Query 041144
Match_columns 201
No_of_seqs 142 out of 149
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 04:11:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041144.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041144hhsearch_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 99.9 3E-22 6.4E-27 152.5 10.4 107 64-171 10-126 (126)
2 TIGR02096 conserved hypothetic 99.6 2.2E-15 4.8E-20 113.7 10.7 81 91-172 41-129 (129)
3 COG5485 Predicted ester cyclas 99.6 3.3E-15 7.1E-20 119.9 8.8 81 91-172 44-131 (131)
4 PF12680 SnoaL_2: SnoaL-like d 98.4 3.1E-06 6.7E-11 59.4 8.6 60 91-158 36-102 (102)
5 cd00781 ketosteroid_isomerase 97.8 3.3E-05 7.1E-10 57.9 4.1 67 91-167 46-120 (122)
6 COG3631 Ketosteroid isomerase- 94.7 0.032 6.9E-07 45.0 3.3 75 91-173 51-132 (133)
7 PRK08241 RNA polymerase factor 94.0 0.34 7.3E-06 43.1 8.6 69 91-174 257-334 (339)
8 PF10184 DUF2358: Uncharacteri 93.7 0.67 1.5E-05 35.8 8.6 61 91-158 40-113 (113)
9 TIGR02960 SigX5 RNA polymerase 92.0 0.89 1.9E-05 39.9 8.2 68 91-172 247-323 (324)
10 COG4922 Uncharacterized protei 90.6 0.39 8.4E-06 39.0 4.1 93 59-161 13-112 (129)
11 PF03284 PHZA_PHZB: Phenazine 87.3 5.6 0.00012 33.6 8.8 111 63-174 28-151 (162)
12 PF07858 LEH: Limonene-1,2-epo 78.8 7.8 0.00017 31.1 6.2 74 91-172 44-124 (125)
13 PF01353 GFP: Green fluorescen 43.6 44 0.00096 29.5 4.7 31 99-129 77-107 (219)
14 CHL00005 rps16 ribosomal prote 38.5 22 0.00047 26.9 1.7 40 47-86 3-43 (82)
15 PF14534 DUF4440: Domain of un 38.2 64 0.0014 22.3 4.1 79 47-151 14-92 (107)
16 PRK14521 rpsP 30S ribosomal pr 36.3 23 0.00051 30.6 1.8 44 45-88 2-46 (186)
17 PRK14520 rpsP 30S ribosomal pr 36.0 28 0.00061 29.3 2.2 44 46-89 3-47 (155)
18 PRK00040 rpsP 30S ribosomal pr 36.0 28 0.00061 25.8 2.0 42 47-88 3-45 (75)
19 PF07310 PAS_5: PAS domain; I 35.4 34 0.00074 26.9 2.5 49 91-147 25-73 (137)
20 COG0228 RpsP Ribosomal protein 34.8 35 0.00075 26.3 2.3 41 47-87 3-44 (87)
21 TIGR00002 S16 ribosomal protei 32.3 32 0.0007 25.7 1.8 42 47-88 2-44 (78)
22 PRK14524 rpsP 30S ribosomal pr 30.3 41 0.0009 26.0 2.1 43 47-89 3-46 (94)
23 PRK14523 rpsP 30S ribosomal pr 27.5 50 0.0011 27.4 2.2 42 47-88 3-45 (137)
24 PRK14525 rpsP 30S ribosomal pr 26.5 53 0.0011 25.2 2.1 43 46-88 3-46 (88)
25 PRK14522 rpsP 30S ribosomal pr 25.6 54 0.0012 26.5 2.1 43 46-88 3-46 (116)
26 PF09883 DUF2110: Uncharacteri 25.5 54 0.0012 29.2 2.3 32 26-57 15-46 (225)
27 PF05626 DUF790: Protein of un 24.8 1.1E+02 0.0025 29.0 4.4 34 36-74 226-259 (379)
28 PRK09636 RNA polymerase sigma 22.7 5.2E+02 0.011 22.5 8.7 62 91-167 220-286 (293)
29 PF13565 HTH_32: Homeodomain-l 22.0 75 0.0016 21.9 2.1 43 3-46 26-70 (77)
30 PRK05461 apaG CO2+/MG2+ efflux 21.8 58 0.0013 26.2 1.6 23 129-151 93-115 (127)
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=99.88 E-value=3e-22 Score=152.47 Aligned_cols=107 Identities=25% Similarity=0.327 Sum_probs=88.6
Q ss_pred EECCCCCCChhhhhhcCc-ccccCCCCh--HHHHHHHHHHHHHhCCCCceeEEEEeeeCCCeEEEEEEEEeeeecccccc
Q 041144 64 IVNGRKGLSREESLQLGS-YNALLNNSM--EETFKSSHDAFRSAFPRGFAWELISVYSGPPMVAYKFKHWGYFEGPFQGH 140 (201)
Q Consensus 64 s~Ngg~~~~~~e~~~~G~-YN~l~~~~~--~e~f~~s~~~f~~AFPdGf~wEVleV~sgpp~VafkwRhwGt~~G~F~G~ 140 (201)
.+|.+..-.+++++.-.- ++....... .++|++..+.+++|||| +.++|+++++++++|+.+|+..|||+|+|+|+
T Consensus 10 ~~n~~d~~~~~~~~~~d~~~~~~~~~~~~G~~~~~~~~~~~~~afPD-~~~~i~~~~~~gd~v~~~~~~~Gth~g~~~g~ 88 (126)
T PF07366_consen 10 VWNRGDLDALDELVAPDVVFHDPGPGPPVGREGFKEFLKELRAAFPD-LRFEIEDVVAEGDRVAVRWTFTGTHTGEFMGI 88 (126)
T ss_dssp HHHTT-GCHHHGTEEEEEEEEGCTTTEEEHHHHHHHHHHHHHHHSTT-TEEEEEEEEEETTEEEEEEEEEEEESSEBTTB
T ss_pred HHhCCCHHHHHHhcCCCEEEEecCCCCCCCHHHHHHHHHHHHHHCCC-CEEEEEEEEEECCEEEEEEEEEEeecCCcCCc
Confidence 346666656666665322 111111111 88999999999999999 99999999999999999999999999999999
Q ss_pred CCCCCEEEEEe-------ceEEEEEEeeeChHHHHHhh
Q 041144 141 APTGEMVEFLW-------DWDYEDVEIYYHPAELFAGL 171 (201)
Q Consensus 141 ~PTG~~Vei~G-------d~KI~e~w~~~D~~~ll~qL 171 (201)
||||++|++.| +|||+++|.++|.++|++||
T Consensus 89 ~ptgk~v~~~~~~~~~~~~gkI~e~~~~~D~~~~~~QL 126 (126)
T PF07366_consen 89 PPTGKPVEFRGMSIFRFEDGKIVEEWVYFDELSLLRQL 126 (126)
T ss_dssp E-TTEEEEEEEEEEEEEETTEEEEEEEEECHHHHHHHT
T ss_pred CCCCCEEEEEEEEEEEEECCEEEEEEEEECHHHHHhhC
Confidence 99999999999 99999999999999999998
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=99.64 E-value=2.2e-15 Score=113.72 Aligned_cols=81 Identities=19% Similarity=0.295 Sum_probs=77.1
Q ss_pred HHHHHHHHHHHHHhCCCCceeEEEEeeeCCC-eEEEEEEEEeeeeccccccCCCCCEEEEEe-------ceEEEEEEeee
Q 041144 91 EETFKSSHDAFRSAFPRGFAWELISVYSGPP-MVAYKFKHWGYFEGPFQGHAPTGEMVEFLW-------DWDYEDVEIYY 162 (201)
Q Consensus 91 ~e~f~~s~~~f~~AFPdGf~wEVleV~sgpp-~VafkwRhwGt~~G~F~G~~PTG~~Vei~G-------d~KI~e~w~~~ 162 (201)
.++++..+..|.+++|+ +.+++.+++.+++ .|+..|+..|++.|+|.|++|||+++++.| +|||+++|.|+
T Consensus 41 ~~~~~~~~~~~~~~~~~-~~~~i~~~~~~~~~~v~~~~~~~g~~~g~~~g~~~~g~~~~~~~~~~~~~~~gkI~~~~~y~ 119 (129)
T TIGR02096 41 KAQLARFLAPYRTAFPD-LLVDVVVCRNDEGVRVAAEWTVHGTYRTAFLGLPASGKTYSIRGVTFFVFDDGKIKRETTYY 119 (129)
T ss_pred HHHHHHHHHHHHHhCch-hhceeEEEEecCCcEEEEEEEEeeeeccccCCCCCCCCEEEeeeeEEEEEeCCEEEEEEEEe
Confidence 67888999999999998 9999999998776 999999999999999999999999999999 99999999999
Q ss_pred ChHHHHHhhc
Q 041144 163 HPAELFAGLF 172 (201)
Q Consensus 163 D~~~ll~qL~ 172 (201)
|...|++|||
T Consensus 120 D~~~~~~qlg 129 (129)
T TIGR02096 120 NLATFLRQLG 129 (129)
T ss_pred cHHHHHHhhC
Confidence 9999999996
No 3
>COG5485 Predicted ester cyclase [General function prediction only]
Probab=99.60 E-value=3.3e-15 Score=119.90 Aligned_cols=81 Identities=17% Similarity=0.103 Sum_probs=76.5
Q ss_pred HHHHHHHHHHHHHhCCCCceeEEEEeeeCCCeEEEEEEEEeeeeccccccCCCCCEEEEEe-------ceEEEEEEeeeC
Q 041144 91 EETFKSSHDAFRSAFPRGFAWELISVYSGPPMVAYKFKHWGYFEGPFQGHAPTGEMVEFLW-------DWDYEDVEIYYH 163 (201)
Q Consensus 91 ~e~f~~s~~~f~~AFPdGf~wEVleV~sgpp~VafkwRhwGt~~G~F~G~~PTG~~Vei~G-------d~KI~e~w~~~D 163 (201)
-.+|......-..|||| +.++++.++++||+||.|...-+|++|.|+|+||+||+|.|.= |+||+++|...|
T Consensus 44 lsgyr~ml~~df~aiPd-l~f~ie~lvae~~~vaarl~Fdctp~G~i~Gip~nGkrV~Fse~vfy~f~~~KI~~vwsv~D 122 (131)
T COG5485 44 LSGYREMLVRDFSAIPD-LSFEIERLVAEGDRVAARLTFDCTPSGEIMGIPPNGKRVRFSENVFYEFENGKIVEVWSVID 122 (131)
T ss_pred hHHHHHHHHhhHhhCCC-cceEEEEEeecCCceEEEEEEccCcCceEeccCCCCcEEEeehhhhhhhcCCeEEeeehhcc
Confidence 45688887788899999 9999999999999999999999999999999999999999887 999999999999
Q ss_pred hHHHHHhhc
Q 041144 164 PAELFAGLF 172 (201)
Q Consensus 164 ~~~ll~qL~ 172 (201)
.+++.+||+
T Consensus 123 k~ai~rQL~ 131 (131)
T COG5485 123 KMAIERQLG 131 (131)
T ss_pred HHHHHHhhC
Confidence 999999995
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=98.38 E-value=3.1e-06 Score=59.36 Aligned_cols=60 Identities=20% Similarity=0.377 Sum_probs=56.6
Q ss_pred HHHHHHHHHHHHHhCCCCceeEEEEeeeCCCeEEEEEEEEeeeeccccccCCCCCEEEEEe-------ceEEEEE
Q 041144 91 EETFKSSHDAFRSAFPRGFAWELISVYSGPPMVAYKFKHWGYFEGPFQGHAPTGEMVEFLW-------DWDYEDV 158 (201)
Q Consensus 91 ~e~f~~s~~~f~~AFPdGf~wEVleV~sgpp~VafkwRhwGt~~G~F~G~~PTG~~Vei~G-------d~KI~e~ 158 (201)
++++.+....+...||+ +.+++.+++++++.|++.|+..++ .+|||+.+.+.| ||||+++
T Consensus 36 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~gd~v~~~~~~~~~-------~~~~g~~~~~~~~~~~~~~dgkI~~~ 102 (102)
T PF12680_consen 36 REAIREFFEEFFESFPD-IRFEIHDIFADGDRVVVEWTVTGT-------TPPTGQPISFRGCSVFRFEDGKIVEH 102 (102)
T ss_dssp HHHHHHHHHHHHHHEEE-EEEEEEEEEEETTEEEEEEEEEEE-------ETTTSCEEEEEEEEEEEEETTEEEEE
T ss_pred HHHHHHHHHHHHhcCCc-eEEEEEEEEEcCCEEEEEEEEEEE-------EcCCCCEEEEEEEEEEEEECCEEEEC
Confidence 78888899999999999 999999999999999999999998 899999999999 9999985
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=97.76 E-value=3.3e-05 Score=57.87 Aligned_cols=67 Identities=13% Similarity=-0.002 Sum_probs=54.3
Q ss_pred HHHHHHHHHHHHHhCCCCceeEEEEeeeCCCeEEEEEEEEeeeeccccccCCCCCEEEEEe--------ceEEEEEEeee
Q 041144 91 EETFKSSHDAFRSAFPRGFAWELISVYSGPPMVAYKFKHWGYFEGPFQGHAPTGEMVEFLW--------DWDYEDVEIYY 162 (201)
Q Consensus 91 ~e~f~~s~~~f~~AFPdGf~wEVleV~sgpp~VafkwRhwGt~~G~F~G~~PTG~~Vei~G--------d~KI~e~w~~~ 162 (201)
++.+......+..++++ +.+.+..+++.++.+++.|+..++ ++|+.+.+.| +|||++++.||
T Consensus 46 ~~~i~~~~~~~~~~~~~-~~~~~~~~~~~g~~~~~~~~~~~~---------~~g~~~~~~~~~v~~~~~dGkI~~~~~y~ 115 (122)
T cd00781 46 RAAIAAFYAQSLGGAKR-LELTGPVRASHGGEAAFAFRVEFE---------WEGQPCVVRVIDVMRFDADGRIVSMRAYW 115 (122)
T ss_pred HHHHHHHHHHHhccCce-EEecCceeeecCCEEEEEEEEEEE---------eCCceEEEEEEEEEEECCCccChHHHHhc
Confidence 67777777777777777 777777888889999999987533 4688888877 69999999999
Q ss_pred ChHHH
Q 041144 163 HPAEL 167 (201)
Q Consensus 163 D~~~l 167 (201)
|+..|
T Consensus 116 d~~~~ 120 (122)
T cd00781 116 GPVNL 120 (122)
T ss_pred Ccccc
Confidence 99876
No 6
>COG3631 Ketosteroid isomerase-related protein [General function prediction only]
Probab=94.70 E-value=0.032 Score=45.05 Aligned_cols=75 Identities=15% Similarity=0.057 Sum_probs=55.8
Q ss_pred HHHHHHHHHHHHHhCCCCceeEEEEeeeCCCeEEEEEEEEeeeeccccccCCCCCEEEEEe-------ceEEEEEEeeeC
Q 041144 91 EETFKSSHDAFRSAFPRGFAWELISVYSGPPMVAYKFKHWGYFEGPFQGHAPTGEMVEFLW-------DWDYEDVEIYYH 163 (201)
Q Consensus 91 ~e~f~~s~~~f~~AFPdGf~wEVleV~sgpp~VafkwRhwGt~~G~F~G~~PTG~~Vei~G-------d~KI~e~w~~~D 163 (201)
.+........+-+.+=+ ...++..+|.++|.|+.-.+. ...+..||+.++-.= ||||++...|.|
T Consensus 51 ~~~~~~~~~~~~r~~~~-~~~~~~~~~~~gD~~~~v~~~-------~~~~~~~G~~~~~~~~~v~~vrdGrI~~~~~y~D 122 (133)
T COG3631 51 VAIRRDVFALLPRLIED-GRFTVETVYVSGDPVGAVFRT-------RGRVSRTGKPYENRYAFVIRVRDGRITRYREYVD 122 (133)
T ss_pred hhhhhHHhhhChhhccc-ccccceEEEEcCCceEEEEEe-------cCcccccCceeecceEEEEEEeCCEEEEEEEEec
Confidence 44455666666677744 788999999999998821111 123789999996555 999999999999
Q ss_pred hHHHHHhhcC
Q 041144 164 PAELFAGLFK 173 (201)
Q Consensus 164 ~~~ll~qL~~ 173 (201)
+..+-+.++.
T Consensus 123 ~~~~~~a~~~ 132 (133)
T COG3631 123 TLALAEALGG 132 (133)
T ss_pred hHhHHHHhcC
Confidence 9998877753
No 7
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=94.04 E-value=0.34 Score=43.05 Aligned_cols=69 Identities=7% Similarity=-0.025 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHhC--CCCceeEEEEeeeCCCeEEEEEEEEeeeeccccccCCCCCEEEEEe-------ceEEEEEEee
Q 041144 91 EETFKSSHDAFRSAF--PRGFAWELISVYSGPPMVAYKFKHWGYFEGPFQGHAPTGEMVEFLW-------DWDYEDVEIY 161 (201)
Q Consensus 91 ~e~f~~s~~~f~~AF--PdGf~wEVleV~sgpp~VafkwRhwGt~~G~F~G~~PTG~~Vei~G-------d~KI~e~w~~ 161 (201)
++.+...+..+..+. ++ +.+ .-.+++++.|+..+. ..++|+.+++.+ ||||++++.|
T Consensus 257 ~~~v~~~~~~~~~~~~~~~-~~~--~~~~~~g~~v~~~~~-----------~~~~g~~~~~~~v~v~~v~dGkI~~~~~y 322 (339)
T PRK08241 257 RDAIAAFLAGQCPGAGCGG-SRL--VPTRANGQPAFAQYM-----------RDPDGGGHRPWALHVLELRGGRIAHVTSF 322 (339)
T ss_pred HHHHHHHHHhhccccCCCc-eEE--EEeecCCCeEEEEEE-----------EcCCCCeeecceEEEEEEeCCEEEEEEEE
Confidence 556655555443333 33 444 444777877777532 145676666555 9999999999
Q ss_pred eChHHHHHhhcCC
Q 041144 162 YHPAELFAGLFKG 174 (201)
Q Consensus 162 ~D~~~ll~qL~~~ 174 (201)
+|+ ..|++++-.
T Consensus 323 ~d~-~~~~~~~~~ 334 (339)
T PRK08241 323 LDT-TLFPRFGLP 334 (339)
T ss_pred cCh-hhhhhcCCC
Confidence 999 888888764
No 8
>PF10184 DUF2358: Uncharacterized conserved protein (DUF2358); InterPro: IPR018790 This entry represents a family of conserved proteins. The function is unknown.
Probab=93.65 E-value=0.67 Score=35.78 Aligned_cols=61 Identities=13% Similarity=0.071 Sum_probs=48.1
Q ss_pred HHHHHHH---HHHHHH-hCCCCceeEEEEeeeCCC-eEEEEEEEEeeeeccccccCCCCCEEEEEe--------ceEEEE
Q 041144 91 EETFKSS---HDAFRS-AFPRGFAWELISVYSGPP-MVAYKFKHWGYFEGPFQGHAPTGEMVEFLW--------DWDYED 157 (201)
Q Consensus 91 ~e~f~~s---~~~f~~-AFPdGf~wEVleV~sgpp-~VafkwRhwGt~~G~F~G~~PTG~~Vei~G--------d~KI~e 157 (201)
.+.++.. .+.+.. .|.+ ...+|+++...++ .|..|||..|.=.-+ -..++.+.| +|+|.+
T Consensus 40 ~~~Y~~~~~~l~~l~~~~~~~-~~~~v~~i~~~~~~~I~~rW~~~g~~~l~------w~p~~~~~G~S~~~ln~~g~I~~ 112 (113)
T PF10184_consen 40 LDRYKRNLWALRFLGRLFFSD-PSLEVLSIEQDGEDTIRARWRLRGVPRLP------WRPRISFDGTSTYTLNSDGLIYR 112 (113)
T ss_pred HHHHHHHHHHHHHHHhhccCC-cEEEEEEEEECCCCEEEEEEEEEEEeCCC------cCCcEEEEEEEEEEECCCCcEEe
Confidence 6778887 566666 5667 9999999999998 999999998875554 446677888 888876
Q ss_pred E
Q 041144 158 V 158 (201)
Q Consensus 158 ~ 158 (201)
|
T Consensus 113 H 113 (113)
T PF10184_consen 113 H 113 (113)
T ss_pred C
Confidence 5
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=92.02 E-value=0.89 Score=39.87 Aligned_cols=68 Identities=10% Similarity=0.028 Sum_probs=47.5
Q ss_pred HHHHHHHHHHH--HHhCCCCceeEEEEeeeCCCeEEEEEEEEeeeeccccccCCCCCEEEEEe-------ceEEEEEEee
Q 041144 91 EETFKSSHDAF--RSAFPRGFAWELISVYSGPPMVAYKFKHWGYFEGPFQGHAPTGEMVEFLW-------DWDYEDVEIY 161 (201)
Q Consensus 91 ~e~f~~s~~~f--~~AFPdGf~wEVleV~sgpp~VafkwRhwGt~~G~F~G~~PTG~~Vei~G-------d~KI~e~w~~ 161 (201)
++.+...+..+ ...+++ +.++. ++..|+.+++.|. ..++|+.+.+.| ||||++++.+
T Consensus 247 ~~~v~~~~~~~~~~~~~~~-~~~~~--~~~~g~~~~v~~~-----------~~~~~~~~~~~~v~~~~~~dGkI~~~~~~ 312 (324)
T TIGR02960 247 RPAIVGFIHTVCPGEGAAG-MRLLP--TIANGQPAAAMYM-----------RRPDAERHTAFQLHVLEIRGGRITHVTAF 312 (324)
T ss_pred HHHHHHHHHHhcccccCCc-eeEEE--eeecCCceEEEEE-----------EcCCCCeeeeeEEEEEEEcCCcEEEEEEE
Confidence 56666666666 556664 77754 4567777776652 345677666666 9999999999
Q ss_pred eChHHHHHhhc
Q 041144 162 YHPAELFAGLF 172 (201)
Q Consensus 162 ~D~~~ll~qL~ 172 (201)
+|...++.-+|
T Consensus 313 ~~~~~~~~~~~ 323 (324)
T TIGR02960 313 LDGPSLFAAFG 323 (324)
T ss_pred cCCHHHHhhcC
Confidence 99888876654
No 10
>COG4922 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=90.63 E-value=0.39 Score=39.03 Aligned_cols=93 Identities=12% Similarity=0.159 Sum_probs=64.2
Q ss_pred ceeEEEECCCCCCChhhhhhcCcc---cccCCCChHHHHHHHHHHHHHhCCCCceeEEEEeeeCCCeEEEEEEEEeeeec
Q 041144 59 EKFKLIVNGRKGLSREESLQLGSY---NALLNNSMEETFKSSHDAFRSAFPRGFAWELISVYSGPPMVAYKFKHWGYFEG 135 (201)
Q Consensus 59 ~~f~~s~Ngg~~~~~~e~~~~G~Y---N~l~~~~~~e~f~~s~~~f~~AFPdGf~wEVleV~sgpp~VafkwRhwGt~~G 135 (201)
+-|+--.|.|..--++-.+- .+| |++.+ +-+++|-..+..|..-.|. ....+..++++||.|++....
T Consensus 13 ~~y~~~~~~g~veka~a~~v-d~YiQHnp~vp-dGk~~fv~fFt~ffk~~P~-~~~kiVr~iadGdLV~vh~hq------ 83 (129)
T COG4922 13 QFYRTLFEAGEVEKADAYLV-DRYIQHNPMVP-DGKDGFVRFFTEFFKEKPR-ISTKIVRVIADGDLVTVHYHQ------ 83 (129)
T ss_pred HHHHHHHHCCCHHHhhhhhh-hHHHhcCCCCC-CchHHHHHHHHHHHHhCcc-ccceeeEEeccCCEEEEEEee------
Confidence 34444455555555555554 777 66653 2389999999999999999 999999999999999987644
Q ss_pred cccccCCCCCEE--EEEe--ceEEEEEEee
Q 041144 136 PFQGHAPTGEMV--EFLW--DWDYEDVEIY 161 (201)
Q Consensus 136 ~F~G~~PTG~~V--ei~G--d~KI~e~w~~ 161 (201)
+.+-|..-..| +++- ++||+|+|..
T Consensus 84 -t~~~pg~~~~v~~DtfR~ddgkivEHWDv 112 (129)
T COG4922 84 -TVSEPGSYTTVTFDTFRIDDGKIVEHWDV 112 (129)
T ss_pred -eeCCCCcceeEEEEEEEeeCCceeeccch
Confidence 22223222223 3333 8899999964
No 11
>PF03284 PHZA_PHZB: Phenazine biosynthesis protein A/B; InterPro: IPR004964 The phenazine biosynthesis proteins A and B are involved in the biosynthesis of this antibiotic. Phenazine is a nitrogen-containing heterocyclic molecule with important implications in virulence, competition and biological control.; GO: 0017000 antibiotic biosynthetic process; PDB: 3EX9_A 3JUP_B 3DZL_A 3JUN_A 3JUO_A 3CNM_A 3JUM_B 3JUQ_A 3B4O_A 3B4P_B ....
Probab=87.27 E-value=5.6 Score=33.58 Aligned_cols=111 Identities=12% Similarity=0.117 Sum_probs=66.4
Q ss_pred EEECCCCCCChhhhhhc----CcccccCCCCh----HHHHHHHHHHHHHhCCCCceeEEEEeeeCCCeEEEEEEEEeeee
Q 041144 63 LIVNGRKGLSREESLQL----GSYNALLNNSM----EETFKSSHDAFRSAFPRGFAWELISVYSGPPMVAYKFKHWGYFE 134 (201)
Q Consensus 63 ~s~Ngg~~~~~~e~~~~----G~YN~l~~~~~----~e~f~~s~~~f~~AFPdGf~wEVleV~sgpp~VafkwRhwGt~~ 134 (201)
|.++|...+...++..- |..+--.++.+ ++..+.-....-..||| ..|--..++.-.|--.|---+-|.=+
T Consensus 28 m~t~g~~RL~Rh~LF~eDG~~glwtTdtG~Piv~~G~~~L~~havwslkcFPD-WeW~nv~ifeT~DP~~fwVEcdG~G~ 106 (162)
T PF03284_consen 28 MNTKGQDRLRRHELFTEDGCGGLWTTDTGEPIVIRGRDRLAEHAVWSLKCFPD-WEWYNVRIFETQDPNHFWVECDGRGK 106 (162)
T ss_dssp HC--GGGGGGGGGGEEEEEEEEESS-TTSS-EEEESHHHHHHHHHHHHHHSTT--EEEEEEEEEBSSTTEEEEEEEEEEE
T ss_pred HHcCchhhhhhheeeccCCccccccCCCCceEEEEhHHHHHHHHHHHHHHCCC-cEEEEEEeecccCCCEEEEEecCccc
Confidence 44667677777776655 22344444433 78888878888999999 99999999965444444444444444
Q ss_pred ccccccCCCCCEEE-EEe----ceEEEEEEeeeChHHHHHhhcCC
Q 041144 135 GPFQGHAPTGEMVE-FLW----DWDYEDVEIYYHPAELFAGLFKG 174 (201)
Q Consensus 135 G~F~G~~PTG~~Ve-i~G----d~KI~e~w~~~D~~~ll~qL~~~ 174 (201)
=-|-|.|.--=.-. |.. ||||..-.-|+||.+-|+.||-.
T Consensus 107 i~fpGypeg~y~NHfiHsFel~nGkI~~~REFmNp~qq~RaLgi~ 151 (162)
T PF03284_consen 107 ILFPGYPEGYYENHFIHSFELENGKIKRNREFMNPFQQLRALGIP 151 (162)
T ss_dssp E--TTS--EEEEEEEEEEEEEETTEEEEEEEEE-HHHHHHHTT--
T ss_pred eecCCCCcccceeeeEEEEEeeCCEEEeehhhcCHHHHHHHcCCC
Confidence 45666653211111 111 99999999999999999999763
No 12
>PF07858 LEH: Limonene-1,2-epoxide hydrolase catalytic domain; InterPro: IPR013100 Epoxide hydrolases catalyse the hydrolysis of epoxides to corresponding diols, which is important in detoxification, synthesis of signal molecules, or metabolism. Limonene-1,2- epoxide hydrolase (LEH) differs from many other epoxide hydrolases in its structure and its novel one-step catalytic mechanism. Its main fold consists of a six-stranded mixed beta-sheet, with three N-terminal alpha helices packed to one side to create a pocket that extends into the protein core. A fourth helix lies in such a way that it acts as a rim to this pocket. Although mainly lined by hydrophobic residues, this pocket features a cluster of polar groups that lie at its deepest point and constitute the enzymes active site []. ; PDB: 2BNG_C 1NWW_A 1NU3_B.
Probab=78.80 E-value=7.8 Score=31.13 Aligned_cols=74 Identities=11% Similarity=0.151 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHHHhCCCCceeEEEEeeeCCCeEEEEEEEEeeeeccccccCCCCCEE--EEEe-----ceEEEEEEeeeC
Q 041144 91 EETFKSSHDAFRSAFPRGFAWELISVYSGPPMVAYKFKHWGYFEGPFQGHAPTGEMV--EFLW-----DWDYEDVEIYYH 163 (201)
Q Consensus 91 ~e~f~~s~~~f~~AFPdGf~wEVleV~sgpp~VafkwRhwGt~~G~F~G~~PTG~~V--ei~G-----d~KI~e~w~~~D 163 (201)
++.....++.|...+- ||.++|+.+-+.++.|. ..|. +..-++.-+.++ -+.| ||||+.=.-|||
T Consensus 44 ~~~~~~~l~~~~~~~~-~~e~~i~~iaadg~~Vl-tER~------D~l~~~dG~~~~~~~V~GvfEv~dGkI~~WRDYFD 115 (125)
T PF07858_consen 44 RDAIRAFLRGFLDSLS-GFEFDIHRIAADGDVVL-TERT------DVLRFADGPLRIQFPVCGVFEVRDGKITLWRDYFD 115 (125)
T ss_dssp HHHHHHHHHCCHCCCE-EEEEEEEEEEEETTEEE-EEEE------EEEEETTTTEEEEEEEEEEEEEETTEEEEEEEE--
T ss_pred HHHHHHHHHHHhcccc-eeEEEEEEEeecCCEEE-EEeE------eeeeeecCCeEEEEEEEEEEEEECCEEEEEeccCC
Confidence 7777777777744444 59999999999987654 4554 223333333555 3455 999999999999
Q ss_pred hHHHHHhhc
Q 041144 164 PAELFAGLF 172 (201)
Q Consensus 164 ~~~ll~qL~ 172 (201)
...|++++.
T Consensus 116 ~~~~~~a~~ 124 (125)
T PF07858_consen 116 LADFLKATV 124 (125)
T ss_dssp HHHHHHHHT
T ss_pred HHHHHHHhc
Confidence 999999874
No 13
>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=43.55 E-value=44 Score=29.46 Aligned_cols=31 Identities=23% Similarity=0.575 Sum_probs=24.2
Q ss_pred HHHHHhCCCCceeEEEEeeeCCCeEEEEEEE
Q 041144 99 DAFRSAFPRGFAWELISVYSGPPMVAYKFKH 129 (201)
Q Consensus 99 ~~f~~AFPdGf~wEVleV~sgpp~VafkwRh 129 (201)
.-|+.+||.|+.||=.-.|.++-.+..+.+.
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 4678999999999999999988888777765
No 14
>CHL00005 rps16 ribosomal protein S16
Probab=38.55 E-value=22 Score=26.90 Aligned_cols=40 Identities=13% Similarity=0.257 Sum_probs=30.6
Q ss_pred cCCcccceeeccceeEEEE-CCCCCCChhhhhhcCcccccC
Q 041144 47 KTSLNDFKTINPEKFKLIV-NGRKGLSREESLQLGSYNALL 86 (201)
Q Consensus 47 K~~~~dw~si~~~~f~~s~-Ngg~~~~~~e~~~~G~YN~l~ 86 (201)
|.+++..-.-..-.|++.| +...+-.+.-+-++|+|||+.
T Consensus 3 kIRL~R~G~kk~P~YrIVvadsr~~RdGk~iE~lG~YnP~~ 43 (82)
T CHL00005 3 KLRLKRCGRKQQAVYRIVAIDVRSRREGRDLEKVGFYDPIK 43 (82)
T ss_pred EEecccCCCCCCCeEEEEEEeCCCCCCCcceeEeeeccCCC
Confidence 5566666777777888765 666777888888889999984
No 15
>PF14534 DUF4440: Domain of unknown function (DUF4440); PDB: 3HX8_A 3SOY_A 3ROB_B 3GZR_A 3B7C_A 3CU3_A 3FSD_A 2R4I_C 1TP6_A.
Probab=38.16 E-value=64 Score=22.27 Aligned_cols=79 Identities=19% Similarity=0.208 Sum_probs=51.1
Q ss_pred cCCcccceeeccceeEEEECCCCCCChhhhhhcCcccccCCCChHHHHHHHHHHHHHhCCCCceeEEEEeeeCCCeEEEE
Q 041144 47 KTSLNDFKTINPEKFKLIVNGRKGLSREESLQLGSYNALLNNSMEETFKSSHDAFRSAFPRGFAWELISVYSGPPMVAYK 126 (201)
Q Consensus 47 K~~~~dw~si~~~~f~~s~Ngg~~~~~~e~~~~G~YN~l~~~~~~e~f~~s~~~f~~AFPdGf~wEVleV~sgpp~Vafk 126 (201)
.-|++...++-.+.|.+..++|..++.+++++ .+++ -...++. +.++..+|..-++.++..
T Consensus 14 ~~D~~~~~~~~~~d~~~~~~~g~~~~~~~~l~--------------~~~~----~~~~~~~-~~~~~~~v~~~gd~a~~~ 74 (107)
T PF14534_consen 14 AGDIDALASLYADDFVFVGPGGTILGKEAILA--------------AFKS----GFARFSS-IKFEDVEVRVLGDTAVVR 74 (107)
T ss_dssp TTHHHHHHTTEEEEEEEEETTSEEEEHHHHHH--------------HHHH----HCEEEEE-EEEEEEEEEEETTEEEEE
T ss_pred hCCHHHHHhhhCCCEEEECCCCCEeCHHHHHH--------------HHhh----ccCCCce-EEEEEEEEEEECCEEEEE
Confidence 35566667777788888888887776666654 2211 1124455 888888888889988877
Q ss_pred EEEEeeeeccccccCCCCCEEEEEe
Q 041144 127 FKHWGYFEGPFQGHAPTGEMVEFLW 151 (201)
Q Consensus 127 wRhwGt~~G~F~G~~PTG~~Vei~G 151 (201)
.+...+..+ .|+.+++.|
T Consensus 75 ~~~~~~~~~-------~g~~~~~~~ 92 (107)
T PF14534_consen 75 GRWTFTWRG-------DGEPVTIRG 92 (107)
T ss_dssp EEEEEEETT-------TTEEEEEEE
T ss_pred EEEEEEEec-------CCceEEEEE
Confidence 775444422 356666555
No 16
>PRK14521 rpsP 30S ribosomal protein S16; Provisional
Probab=36.30 E-value=23 Score=30.64 Aligned_cols=44 Identities=16% Similarity=0.189 Sum_probs=34.6
Q ss_pred cccCCcccceeeccceeEEEE-CCCCCCChhhhhhcCcccccCCC
Q 041144 45 SHKTSLNDFKTINPEKFKLIV-NGRKGLSREESLQLGSYNALLNN 88 (201)
Q Consensus 45 shK~~~~dw~si~~~~f~~s~-Ngg~~~~~~e~~~~G~YN~l~~~ 88 (201)
.-|++++-.-.-..-.|++.| |.+.+-++.-|-.+|+|||+...
T Consensus 2 ~VkIRL~R~G~KkrPfYrIVVaDsR~~RDGk~IE~lG~YnP~~~~ 46 (186)
T PRK14521 2 AVKIRLQRHGRKGKAFYWIVAADSRAPRDGKFIEKIGTYNPNTNP 46 (186)
T ss_pred cEeehhhhCCCCCCCeEEEEEEeCCCCCCCCceeeeeecCCCCCC
Confidence 347778888888888898875 66677888888888999998543
No 17
>PRK14520 rpsP 30S ribosomal protein S16; Provisional
Probab=36.04 E-value=28 Score=29.35 Aligned_cols=44 Identities=18% Similarity=0.339 Sum_probs=34.3
Q ss_pred ccCCcccceeeccceeEEEE-CCCCCCChhhhhhcCcccccCCCC
Q 041144 46 HKTSLNDFKTINPEKFKLIV-NGRKGLSREESLQLGSYNALLNNS 89 (201)
Q Consensus 46 hK~~~~dw~si~~~~f~~s~-Ngg~~~~~~e~~~~G~YN~l~~~~ 89 (201)
-|++++..-....-.|++.| +.+.+-.+.-|-.+|+|||+-..+
T Consensus 3 VkIRL~R~G~kk~PfYrIVVaDsR~~RDGk~IE~lG~YnP~~~~~ 47 (155)
T PRK14520 3 VKIKLKRLGKIRNPQYRIVVADSRTKRDGRAIEEIGRYHPKEEPS 47 (155)
T ss_pred EEehhhhCCCCCCCeEEEEEeecCCCCCCCceeeeeccCCCCCCc
Confidence 47788888888999999876 555667777788889999985443
No 18
>PRK00040 rpsP 30S ribosomal protein S16; Reviewed
Probab=35.99 E-value=28 Score=25.79 Aligned_cols=42 Identities=19% Similarity=0.223 Sum_probs=29.8
Q ss_pred cCCcccceeeccceeEEEE-CCCCCCChhhhhhcCcccccCCC
Q 041144 47 KTSLNDFKTINPEKFKLIV-NGRKGLSREESLQLGSYNALLNN 88 (201)
Q Consensus 47 K~~~~dw~si~~~~f~~s~-Ngg~~~~~~e~~~~G~YN~l~~~ 88 (201)
|.+++-.-.-..-.|++.| |...+-.+.-+-++|+|||+...
T Consensus 3 kIRL~R~G~k~~P~YrIVv~d~r~~RdGk~iE~lG~ydP~~~~ 45 (75)
T PRK00040 3 KIRLARGGAKKRPFYRIVVADSRSPRDGRFIERVGFYNPLAKP 45 (75)
T ss_pred EEhhhhCCCCCCCeEEEEEEecCCCCCCCceeEEeecCCCCCC
Confidence 4455555556667787765 66677788888888999998643
No 19
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=35.39 E-value=34 Score=26.86 Aligned_cols=49 Identities=12% Similarity=0.196 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHhCCCCceeEEEEeeeCCCeEEEEEEEEeeeeccccccCCCCCEE
Q 041144 91 EETFKSSHDAFRSAFPRGFAWELISVYSGPPMVAYKFKHWGYFEGPFQGHAPTGEMV 147 (201)
Q Consensus 91 ~e~f~~s~~~f~~AFPdGf~wEVleV~sgpp~VafkwRhwGt~~G~F~G~~PTG~~V 147 (201)
+++|+=. .+..+.|+ .-|+|+..++ .|++|..||.--...|...||+.+
T Consensus 25 R~didP~--~i~~~Lp~---i~ile~~~~~---~~r~RLaGt~i~~~~G~d~tG~~~ 73 (137)
T PF07310_consen 25 RSDIDPA--DIPRLLPH---IFILEVDDPG---DFRYRLAGTRIVELFGRDLTGRRL 73 (137)
T ss_pred hhcCCHH--HHHHHhCC---eEEEEEeCCC---ceEEEEecHHHHHHhCCCCCCCCH
Confidence 4444432 56678887 3467765433 699999999999999999999987
No 20
>COG0228 RpsP Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]
Probab=34.81 E-value=35 Score=26.29 Aligned_cols=41 Identities=24% Similarity=0.335 Sum_probs=31.1
Q ss_pred cCCcccceeeccceeEEEE-CCCCCCChhhhhhcCcccccCC
Q 041144 47 KTSLNDFKTINPEKFKLIV-NGRKGLSREESLQLGSYNALLN 87 (201)
Q Consensus 47 K~~~~dw~si~~~~f~~s~-Ngg~~~~~~e~~~~G~YN~l~~ 87 (201)
|+++...-+...-.|++.| |-..+-++-=|-.+|+|||++.
T Consensus 3 kIRL~R~G~kk~P~YrIVVaDsrs~RDGr~IE~lG~ynP~~~ 44 (87)
T COG0228 3 KIRLARGGSKKRPFYRIVVADSRSPRDGRFIERLGTYNPLLG 44 (87)
T ss_pred EEehhhCCCccCCeEEEEEeccCCCCCCcchhhhcccCCCCC
Confidence 5667777777778888776 5566777777778899999773
No 21
>TIGR00002 S16 ribosomal protein S16. This model describes ribosomal S16 of bacteria and organelles.
Probab=32.32 E-value=32 Score=25.67 Aligned_cols=42 Identities=21% Similarity=0.272 Sum_probs=29.4
Q ss_pred cCCcccceeeccceeEEEE-CCCCCCChhhhhhcCcccccCCC
Q 041144 47 KTSLNDFKTINPEKFKLIV-NGRKGLSREESLQLGSYNALLNN 88 (201)
Q Consensus 47 K~~~~dw~si~~~~f~~s~-Ngg~~~~~~e~~~~G~YN~l~~~ 88 (201)
|.+++-.-.-..-.|++.| |...+-.+.-+-++|+|||+...
T Consensus 2 kIRL~R~G~k~~PfYrIVv~d~r~~RdGk~iE~lG~YnP~~~~ 44 (78)
T TIGR00002 2 KIRLKRGGRKKRPFYRIVVADSRSRRDGRYIEELGFYNPLTKE 44 (78)
T ss_pred EEecccCCCCCCCeEEEEEEecCCCCCCCceeEeeeccCCCCC
Confidence 3455555556666777765 56667778888888999998644
No 22
>PRK14524 rpsP 30S ribosomal protein S16; Provisional
Probab=30.26 E-value=41 Score=26.02 Aligned_cols=43 Identities=21% Similarity=0.300 Sum_probs=30.3
Q ss_pred cCCcccceeeccceeEEEE-CCCCCCChhhhhhcCcccccCCCC
Q 041144 47 KTSLNDFKTINPEKFKLIV-NGRKGLSREESLQLGSYNALLNNS 89 (201)
Q Consensus 47 K~~~~dw~si~~~~f~~s~-Ngg~~~~~~e~~~~G~YN~l~~~~ 89 (201)
|.+++-.-.-..-.|++.| |...+-++.-+-.+|.|||+..+.
T Consensus 3 kIRL~R~G~KkrPfYrIVvadsr~~RdGk~iE~lG~YnP~~~~~ 46 (94)
T PRK14524 3 RIRLTRMGKRKQPFYRIVVVDSRKRRDGAYIESLGYYNPLKEPY 46 (94)
T ss_pred EEhhccCCCCCCCeEEEEEEecCCCCCCCceeEeeecCCCCCCc
Confidence 4455555556666787765 666777888888889999986543
No 23
>PRK14523 rpsP 30S ribosomal protein S16; Provisional
Probab=27.48 E-value=50 Score=27.41 Aligned_cols=42 Identities=17% Similarity=0.192 Sum_probs=31.8
Q ss_pred cCCcccceeeccceeEEEE-CCCCCCChhhhhhcCcccccCCC
Q 041144 47 KTSLNDFKTINPEKFKLIV-NGRKGLSREESLQLGSYNALLNN 88 (201)
Q Consensus 47 K~~~~dw~si~~~~f~~s~-Ngg~~~~~~e~~~~G~YN~l~~~ 88 (201)
|+++...-.-..-.|++.| |...+..+.-|-.+|+|||+...
T Consensus 3 kIRL~R~GrKkrPfYRIVVaDsRs~RDGK~IE~LG~YdP~~~~ 45 (137)
T PRK14523 3 VIRLARGGSKKNPFYHIVVADRRKPRDGRFIERVGYYNPMARG 45 (137)
T ss_pred EehhhcCCCCCCCeEEEEEEecCCCCCCCceeeeeecCCCCCC
Confidence 5667777777788888776 55666777888888999998643
No 24
>PRK14525 rpsP 30S ribosomal protein S16; Provisional
Probab=26.48 E-value=53 Score=25.17 Aligned_cols=43 Identities=12% Similarity=0.139 Sum_probs=31.9
Q ss_pred ccCCcccceeeccceeEEEE-CCCCCCChhhhhhcCcccccCCC
Q 041144 46 HKTSLNDFKTINPEKFKLIV-NGRKGLSREESLQLGSYNALLNN 88 (201)
Q Consensus 46 hK~~~~dw~si~~~~f~~s~-Ngg~~~~~~e~~~~G~YN~l~~~ 88 (201)
-|.+++..-.-..-.|++.| |...+-.+.-|-.+|+|||+..+
T Consensus 3 VkIRL~R~G~k~~P~YrIVv~dsr~~RdGk~IE~lG~YnP~~~~ 46 (88)
T PRK14525 3 VVLRLSRAGTHKAPFYHVVATDSRNARDGKYLEDVGIYDPTKRP 46 (88)
T ss_pred EEEehhhCCCCCCCeEEEEEeecCCCCCCCceeEEecccCCCCC
Confidence 35666777777777888765 66677788888888999998544
No 25
>PRK14522 rpsP 30S ribosomal protein S16; Provisional
Probab=25.62 E-value=54 Score=26.49 Aligned_cols=43 Identities=16% Similarity=0.140 Sum_probs=32.8
Q ss_pred ccCCcccceeeccceeEEEE-CCCCCCChhhhhhcCcccccCCC
Q 041144 46 HKTSLNDFKTINPEKFKLIV-NGRKGLSREESLQLGSYNALLNN 88 (201)
Q Consensus 46 hK~~~~dw~si~~~~f~~s~-Ngg~~~~~~e~~~~G~YN~l~~~ 88 (201)
-|.++..+-.-+.-.|++.| +...+-++.-|-.+|+|||+...
T Consensus 3 VkIRLaR~G~KkrPfYrIVVaDsR~~RDGk~IE~lG~YdP~~~~ 46 (116)
T PRK14522 3 LKIRLRQQGRRNHVVYRLVLADVESPRDGKYIELLGWYDPHSEQ 46 (116)
T ss_pred EEEecccCCCCCCCeEEEEEeecCCCCCCCcceeeeccCCCCCC
Confidence 46777777788888888765 56677777778888999998543
No 26
>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=25.51 E-value=54 Score=29.24 Aligned_cols=32 Identities=16% Similarity=0.284 Sum_probs=27.4
Q ss_pred CCCHHHHHHHhHheeeeeccccCCcccceeec
Q 041144 26 KGSIEETVQNAVKSWEMELSHKTSLNDFKTIN 57 (201)
Q Consensus 26 ~gSLe~~VqnlvktwemE~shK~~~~dw~si~ 57 (201)
-.||..+|+|+++-.|+|..--.+.++|.+|.
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 34799999999999999987777889998873
No 27
>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=24.85 E-value=1.1e+02 Score=28.96 Aligned_cols=34 Identities=12% Similarity=0.325 Sum_probs=23.4
Q ss_pred hHheeeeeccccCCcccceeeccceeEEEECCCCCCChh
Q 041144 36 AVKSWEMELSHKTSLNDFKTINPEKFKLIVNGRKGLSRE 74 (201)
Q Consensus 36 lvktwemE~shK~~~~dw~si~~~~f~~s~Ngg~~~~~~ 74 (201)
.+..|+|+|.=+ |-+-..+.|+|+++....+...
T Consensus 226 ~~~~W~l~A~i~-----~~~~~~r~~~f~l~~~~~~~~~ 259 (379)
T PF05626_consen 226 HASRWSLEAEIQ-----KDRGGRRTYRFELDSEDGLVSH 259 (379)
T ss_pred CCCCceEEEEEe-----ccCCCceeEEEEecccccccCC
Confidence 357899999987 3344457888888875544443
No 28
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=22.68 E-value=5.2e+02 Score=22.53 Aligned_cols=62 Identities=10% Similarity=-0.029 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHhCCCCceeEEEEeee-CCCeEEEEEEEEeeeeccccccCCCCCEEEEEe----ceEEEEEEeeeChH
Q 041144 91 EETFKSSHDAFRSAFPRGFAWELISVYS-GPPMVAYKFKHWGYFEGPFQGHAPTGEMVEFLW----DWDYEDVEIYYHPA 165 (201)
Q Consensus 91 ~e~f~~s~~~f~~AFPdGf~wEVleV~s-gpp~VafkwRhwGt~~G~F~G~~PTG~~Vei~G----d~KI~e~w~~~D~~ 165 (201)
++.+...+..+.+.++.|+.+++.-+.. |.|-++.. +. |..+.+.+ +|||+.+++.-+|.
T Consensus 220 ~~~v~~~l~~~~~~~~~~~~~~~~~~~vnG~~a~~~~-~~--------------~~~~~~~~~~~~~g~I~~i~~~~~p~ 284 (293)
T PRK09636 220 ADKVARFFLGLARRYGPGGSTLVRLALVNGLPGFVTA-EA--------------DGEPQTTALEVEDGKIVAIYDVRNPD 284 (293)
T ss_pred HHHHHHHHHHHhhhccCCCceEEEEEEECCceeEEEE-eC--------------CceEEEEEEEEECCEEEEEEEEcCHH
Confidence 5666666766666776556666655544 55555552 21 22233333 89999999999998
Q ss_pred HH
Q 041144 166 EL 167 (201)
Q Consensus 166 ~l 167 (201)
-|
T Consensus 285 kl 286 (293)
T PRK09636 285 KL 286 (293)
T ss_pred Hh
Confidence 76
No 29
>PF13565 HTH_32: Homeodomain-like domain
Probab=21.99 E-value=75 Score=21.88 Aligned_cols=43 Identities=14% Similarity=0.128 Sum_probs=27.8
Q ss_pred CCCCCCchhhhhhhhccccccCCCCCHHHHHHHhHheeeeec--cc
Q 041144 3 HSGPPIFDKVNKLFEEGRTKEWPKGSIEETVQNAVKSWEMEL--SH 46 (201)
Q Consensus 3 ~G~~PdY~~~~~~~~~~rt~~~~~gSLe~~VqnlvktwemE~--sh 46 (201)
.|+|+. +.--..+...-...+|.=|+++|++-|.+.|-..+ |+
T Consensus 26 ~Grp~~-~~e~~~~i~~~~~~~p~wt~~~i~~~L~~~~g~~~~~S~ 70 (77)
T PF13565_consen 26 PGRPRK-DPEQRERIIALIEEHPRWTPREIAEYLEEEFGISVRVSR 70 (77)
T ss_pred CCCCCC-cHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCCCccH
Confidence 565554 22222344444566778899999999999887765 55
No 30
>PRK05461 apaG CO2+/MG2+ efflux protein ApaG; Reviewed
Probab=21.76 E-value=58 Score=26.22 Aligned_cols=23 Identities=26% Similarity=0.274 Sum_probs=20.1
Q ss_pred EEeeeeccccccCCCCCEEEEEe
Q 041144 129 HWGYFEGPFQGHAPTGEMVEFLW 151 (201)
Q Consensus 129 hwGt~~G~F~G~~PTG~~Vei~G 151 (201)
-+|+|+|.|.-+.++|+.+++.-
T Consensus 93 p~G~M~G~y~~~~~~G~~F~v~I 115 (127)
T PRK05461 93 PSGTMQGHYQMVDEDGERFEVPI 115 (127)
T ss_pred CCEEEEEEEEEEeCCCCEEEEEc
Confidence 57999999999999999987653
Done!