97-146 29-76 (85)
7 TIGR03130 malonate_delta malon 62.2 31 0.00068 26.6 5.9 56 95-151 28-86 (98)
8 PRK01220 malonate decarboxylas 56.3 44 0.00095 25.9 5.8 56 95-151 27-84 (99)
9 PF06857 ACP: Malonate decarbo 52.7 35 0.00075 25.3 4.6 37 95-131 15-56 (87)
10 cd04920 ACT_AKiii-DAPDC_2 ACT 41.9 31 0.00066 22.8 2.7 56 73-128 3-59 (63)
11 cd04917 ACT_AKiii-LysC-EC_2 AC 31.6 68 0.0015 20.6 3.0 56 73-128 4-60 (64)
12 PF02566 OsmC: OsmC-like prote 31.2 1.6E+02 0.0035 19.9 5.0 39 91-129 33-80 (100)
13 PF08175 SspO: Small acid-solu 30.6 22 0.00048 24.9 0.6 13 133-145 5-17 (51)
14 cd04915 ACT_AK-Ectoine_2 ACT d 29.0 49 0.0011 22.1 2.0 57 73-129 5-63 (66)
15 PF13656 RNA_pol_L_2: RNA poly 27.9 1.4E+02 0.0031 21.1 4.4 32 101-132 36-68 (77)
16 PF05292 MCD: Malonyl-CoA deca 25.3 19 0.00041 33.1 -0.6 8 135-142 225-232 (354)
17 KOG3939 Selenophosphate synthe 24.6 52 0.0011 30.0 2.0 79 78-163 106-219 (312)
18 cd04905 ACT_CM-PDT C-terminal 23.8 2.1E+02 0.0045 19.2 4.4 30 103-132 39-68 (80)
19 PF12549 TOH_N: Tyrosine hydro 23.2 38 0.00081 20.7 0.6 12 132-143 5-16 (25)
20 PF03160 Calx-beta: Calx-beta 23.1 1.5E+02 0.0033 20.4 3.8 32 84-116 5-37 (100)
21 cd04919 ACT_AK-Hom3_2 ACT doma 21.6 93 0.002 19.5 2.2 54 73-126 4-60 (66)
22 PRK13253 citrate lyase subunit 21.3 2.4E+02 0.0051 21.3 4.6 36 95-130 16-56 (92)
23 PF12727 PBP_like: PBP superfa 20.9 69 0.0015 25.7 1.9 29 115-143 101-129 (193)
24 cd04922 ACT_AKi-HSDH-ThrA_2 AC 20.0 1E+02 0.0022 19.1 2.2 52 73-124 4-58 (66)
No 1
>PF05697 Trigger_N: Bacterial trigger factor protein (TF); InterPro: IPR008881 In the Escherichia coli cytosol, a fraction of the newly synthesised proteins requires the activity of molecular chaperones for folding to the native state. The major chaperones implicated in this folding process are the ribosome-associated Trigger Factor (TF), and the DnaK and GroEL chaperones with their respective co-chaperones. Trigger Factor is an ATP-independent chaperone and displays chaperone and peptidyl-prolyl-cis-trans-isomerase (PPIase) activities in vitro. It is composed of at least three domains, an N-terminal domain which mediates association with the large ribosomal subunit, a central substrate binding and PPIase domain with homology to FKBP proteins, and a C-terminal domain of unknown function. The positioning of TF at the peptide exit channel, together with its ability to interact with nascent chains as short as 57 residues renders TF a prime candidate for being the first chaperone that binds to the nascent polypeptide chains []. This group of sequences contain the ribosomal subunit association domain.; GO: 0006457 protein folding, 0015031 protein transport; PDB: 2D3O_1 1W26_A 1P9Y_A 1OMS_C 1T11_A 3GU0_A 2NSB_A 2NSC_A 3GTY_X.
Probab=98.21 E-value=3.6e-06 Score=63.38 Aligned_cols=53 Identities=30% Similarity=0.633 Sum_probs=45.2
Q ss_pred eEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041 97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH 156 (167)
Q Consensus 97 ~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL 156 (167)
+|.+...++.++++.|+|++...+..+++++.++++.+. |||||. || +|.+++
T Consensus 2 ~v~~~~~~~~~~~~~v~v~~~~~~~~~~~~l~~~~k~~~-ipGFRk---GK---~P~~vi 54 (145)
T PF05697_consen 2 KVTVEKIEDSKVKLEVEVPAEEVEKAYEKALKELAKKVK-IPGFRK---GK---APRNVI 54 (145)
T ss_dssp EEEEEEESTTEEEEEEEE-HHHHHHHHHHHHHHHHTTTT-BTTS-T---TS---S-HHHH
T ss_pred ccEEEECCCcEEEEEEEECHHHHHHHHHHHHHHHHhhCC-CCCCCC---CC---CCHHHH
Confidence 577888999999999999999999999999999999996 999998 56 677664
No 2
>PRK01490 tig trigger factor; Provisional
Probab=96.87 E-value=0.0023 Score=55.84 Aligned_cols=53 Identities=28% Similarity=0.513 Sum_probs=46.4
Q ss_pred eEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041 97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH 156 (167)
Q Consensus 97 ~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL 156 (167)
++.++..++.+.++.|+|++...+..+++++.++++.+ -|||||+ | | +|..++
T Consensus 2 ~v~~~~~~~~~~~l~v~v~~~~~~~~~~~~~~~~~k~~-~ipGFRk--G-k---vP~~ii 54 (435)
T PRK01490 2 QVTVEKLEGLERRLTITVPAEEIEKAVDKALKKLAKTV-RIPGFRK--G-K---VPRKIV 54 (435)
T ss_pred cceEEEcCCcEEEEEEEEcHHHHHHHHHHHHHHHHhhC-cCCCccC--C-C---CCHHHH
Confidence 46788889999999999999999999999999999998 5999997 3 3 676654
No 3
>COG0544 Tig FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor) [Posttranslational modification, protein turnover, chaperones]
Probab=96.05 E-value=0.014 Score=53.16 Aligned_cols=53 Identities=30% Similarity=0.528 Sum_probs=46.1
Q ss_pred eEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCCcccccchhHH
Q 031041 97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGGKTTKVSIFWH 156 (167)
Q Consensus 97 ~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGGkt~~IPk~iL 156 (167)
+|.++..++..+.|.|.|+....+.-+|++|.++++.+. |||||+= | +|..++
T Consensus 2 ~v~~e~~~~~~~~l~v~vp~~~~~~~~~~~~~~~~k~v~-IpGFRkG---K---vP~~ii 54 (441)
T COG0544 2 KVTVEKLEGLEVRLTVEVPAEEIKKALDKALKKLAKKVK-IPGFRKG---K---VPRKVI 54 (441)
T ss_pred CeeeeecCCcEEEEEEEECHHHHHHHHHHHHHHHHhhCc-CCCCCCC---C---CCHHHH
Confidence 367889999999999999999999999999999999987 9999963 3 565553
No 4
>TIGR00115 tig trigger factor. Trigger factor is a ribosome-associated molecular chaperone and is the first chaperone to interact with nascent polypeptide. Trigger factor can bind at the same time as the signal recognition particle (SRP), but is excluded by the SRP receptor (FtsY). The central domain of trigger factor has peptidyl-prolyl cis/trans isomerase activity. This protein is found in a single copy in virtually every bacterial genome.
Probab=92.81 E-value=0.13 Score=44.56 Aligned_cols=33 Identities=33% Similarity=0.696 Sum_probs=31.1
Q ss_pred EEEEEecChhhHHHHHHHHHHhhhcCCCCCCcee
Q 031041 109 QVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRR 142 (167)
Q Consensus 109 kirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr 142 (167)
+|.|+|+....+..+|+++.++++.+ -|||||+
T Consensus 2 ~l~v~v~~~~~~~~~~k~~~~~~k~~-~ipGFRk 34 (408)
T TIGR00115 2 KLTVEVPAEEVEEEVDKALKELAKKV-KIPGFRK 34 (408)
T ss_pred eEEEEECHHHHHHHHHHHHHHHHhhC-CCCCccC
Confidence 58899999999999999999999999 5999997
No 5
>PRK02103 malonate decarboxylase subunit delta; Provisional
Probab=65.03 E-value=25 Score=27.37 Aligned_cols=56 Identities=16% Similarity=0.287 Sum_probs=43.7
Q ss_pred ceeEEEEcCC-CCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceec--cCCccccc
Q 031041 95 DAKIVVESQD-EDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRRE--KGGKTTKV 151 (167)
Q Consensus 95 d~~v~V~s~d-d~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~--KGGkt~~I 151 (167)
|.+|-++..+ +++++|+|.-|=+--+.+++.||...+... |.||-|-. -+|-||.+
T Consensus 30 dLEVL~ep~~~~~~~~v~I~Tsv~Gf~~~WqaVl~~f~~r~-~~~~~~i~InD~GATP~V 88 (105)
T PRK02103 30 NLEVLVERVLPGGECEVEIRTAAVGFGAVWQAVVADFVERR-SPGGLRISINDGGARPDT 88 (105)
T ss_pred ceEEEEeccCCCCeEEEEEEecccCcHHHHHHHHHHHHhhC-CCCccEEEEeCCCCCchh
Confidence 4456678876 799999999999999999999999999888 77776643 35555544
No 6
>PF13103 TonB_2: TonB C terminal; PDB: 1LR0_A.
Probab=64.15 E-value=11 Score=25.32 Aligned_cols=48 Identities=19% Similarity=0.347 Sum_probs=29.0
Q ss_pred eEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceeccCC
Q 031041 97 KIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRREKGG 146 (167)
Q Consensus 97 ~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~KGG 146 (167)
.|.+.=..||.|. ++.+-...-..-||+...+.++.|.|+|=+- ..|+
T Consensus 29 ~V~i~i~~dG~v~-~~~i~~sSG~~~~D~av~~ai~~~~p~p~pP-~~~~ 76 (85)
T PF13103_consen 29 TVRITIDPDGRVI-SVRIVKSSGNPAFDAAVRRAIRRASPFPPPP-EYGK 76 (85)
T ss_dssp EEEEEE-TTSBEE-EEEEEE--S-HHHHHHHHHHHHHH-B-GGGG-----
T ss_pred EEEEEECCCCCEE-EEEEecCCCCHHHHHHHHHHHHHcCCCCcCC-cccc
Confidence 3556667788873 5555555566789999999999999998776 4454
No 7
>TIGR03130 malonate_delta malonate decarboxylase acyl carrier protein. Members of this protein family are the acyl carrier protein, also called the delta subunit, of malonate decarboxylase. This subunit has the same covalently bound prosthetic group, derived from and similar to coenzyme A, as does citrate lyase, although this protein and the acyl carrier protein of citrate lyase do not show significant sequence similarity. Both malonyl and acetyl groups are transferred to the prosthetic group for catalysis.
Probab=62.15 E-value=31 Score=26.57 Aligned_cols=56 Identities=27% Similarity=0.409 Sum_probs=42.6
Q ss_pred ceeEEEEcCC-CCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceec--cCCccccc
Q 031041 95 DAKIVVESQD-EDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRRE--KGGKTTKV 151 (167)
Q Consensus 95 d~~v~V~s~d-d~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~--KGGkt~~I 151 (167)
|.+|-++..+ .++++|+|+-|=+--+.+++.||..++... |+||-|-. -+|-||.+
T Consensus 28 dLEVL~ep~~~~~~~~v~I~Tsv~Gf~~~Wqavl~rf~~~~-~~~~~~i~InD~GATP~V 86 (98)
T TIGR03130 28 DLEVLVEPGAEGGKTEVRITTSVDGFGAVWQAVIERFFARY-PLAGLQIEINDFGATPAV 86 (98)
T ss_pred ceEEEEEcCCCCCeEEEEEEecccCcHHHHHHHHHHHHhhC-CCCccEEEEecCCCCchh
Confidence 4446677754 899999999998888999999999999887 77875543 35555544
No 8
>PRK01220 malonate decarboxylase subunit delta; Provisional
Probab=56.32 E-value=44 Score=25.86 Aligned_cols=56 Identities=16% Similarity=0.283 Sum_probs=41.7
Q ss_pred ceeEEEEcCCCCeEEEEEEecChhhHHHHHHHHHHhhhcCCCCCCceec--cCCccccc
Q 031041 95 DAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLTNLARSAPPIPGFRRE--KGGKTTKV 151 (167)
Q Consensus 95 d~~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~aAqPiPGFRr~--KGGkt~~I 151 (167)
|.+|-++...++++.|+|+-|=+--+.+++.||...+... |+||-|-. -.|-||.+
T Consensus 27 dLEVL~ep~~~~~~~v~I~Tsv~Gf~~~Wqavl~rf~~~~-~~~~~~i~InD~GATP~V 84 (99)
T PRK01220 27 DLEVLLEPGDAGKLSIQVVTSVNGSAARWKALFERFFTAQ-TPPAANIDIHDFGATPGV 84 (99)
T ss_pred ceEEEEEcCCCCcEEEEEEecccCcHHHHHHHHHHHHhhC-CCCccEEEEeCCCCCcHh
Confidence 3446677788899999999998888999999999998887 66665432 34445443
No 9
>PF06857 ACP: Malonate decarboxylase delta subunit (MdcD); InterPro: IPR023439 This family consists of the acyl carrier protein found in malonate decarboxylase and citrate lyase. This subunit has the same covalently bound prosthetic group, derived from and similar to coenzyme A, as does citrate lyase, although this protein and the acyl carrier protein of citrate lyase do not show significant sequence similarity. Both malonyl and acetyl groups are transferred to the prosthetic group for catalysis.
Probab=52.73 E-value=35 Score=25.32 Aligned_cols=37 Identities=24% Similarity=0.505 Sum_probs=30.5
Q ss_pred ceeEEEEcCCCCeEEEEEEec-----ChhhHHHHHHHHHHhh
Q 031041 95 DAKIVVESQDEDKIQVRVDLT-----GDATQRVFDKVLTNLA 131 (167)
Q Consensus 95 d~~v~V~s~dd~~IkirVdvs-----G~~Tq~VFd~Vf~klv 131 (167)
|..|.++..+++.|.|.++=+ |+..+++.++++..+.
T Consensus 15 D~~V~v~p~~~~gi~i~l~S~v~~~fg~~i~~vi~~~l~~~~ 56 (87)
T PF06857_consen 15 DLEVTVEPAESGGIEIELESSVVKQFGDQIRAVIRETLEELG 56 (87)
T ss_pred cEEEEEEeCCCCcEEEEEEchHHhhhHHHHHHHHHHHHHhcC
Confidence 566889998889999888877 7788888888888774
No 10
>cd04920 ACT_AKiii-DAPDC_2 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC). This CD includes the second of two ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. Aspartokinase (AK) is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The lysA gene encodes the enzyme DAPDC, a pyridoxal-5'-phosphate (PLP)-dependent enzyme which catalyzes the final step in the lysine biosynthetic pathway converting meso-diaminopimelic acid (DAP) to l-lysine. Tandem ACT domains are positioned centrally with the AK catalytic domain N-terminal and the DAPDC domains C-terminal. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=41.89 E-value=31 Score=22.76 Aligned_cols=56 Identities=14% Similarity=0.197 Sum_probs=37.6
Q ss_pred eeeecCCCccccCCC-ccceeeeceeEEEEcCCCCeEEEEEEecChhhHHHHHHHHH
Q 031041 73 VSAVDSGVEVSITEP-EDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLT 128 (167)
Q Consensus 73 vsAV~SG~e~S~t~~-e~~is~~d~~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~ 128 (167)
||.||.|......-. +-+-.|.+..|.+.+...++++|.+=|..+..++.-..+-.
T Consensus 3 VsvVG~g~~~~~gv~~~~~~~L~~~~i~~i~~~~s~~~is~vv~~~d~~~av~~LH~ 59 (63)
T cd04920 3 VSLVGRGIRSLLHKLGPALEVFGKKPVHLVSQAANDLNLTFVVDEDQADGLCARLHF 59 (63)
T ss_pred EEEECCCcccCccHHHHHHHHHhcCCceEEEEeCCCCeEEEEEeHHHHHHHHHHHHH
Confidence 788999886531111 11134566778888888889999999988887765544433
No 11
>cd04917 ACT_AKiii-LysC-EC_2 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The E. coli AKIII (LysC) binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. The second ACT domain (ACT2), this CD, is not involved in the binding of heterotrophic effectors. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=31.59 E-value=68 Score=20.56 Aligned_cols=56 Identities=5% Similarity=0.101 Sum_probs=36.6
Q ss_pred eeeecCCCccccCCC-ccceeeeceeEEEEcCCCCeEEEEEEecChhhHHHHHHHHH
Q 031041 73 VSAVDSGVEVSITEP-EDLITVKDAKIVVESQDEDKIQVRVDLTGDATQRVFDKVLT 128 (167)
Q Consensus 73 vsAV~SG~e~S~t~~-e~~is~~d~~v~V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~ 128 (167)
||.||.|......-. +-+..|.+..+.+.++..+++.|.+=|..+..+++-..+-.
T Consensus 4 IsvvG~~~~~~~~v~~~i~~~L~~i~i~~i~~~~s~~~is~~V~~~~~~~a~~~Lh~ 60 (64)
T cd04917 4 VALIGNDISETAGVEKRIFDALEDINVRMICYGASNHNLCFLVKEEDKDEVVQRLHS 60 (64)
T ss_pred EEEECCCccCCcCHHHHHHHHHHhCCeEEEEEecCccEEEEEEeHHHHHHHHHHHHH
Confidence 677888774421111 11234567778888888889999888888877766555443
No 12
>PF02566 OsmC: OsmC-like protein; InterPro: IPR003718 Osmotically inducible protein C (OsmC) is a stress-induced protein found in Escherichia coli. The transcription of the osmC gene of E. coli is regulated as a function of the phase of growth and is induced during the late exponential phase when the growth rate slows before entry into stationary phase. The transcription is initiated by two overlapping promoters, osmCp1 and osmCp2 []. An organic hydroperoxide detoxification protein (OHR) from Xanthomonas campestris pv. phaseoli is highly induced by organic hydroperoxides, weakly induced by H2O2, and not induced at all by a superoxide generator. Ohr may be a new type of organic hydroperoxide detoxification protein [, ].; GO: 0006950 response to stress; PDB: 2D7V_A 2BJO_A 1USP_A 2PN2_A 2QL8_A 1N2F_A 1UKK_A 1VLA_D 3CJE_A 2ONF_B ....
Probab=31.18 E-value=1.6e+02 Score=19.86 Aligned_cols=39 Identities=26% Similarity=0.555 Sum_probs=21.6
Q ss_pred eeeeceeEEEEcC--CCC-----eEEEEEEe--cChhhHHHHHHHHHH
Q 031041 91 ITVKDAKIVVESQ--DED-----KIQVRVDL--TGDATQRVFDKVLTN 129 (167)
Q Consensus 91 is~~d~~v~V~s~--dd~-----~IkirVdv--sG~~Tq~VFd~Vf~k 129 (167)
+.++++.|.|+.+ +++ .|.+++.| ++..++.-.+++...
T Consensus 33 i~~~~~~v~v~~~~~~~~~~~~~~i~~~~~v~~~~~~~~~~~~~~~~~ 80 (100)
T PF02566_consen 33 IDLEDLEVEVEGELDPEGPRRFESIHLRITVKSDGDDDEEELEELLER 80 (100)
T ss_dssp -EEEEEEEEEEEEEETTTCECEEEEEEEEEEEETTSHHHHHHHHHHHH
T ss_pred CCcceEEEEEEEEEeecCCccceEEEEEEEEEcCCCCcHHHHHHHHHH
Confidence 5678888888763 222 24444444 665545666665544
No 13
>PF08175 SspO: Small acid-soluble spore protein O family; InterPro: IPR012613 This family consists of the small acid-soluble spore proteins (SASP) O type (sspO). SspO (originally cotK) are unique to the spores of Bacillus subtilis and are expressed only in the forespore compartment of sporulating cells of this organism. The sspO is the first gene in a likely operon with sspP and transcription of this gene is primarily by RNA polymerase with the forespore-specific sigma factor, sigma-G. Mutation deleting sspO causes the loss of the SspO from the forespore but had no discernible effect on sporulation, spore properties or spore germination [].; GO: 0030436 asexual sporulation, 0042601 endospore-forming forespore
Probab=30.60 E-value=22 Score=24.90 Aligned_cols=13 Identities=46% Similarity=0.915 Sum_probs=10.8
Q ss_pred cCCCCCCceeccC
Q 031041 133 SAPPIPGFRREKG 145 (167)
Q Consensus 133 aAqPiPGFRr~KG 145 (167)
+--|||||++.|+
T Consensus 5 ~nH~~pGmn~ak~ 17 (51)
T PF08175_consen 5 ANHPIPGMNRAKS 17 (51)
T ss_pred ccCcCcCcccccc
Confidence 4568999999986
No 14
>cd04915 ACT_AK-Ectoine_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinas
Probab=28.97 E-value=49 Score=22.05 Aligned_cols=57 Identities=14% Similarity=0.164 Sum_probs=35.7
Q ss_pred eeeecCCCccccCCCccceeeeceeEEE--EcCCCCeEEEEEEecChhhHHHHHHHHHH
Q 031041 73 VSAVDSGVEVSITEPEDLITVKDAKIVV--ESQDEDKIQVRVDLTGDATQRVFDKVLTN 129 (167)
Q Consensus 73 vsAV~SG~e~S~t~~e~~is~~d~~v~V--~s~dd~~IkirVdvsG~~Tq~VFd~Vf~k 129 (167)
||.||.|......-.+-+-.|.+..+.+ .++..++++|.+=|..+.++++-..+...
T Consensus 5 VsvVG~gm~~~gv~~ki~~~L~~~~I~v~~i~~~~s~~~is~~V~~~~~~~av~~Lh~~ 63 (66)
T cd04915 5 VSVIGRDLSTPGVLARGLAALAEAGIEPIAAHQSMRNVDVQFVVDRDDYDNAIKALHAA 63 (66)
T ss_pred EEEECCCCCcchHHHHHHHHHHHCCCCEEEEEecCCeeEEEEEEEHHHHHHHHHHHHHH
Confidence 7889998842110111123455554445 77778899999999888877766555443
No 15
>PF13656 RNA_pol_L_2: RNA polymerase Rpb3/Rpb11 dimerisation domain; PDB: 2Y0S_L 1I3Q_K 4A3D_K 2JA8_K 3GTP_K 1R9T_K 3PO2_K 4A3J_K 3HOX_K 2JA7_K ....
Probab=27.89 E-value=1.4e+02 Score=21.13 Aligned_cols=32 Identities=25% Similarity=0.438 Sum_probs=25.0
Q ss_pred EcCCCCeEEEEEEecCh-hhHHHHHHHHHHhhh
Q 031041 101 ESQDEDKIQVRVDLTGD-ATQRVFDKVLTNLAR 132 (167)
Q Consensus 101 ~s~dd~~IkirVdvsG~-~Tq~VFd~Vf~klv~ 132 (167)
.---+++|.|||+..|. .-..++.+++.++..
T Consensus 36 pHPl~~~i~l~Iqt~~~~~p~~~l~~a~~~l~~ 68 (77)
T PF13656_consen 36 PHPLENKINLRIQTKGGITPIEALKKALEDLIK 68 (77)
T ss_dssp SETTSSEEEEEEEESTTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCceEEEEEECCCCCHHHHHHHHHHHHHH
Confidence 33457889999999998 778889988887754
No 16
>PF05292 MCD: Malonyl-CoA decarboxylase (MCD); InterPro: IPR007956 This family consists of several eukaryotic malonyl-CoA decarboxylase (MLYCD) proteins. Malonyl-CoA, in addition to being an intermediate in the de novo synthesis of fatty acids, is an inhibitor of carnitine palmitoyltransferase I, the enzyme that regulates the transfer of long-chain fatty acyl-CoA into mitochondria, where they are oxidised. After exercise, malonyl-CoA decarboxylase participates with acetyl-CoA carboxylase in regulating the concentration of malonyl-CoA in liver and adipose tissue, as well as in muscle. Malonyl-CoA decarboxylase is regulated by AMP-activated protein kinase (AMPK) [].; GO: 0050080 malonyl-CoA decarboxylase activity, 0006633 fatty acid biosynthetic process; PDB: 2YGW_B.
Probab=25.34 E-value=19 Score=33.15 Aligned_cols=8 Identities=88% Similarity=1.771 Sum_probs=3.1
Q ss_pred CCCCCcee
Q 031041 135 PPIPGFRR 142 (167)
Q Consensus 135 qPiPGFRr 142 (167)
-||||||+
T Consensus 225 SPiPgF~~ 232 (354)
T PF05292_consen 225 SPIPGFRR 232 (354)
T ss_dssp B----HHH
T ss_pred CCCccHHH
Confidence 49999997
No 17
>KOG3939 consensus Selenophosphate synthetase [Signal transduction mechanisms]
Probab=24.60 E-value=52 Score=29.98 Aligned_cols=79 Identities=20% Similarity=0.420 Sum_probs=52.6
Q ss_pred CCCccccCCCccceeeece--------------eEE------EEcCCCCeEEEEEEecChhhHHHHHHHHHHhhh-----
Q 031041 78 SGVEVSITEPEDLITVKDA--------------KIV------VESQDEDKIQVRVDLTGDATQRVFDKVLTNLAR----- 132 (167)
Q Consensus 78 SG~e~S~t~~e~~is~~d~--------------~v~------V~s~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~----- 132 (167)
-|+.+|+.+++++|.-+|+ .+. +..+.+.-.++.++||...++++|+.+-.+|+|
T Consensus 106 gGVatsVcq~ne~i~pdnAvpGdvlvLTkplg~qvAv~~h~wi~~~~ek~~~~~l~vs~~die~ay~~a~~~M~~Lnr~a 185 (312)
T KOG3939|consen 106 GGVATSVCQPNEIIMPDNAVPGDVLVLTKPLGGQVAVNAHQWIDNQPEKWNKLKLEVSDEDIEKAYEEAMKSMARLNRNA 185 (312)
T ss_pred ccccccccCccceecccCCCCcceEEEeccCCceeehHHHHHHhcCcceeeeeeeeecHHHHHHHHHHHHhhhhhhchhh
Confidence 4777888887776544442 122 223444556799999999999999999988875
Q ss_pred ----------cCCCCCCceeccCCcccccchhHHHHhhhee
Q 031041 133 ----------SAPPIPGFRREKGGKTTKVSIFWHWVFQQLK 163 (167)
Q Consensus 133 ----------aAqPiPGFRr~KGGkt~~IPk~iLw~f~~~~ 163 (167)
+|--|-||+-. | - ...||-+|.-+
T Consensus 186 A~lmhkynaHaaTDItGFgll-G-H-----aqnLa~qqk~~ 219 (312)
T KOG3939|consen 186 AGLMHKYNAHAATDITGFGLL-G-H-----AQNLAKQQKNE 219 (312)
T ss_pred hhhhhhccccccccccccchh-h-h-----HHHHHHHhhcc
Confidence 56678888432 2 1 34566666544
No 18
>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme. The C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme, found in plants, fungi, bacteria, and archaea. The P-protein of E. coli (CM-PDT, PheA) catalyzes the conversion of chorismate to prephenate and then the decarboxylation and dehydration to form phenylpyruvate. These are the first two steps in the biosynthesis of L-Phe and L-Tyr via the shikimate pathway in microorganisms and plants. The E. coli P-protein (CM-PDT) has three domains with an N-terminal domain with chorismate mutase activity, a middle domain with prephenate dehydratase activity, and an ACT regulatory C-terminal domain. The prephenate dehydratase enzyme has a PDT and ACT domain. The ACT domain is essential to bring about the negative allosteric regulation by L-Phe bindi
Probab=23.78 E-value=2.1e+02 Score=19.16 Aligned_cols=30 Identities=17% Similarity=0.167 Sum_probs=23.1
Q ss_pred CCCCeEEEEEEecChhhHHHHHHHHHHhhh
Q 031041 103 QDEDKIQVRVDLTGDATQRVFDKVLTNLAR 132 (167)
Q Consensus 103 ~dd~~IkirVdvsG~~Tq~VFd~Vf~klv~ 132 (167)
++..++.++||+.|...+.-+++++..|-.
T Consensus 39 ~~~~~~~f~vd~~~~~~~~~~~~~l~~l~~ 68 (80)
T cd04905 39 GGLWEYVFFIDFEGHIEDPNVAEALEELKR 68 (80)
T ss_pred CCCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 345678899999997667788888877764
No 19
>PF12549 TOH_N: Tyrosine hydroxylase N terminal ; InterPro: IPR021164 This domain family is found in eukaryotes, and is approximately 30 amino acids in length. There is a single completely conserved residue G that may be functionally important. Tyrosine hydroxylase converts L-tyrosine to L-DOPA in the catecholamine synthesis pathway. ; GO: 0004511 tyrosine 3-monooxygenase activity, 0055114 oxidation-reduction process
Probab=23.25 E-value=38 Score=20.68 Aligned_cols=12 Identities=42% Similarity=0.811 Sum_probs=9.6
Q ss_pred hcCCCCCCceec
Q 031041 132 RSAPPIPGFRRE 143 (167)
Q Consensus 132 ~aAqPiPGFRr~ 143 (167)
.++|+-+||||.
T Consensus 5 ~ts~~~~G~r~a 16 (25)
T PF12549_consen 5 ITSPQAKGFRRA 16 (25)
T ss_pred ccCCCCccchhh
Confidence 357889999985
No 20
>PF03160 Calx-beta: Calx-beta domain; InterPro: IPR003644 The calx-beta motif is present as a tandem repeat in the cytoplasmic domains of Calx Na-Ca exchangers, which are used to expel calcium from cells. This motif overlaps domains used for calcium binding and regulation. The calx-beta motif is also present in the cytoplasmic tail of mammalian integrin-beta4, which mediates the bi-directional transfer of signals across the plasma membrane, as well as in some cyanobacterial proteins. This motif contains a series of beta-strands and turns that form a self-contained beta-sheet [, ].; GO: 0007154 cell communication, 0016021 integral to membrane; PDB: 3H6A_B 3FSO_A 3FQ4_B 2DPK_A 2QVM_A 3GIN_B 2QVK_A 2FWU_A 2FWS_A 3E9U_A ....
Probab=23.14 E-value=1.5e+02 Score=20.36 Aligned_cols=32 Identities=22% Similarity=0.425 Sum_probs=20.0
Q ss_pred cCCCccc-eeeeceeEEEEcCCCCeEEEEEEecC
Q 031041 84 ITEPEDL-ITVKDAKIVVESQDEDKIQVRVDLTG 116 (167)
Q Consensus 84 ~t~~e~~-is~~d~~v~V~s~dd~~IkirVdvsG 116 (167)
+.|.+.. +.|.+-.+.+ .|+++.+++.|.++|
T Consensus 5 I~d~d~~~v~f~~~~~~v-~E~~~~~~v~V~~~~ 37 (100)
T PF03160_consen 5 ILDDDDPTVSFSSPSYTV-SEGDGTVTVTVTRSG 37 (100)
T ss_dssp EE-TTSEEEEESSSEEEE-ETTSSEEEEEEEEES
T ss_pred EECCCCCEEEEeCCEEEE-EeCCCEEEEEEEEcc
Confidence 4444444 7777766655 556666888888775
No 21
>cd04919 ACT_AK-Hom3_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydrodynamic size. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.57 E-value=93 Score=19.51 Aligned_cols=54 Identities=17% Similarity=0.244 Sum_probs=30.8
Q ss_pred eeeecCCCccccCCCccc-eeeeceeEEE--EcCCCCeEEEEEEecChhhHHHHHHH
Q 031041 73 VSAVDSGVEVSITEPEDL-ITVKDAKIVV--ESQDEDKIQVRVDLTGDATQRVFDKV 126 (167)
Q Consensus 73 vsAV~SG~e~S~t~~e~~-is~~d~~v~V--~s~dd~~IkirVdvsG~~Tq~VFd~V 126 (167)
|+.||+|......--.+. -.|.+..|.+ -++...++.|.+.+..+...++-+.+
T Consensus 4 isvvg~~~~~~~~~~~~if~~L~~~~I~v~~i~q~~s~~~isf~v~~~~~~~a~~~l 60 (66)
T cd04919 4 LSLVGKHMKNMIGIAGRMFTTLADHRINIEMISQGASEINISCVIDEKDAVKALNII 60 (66)
T ss_pred EEEECCCCCCCcCHHHHHHHHHHHCCCCEEEEEecCccceEEEEEeHHHHHHHHHHH
Confidence 677888776632111111 2344444433 44444568899999988877764443
No 22
>PRK13253 citrate lyase subunit gamma; Provisional
Probab=21.25 E-value=2.4e+02 Score=21.29 Aligned_cols=36 Identities=25% Similarity=0.454 Sum_probs=25.8
Q ss_pred ceeEEEEcCCCCeEEEEEEec-----ChhhHHHHHHHHHHh
Q 031041 95 DAKIVVESQDEDKIQVRVDLT-----GDATQRVFDKVLTNL 130 (167)
Q Consensus 95 d~~v~V~s~dd~~IkirVdvs-----G~~Tq~VFd~Vf~kl 130 (167)
|..|.|+..+++.+.|.++=+ |..-+++.+++|..+
T Consensus 16 Dl~V~veP~~~~~i~i~i~SsV~~~Fg~~i~~vv~~~l~~~ 56 (92)
T PRK13253 16 DVMIRIAPADTQGIDIQLESSVEKQFGDQIRAVILETLAKL 56 (92)
T ss_pred CEEEEEEeCCCCcEEEEEEeeHHhhhHHHHHHHHHHHHHhc
Confidence 566788887667777766644 556777888887776
No 23
>PF12727 PBP_like: PBP superfamily domain; InterPro: IPR024370 This entry represents members of the periplasmic binding domain superfamily []. It is often associated with a helix-turn-helix domain.
Probab=20.89 E-value=69 Score=25.69 Aligned_cols=29 Identities=31% Similarity=0.625 Sum_probs=25.0
Q ss_pred cChhhHHHHHHHHHHhhhcCCCCCCceec
Q 031041 115 TGDATQRVFDKVLTNLARSAPPIPGFRRE 143 (167)
Q Consensus 115 sG~~Tq~VFd~Vf~klv~aAqPiPGFRr~ 143 (167)
.|.-|+.+||..+..+..+..-|+||.+.
T Consensus 101 ~GSGtR~l~d~~l~~~gi~~~~i~gy~~~ 129 (193)
T PF12727_consen 101 PGSGTRILFDQLLAEEGIDPEDIPGYAQE 129 (193)
T ss_pred CCCHHHHHHHHHHHHcCCChhhCCCcccc
Confidence 57789999999999998888889999553
No 24
>cd04922 ACT_AKi-HSDH-ThrA_2 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the second of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pathwa
Probab=20.03 E-value=1e+02 Score=19.09 Aligned_cols=52 Identities=10% Similarity=0.192 Sum_probs=29.4
Q ss_pred eeeecCCCccccCCCccc-eeeeceeEEE--EcCCCCeEEEEEEecChhhHHHHH
Q 031041 73 VSAVDSGVEVSITEPEDL-ITVKDAKIVV--ESQDEDKIQVRVDLTGDATQRVFD 124 (167)
Q Consensus 73 vsAV~SG~e~S~t~~e~~-is~~d~~v~V--~s~dd~~IkirVdvsG~~Tq~VFd 124 (167)
||.||+|......-..+. -.|.+..+.+ -++...++.|.+-|+.+...++-+
T Consensus 4 isvvg~~~~~~~~~~~~i~~~l~~~~I~v~~i~~~~s~~~is~~v~~~~~~~~~~ 58 (66)
T cd04922 4 LALVGDGMAGTPGVAATFFSALAKANVNIRAIAQGSSERNISAVIDEDDATKALR 58 (66)
T ss_pred EEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEecCcccEEEEEEeHHHHHHHHH
Confidence 678888876632111111 2345544444 444335688888888877766533
Done!