Query 028943
Match_columns 201
No_of_seqs 12 out of 14
Neff 1.6
Searched_HMMs 46136
Date Fri Mar 29 05:00:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028943.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028943hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK00823 phhB pterin-4-alpha-c 92.9 0.14 3.1E-06 37.5 3.6 59 128-186 9-68 (97)
2 cd00913 PCD_DCoH_subfamily_a P 92.7 0.13 2.9E-06 36.1 3.1 46 140-185 2-48 (76)
3 PF01329 Pterin_4a: Pterin 4 a 89.7 0.26 5.6E-06 36.0 2.2 58 127-184 7-64 (95)
4 cd00914 PCD_DCoH_subfamily_b P 89.5 0.38 8.2E-06 33.9 2.8 41 146-186 9-49 (76)
5 cd00488 PCD_DCoH PCD_DCoH: The 88.2 0.58 1.3E-05 32.6 3.0 42 145-186 7-48 (75)
6 cd06257 DnaJ DnaJ domain or J- 38.8 28 0.00061 21.4 2.0 35 133-173 21-55 (55)
7 PF09188 DUF1951: Domain of un 34.2 18 0.00039 30.1 0.7 54 36-89 57-110 (137)
8 PRK14285 chaperone protein Dna 31.0 41 0.00088 29.9 2.4 35 131-174 22-59 (365)
9 smart00271 DnaJ DnaJ molecular 30.4 47 0.001 20.8 2.1 39 132-175 21-59 (60)
10 TIGR03433 padR_acidobact trans 28.9 42 0.0009 24.3 1.8 40 131-172 50-89 (100)
11 KOG1142 Transcription initiati 27.4 15 0.00033 32.9 -0.8 33 157-195 174-208 (258)
12 PRK14282 chaperone protein Dna 25.3 51 0.0011 29.1 2.1 36 131-175 23-62 (369)
13 PF12835 Integrase_1: Integras 23.8 1.1E+02 0.0023 24.9 3.5 36 144-179 77-113 (187)
14 PF03551 PadR: Transcriptional 23.6 64 0.0014 21.8 1.9 35 130-166 41-75 (75)
15 PRK14284 chaperone protein Dna 22.6 58 0.0013 29.1 1.9 33 133-174 22-57 (391)
16 PF09379 FERM_N: FERM N-termin 22.5 58 0.0013 21.6 1.5 24 149-172 8-31 (80)
17 PRK08558 adenine phosphoribosy 22.0 79 0.0017 26.7 2.5 30 153-182 48-88 (238)
18 PF11371 DUF3172: Protein of u 20.2 47 0.001 27.8 0.8 18 180-197 78-95 (140)
19 PLN02639 oxidoreductase, 2OG-F 20.1 62 0.0013 28.1 1.5 35 155-189 158-193 (337)
No 1
>PRK00823 phhB pterin-4-alpha-carbinolamine dehydratase; Validated
Probab=92.87 E-value=0.14 Score=37.53 Aligned_cols=59 Identities=15% Similarity=0.271 Sum_probs=47.8
Q ss_pred hhhhhhhhhhcccccCccc-ceeeccccCChHHHHHHHHHHHHhhcCCCccccccCccce
Q 028943 128 KEAADKRKLVSKWHPTTKG-TLRRNYRVPSKSEGRRLLKAIASLLSDDDHFTDATSHKVF 186 (201)
Q Consensus 128 keaadkrKLvSKWhpTTKG-TLrRnYRvpSk~EGrRlLKaIAslLSdDDhFvdAtSHKGC 186 (201)
.|.+...+-+..|.-...| .|.|.|.+++-.++..++.+||.+-.+.+|..|-+...++
T Consensus 9 ~ei~~~l~~l~gW~~~~~~~~l~r~f~f~~f~~a~~f~~~Va~~ae~~~HHP~i~~~~~~ 68 (97)
T PRK00823 9 EEIAELLPQLPGWTLVGDRDAIERTFKFKNFNEAFAFMNRVAEIAEEEDHHPDWFNVYNR 68 (97)
T ss_pred HHHHHHhhcCCCCeEeCCcCeEEEEEEeCCHHHHHHHHHHHHHHHHHcCCCCCEEEEcCE
Confidence 4444444445789986555 6999999999999999999999999999999988776654
No 2
>cd00913 PCD_DCoH_subfamily_a PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by associating with specific DNA binding proteins such as HNF-1alpha (hepatocyte nuclear factor-1) and Xenopus enhancer of rudimentary homologue (XERH). DCoH also catalyzes the dehydration of 4alpha- hydroxy- tetrahydrobiopterin (4alpha-OH-BH4) to quinoiddihydrobiopterin, a percursor of the phenylalanine hydroxylase cofactor BH4 (tetrahydrobiopterin). The DCoH homodimer has a saddle-shaped structure similar to that of TBP (TATA binding protein).
Probab=92.68 E-value=0.13 Score=36.12 Aligned_cols=46 Identities=17% Similarity=0.311 Sum_probs=39.5
Q ss_pred cccCcc-cceeeccccCChHHHHHHHHHHHHhhcCCCccccccCccc
Q 028943 140 WHPTTK-GTLRRNYRVPSKSEGRRLLKAIASLLSDDDHFTDATSHKV 185 (201)
Q Consensus 140 WhpTTK-GTLrRnYRvpSk~EGrRlLKaIAslLSdDDhFvdAtSHKG 185 (201)
|.-... +.|.|.|.+++-+++..++.+||.+-.+.||..|-+...+
T Consensus 2 W~~~~~~~~l~r~f~f~~f~~a~~f~~~va~~ae~~~HHP~i~~~~~ 48 (76)
T cd00913 2 WELADDGLKLERTFRFKNFVEALEFVNAVGEIAEAEGHHPDLSLGWG 48 (76)
T ss_pred CcCcCCCCeEEEEEEcCCHHHHHHHHHHHHHHHHHcCCCCCEEEecc
Confidence 544443 5899999999999999999999999999999998876655
No 3
>PF01329 Pterin_4a: Pterin 4 alpha carbinolamine dehydratase; InterPro: IPR001533 DCoH is the dimerisation cofactor of hepatocyte nuclear factor 1 (HNF-1) that functions as both a transcriptional coactivator and a pterin dehydratase []. X-ray crystallographic studies have shown that the ligand binds at four sites per tetrameric enzyme, with little apparent conformational change in the protein.; GO: 0008124 4-alpha-hydroxytetrahydrobiopterin dehydratase activity, 0006729 tetrahydrobiopterin biosynthetic process; PDB: 2V6T_B 2V6U_A 2V6S_B 2EBB_A 1USM_A 1F93_B 1DCP_C 1DCH_E 3HXA_E 1DCO_C ....
Probab=89.68 E-value=0.26 Score=35.97 Aligned_cols=58 Identities=19% Similarity=0.395 Sum_probs=44.0
Q ss_pred chhhhhhhhhhcccccCcccceeeccccCChHHHHHHHHHHHHhhcCCCccccccCcc
Q 028943 127 DKEAADKRKLVSKWHPTTKGTLRRNYRVPSKSEGRRLLKAIASLLSDDDHFTDATSHK 184 (201)
Q Consensus 127 ~keaadkrKLvSKWhpTTKGTLrRnYRvpSk~EGrRlLKaIAslLSdDDhFvdAtSHK 184 (201)
++|.+..-+-...|.-...+.|.|.|+.++-.++..++.+||.+-.+-+|..|-+...
T Consensus 7 ~~ei~~~L~~l~~W~~~~~~~l~r~f~f~~f~~a~~f~~~Va~~ae~~~HHP~i~~~~ 64 (95)
T PF01329_consen 7 EEEIAEALAELPGWKLDGGGRLERTFKFKDFAEAVEFVNRVAALAEEENHHPDISLGY 64 (95)
T ss_dssp HHHHHHHHHTSTTSEEETSSEEEEEEE-SSHHHHHHHHHHHHHHHHHHT---EEEEET
T ss_pred HHHHHHhhhcCcCCEECCCCcEEEEEEeCCHHHHHHHHHHHHHHHHHhCCCCCeEecC
Confidence 3455555455588988866999999999999999999999999999999998876543
No 4
>cd00914 PCD_DCoH_subfamily_b PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by associating with specific DNA binding proteins such as HNF-1alpha (hepatocyte nuclear factor-1) and Xenopus enhancer of rudimentary homologue (XERH). DCoH also catalyzes the dehydration of 4alpha- hydroxy- tetrahydrobiopterin (4alpha-OH-BH4) to quinoiddihydrobiopterin, a percursor of the phenylalanine hydroxylase cofactor BH4 (tetrahydrobiopterin). The DCoH homodimer has a saddle-shaped structure similar to that of TBP (TATA binding protein). Two DCoH proteins have been identifed in humans: DCoH1 and DCoH2. Mutations in human DCoH1 cause hyperphenylalaninemia. Loss of enzymic activity of DCoH in humans is associated with the depigmentation disorder vitiligo. DCoH1 has been reported to be overexpessed in colon
Probab=89.47 E-value=0.38 Score=33.92 Aligned_cols=41 Identities=7% Similarity=0.090 Sum_probs=37.4
Q ss_pred cceeeccccCChHHHHHHHHHHHHhhcCCCccccccCccce
Q 028943 146 GTLRRNYRVPSKSEGRRLLKAIASLLSDDDHFTDATSHKVF 186 (201)
Q Consensus 146 GTLrRnYRvpSk~EGrRlLKaIAslLSdDDhFvdAtSHKGC 186 (201)
+.|.|.|.+++-+++..++.+||.+-.+.+|..|-+...++
T Consensus 9 ~~l~r~f~f~~f~~a~~f~~~va~~ae~~~HHPdi~~~~~~ 49 (76)
T cd00914 9 DAIHKSFKFKDFNEAFGFMTRVALEAEKMNHHPEWFNVYNK 49 (76)
T ss_pred CeEEEEEEeCCHHHHHHHHHHHHHHHHHhCCCCCEEEeccE
Confidence 57999999999999999999999999999999998776655
No 5
>cd00488 PCD_DCoH PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by associating with specific DNA binding proteins such as HNF-1alpha (hepatocyte nuclear factor-1) and Xenopus enhancer of rudimentary homologue (XERH). DCoH also catalyzes the dehydration of 4alpha- hydroxy- tetrahydrobiopterin (4alpha-OH-BH4) to quinoiddihydrobiopterin, a percursor of the phenylalanine hydroxylase cofactor BH4 (tetrahydrobiopterin). The DCoH homodimer has a saddle-shaped structure similar to that of TBP (TATA binding protein). Two DCoH proteins have been identifed in humans: DCoH1 and DCoH2. Mutations in human DCoH1 cause hyperphenylalaninemia. Loss of enzymic activity of DCoH in humans is associated with the depigmentation disorder vitiligo. DCoH1 has been reported to be overexpessed in colon cancer carc
Probab=88.20 E-value=0.58 Score=32.63 Aligned_cols=42 Identities=17% Similarity=0.226 Sum_probs=37.8
Q ss_pred ccceeeccccCChHHHHHHHHHHHHhhcCCCccccccCccce
Q 028943 145 KGTLRRNYRVPSKSEGRRLLKAIASLLSDDDHFTDATSHKVF 186 (201)
Q Consensus 145 KGTLrRnYRvpSk~EGrRlLKaIAslLSdDDhFvdAtSHKGC 186 (201)
.+.|.|.|.+++-.++.+++.+||.+-.+.+|..|-+...++
T Consensus 7 ~~~l~r~f~f~~f~~a~~f~~~va~~ae~~~HHP~i~~~~~~ 48 (75)
T cd00488 7 GDALERTFKFKDFKEAIAFVNRVAELAEALNHHPDISNVYNK 48 (75)
T ss_pred CCcEEEEEEcCCHHHHHHHHHHHHHHHHHcCCCCCEEEeeeE
Confidence 367999999999999999999999999999999888776654
No 6
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=38.85 E-value=28 Score=21.38 Aligned_cols=35 Identities=31% Similarity=0.423 Sum_probs=20.7
Q ss_pred hhhhhcccccCcccceeeccccCChHHHHHHHHHHHHhhcC
Q 028943 133 KRKLVSKWHPTTKGTLRRNYRVPSKSEGRRLLKAIASLLSD 173 (201)
Q Consensus 133 krKLvSKWhpTTKGTLrRnYRvpSk~EGrRlLKaIAslLSd 173 (201)
-|+|+.+|||...+.- +...+--..|.+.-.+|+|
T Consensus 21 y~~l~~~~HPD~~~~~------~~~~~~~~~l~~Ay~~L~d 55 (55)
T cd06257 21 YRKLALKYHPDKNPDD------PEAEEKFKEINEAYEVLSD 55 (55)
T ss_pred HHHHHHHHCcCCCCCc------HHHHHHHHHHHHHHHHhcC
Confidence 4789999999876542 2223333445555555554
No 7
>PF09188 DUF1951: Domain of unknown function (DUF1951); InterPro: IPR015271 Members of this family of Mycoplasma hypothetical proteins adopt a multi-helical structure that contains a buried central helix. Their function has not, as yet, been determined. ; PDB: 1TM9_A.
Probab=34.15 E-value=18 Score=30.09 Aligned_cols=54 Identities=20% Similarity=0.191 Sum_probs=33.9
Q ss_pred CChhhhhhhhccCCcchhhhhhcccccchhccccchhhhhhHHHHHHHHHhhcc
Q 028943 36 RPTKTLQNLLFSNPKSSQKKLLRTSTINASLLEAPLLWAGRLCVYYALLKAGLA 89 (201)
Q Consensus 36 ~p~~t~~~~~f~~~k~~~~~~~~~~~~~ASLlE~PvLWagRlCi~YALlk~Gla 89 (201)
.|+++--+-+|-|+-.-..+..+.+.-.||+.-+---=+--+|+||-|.|-|+-
T Consensus 57 E~~q~~~~k~~inn~~T~~tv~~~~q~v~S~Fstn~e~~~~FC~~YfLy~~~F~ 110 (137)
T PF09188_consen 57 EPTQHEIRKFAINNIKTLSTVGEEGQYVASLFSTNKEIAIIFCLYYFLYHFSFL 110 (137)
T ss_dssp HHHHHHHHHHHHHHHHHHTT--SS---STHHHHS-HHHHHHHHHHHHHHHTT-S
T ss_pred CchHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhcCchHHHHHHHHHHHHHhhcc
Confidence 356655555555544445566677788899988776677889999999999874
No 8
>PRK14285 chaperone protein DnaJ; Provisional
Probab=30.96 E-value=41 Score=29.85 Aligned_cols=35 Identities=29% Similarity=0.492 Sum_probs=22.6
Q ss_pred hhhhhhhcccccCcccceeeccccCChHHHHHHHHHH---HHhhcCC
Q 028943 131 ADKRKLVSKWHPTTKGTLRRNYRVPSKSEGRRLLKAI---ASLLSDD 174 (201)
Q Consensus 131 adkrKLvSKWhpTTKGTLrRnYRvpSk~EGrRlLKaI---AslLSdD 174 (201)
..=|||+.||||-.- +...+....+++| -.+|||+
T Consensus 22 ~ayr~la~~~HPD~~---------~~~~~a~~~f~~i~~Ay~vL~d~ 59 (365)
T PRK14285 22 KAYRKIAIKYHPDKN---------KGNKEAESIFKEATEAYEVLIDD 59 (365)
T ss_pred HHHHHHHHHHCCCCC---------CCCHHHHHHHHHHHHHHHHHcCc
Confidence 345899999999853 2334444444444 4788886
No 9
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=30.44 E-value=47 Score=20.83 Aligned_cols=39 Identities=26% Similarity=0.302 Sum_probs=25.8
Q ss_pred hhhhhhcccccCcccceeeccccCChHHHHHHHHHHHHhhcCCC
Q 028943 132 DKRKLVSKWHPTTKGTLRRNYRVPSKSEGRRLLKAIASLLSDDD 175 (201)
Q Consensus 132 dkrKLvSKWhpTTKGTLrRnYRvpSk~EGrRlLKaIAslLSdDD 175 (201)
.-++|+.+|||..-+.- -+...|--+.|++.-.+|+|++
T Consensus 21 ay~~l~~~~HPD~~~~~-----~~~~~~~~~~l~~Ay~~L~~~~ 59 (60)
T smart00271 21 AYRKLALKYHPDKNPGD-----KEEAEEKFKEINEAYEVLSDPE 59 (60)
T ss_pred HHHHHHHHHCcCCCCCc-----hHHHHHHHHHHHHHHHHHcCCC
Confidence 34788999999876543 2344555566666667777754
No 10
>TIGR03433 padR_acidobact transcriptional regulator, Acidobacterial, PadR-family. Members of this protein family are putative transcriptional regulators of the PadR family, as found in species of the Acidobacteria. This family of proteins has expanded greatly in this lineage, and where it regularly is found in the vicinity of a putative transporter protein
Probab=28.89 E-value=42 Score=24.27 Aligned_cols=40 Identities=18% Similarity=0.376 Sum_probs=29.2
Q ss_pred hhhhhhhcccccCcccceeeccccCChHHHHHHHHHHHHhhc
Q 028943 131 ADKRKLVSKWHPTTKGTLRRNYRVPSKSEGRRLLKAIASLLS 172 (201)
Q Consensus 131 adkrKLvSKWhpTTKGTLrRnYRvpSk~EGrRlLKaIAslLS 172 (201)
..+.-+.+.|.+...|--|+.|++ .++||.+|+++.....
T Consensus 50 e~~GlI~~~~~~~~~~~~rk~y~i--T~~Gr~~l~~~~~~~~ 89 (100)
T TIGR03433 50 ERRGWIAAEWGESENNRRAKFYRL--TAAGRKQLAAETESWA 89 (100)
T ss_pred HHCCCeEEEeeecCCCCCceEEEE--CHHHHHHHHHHHHHHH
Confidence 344566778998887766677776 5789999988766543
No 11
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=27.40 E-value=15 Score=32.90 Aligned_cols=33 Identities=27% Similarity=0.332 Sum_probs=26.4
Q ss_pred hHHHHHHHHHHHHhhcCCCccccccCccceee--ecccchh
Q 028943 157 KSEGRRLLKAIASLLSDDDHFTDATSHKVFFT--SRQHITL 195 (201)
Q Consensus 157 k~EGrRlLKaIAslLSdDDhFvdAtSHKGCqI--rresa~~ 195 (201)
..|..++|-+|| |.|||-.+|..|.. -|++-||
T Consensus 174 D~dVedlLleiA------DdFV~sii~~sC~LAKHRKsdtl 208 (258)
T KOG1142|consen 174 DDDVEDLLLEIA------DDFVSSIIHRSCKLAKHRKSDTV 208 (258)
T ss_pred cHHHHHHHHHHH------HHHHHHHHHHHHHHHHhcccCcc
Confidence 467889999998 78999999999986 3555543
No 12
>PRK14282 chaperone protein DnaJ; Provisional
Probab=25.28 E-value=51 Score=29.12 Aligned_cols=36 Identities=33% Similarity=0.703 Sum_probs=23.3
Q ss_pred hhhhhhhcccccCcccceeeccccCC-hHHHHHHHHHHH---HhhcCCC
Q 028943 131 ADKRKLVSKWHPTTKGTLRRNYRVPS-KSEGRRLLKAIA---SLLSDDD 175 (201)
Q Consensus 131 adkrKLvSKWhpTTKGTLrRnYRvpS-k~EGrRlLKaIA---slLSdDD 175 (201)
.--|||..||||-.. +. +.+....+|+|. .+|||++
T Consensus 23 ~ayr~la~~~HPD~~---------~~~~~~a~~~f~~i~~Ay~vL~d~~ 62 (369)
T PRK14282 23 RAYKRLVKEWHPDRH---------PENRKEAEQKFKEIQEAYEVLSDPQ 62 (369)
T ss_pred HHHHHHHHHHCCCCC---------ccchhHHHHHHHHHHHHHHHhcChh
Confidence 345899999999852 21 234555666665 6788763
No 13
>PF12835 Integrase_1: Integrase; InterPro: IPR024456 Phage integrase proteins cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment [, ]. This entry represents the catalytic domain from a family of putative prophage DNA-binding integrases.
Probab=23.76 E-value=1.1e+02 Score=24.92 Aligned_cols=36 Identities=19% Similarity=0.285 Sum_probs=28.8
Q ss_pred cccceeeccccCChHHHHHHHHHHHHhhcC-CCcccc
Q 028943 144 TKGTLRRNYRVPSKSEGRRLLKAIASLLSD-DDHFTD 179 (201)
Q Consensus 144 TKGTLrRnYRvpSk~EGrRlLKaIAslLSd-DDhFvd 179 (201)
|||-..|.-.|+..++-+.+|...+.+..+ +++.++
T Consensus 77 tKGGr~R~v~I~~~~~~~~~L~~a~~~~~~~~~~li~ 113 (187)
T PF12835_consen 77 TKGGRPREVPILDSEKQREALERAAAVARERNGSLIP 113 (187)
T ss_pred CCCCCcceecCCCcHHHHHHHHHHHHHhcccCCcccC
Confidence 999999999998788888899998887744 444444
No 14
>PF03551 PadR: Transcriptional regulator PadR-like family; InterPro: IPR005149 Phenolic acids, also called substituted hydroxycinnamic acids, are abundant in the plant kingdom because they are involved in the structure of plant cell walls and are present in some vacuoles. In plant-soil ecosystems they are released as free acids by hemicellulases produced by several fungi and bacteria. Of these weak acids, the most abundant are p-coumaric, ferulic, and caffeic acids, considered to be natural toxins that inhibit the growth of microorganisms, especially at low pHs. In spite of this chemical stress, some bacteria can use phenolic acids as a sole source of carbon. For other microorganisms, these compounds induce a specific response by which the organism adapts to its environment. The ubiquitous lactic acid bacterium Lactobacillus plantarum exhibits an inducible phenolic acid decarboxylase (PAD) activity which converts these substrates into less-toxic vinyl phenol derivatives. PadR acts as a repressor of padA gene expression in the phenolic acid stress response [].; PDB: 1XMA_B 2ESH_A 2DQL_B 3L9F_C 3ELK_B 4EJO_B 3L7W_A 3HHH_A 1YG2_A 3F8B_A ....
Probab=23.65 E-value=64 Score=21.75 Aligned_cols=35 Identities=26% Similarity=0.590 Sum_probs=27.9
Q ss_pred hhhhhhhhcccccCcccceeeccccCChHHHHHHHHH
Q 028943 130 AADKRKLVSKWHPTTKGTLRRNYRVPSKSEGRRLLKA 166 (201)
Q Consensus 130 aadkrKLvSKWhpTTKGTLrRnYRvpSk~EGrRlLKa 166 (201)
-.+++-+.+.|.....|--|+.|++ .++||+.|++
T Consensus 41 Le~~gli~~~~~~~~~~~~rk~Y~i--T~~G~~~l~E 75 (75)
T PF03551_consen 41 LEEEGLIESRWEEEGNGRPRKYYRI--TEKGREELRE 75 (75)
T ss_dssp HHHTTSEEEEEEEETTSSEEEEEEE--SHHHHHHHHH
T ss_pred HHhCCCEEEeeeccCCCCCCEEEEE--CHHHHHHhcC
Confidence 3456667788888888889999998 5789988875
No 15
>PRK14284 chaperone protein DnaJ; Provisional
Probab=22.63 E-value=58 Score=29.07 Aligned_cols=33 Identities=36% Similarity=0.680 Sum_probs=21.5
Q ss_pred hhhhhcccccCcccceeeccccCChHHHHHHHHHHH---HhhcCC
Q 028943 133 KRKLVSKWHPTTKGTLRRNYRVPSKSEGRRLLKAIA---SLLSDD 174 (201)
Q Consensus 133 krKLvSKWhpTTKGTLrRnYRvpSk~EGrRlLKaIA---slLSdD 174 (201)
=|||..||||... ++..+....+|+|. .+|||.
T Consensus 22 yr~la~~~HPD~~---------~~~~~a~~~f~~i~~Ay~vL~d~ 57 (391)
T PRK14284 22 YRKLAVKYHPDKN---------PGDAEAEKRFKEVSEAYEVLSDA 57 (391)
T ss_pred HHHHHHHHCcCCC---------CCchHHHHHHHHHHHHHHHhcCH
Confidence 5889999999842 33344445555554 577765
No 16
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=22.52 E-value=58 Score=21.64 Aligned_cols=24 Identities=25% Similarity=0.548 Sum_probs=20.8
Q ss_pred eeccccCChHHHHHHHHHHHHhhc
Q 028943 149 RRNYRVPSKSEGRRLLKAIASLLS 172 (201)
Q Consensus 149 rRnYRvpSk~EGrRlLKaIAslLS 172 (201)
.....|.++..|+.|+..||.-|.
T Consensus 8 ~~~~~v~~~~t~~~l~~~v~~~l~ 31 (80)
T PF09379_consen 8 TKTFEVDPKTTGQDLLEQVCDKLG 31 (80)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHT
T ss_pred cEEEEEcCCCcHHHHHHHHHHHcC
Confidence 456789999999999999998764
No 17
>PRK08558 adenine phosphoribosyltransferase; Provisional
Probab=22.02 E-value=79 Score=26.69 Aligned_cols=30 Identities=20% Similarity=0.438 Sum_probs=24.3
Q ss_pred ccCChHHHHHHHHHHHHhhcC-----------CCccccccC
Q 028943 153 RVPSKSEGRRLLKAIASLLSD-----------DDHFTDATS 182 (201)
Q Consensus 153 RvpSk~EGrRlLKaIAslLSd-----------DDhFvdAtS 182 (201)
-.||.++.+++++.|+..+++ +..|+|.+.
T Consensus 48 ~~P~~~~a~~~~~~l~~~~~~~~~l~~ri~~~~~gy~d~~~ 88 (238)
T PRK08558 48 VLPSVERAREIVEKLGPYYNLEEEVKARIKVDDEGYVDNSS 88 (238)
T ss_pred cCCCHHHHHHHHHHHHHhhhhHHHHHhhcccCCCCEEEchh
Confidence 479999999999999999865 346787664
No 18
>PF11371 DUF3172: Protein of unknown function (DUF3172); InterPro: IPR021511 This family of proteins has no known function.
Probab=20.16 E-value=47 Score=27.80 Aligned_cols=18 Identities=11% Similarity=0.132 Sum_probs=14.5
Q ss_pred ccCccceeeecccchhhh
Q 028943 180 ATSHKVFFTSRQHITLLN 197 (201)
Q Consensus 180 AtSHKGCqIrresa~~~~ 197 (201)
.....||-|||++-.+|-
T Consensus 78 P~~qPGCVlRr~Nw~iLe 95 (140)
T PF11371_consen 78 PEMQPGCVLRRNNWAILE 95 (140)
T ss_pred CCCCCceEEEeccHHHHH
Confidence 456789999999987763
No 19
>PLN02639 oxidoreductase, 2OG-Fe(II) oxygenase family protein
Probab=20.12 E-value=62 Score=28.10 Aligned_cols=35 Identities=20% Similarity=0.239 Sum_probs=24.9
Q ss_pred CChHHHHHHHHHHHHhhc-CCCccccccCccceeee
Q 028943 155 PSKSEGRRLLKAIASLLS-DDDHFTDATSHKVFFTS 189 (201)
Q Consensus 155 pSk~EGrRlLKaIAslLS-dDDhFvdAtSHKGCqIr 189 (201)
.-..-+++||++||.-|. +.|+|-+...+.+|.+|
T Consensus 158 ~~~~l~~~ll~~la~~Lgl~~~~f~~~~~~~~~~lr 193 (337)
T PLN02639 158 EVRELGFRLQEAISESLGLEKDYIKNVLGEQGQHMA 193 (337)
T ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHhCCCccEEE
Confidence 344568999999999988 44566666666666654
Done!