Query 043189
Match_columns 182
No_of_seqs 122 out of 137
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 13:47:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043189.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043189hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07366 SnoaL: SnoaL-like pol 99.7 1.5E-17 3.3E-22 124.5 8.1 95 79-182 10-105 (126)
2 TIGR02096 conserved hypothetic 99.1 6.2E-10 1.3E-14 82.6 9.3 67 115-182 40-107 (129)
3 COG5485 Predicted ester cyclas 99.1 1.9E-10 4.2E-15 91.3 6.1 66 115-181 43-108 (131)
4 PF12680 SnoaL_2: SnoaL-like d 98.4 3.7E-06 8.1E-11 58.0 8.4 62 113-182 33-94 (102)
5 cd00781 ketosteroid_isomerase 96.5 0.013 2.8E-07 43.0 7.1 60 113-182 43-102 (122)
6 PF10184 DUF2358: Uncharacteri 93.7 0.92 2E-05 34.4 9.4 61 115-182 39-104 (113)
7 COG3631 Ketosteroid isomerase- 62.3 9.7 0.00021 30.2 3.3 105 67-182 5-109 (133)
8 PF07310 PAS_5: PAS domain; I 60.1 7.8 0.00017 30.0 2.4 52 113-172 22-73 (137)
9 TIGR02960 SigX5 RNA polymerase 56.6 54 0.0012 28.2 7.2 89 74-182 211-301 (324)
10 PF01353 GFP: Green fluorescen 48.3 34 0.00075 29.7 4.7 31 124-154 77-107 (219)
11 COG4922 Uncharacterized protei 47.8 59 0.0013 26.2 5.5 40 113-153 43-82 (129)
12 PRK08241 RNA polymerase factor 43.1 1.2E+02 0.0025 26.5 7.3 88 75-182 222-311 (339)
13 PF05626 DUF790: Protein of un 34.1 80 0.0017 29.5 5.0 64 51-139 226-289 (379)
14 PF09883 DUF2110: Uncharacteri 31.6 38 0.00083 29.7 2.4 32 41-72 15-46 (225)
15 PRK05461 apaG CO2+/MG2+ efflux 24.7 49 0.0011 26.2 1.7 22 154-175 93-114 (127)
16 PF07935 SSV1_ORF_D-335: ORF D 24.5 60 0.0013 23.9 2.0 23 32-54 26-48 (72)
17 TIGR03291 methan_mark_17 putat 23.1 88 0.0019 26.7 3.0 29 109-137 124-152 (185)
18 PF06180 CbiK: Cobalt chelatas 22.8 1E+02 0.0022 27.1 3.5 30 112-144 12-42 (262)
19 PF13565 HTH_32: Homeodomain-l 22.5 59 0.0013 22.0 1.6 44 17-61 25-70 (77)
20 PF09886 DUF2113: Uncharacteri 21.4 1.6E+02 0.0034 25.2 4.2 83 40-150 81-163 (188)
No 1
>PF07366 SnoaL: SnoaL-like polyketide cyclase; InterPro: IPR009959 This domain is found in SnoaL [] a polyketide cyclase involved in nogalamycin biosynthesis. This domain was formerly known as DUF1486. It adopts a distorted alpha-beta barrel fold []. Structural data together with site-directed mutagenesis experiments have shown that SnoaL has a different mechanism to that of the classical aldolase for catalysing intramolecular aldol condensation [].; PDB: 2GEY_C 3F9S_A 2GEX_A 3EHC_B 2F99_D 2F98_D 1SJW_A 3K0Z_B.
Probab=99.72 E-value=1.5e-17 Score=124.48 Aligned_cols=95 Identities=27% Similarity=0.413 Sum_probs=76.8
Q ss_pred EECCCccCchhhhhhcCccccccc-cCCCCccccCCCChHHHHHHHHHHHHhCCCCceeEEEEeeeCCCEEEEEEEEEee
Q 043189 79 IVNGRKDLSGEETLQLGSYNALLK-NSLPKEFQYYRADEETFKSSHDAFRSAFPRGFAWEVISVFSGPPVVAYKFRHWGY 157 (182)
Q Consensus 79 s~Ngg~~~~~~~~~~~G~Yn~~l~-~~lp~~~~~Y~~~~e~f~~s~~~f~~AFPdGf~wEVleV~s~pp~VafrwrhwGt 157 (182)
.+|.+..-.+++++. ..+.. ++.++. ..+.+++++..+.+++|||| +.++|.++++++++|+.+|+..||
T Consensus 10 ~~n~~d~~~~~~~~~----~d~~~~~~~~~~----~~G~~~~~~~~~~~~~afPD-~~~~i~~~~~~gd~v~~~~~~~Gt 80 (126)
T PF07366_consen 10 VWNRGDLDALDELVA----PDVVFHDPGPGP----PVGREGFKEFLKELRAAFPD-LRFEIEDVVAEGDRVAVRWTFTGT 80 (126)
T ss_dssp HHHTT-GCHHHGTEE----EEEEEEGCTTTE----EEHHHHHHHHHHHHHHHSTT-TEEEEEEEEEETTEEEEEEEEEEE
T ss_pred HHhCCCHHHHHHhcC----CCEEEEecCCCC----CCCHHHHHHHHHHHHHHCCC-CEEEEEEEEEECCEEEEEEEEEEe
Confidence 346666666666666 33332 221111 34678999999999999999 999999999999999999999999
Q ss_pred eeccccccCCCCCEEEEEeEEEEEC
Q 043189 158 FEGPFQGHAPTGEMVEFYGIGIMKV 182 (182)
Q Consensus 158 ~~G~F~G~~pTGk~Vei~Gi~i~rV 182 (182)
|+|+|+|+|||||+|++.|++++||
T Consensus 81 h~g~~~g~~ptgk~v~~~~~~~~~~ 105 (126)
T PF07366_consen 81 HTGEFMGIPPTGKPVEFRGMSIFRF 105 (126)
T ss_dssp ESSEBTTBE-TTEEEEEEEEEEEEE
T ss_pred ecCCcCCcCCCCCEEEEEEEEEEEE
Confidence 9999999999999999999999985
No 2
>TIGR02096 conserved hypothetical protein, steroid delta-isomerase-related. This family of proteins about 135 amino acids in length largely restricted to the Proteobacteria. This family and a delta5-3-ketosteroid isomerase from Pseudomonas testosteroni appear homologous, especially toward their respective N-termini. Members, therefore, probably are enzymes.
Probab=99.11 E-value=6.2e-10 Score=82.56 Aligned_cols=67 Identities=18% Similarity=0.341 Sum_probs=63.4
Q ss_pred ChHHHHHHHHHHHHhCCCCceeEEEEeeeCCC-EEEEEEEEEeeeeccccccCCCCCEEEEEeEEEEEC
Q 043189 115 DEETFKSSHDAFRSAFPRGFAWEVISVFSGPP-VVAYKFRHWGYFEGPFQGHAPTGEMVEFYGIGIMKV 182 (182)
Q Consensus 115 ~~e~f~~s~~~f~~AFPdGf~wEVleV~s~pp-~VafrwrhwGt~~G~F~G~~pTGk~Vei~Gi~i~rV 182 (182)
+.++++..+..|.+++|+ +.+++.+++.+++ .|+..|+..|++.|+|.|+||||+++++.|+++++|
T Consensus 40 G~~~~~~~~~~~~~~~~~-~~~~i~~~~~~~~~~v~~~~~~~g~~~g~~~g~~~~g~~~~~~~~~~~~~ 107 (129)
T TIGR02096 40 GKAQLARFLAPYRTAFPD-LLVDVVVCRNDEGVRVAAEWTVHGTYRTAFLGLPASGKTYSIRGVTFFVF 107 (129)
T ss_pred cHHHHHHHHHHHHHhCch-hhceeEEEEecCCcEEEEEEEEeeeeccccCCCCCCCCEEEeeeeEEEEE
Confidence 588999999999999999 9999999998777 999999999999999999999999999999999885
No 3
>COG5485 Predicted ester cyclase [General function prediction only]
Probab=99.09 E-value=1.9e-10 Score=91.32 Aligned_cols=66 Identities=18% Similarity=0.181 Sum_probs=58.5
Q ss_pred ChHHHHHHHHHHHHhCCCCceeEEEEeeeCCCEEEEEEEEEeeeeccccccCCCCCEEEEEeEEEEE
Q 043189 115 DEETFKSSHDAFRSAFPRGFAWEVISVFSGPPVVAYKFRHWGYFEGPFQGHAPTGEMVEFYGIGIMK 181 (182)
Q Consensus 115 ~~e~f~~s~~~f~~AFPdGf~wEVleV~s~pp~VafrwrhwGt~~G~F~G~~pTGk~Vei~Gi~i~r 181 (182)
+-.+|......-..|||| +.++++.++|+||+||.|...-+|++|.|+|+||+||+|.+.=..+..
T Consensus 43 glsgyr~ml~~df~aiPd-l~f~ie~lvae~~~vaarl~Fdctp~G~i~Gip~nGkrV~Fse~vfy~ 108 (131)
T COG5485 43 GLSGYREMLVRDFSAIPD-LSFEIERLVAEGDRVAARLTFDCTPSGEIMGIPPNGKRVRFSENVFYE 108 (131)
T ss_pred chHHHHHHHHhhHhhCCC-cceEEEEEeecCCceEEEEEEccCcCceEeccCCCCcEEEeehhhhhh
Confidence 345677777777899999 999999999999999999999999999999999999999887666543
No 4
>PF12680 SnoaL_2: SnoaL-like domain; PDB: 3F40_A 3RGA_A 3G8Z_A 3DMC_A 3FH1_A 1TUH_A 3F14_A 3ER7_A 1Z1S_A 3F7X_A ....
Probab=98.35 E-value=3.7e-06 Score=57.96 Aligned_cols=62 Identities=21% Similarity=0.458 Sum_probs=58.1
Q ss_pred CCChHHHHHHHHHHHHhCCCCceeEEEEeeeCCCEEEEEEEEEeeeeccccccCCCCCEEEEEeEEEEEC
Q 043189 113 RADEETFKSSHDAFRSAFPRGFAWEVISVFSGPPVVAYKFRHWGYFEGPFQGHAPTGEMVEFYGIGIMKV 182 (182)
Q Consensus 113 ~~~~e~f~~s~~~f~~AFPdGf~wEVleV~s~pp~VafrwrhwGt~~G~F~G~~pTGk~Vei~Gi~i~rV 182 (182)
-.+++++.+....+...+|+ +.+++.+++++++.|++.|+..++ .+|||+.+.+.|+++++|
T Consensus 33 ~~g~~~~~~~~~~~~~~~~~-~~~~~~~~~~~gd~v~~~~~~~~~-------~~~~g~~~~~~~~~~~~~ 94 (102)
T PF12680_consen 33 LRGREAIREFFEEFFESFPD-IRFEIHDIFADGDRVVVEWTVTGT-------TPPTGQPISFRGCSVFRF 94 (102)
T ss_dssp EESHHHHHHHHHHHHHHEEE-EEEEEEEEEEETTEEEEEEEEEEE-------ETTTSCEEEEEEEEEEEE
T ss_pred ccCHHHHHHHHHHHHhcCCc-eEEEEEEEEEcCCEEEEEEEEEEE-------EcCCCCEEEEEEEEEEEE
Confidence 45788999999999999999 999999999999999999999998 899999999999999885
No 5
>cd00781 ketosteroid_isomerase ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon. Ketosteroid isomerases are important members of this class of enzymes which are the most proficient of all enzymes known and have served as a paradigm for enzymatic enolizations since its discovery in 1954. This CD includes members of this class that calalyze the isomerization of various beta,gamma-unsaturated isomers at nearly a diffusion-controlled rate. These enzymes are widely distributed in bacteria.
Probab=96.54 E-value=0.013 Score=43.01 Aligned_cols=60 Identities=15% Similarity=0.042 Sum_probs=48.5
Q ss_pred CCChHHHHHHHHHHHHhCCCCceeEEEEeeeCCCEEEEEEEEEeeeeccccccCCCCCEEEEEeEEEEEC
Q 043189 113 RADEETFKSSHDAFRSAFPRGFAWEVISVFSGPPVVAYKFRHWGYFEGPFQGHAPTGEMVEFYGIGIMKV 182 (182)
Q Consensus 113 ~~~~e~f~~s~~~f~~AFPdGf~wEVleV~s~pp~VafrwrhwGt~~G~F~G~~pTGk~Vei~Gi~i~rV 182 (182)
-.|++.+......+..++++ +.+.+..+.+.++.+++.|+.. ++++|+.+.+.|+++++|
T Consensus 43 ~~G~~~i~~~~~~~~~~~~~-~~~~~~~~~~~g~~~~~~~~~~---------~~~~g~~~~~~~~~v~~~ 102 (122)
T cd00781 43 RSGRAAIAAFYAQSLGGAKR-LELTGPVRASHGGEAAFAFRVE---------FEWEGQPCVVRVIDVMRF 102 (122)
T ss_pred ccCHHHHHHHHHHHhccCce-EEecCceeeecCCEEEEEEEEE---------EEeCCceEEEEEEEEEEE
Confidence 35778888888887777777 7777778888899999999865 335799999999999885
No 6
>PF10184 DUF2358: Uncharacterized conserved protein (DUF2358); InterPro: IPR018790 This entry represents a family of conserved proteins. The function is unknown.
Probab=93.71 E-value=0.92 Score=34.44 Aligned_cols=61 Identities=16% Similarity=0.206 Sum_probs=48.5
Q ss_pred ChHHHHHH---HHHHHH-hCCCCceeEEEEeeeCCC-EEEEEEEEEeeeeccccccCCCCCEEEEEeEEEEEC
Q 043189 115 DEETFKSS---HDAFRS-AFPRGFAWEVISVFSGPP-VVAYKFRHWGYFEGPFQGHAPTGEMVEFYGIGIMKV 182 (182)
Q Consensus 115 ~~e~f~~s---~~~f~~-AFPdGf~wEVleV~s~pp-~VafrwrhwGt~~G~F~G~~pTGk~Vei~Gi~i~rV 182 (182)
|.+.++.. .+.+.. .|++ ...+|+++...++ .|..|||..|.-.-+ -..++.+.|.++++|
T Consensus 39 g~~~Y~~~~~~l~~l~~~~~~~-~~~~v~~i~~~~~~~I~~rW~~~g~~~l~------w~p~~~~~G~S~~~l 104 (113)
T PF10184_consen 39 GLDRYKRNLWALRFLGRLFFSD-PSLEVLSIEQDGEDTIRARWRLRGVPRLP------WRPRISFDGTSTYTL 104 (113)
T ss_pred cHHHHHHHHHHHHHHHhhccCC-cEEEEEEEEECCCCEEEEEEEEEEEeCCC------cCCcEEEEEEEEEEE
Confidence 57788888 555666 5667 8999999999998 999999998875544 456778999998764
No 7
>COG3631 Ketosteroid isomerase-related protein [General function prediction only]
Probab=62.27 E-value=9.7 Score=30.19 Aligned_cols=105 Identities=13% Similarity=0.032 Sum_probs=66.1
Q ss_pred cceeeccceeEEEECCCccCchhhhhhcCccccccccCCCCccccCCCChHHHHHHHHHHHHhCCCCceeEEEEeeeCCC
Q 043189 67 DFKTINPEKFKLIVNGRKDLSGEETLQLGSYNALLKNSLPKEFQYYRADEETFKSSHDAFRSAFPRGFAWEVISVFSGPP 146 (182)
Q Consensus 67 dw~si~~~~f~~s~Ngg~~~~~~~~~~~G~Yn~~l~~~lp~~~~~Y~~~~e~f~~s~~~f~~AFPdGf~wEVleV~s~pp 146 (182)
+.+-+++..|....+|......+-+.+...|- +..++ .....|.-+.+.....+..+-+.+=+ ...++..++.++|
T Consensus 5 ~~~~~v~~~f~a~~~GD~~~~~~l~a~D~v~~-~p~~~--~~~~~~~~g~~~~~~~~~~~~r~~~~-~~~~~~~~~~~gD 80 (133)
T COG3631 5 DNTDLVRRYFAALSRGDLDGLLALLAEDVVWE-VPGTP--PLSGTFRGGVAIRRDVFALLPRLIED-GRFTVETVYVSGD 80 (133)
T ss_pred hhhhHHHHHHHHHhcCCHHHHHhhccCceEEE-eeCCC--CCccccccchhhhhHHhhhChhhccc-ccccceEEEEcCC
Confidence 33445666777777773333333333322333 22222 23455666777878888888888855 8899999999999
Q ss_pred EEEEEEEEEeeeeccccccCCCCCEEEEEeEEEEEC
Q 043189 147 VVAYKFRHWGYFEGPFQGHAPTGEMVEFYGIGIMKV 182 (182)
Q Consensus 147 ~VafrwrhwGt~~G~F~G~~pTGk~Vei~Gi~i~rV 182 (182)
.|+.-.+ -...+..||+.++-.=+.|.+|
T Consensus 81 ~~~~v~~-------~~~~~~~~G~~~~~~~~~v~~v 109 (133)
T COG3631 81 PVGAVFR-------TRGRVSRTGKPYENRYAFVIRV 109 (133)
T ss_pred ceEEEEE-------ecCcccccCceeecceEEEEEE
Confidence 9982111 1223789999998777776654
No 8
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=60.06 E-value=7.8 Score=29.99 Aligned_cols=52 Identities=13% Similarity=0.183 Sum_probs=41.6
Q ss_pred CCChHHHHHHHHHHHHhCCCCceeEEEEeeeCCCEEEEEEEEEeeeeccccccCCCCCEE
Q 043189 113 RADEETFKSSHDAFRSAFPRGFAWEVISVFSGPPVVAYKFRHWGYFEGPFQGHAPTGEMV 172 (182)
Q Consensus 113 ~~~~e~f~~s~~~f~~AFPdGf~wEVleV~s~pp~VafrwrhwGt~~G~F~G~~pTGk~V 172 (182)
-|.+++|+=. .+..+.|. .-|+|+..++ .|++|-.||.--+..|...||+.+
T Consensus 22 ~P~R~didP~--~i~~~Lp~---i~ile~~~~~---~~r~RLaGt~i~~~~G~d~tG~~~ 73 (137)
T PF07310_consen 22 MPSRSDIDPA--DIPRLLPH---IFILEVDDPG---DFRYRLAGTRIVELFGRDLTGRRL 73 (137)
T ss_pred CCchhcCCHH--HHHHHhCC---eEEEEEeCCC---ceEEEEecHHHHHHhCCCCCCCCH
Confidence 5566666544 56789998 6788876433 589999999999999999999976
No 9
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=56.59 E-value=54 Score=28.21 Aligned_cols=89 Identities=7% Similarity=0.040 Sum_probs=51.1
Q ss_pred ceeEEEECCCccCchhhhhhcCccccccccCCCCccccCCCChHHHHHHHHHH--HHhCCCCceeEEEEeeeCCCEEEEE
Q 043189 74 EKFKLIVNGRKDLSGEETLQLGSYNALLKNSLPKEFQYYRADEETFKSSHDAF--RSAFPRGFAWEVISVFSGPPVVAYK 151 (182)
Q Consensus 74 ~~f~~s~Ngg~~~~~~~~~~~G~Yn~~l~~~lp~~~~~Y~~~~e~f~~s~~~f--~~AFPdGf~wEVleV~s~pp~Vafr 151 (182)
+.|.-.+|.|..-.+.++++-. +.+..|. . ..--.|++.+...+..+ ...+++ +.++. ++..|+.+++.
T Consensus 211 ~~~~~a~~~gD~~~l~~Lla~D---v~~~~p~-~--~~~~~G~~~v~~~~~~~~~~~~~~~-~~~~~--~~~~g~~~~v~ 281 (324)
T TIGR02960 211 ERYIAAFESYDLDALTALLHED---AIWEMPP-Y--TLWYQGRPAIVGFIHTVCPGEGAAG-MRLLP--TIANGQPAAAM 281 (324)
T ss_pred HHHHHHHHcCCHHHHHHHhcCC---eEEEcCC-C--CcceeCHHHHHHHHHHhcccccCCc-eeEEE--eeecCCceEEE
Confidence 4555666666665555555522 1111211 0 11145677777777776 566665 76644 55777777776
Q ss_pred EEEEeeeeccccccCCCCCEEEEEeEEEEEC
Q 043189 152 FRHWGYFEGPFQGHAPTGEMVEFYGIGIMKV 182 (182)
Q Consensus 152 wrhwGt~~G~F~G~~pTGk~Vei~Gi~i~rV 182 (182)
|. ..++|+.+.+.|+.+++|
T Consensus 282 ~~-----------~~~~~~~~~~~~v~~~~~ 301 (324)
T TIGR02960 282 YM-----------RRPDAERHTAFQLHVLEI 301 (324)
T ss_pred EE-----------EcCCCCeeeeeEEEEEEE
Confidence 53 345677777777776653
No 10
>PF01353 GFP: Green fluorescent protein; InterPro: IPR011584 The green fluorescent protein (GFP) is found in the jellyfish (Aequorea victoria), and functions as an energy-transfer acceptor. It fluoresces in vivo upon receiving energy from the Ca2+-activated photoprotein aequorin. The protein absorbs light maximally at 395 nm and exhibits a smaller absorbance peak at 470 nm. The fluorescence emission spectrum peaks at 509 nm with a shoulder at 540 nm. The protein is produced in the photocytes and contains a chromophore, which is composed of modified amino acid residues. The chromophore is formed upon cyclization of the residues ser-dehydrotyr-gly. There are several other members of the GFP family, which are able to fluoresce different colours, sveral of which are non-fluorescent []. These proteins are all essentailly encoded by single genes, since both the substrate and the catalytic enzyme for pigment biosynthesis are provided within a single polypeptide chain []. More information about this protein can be found at Protein of the Month: Green Fluorescent Protein [].; GO: 0008218 bioluminescence; PDB: 2G16_B 1QYO_A 1W7S_B 3ED8_B 3GJ1_A 1GFL_B 3GJ2_C 2WSO_A 3DQD_A 2AWJ_A ....
Probab=48.30 E-value=34 Score=29.66 Aligned_cols=31 Identities=29% Similarity=0.608 Sum_probs=24.1
Q ss_pred HHHHHhCCCCceeEEEEeeeCCCEEEEEEEE
Q 043189 124 DAFRSAFPRGFAWEVISVFSGPPVVAYKFRH 154 (182)
Q Consensus 124 ~~f~~AFPdGf~wEVleV~s~pp~Vafrwrh 154 (182)
.-|+.+||.|+.||=.-.|.++-.+..+.+.
T Consensus 77 dyFk~sfpeGys~eRt~~fEDgGv~t~~~~i 107 (219)
T PF01353_consen 77 DYFKQSFPEGYSWERTMRFEDGGVCTASHDI 107 (219)
T ss_dssp -HHHHTTTT-EEEEEEEEETTS-EEEEEEEE
T ss_pred cHHHHhCCCceEEEEEEEECCCcEEEEEEEE
Confidence 3578999999999999999988888877764
No 11
>COG4922 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.82 E-value=59 Score=26.25 Aligned_cols=40 Identities=15% Similarity=0.309 Sum_probs=36.7
Q ss_pred CCChHHHHHHHHHHHHhCCCCceeEEEEeeeCCCEEEEEEE
Q 043189 113 RADEETFKSSHDAFRSAFPRGFAWEVISVFSGPPVVAYKFR 153 (182)
Q Consensus 113 ~~~~e~f~~s~~~f~~AFPdGf~wEVleV~s~pp~Vafrwr 153 (182)
-.|+++|...+..|..-.|. ....+.-++++||.|++...
T Consensus 43 pdGk~~fv~fFt~ffk~~P~-~~~kiVr~iadGdLV~vh~h 82 (129)
T COG4922 43 PDGKDGFVRFFTEFFKEKPR-ISTKIVRVIADGDLVTVHYH 82 (129)
T ss_pred CCchHHHHHHHHHHHHhCcc-ccceeeEEeccCCEEEEEEe
Confidence 34899999999999999999 99999999999999998765
No 12
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=43.07 E-value=1.2e+02 Score=26.48 Aligned_cols=88 Identities=6% Similarity=0.061 Sum_probs=49.6
Q ss_pred eeEEEECCCccCchhhhhhcCccccccccCCCCccccCCCChHHHHHHHHHHHHhC--CCCceeEEEEeeeCCCEEEEEE
Q 043189 75 KFKLIVNGRKDLSGEETLQLGSYNALLKNSLPKEFQYYRADEETFKSSHDAFRSAF--PRGFAWEVISVFSGPPVVAYKF 152 (182)
Q Consensus 75 ~f~~s~Ngg~~~~~~~~~~~G~Yn~~l~~~lp~~~~~Y~~~~e~f~~s~~~f~~AF--PdGf~wEVleV~s~pp~Vafrw 152 (182)
.|.-.+|.|..-++.+++.-+ ..-. .|+ ...--.|++.+...+..+..+. ++ + .+...+++++.|+..+
T Consensus 222 ~~~~A~~~gD~~~l~~lla~D----v~~~-~p~-~~~~~~G~~~v~~~~~~~~~~~~~~~-~--~~~~~~~~g~~v~~~~ 292 (339)
T PRK08241 222 RYVAAFEAYDVDALVALLTED----ATWS-MPP-FPLWYRGRDAIAAFLAGQCPGAGCGG-S--RLVPTRANGQPAFAQY 292 (339)
T ss_pred HHHHHHhcCCHHHHHHHhcCC----EEEE-cCC-CCCcccCHHHHHHHHHhhccccCCCc-e--EEEEeecCCCeEEEEE
Confidence 444555666655555555522 1110 011 1112456777777766553343 44 4 4455578888887754
Q ss_pred EEEeeeeccccccCCCCCEEEEEeEEEEEC
Q 043189 153 RHWGYFEGPFQGHAPTGEMVEFYGIGIMKV 182 (182)
Q Consensus 153 rhwGt~~G~F~G~~pTGk~Vei~Gi~i~rV 182 (182)
. ..++|+.+++.++.+++|
T Consensus 293 ~-----------~~~~g~~~~~~~v~v~~v 311 (339)
T PRK08241 293 M-----------RDPDGGGHRPWALHVLEL 311 (339)
T ss_pred E-----------EcCCCCeeecceEEEEEE
Confidence 2 256788888888888765
No 13
>PF05626 DUF790: Protein of unknown function (DUF790); InterPro: IPR008508 This family consists of several hypothetical bacterial and archaeal proteins whose functions have not been experimentally verified. Computational analysis of sequence, predicted structure and genomic context suggests that these proteins may be endonucleases involved in either restriction-modification and/or DNA excision repair [].
Probab=34.11 E-value=80 Score=29.52 Aligned_cols=64 Identities=14% Similarity=0.280 Sum_probs=36.1
Q ss_pred hHheeeeeccccCCcccceeeccceeEEEECCCccCchhhhhhcCccccccccCCCCccccCCCChHHHHHHHHHHHHhC
Q 043189 51 AVKSWEMELSHKTSLNDFKTINPEKFKLIVNGRKDLSGEETLQLGSYNALLKNSLPKEFQYYRADEETFKSSHDAFRSAF 130 (182)
Q Consensus 51 lvktwemE~shK~~~~dw~si~~~~f~~s~Ngg~~~~~~~~~~~G~Yn~~l~~~lp~~~~~Y~~~~e~f~~s~~~f~~AF 130 (182)
.|..|+|+|+=+ |-+-..+.++|+++....+... -+.....|+++-| +++...|..+.
T Consensus 226 ~~~~W~l~A~i~-----~~~~~~r~~~f~l~~~~~~~~~---------------~~~~~~~fDS~~E--~~Fa~~f~~~~ 283 (379)
T PF05626_consen 226 HASRWSLEAEIQ-----KDRGGRRTYRFELDSEDGLVSH---------------YPAEKPEFDSSLE--EEFARRFSRLD 283 (379)
T ss_pred CCCCceEEEEEe-----ccCCCceeEEEEecccccccCC---------------CCCCcCCCCcHHH--HHHHHHHHHhc
Confidence 357899999987 3334456778877764322111 1122223666543 34455566777
Q ss_pred CCCceeEEE
Q 043189 131 PRGFAWEVI 139 (182)
Q Consensus 131 PdGf~wEVl 139 (182)
.+ |+|.
T Consensus 284 ~~---W~l~ 289 (379)
T PF05626_consen 284 TD---WELE 289 (379)
T ss_pred cC---eeee
Confidence 66 8874
No 14
>PF09883 DUF2110: Uncharacterized protein conserved in archaea (DUF2110); InterPro: IPR016757 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=31.61 E-value=38 Score=29.72 Aligned_cols=32 Identities=16% Similarity=0.284 Sum_probs=27.7
Q ss_pred CCCHHHHHHHhHheeeeeccccCCcccceeec
Q 043189 41 KGSIEETVQNAVKSWEMELSHKTSLNDFKTIN 72 (182)
Q Consensus 41 ~gSLe~~VqnlvktwemE~shK~~~~dw~si~ 72 (182)
-.||..+|+|+++-.|+|..--.+.++|.+|.
T Consensus 15 ld~L~~~v~n~lgdLdV~~~i~~~~~~wv~vt 46 (225)
T PF09883_consen 15 LDSLRSLVENDLGDLDVEWDIGITKDDWVKVT 46 (225)
T ss_pred HHHHHHHHHHhhcCeeEEEEeccccCCceEEE
Confidence 35799999999999999997778899998873
No 15
>PRK05461 apaG CO2+/MG2+ efflux protein ApaG; Reviewed
Probab=24.71 E-value=49 Score=26.24 Aligned_cols=22 Identities=27% Similarity=0.301 Sum_probs=19.6
Q ss_pred EEeeeeccccccCCCCCEEEEE
Q 043189 154 HWGYFEGPFQGHAPTGEMVEFY 175 (182)
Q Consensus 154 hwGt~~G~F~G~~pTGk~Vei~ 175 (182)
-+|+|+|.|.-+.++|+.+++.
T Consensus 93 p~G~M~G~y~~~~~~G~~F~v~ 114 (127)
T PRK05461 93 PSGTMQGHYQMVDEDGERFEVP 114 (127)
T ss_pred CCEEEEEEEEEEeCCCCEEEEE
Confidence 5799999999999999998764
No 16
>PF07935 SSV1_ORF_D-335: ORF D-335-like protein; InterPro: IPR012922 The sequences featured in this family are similar to a probable integrase (P20214 from SWISSPROT) expressed by the SSV1 virus of the archaeon Sulfolobus shibatae. This protein may be necessary for the integration of the virus into the host genome by a process of site-specific recombination [].
Probab=24.45 E-value=60 Score=23.88 Aligned_cols=23 Identities=22% Similarity=0.375 Sum_probs=20.5
Q ss_pred hccceecCCCCCHHHHHHHhHhe
Q 043189 32 EEGRTKEWPKGSIEETVQNAVKS 54 (182)
Q Consensus 32 ~~~rt~~~~~gSLe~~Vqnlvkt 54 (182)
.+|..+++=-|||+++||..+|.
T Consensus 26 ~~G~~re~YVGpL~~VVe~Yik~ 48 (72)
T PF07935_consen 26 INGERRETYVGPLDDVVETYIKL 48 (72)
T ss_pred cCCceeeeeeccHHHHHHHHHhc
Confidence 46889999999999999999875
No 17
>TIGR03291 methan_mark_17 putative methanogenesis marker protein 17. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it.
Probab=23.08 E-value=88 Score=26.67 Aligned_cols=29 Identities=21% Similarity=0.309 Sum_probs=25.5
Q ss_pred cccCCCChHHHHHHHHHHHHhCCCCceeE
Q 043189 109 FQYYRADEETFKSSHDAFRSAFPRGFAWE 137 (182)
Q Consensus 109 ~~~Y~~~~e~f~~s~~~f~~AFPdGf~wE 137 (182)
.-.|+|.++=++.-....-+.||.||...
T Consensus 124 lvV~DP~~~l~~~v~d~~~rI~PEGFRVr 152 (185)
T TIGR03291 124 LEVADPRKDLKKKVYDFMFRVFPEGFRVK 152 (185)
T ss_pred ceEECchHHHHHHHHHHHHHhCCCccEEe
Confidence 45689999999999999999999999754
No 18
>PF06180 CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388 This group, typified by Salmonella typhimurium CbiK, contains anaerobic cobalt chelatases that act in the anaerobic cobalamin biosynthesis pathway [, ]. Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in S. typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. This group belongs to the class of ATP-independent, single-subunit chelatases that also includes distantly related protoporphyrin IX (PPIX) ferrochelatase (HemH) (Class II chelatases) []. The structure of S. typhimurium CbiK shows that it has a remarkably similar topology to Bacillus subtilis ferrochelatase despite only weak sequence conservation []. Both enzymes contain a histidine residue identified as the metal ion ligand, but CbiK contains a second histidine in place of the glutamic acid residue identified as a general base in PPIX ferrochelatase []. Site-directed mutagenesis has confirmed a role for this histidine and a nearby glutamic acid in cobalt binding, modulating metal ion specificity as well as catalytic efficiency []. It should be noted that CysG and Met8p, which are multifunctional proteins associated with siroheme biosynthesis, include chelatase activity and can therefore be considered as the third class of chelatases []. As with the class II chelatases, they do not require ATP for activity. However, they are not structurally similar to HemH or CbiK, and it is likely that they have arisen by the acquisition of a chelatase function within a dehydrogenase catalytic framework [, ].; GO: 0016852 sirohydrochlorin cobaltochelatase activity; PDB: 1QGO_A 2XWP_A 2XVZ_A 2XVX_A 2XVY_A.
Probab=22.79 E-value=1e+02 Score=27.13 Aligned_cols=30 Identities=33% Similarity=0.617 Sum_probs=23.7
Q ss_pred CCCChH-HHHHHHHHHHHhCCCCceeEEEEeeeC
Q 043189 112 YRADEE-TFKSSHDAFRSAFPRGFAWEVISVFSG 144 (182)
Q Consensus 112 Y~~~~e-~f~~s~~~f~~AFPdGf~wEVleV~s~ 144 (182)
|...++ +++...+.++.|||+ ++|...|+.
T Consensus 12 ~~~ar~~ti~~ie~~~~~~fp~---~~V~~AfTS 42 (262)
T PF06180_consen 12 YPEAREKTIDAIEKAVREAFPD---YDVRRAFTS 42 (262)
T ss_dssp -CCCCHHHHHHHHHHHHHCSTT---SEEEEEES-
T ss_pred CHHHHHHHHHHHHHHHHHHCCC---CcEEEEchH
Confidence 345566 999999999999999 888877764
No 19
>PF13565 HTH_32: Homeodomain-like domain
Probab=22.49 E-value=59 Score=22.04 Aligned_cols=44 Identities=18% Similarity=0.207 Sum_probs=30.5
Q ss_pred ccCCCCCchhhhhhhhccceecCCCCCHHHHHHHhHheeeeec--cc
Q 043189 17 RHGGPPIFDKVNKLFEEGRTKEWPKGSIEETVQNAVKSWEMEL--SH 61 (182)
Q Consensus 17 R~G~~PdY~~~~~~~~~~rt~~~~~gSLe~~VqnlvktwemE~--sh 61 (182)
|.|+|+. +.--..+...-...+|.=|+++|++-|.+.|-..+ |+
T Consensus 25 ~~Grp~~-~~e~~~~i~~~~~~~p~wt~~~i~~~L~~~~g~~~~~S~ 70 (77)
T PF13565_consen 25 RPGRPRK-DPEQRERIIALIEEHPRWTPREIAEYLEEEFGISVRVSR 70 (77)
T ss_pred CCCCCCC-cHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCCccH
Confidence 4777665 33332444555567778899999999999887766 54
No 20
>PF09886 DUF2113: Uncharacterized protein conserved in archaea (DUF2113); InterPro: IPR016762 There is currently no experimental data for members of this group or their homologues. Based on distant sequence similarity, they may be tentatively predicted to be nucleic acid-binding proteins, they are also likely to be linked to methanogenesis or a process closely connected to it.
Probab=21.41 E-value=1.6e+02 Score=25.16 Aligned_cols=83 Identities=18% Similarity=0.354 Sum_probs=49.7
Q ss_pred CCCCHHHHHHHhHheeeeeccccCCcccceeeccceeEEEECCCccCchhhhhhcCccccccccCCCCccccCCCChHHH
Q 043189 40 PKGSIEETVQNAVKSWEMELSHKTSLNDFKTINPEKFKLIVNGRKDLSGEETLQLGSYNALLKNSLPKEFQYYRADEETF 119 (182)
Q Consensus 40 ~~gSLe~~VqnlvktwemE~shK~~~~dw~si~~~~f~~s~Ngg~~~~~~~~~~~G~Yn~~l~~~lp~~~~~Y~~~~e~f 119 (182)
.+.=|+.+++.| |+-.--++++ .|+.|.+.+-...... +++. +.-.|+|...=.
T Consensus 81 dEtYlp~LL~kL---W~kyGr~~V~-------QP~Rf~I~i~~~~~~~-~~i~---------------dlvV~Dp~~~l~ 134 (188)
T PF09886_consen 81 DETYLPDLLKKL---WEKYGRENVD-------QPDRFEIIIDSDIDEA-KDIE---------------DLVVYDPSEDLK 134 (188)
T ss_pred ccchHHHHHHHH---HHHhCccccC-------CCCceEEEecCCcccc-cchh---------------hcEEECcHHHHH
Confidence 344455555555 4433333322 2557777666554433 2222 245679998888
Q ss_pred HHHHHHHHHhCCCCceeEEEEeeeCCCEEEE
Q 043189 120 KSSHDAFRSAFPRGFAWEVISVFSGPPVVAY 150 (182)
Q Consensus 120 ~~s~~~f~~AFPdGf~wEVleV~s~pp~Vaf 150 (182)
+.-..++-+.+|.||... .-+.+++.++|
T Consensus 135 ~~v~da~~RI~PEGFRVr--~~~~~~~~f~~ 163 (188)
T PF09886_consen 135 KKVYDAMFRIAPEGFRVR--RHYYEGNSFAF 163 (188)
T ss_pred HHHHHHHHHhCCCccEEe--eccccCCeEEE
Confidence 999999999999999754 33445555544
Done!