Query 044145
Match_columns 69
No_of_seqs 105 out of 160
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 11:51:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044145.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044145hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04398 DUF538: Protein of un 99.7 1E-17 2.2E-22 109.2 -0.8 45 2-49 66-110 (110)
2 cd01215 Dab Disabled (Dab) Pho 50.9 29 0.00062 23.7 3.7 33 4-36 48-80 (139)
3 PRK13623 iron-sulfur cluster i 49.0 18 0.00039 22.8 2.3 33 27-59 82-114 (115)
4 PRK09502 iscA iron-sulfur clus 45.1 25 0.00055 21.9 2.6 33 27-59 74-106 (107)
5 TIGR02011 IscA iron-sulfur clu 43.8 25 0.00054 21.8 2.4 32 27-58 72-103 (105)
6 PRK09504 sufA iron-sulfur clus 41.9 28 0.0006 22.5 2.4 32 27-58 89-120 (122)
7 PRK09822 lipopolysaccharide co 41.4 16 0.00035 27.5 1.4 28 25-52 20-47 (269)
8 COG0316 sufA Fe-S cluster asse 40.2 29 0.00063 22.6 2.3 33 27-59 77-109 (110)
9 TIGR01997 sufA_proteo FeS asse 38.4 38 0.00083 21.0 2.6 33 27-59 74-106 (107)
10 TIGR00049 Iron-sulfur cluster 36.4 35 0.00076 20.7 2.2 30 29-58 74-103 (105)
11 cd08364 FosX FosX, a fosfomyci 32.4 25 0.00053 21.7 1.0 24 18-41 105-128 (131)
12 PRK00432 30S ribosomal protein 29.7 33 0.00071 19.3 1.1 18 45-64 19-36 (50)
13 PRK00031 lolA lipoprotein chap 29.7 1.6E+02 0.0035 19.4 4.7 42 10-51 141-188 (195)
14 KOG3248 Transcription factor T 29.3 8 0.00017 30.6 -1.9 20 49-68 211-231 (421)
15 PLN03082 Iron-sulfur cluster a 28.8 53 0.0012 22.6 2.3 34 27-60 128-162 (163)
16 COG1885 Uncharacterized protei 26.8 88 0.0019 20.9 2.9 32 24-65 37-68 (115)
17 KOG1119 Mitochondrial Fe-S clu 26.4 20 0.00044 26.0 -0.2 37 25-61 161-198 (199)
18 PF13595 DUF4138: Domain of un 24.7 1.7E+02 0.0036 21.3 4.3 31 4-37 121-151 (246)
19 cd08344 MhqB_like_N N-terminal 24.3 86 0.0019 18.4 2.4 19 18-36 92-110 (112)
20 TIGR00547 lolA periplasmic cha 24.3 1.7E+02 0.0038 20.3 4.2 44 8-51 146-194 (204)
21 PF07311 Dodecin: Dodecin; In 22.8 1.8E+02 0.0039 17.3 3.6 24 13-36 35-58 (66)
22 cd01273 CED-6 CED-6 Phosphotyr 20.9 1.7E+02 0.0038 19.1 3.5 30 7-36 53-82 (142)
23 PRK12380 hydrogenase nickel in 20.2 71 0.0015 20.4 1.5 21 39-59 78-99 (113)
No 1
>PF04398 DUF538: Protein of unknown function, DUF538; InterPro: IPR007493 This family consists of several plant proteins of unknown function.; PDB: 1YDU_A.
Probab=99.65 E-value=1e-17 Score=109.15 Aligned_cols=45 Identities=27% Similarity=0.494 Sum_probs=32.2
Q ss_pred ceeeeEEEEEEEEeEeeEEEEcCCCCCcEEEEEeeeeeeeeccccccC
Q 044145 2 SFHSSSHILFLFWCKVDEIELNFPSSDMINFQVGLINKRLDAGRFKTV 49 (69)
Q Consensus 2 ~l~GVsvK~lflWl~I~eI~vd~p~~~~I~F~vG~isk~FP~s~Fe~~ 49 (69)
+|+||++|+||+|++|+||.|+ +++|+|++|.++++||+++|++|
T Consensus 66 ~L~GVk~k~l~~W~~v~~i~~~---~~~i~F~~g~~s~sfp~~~F~~s 110 (110)
T PF04398_consen 66 NLTGVKVKELFLWVPVTEISVD---GDKIYFKVGGISKSFPVSAFEES 110 (110)
T ss_dssp EEES-EEE-SSSEES---BEE----SSSEE-TTSSSS----TTTTSS-
T ss_pred cccCEEEEEEEEEeeEEEEEEc---CCEEEEEEeeEeccCCHHHhccC
Confidence 6899999999999999999997 99999999999999999999986
No 2
>cd01215 Dab Disabled (Dab) Phosphotyrosine-binding domain. Disabled (Dab) Phosphotyrosine-binding domain. Dab is a cystosolic adaptor protein, which binds to the cytoplasmic tails of lipoprotein receptors, such as ApoER2 and VLDLR, via its PTB domain. The dab PTB domain has a preference for unphosphorylated tyrosine within an NPxY motif. Additionally, the Dab PTB domain, which is structurally similar to PH domains, binds to phosphatidlyinositol phosphate 4,5 bisphosphate in a manner characteristic of phosphoinositide binding PH domains.
Probab=50.95 E-value=29 Score=23.65 Aligned_cols=33 Identities=6% Similarity=0.037 Sum_probs=26.7
Q ss_pred eeeEEEEEEEEeEeeEEEEcCCCCCcEEEEEee
Q 044145 4 HSSSHILFLFWCKVDEIELNFPSSDMINFQVGL 36 (69)
Q Consensus 4 ~GVsvK~lflWl~I~eI~vd~p~~~~I~F~vG~ 36 (69)
+|-+-+...+|+++.+|.+-|+.++.|..+.-+
T Consensus 48 ~~~kk~kV~L~IS~dGi~v~D~~T~~ll~~~~i 80 (139)
T cd01215 48 AGAHKTRITLQINIDGIKVLDEKTGAVLHHHPV 80 (139)
T ss_pred hccccceEEEEEccCCEEEEcCCCCcEEEeece
Confidence 455677888999999999988888888776655
No 3
>PRK13623 iron-sulfur cluster insertion protein ErpA; Provisional
Probab=48.95 E-value=18 Score=22.77 Aligned_cols=33 Identities=15% Similarity=0.220 Sum_probs=24.5
Q ss_pred CCcEEEEEeeeeeeeeccccccCCCcccCccce
Q 044145 27 SDMINFQVGLINKRLDAGRFKTVHSCHLILPFL 59 (69)
Q Consensus 27 ~~~I~F~vG~isk~FP~s~Fe~~P~C~~~~~~~ 59 (69)
+-.|.|.-......|=.+|=.....|+|+.++-
T Consensus 82 g~~IDy~~~~~~~~F~f~NPn~~~~CgCg~SF~ 114 (115)
T PRK13623 82 GAEVDYTEGLEGSRFVIKNPNAKTTCGCGSSFS 114 (115)
T ss_pred CCEEEeecCCCcceEEEECCCCCcCCCCCcCcc
Confidence 456777777777788777766677899998763
No 4
>PRK09502 iscA iron-sulfur cluster assembly protein; Provisional
Probab=45.14 E-value=25 Score=21.91 Aligned_cols=33 Identities=12% Similarity=0.122 Sum_probs=24.6
Q ss_pred CCcEEEEEeeeeeeeeccccccCCCcccCccce
Q 044145 27 SDMINFQVGLINKRLDAGRFKTVHSCHLILPFL 59 (69)
Q Consensus 27 ~~~I~F~vG~isk~FP~s~Fe~~P~C~~~~~~~ 59 (69)
+-.|.|.-......|-..|=...-.|+||.++-
T Consensus 74 g~~IDy~~~~~~~~F~f~NPna~~~CgCG~Sf~ 106 (107)
T PRK09502 74 GTQLDFVKEGLNEGFKFTNPNVKDECGCGESFH 106 (107)
T ss_pred CCEEEEeeCCCCceEEEECCCCCCccCCCCCee
Confidence 457778777778888777666666799998763
No 5
>TIGR02011 IscA iron-sulfur cluster assembly protein IscA. This clade is limited to the proteobacteria.
Probab=43.82 E-value=25 Score=21.83 Aligned_cols=32 Identities=13% Similarity=0.146 Sum_probs=22.9
Q ss_pred CCcEEEEEeeeeeeeeccccccCCCcccCccc
Q 044145 27 SDMINFQVGLINKRLDAGRFKTVHSCHLILPF 58 (69)
Q Consensus 27 ~~~I~F~vG~isk~FP~s~Fe~~P~C~~~~~~ 58 (69)
+-.|.|.-......|-++|=...-.|+|+.++
T Consensus 72 g~~IDy~~~~~~~~F~~~nPna~~~CgCg~Sf 103 (105)
T TIGR02011 72 GTQLDFVKEGLNEGFKFTNPNVKDECGCGESF 103 (105)
T ss_pred CCEEEEecCCCcceEEEECCCCCccCCCCCCc
Confidence 44666766666777876665666679999876
No 6
>PRK09504 sufA iron-sulfur cluster assembly scaffold protein; Provisional
Probab=41.91 E-value=28 Score=22.49 Aligned_cols=32 Identities=13% Similarity=0.143 Sum_probs=24.0
Q ss_pred CCcEEEEEeeeeeeeeccccccCCCcccCccc
Q 044145 27 SDMINFQVGLINKRLDAGRFKTVHSCHLILPF 58 (69)
Q Consensus 27 ~~~I~F~vG~isk~FP~s~Fe~~P~C~~~~~~ 58 (69)
+-.|.|.-....+.|=..|=...-.|+||.++
T Consensus 89 g~~IDy~~~~~~~gF~f~NPna~~~CgCG~SF 120 (122)
T PRK09504 89 GTEVDYVREGLNQIFKFHNPKAQNECGCGESF 120 (122)
T ss_pred CcEEEeecCCCcceEEEECCCCCCCcCCCCCe
Confidence 66788888888889966654445569999876
No 7
>PRK09822 lipopolysaccharide core biosynthesis protein; Provisional
Probab=41.44 E-value=16 Score=27.54 Aligned_cols=28 Identities=14% Similarity=0.198 Sum_probs=24.9
Q ss_pred CCCCcEEEEEeeeeeeeeccccccCCCc
Q 044145 25 PSSDMINFQVGLINKRLDAGRFKTVHSC 52 (69)
Q Consensus 25 p~~~~I~F~vG~isk~FP~s~Fe~~P~C 52 (69)
.+.+.|-|-.|..+|+||++.|..-|.=
T Consensus 20 ~~~~v~i~~SG~sak~~Pl~~~~~~~~I 47 (269)
T PRK09822 20 TAEDCIIFLSGPTSRKTPLSLLRMKDVI 47 (269)
T ss_pred cCCCEEEEecCcccccCchHHhccCCEE
Confidence 4578899999999999999999998864
No 8
>COG0316 sufA Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]
Probab=40.20 E-value=29 Score=22.59 Aligned_cols=33 Identities=15% Similarity=0.165 Sum_probs=30.2
Q ss_pred CCcEEEEEeeeeeeeeccccccCCCcccCccce
Q 044145 27 SDMINFQVGLINKRLDAGRFKTVHSCHLILPFL 59 (69)
Q Consensus 27 ~~~I~F~vG~isk~FP~s~Fe~~P~C~~~~~~~ 59 (69)
+..|.|--..+...|-+.|=...-.|+|+.++.
T Consensus 77 G~~IDyv~~~~g~~F~~~NPNA~~~CgCg~Sf~ 109 (110)
T COG0316 77 GTEIDYVEDLLGSGFTFKNPNAKSSCGCGESFS 109 (110)
T ss_pred CCEEEEEEcCcCCceEEECCCCCccccCCCCCC
Confidence 788999999999999999988999999998874
No 9
>TIGR01997 sufA_proteo FeS assembly scaffold SufA. This model represents the SufA protein of the SUF system of iron-sulfur cluster biosynthesis. This system performs FeS biosynthesis even during oxidative stress and tends to be absent in obligate anaerobic and microaerophilic bacteria.
Probab=38.42 E-value=38 Score=21.04 Aligned_cols=33 Identities=9% Similarity=0.150 Sum_probs=24.4
Q ss_pred CCcEEEEEeeeeeeeeccccccCCCcccCccce
Q 044145 27 SDMINFQVGLINKRLDAGRFKTVHSCHLILPFL 59 (69)
Q Consensus 27 ~~~I~F~vG~isk~FP~s~Fe~~P~C~~~~~~~ 59 (69)
+-.|.|.-......|-..|=...-.|+||.++-
T Consensus 74 g~~IDy~~~~~~~~F~~~NPn~~~~CgCG~Sf~ 106 (107)
T TIGR01997 74 GTQVDFVRTTLRQGFKFNNPNATSACGCGESFE 106 (107)
T ss_pred CCEEEEEEcCCcceEEEECCCCCCccCCCCCcc
Confidence 457777777777888766656666799998863
No 10
>TIGR00049 Iron-sulfur cluster assembly accessory protein. Proteins in this subfamily appear to be associated with the process of FeS-cluster assembly. The HesB proteins are associated with the nif gene cluster and the Rhizobium gene IscN has been shown to be required for nitrogen fixation. Nitrogenase includes multiple FeS clusters and many genes for their assembly. The E. coli SufA protein is associated with SufS, a NifS homolog and SufD which are involved in the FeS cluster assembly of the FhnF protein. The Azotobacter protein IscA (homologs of which are also found in E.coli) is associated which IscS, another NifS homolog and IscU, a nifU homolog as well as other factors consistent with a role in FeS cluster chemistry. A homolog from Geobacter contains a selenocysteine in place of an otherwise invariant cysteine, further suggesting a role in redox chemistry.
Probab=36.42 E-value=35 Score=20.70 Aligned_cols=30 Identities=13% Similarity=0.176 Sum_probs=18.9
Q ss_pred cEEEEEeeeeeeeeccccccCCCcccCccc
Q 044145 29 MINFQVGLINKRLDAGRFKTVHSCHLILPF 58 (69)
Q Consensus 29 ~I~F~vG~isk~FP~s~Fe~~P~C~~~~~~ 58 (69)
.|.|.-......|-+.+=.....|+|+.++
T Consensus 74 ~IDy~~~~~~~~f~i~nPn~~~~c~cg~sf 103 (105)
T TIGR00049 74 EIDYVEELLGSGFTFTNPNAKGTCGCGKSF 103 (105)
T ss_pred EEEEeecCCcceEEEECCCCCccCCCCcCc
Confidence 444444444455666655567789999876
No 11
>cd08364 FosX FosX, a fosfomycin resistance protein, catalyzes the addition of a water molecule to the C1 position of the antibiotic with inversion of configuration at C1. This subfamily family contains FosX, a fosfomycin resistant protein. Fosfomycin inhibits the enzyme UDP-Nacetylglucosamine-3-enolpyruvyltransferase (MurA), which catalyzes the first committed step in bacterial cell wall biosynthesis. FosX catalyzes the addition of a water molecule to the C1 position of the antibiotic with inversion of the configuration at C1 in the presence of Mn(II). The hydrated fosfomycin loses the inhibition activity. FosX is evolutionarily related to glyoxalase I and type I extradiol dioxygenases.
Probab=32.45 E-value=25 Score=21.71 Aligned_cols=24 Identities=17% Similarity=0.308 Sum_probs=19.6
Q ss_pred eEEEEcCCCCCcEEEEEeeeeeee
Q 044145 18 DEIELNFPSSDMINFQVGLINKRL 41 (69)
Q Consensus 18 ~eI~vd~p~~~~I~F~vG~isk~F 41 (69)
..++..||++..|+|..|.++.++
T Consensus 105 ~~~yf~DPdG~~iEl~~~~~~~~~ 128 (131)
T cd08364 105 RSIYFYDFDNHLFELHTGTLEERL 128 (131)
T ss_pred eEEEEECCCCCEEEEecCCHHHHH
Confidence 467778899999999999876654
No 12
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=29.72 E-value=33 Score=19.29 Aligned_cols=18 Identities=22% Similarity=0.287 Sum_probs=12.5
Q ss_pred ccccCCCcccCccceeeccc
Q 044145 45 RFKTVHSCHLILPFLINGLG 64 (69)
Q Consensus 45 ~Fe~~P~C~~~~~~~~~~~~ 64 (69)
.|+.+|+|+.+ +|...-+
T Consensus 19 ~~~fCP~Cg~~--~m~~~~~ 36 (50)
T PRK00432 19 KNKFCPRCGSG--FMAEHLD 36 (50)
T ss_pred ccCcCcCCCcc--hheccCC
Confidence 47789999986 6654433
No 13
>PRK00031 lolA lipoprotein chaperone; Reviewed
Probab=29.70 E-value=1.6e+02 Score=19.42 Aligned_cols=42 Identities=19% Similarity=0.134 Sum_probs=30.5
Q ss_pred EEEEEe---EeeEEEEcCCCCCcEEEEEee--eeeeeeccccc-cCCC
Q 044145 10 LFLFWC---KVDEIELNFPSSDMINFQVGL--INKRLDAGRFK-TVHS 51 (69)
Q Consensus 10 ~lflWl---~I~eI~vd~p~~~~I~F~vG~--isk~FP~s~Fe-~~P~ 51 (69)
.+-+|+ -|..|.+.+++|+.+.+..-- ....+|.+.|+ .+|.
T Consensus 141 ~i~l~~~~~~i~~i~i~d~~g~~t~i~f~~~~~n~~l~~~~F~f~~P~ 188 (195)
T PRK00031 141 QFTIGFRNGTLASFSLVDQDGQRTLITFSNIQKNPALDADKFTFTPPK 188 (195)
T ss_pred EEEEEECCCeEEEEEEEcCCCCEEEEEecccccCCCCChhhEEEcCCC
Confidence 344554 577888888888888766664 67888999998 5554
No 14
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=29.26 E-value=8 Score=30.63 Aligned_cols=20 Identities=40% Similarity=0.675 Sum_probs=15.8
Q ss_pred CCCcccCccceee-ccccccc
Q 044145 49 VHSCHLILPFLIN-GLGTKWF 68 (69)
Q Consensus 49 ~P~C~~~~~~~~~-~~~~~~~ 68 (69)
.-+|+-+.++.|| ||||+|-
T Consensus 211 vaEctlKeSAaiNqiLGrRWH 231 (421)
T KOG3248|consen 211 VAECTLKESAAINQILGRRWH 231 (421)
T ss_pred HHHhhhhhHHHHHHHHhHHHh
Confidence 4568888888877 7999994
No 15
>PLN03082 Iron-sulfur cluster assembly; Provisional
Probab=28.77 E-value=53 Score=22.59 Aligned_cols=34 Identities=15% Similarity=0.297 Sum_probs=27.5
Q ss_pred CCcEEEEEeeeeeeeec-cccccCCCcccCcccee
Q 044145 27 SDMINFQVGLINKRLDA-GRFKTVHSCHLILPFLI 60 (69)
Q Consensus 27 ~~~I~F~vG~isk~FP~-s~Fe~~P~C~~~~~~~~ 60 (69)
+-.|.|.-..+...|=+ .|=...-.|+||.++-+
T Consensus 128 Gs~IDYve~l~~~gF~f~~NPna~~~CgCG~SF~v 162 (163)
T PLN03082 128 GATVDYVEELIRSAFVVSTNPSAVGGCSCKSSFMV 162 (163)
T ss_pred CCEEEeecCCCCCeeEEecCCCCCCCcCCCCCEeC
Confidence 66788888888888887 77666778999998864
No 16
>COG1885 Uncharacterized protein conserved in archaea [Function unknown]
Probab=26.76 E-value=88 Score=20.92 Aligned_cols=32 Identities=19% Similarity=0.229 Sum_probs=24.7
Q ss_pred CCCCCcEEEEEeeeeeeeeccccccCCCcccCccceeecccc
Q 044145 24 FPSSDMINFQVGLINKRLDAGRFKTVHSCHLILPFLINGLGT 65 (69)
Q Consensus 24 ~p~~~~I~F~vG~isk~FP~s~Fe~~P~C~~~~~~~~~~~~~ 65 (69)
.|+-|++..++|. ..+|.||......+--+++
T Consensus 37 ~~~LdyV~ie~G~----------t~CP~Cg~~~e~~fvva~~ 68 (115)
T COG1885 37 KPDLDYVEIEVGS----------TSCPKCGEPFESAFVVANT 68 (115)
T ss_pred cCCCCeEEEeccc----------ccCCCCCCccceeEEEecc
Confidence 4667888888885 4699999998888766655
No 17
>KOG1119 consensus Mitochondrial Fe-S cluster biosynthesis protein ISA2 (contains a HesB-like domain) [Energy production and conversion; Intracellular trafficking, secretion, and vesicular transport]
Probab=26.41 E-value=20 Score=26.00 Aligned_cols=37 Identities=14% Similarity=0.179 Sum_probs=28.2
Q ss_pred CCCCcEEEEEeeeeeeeecccc-ccCCCcccCccceee
Q 044145 25 PSSDMINFQVGLINKRLDAGRF-KTVHSCHLILPFLIN 61 (69)
Q Consensus 25 p~~~~I~F~vG~isk~FP~s~F-e~~P~C~~~~~~~~~ 61 (69)
-.|..|+|.-..|..+|-+-+= ...-.|+|+.++.+.
T Consensus 161 ~kGatvdy~~ELIrSsF~ivnNP~A~~gCsCgSSF~ik 198 (199)
T KOG1119|consen 161 LKGATVDYTNELIRSSFRIVNNPSAKQGCSCGSSFDIK 198 (199)
T ss_pred ccCceeehHHHHhhhhheeecCcccccCCCCCcccccC
Confidence 3467788887788888877665 566789999998864
No 18
>PF13595 DUF4138: Domain of unknown function (DUF4138)
Probab=24.75 E-value=1.7e+02 Score=21.31 Aligned_cols=31 Identities=13% Similarity=0.260 Sum_probs=25.4
Q ss_pred eeeEEEEEEEEeEeeEEEEcCCCCCcEEEEEeee
Q 044145 4 HSSSHILFLFWCKVDEIELNFPSSDMINFQVGLI 37 (69)
Q Consensus 4 ~GVsvK~lflWl~I~eI~vd~p~~~~I~F~vG~i 37 (69)
..+..|..=+=+.+.+|+++ +|.+||+..+-
T Consensus 121 ~~i~~k~~gi~~~L~~Iy~~---~d~lyf~~~i~ 151 (246)
T PF13595_consen 121 KHIGSKKFGIQFRLNNIYVH---GDYLYFHLSIK 151 (246)
T ss_pred cceeEeccCeEEEEEeEEEE---CCEEEEEEEEE
Confidence 45666777777889999999 99999999873
No 19
>cd08344 MhqB_like_N N-terminal domain of MhqB, a type I extradiol dioxygenase, and similar proteins. This subfamily contains the N-terminal, non-catalytic, domain of Burkholderia sp. NF100 MhqB and similar proteins. MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion. The purified enzyme has shown extradiol ring cleavage activity toward 3-methylcatechol. Fe2+ was suggested as a cofactor, the same as most other enzymes in the family. Burkholderia sp. NF100 MhqB is encoded on the plasmid pNF1. The type I family of extradiol dioxygenases contains two structurally homologous barrel-shaped domains at the N- and C-terminal. The active-site metal is located in the C-terminal barrel and plays an essential role in the catalytic mechanism.
Probab=24.35 E-value=86 Score=18.37 Aligned_cols=19 Identities=16% Similarity=0.356 Sum_probs=15.4
Q ss_pred eEEEEcCCCCCcEEEEEee
Q 044145 18 DEIELNFPSSDMINFQVGL 36 (69)
Q Consensus 18 ~eI~vd~p~~~~I~F~vG~ 36 (69)
..+++.||+|..|++..|.
T Consensus 92 ~~~~~~DP~Gn~iel~~~~ 110 (112)
T cd08344 92 DGVWFRDPDGNLLQVKVAE 110 (112)
T ss_pred CEEEEECCCCCEEEEecCC
Confidence 3577788999999999774
No 20
>TIGR00547 lolA periplasmic chaperone LolA. This protein, LolA, is known so far only in the gamma and beta subdivisions of the Proteobacteria. The E. coli major outer lipoprotein (Lpp) of E. coli is released from the inner membrane as a complex with this chaperone in an energy-requiring process, and is then delivered to LolB for insertion into the outer membrane. LolA is involved in the delivery of lipoproteins generally, rather than just Lpp, and is an essential protein in E. coli, unlike Lpp itself.
Probab=24.27 E-value=1.7e+02 Score=20.32 Aligned_cols=44 Identities=16% Similarity=0.148 Sum_probs=32.3
Q ss_pred EEEEEEEeE----eeEEEEcCCCCCcEEEEEe-eeeeeeeccccccCCC
Q 044145 8 HILFLFWCK----VDEIELNFPSSDMINFQVG-LINKRLDAGRFKTVHS 51 (69)
Q Consensus 8 vK~lflWl~----I~eI~vd~p~~~~I~F~vG-~isk~FP~s~Fe~~P~ 51 (69)
.+.+-+|++ |.++++.|..|...++.-. .....++.+.|+=.|.
T Consensus 146 f~~~~l~fd~~~~l~~~~v~D~~Gq~t~i~f~~~~n~~l~~~~F~F~pP 194 (204)
T TIGR00547 146 IKQFDINVDADGIIHNFSATEKDDQRNLYQLKNIQNGALDAAKFQFKPE 194 (204)
T ss_pred eEEEEEEECCCCCEEEEEEEecCCCEEEEEEcCCcCCCCChhhEEEcCC
Confidence 346778885 8999999888766555443 4677888999987654
No 21
>PF07311 Dodecin: Dodecin; InterPro: IPR009923 This entry represents proteins with a Dodecin-like topology. Dodecin flavoprotein is a small dodecameric flavin-binding protein from Halobacterium salinarium (Halobacterium halobium) that contains two flavins stacked in a single binding pocket between two tryptophan residues to form an aromatic tetrade []. Dodecin binds riboflavin, although it appears to have a broad specificity for flavins. Lumichrome, a molecule associated with flavin metabolism, appears to be a ligand of dodecin, which could act as a waste-trapping device. ; PDB: 2VYX_L 2DEG_F 2V18_K 2V19_D 2UX9_B 2CZ8_E 2V21_F 2CC8_A 2CCB_A 2VX9_A ....
Probab=22.79 E-value=1.8e+02 Score=17.34 Aligned_cols=24 Identities=25% Similarity=0.468 Sum_probs=18.1
Q ss_pred EEeEeeEEEEcCCCCCcEEEEEee
Q 044145 13 FWCKVDEIELNFPSSDMINFQVGL 36 (69)
Q Consensus 13 lWl~I~eI~vd~p~~~~I~F~vG~ 36 (69)
-|+-|.+++.+.-++.-..|+|.+
T Consensus 35 ~~~eV~e~~~~v~dg~i~~y~v~l 58 (66)
T PF07311_consen 35 RWFEVKEQRGHVEDGKITEYQVNL 58 (66)
T ss_dssp EEEEEEEEEEEEETTCEEEEEEEE
T ss_pred EEEEEEEEEEEEeCCcEEEEEEEE
Confidence 488888887776667667788876
No 22
>cd01273 CED-6 CED-6 Phosphotyrosine-binding (PTB) domain. CED-6 Phosphotyrosine-binding (PTB) domain. CED6 is an adaptor protein involved in the engulfment of apoptotic cells. It has a C-terminal PTB domain, which can bind to NPXY motifs. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=20.88 E-value=1.7e+02 Score=19.07 Aligned_cols=30 Identities=10% Similarity=0.030 Sum_probs=22.9
Q ss_pred EEEEEEEEeEeeEEEEcCCCCCcEEEEEee
Q 044145 7 SHILFLFWCKVDEIELNFPSSDMINFQVGL 36 (69)
Q Consensus 7 svK~lflWl~I~eI~vd~p~~~~I~F~vG~ 36 (69)
+.+...++++..+|.+-++.++.+..+.-+
T Consensus 53 k~~~V~L~IS~~GI~v~d~~t~~~~~~~~i 82 (142)
T cd01273 53 KLQKVEIRISIDGVIIAEPKTKAPMHTFPL 82 (142)
T ss_pred cCcEEEEEEECCeEEEEEcCCCcEEEEcCc
Confidence 346788999999999887877776665544
No 23
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=20.21 E-value=71 Score=20.42 Aligned_cols=21 Identities=10% Similarity=0.014 Sum_probs=14.3
Q ss_pred eeeecc-ccccCCCcccCccce
Q 044145 39 KRLDAG-RFKTVHSCHLILPFL 59 (69)
Q Consensus 39 k~FP~s-~Fe~~P~C~~~~~~~ 59 (69)
+.|+.. .+..+|.|++..--+
T Consensus 78 ~~~~~~~~~~~CP~Cgs~~~~i 99 (113)
T PRK12380 78 QVVEIHQHDAQCPHCHGERLRV 99 (113)
T ss_pred CEEecCCcCccCcCCCCCCcEE
Confidence 567774 666799999754333
Done!