Query 025198
Match_columns 256
No_of_seqs 63 out of 65
Neff 2.9
Searched_HMMs 46136
Date Fri Mar 29 03:33:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025198.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025198hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08847 DUF1817: Domain of un 100.0 1E-81 2.2E-86 530.1 11.2 150 96-251 1-150 (150)
2 COG5474 Uncharacterized conser 100.0 1.7E-66 3.6E-71 437.4 5.7 157 92-250 2-158 (159)
3 PF01381 HTH_3: Helix-turn-hel 44.9 18 0.00039 24.1 2.0 40 204-244 14-53 (55)
4 PF13318 DUF4089: Protein of u 37.7 27 0.00058 25.1 2.0 18 232-249 2-19 (50)
5 PHA01976 helix-turn-helix prot 36.5 31 0.00066 24.0 2.1 31 214-245 30-60 (67)
6 COG3835 CdaR Sugar diacid util 36.1 14 0.0003 36.6 0.4 58 178-245 102-159 (376)
7 TIGR03070 couple_hipB transcri 31.8 55 0.0012 21.3 2.7 30 213-243 29-58 (58)
8 COG3170 FimV Tfp pilus assembl 31.8 14 0.00031 39.2 -0.2 29 166-194 115-146 (755)
9 PF08667 BetR: BetR domain; I 29.5 53 0.0012 28.5 2.9 32 213-245 7-38 (147)
10 PRK13246 dihydrobiliverdin:fer 27.6 24 0.00052 32.6 0.5 53 41-111 46-104 (236)
11 PRK05431 seryl-tRNA synthetase 27.3 71 0.0015 31.2 3.6 42 186-227 274-316 (425)
12 COG5606 Uncharacterized conser 26.9 74 0.0016 26.1 3.1 35 202-241 17-53 (91)
13 smart00530 HTH_XRE Helix-turn- 25.1 89 0.0019 18.6 2.6 29 215-244 26-54 (56)
14 TIGR00414 serS seryl-tRNA synt 24.9 94 0.002 30.3 4.0 73 154-227 234-318 (418)
15 PRK06253 O-phosphoseryl-tRNA s 24.6 48 0.001 34.1 2.0 50 199-252 82-132 (529)
16 cd00086 homeodomain Homeodomai 23.9 1.3E+02 0.0027 20.0 3.4 28 213-241 12-39 (59)
17 TIGR02844 spore_III_D sporulat 22.8 1.3E+02 0.0027 23.5 3.6 31 208-243 3-33 (80)
18 PF10281 Ish1: Putative stress 22.6 93 0.002 20.5 2.5 15 215-229 8-22 (38)
19 PRK13249 phycoerythrobilin:fer 22.4 33 0.00071 32.1 0.4 56 41-113 69-127 (257)
20 PRK09943 DNA-binding transcrip 21.8 65 0.0014 27.0 2.0 34 213-248 34-67 (185)
21 PF13443 HTH_26: Cro/C1-type H 21.8 63 0.0014 22.1 1.6 31 214-245 25-56 (63)
22 PRK09726 antitoxin HipB; Provi 21.7 92 0.002 23.5 2.6 31 214-245 40-70 (88)
23 PLN02320 seryl-tRNA synthetase 21.6 1.1E+02 0.0024 31.2 3.8 41 187-227 338-379 (502)
24 PF04304 DUF454: Protein of un 21.3 77 0.0017 22.9 2.0 31 208-239 5-37 (71)
25 PF10593 Z1: Z1 domain; Inter 21.0 44 0.00095 30.2 0.8 15 230-244 167-181 (239)
26 cd00093 HTH_XRE Helix-turn-hel 20.4 1.3E+02 0.0028 18.1 2.7 30 214-244 27-56 (58)
27 PF00400 WD40: WD domain, G-be 20.4 62 0.0013 19.6 1.2 21 55-75 12-32 (39)
28 PF03534 SpvB: Salmonella viru 20.2 1.1E+02 0.0024 28.8 3.3 57 132-192 237-293 (293)
No 1
>PF08847 DUF1817: Domain of unknown function (DUF1817); InterPro: IPR014946 Members of this entry are functionally uncharacterised.
Probab=100.00 E-value=1e-81 Score=530.11 Aligned_cols=150 Identities=57% Similarity=1.069 Sum_probs=144.4
Q ss_pred EeChhhhhhcCCchhhhhhccCCCCCCCchhhhcceeEEEEeecCCCCCCCccccCCCchhhhHhhhcCCCCceeEEEec
Q 025198 96 VLENDAIRSLDLSPFHSATGITSPTLAEPKEFLERTIGFTINYTREDPRDPRELSEFPDIRLWFVRLDAAYPWIPVLLDW 175 (256)
Q Consensus 96 ~I~~d~I~~LDLSPv~~~ie~~~~L~~~~~~~Leq~L~F~i~ypr~dp~DPRELSEIPEvRLWFvRLDA~YPWLP~lLDw 175 (256)
+|++|+|++|||||++++++ +..+.+..+||+|+|+|+|||+ ++||||||||||||||||||||+|||||++|||
T Consensus 1 ~i~~d~I~~LDLSP~~~~~~----~~~~~~~~~e~~l~f~i~ypr~-~~DPRELSEiPEvRLWFiRlDa~yPWlP~lLdw 75 (150)
T PF08847_consen 1 TINADAIRRLDLSPLQTWIE----LPEEALLSLEQQLGFEIDYPRE-PDDPRELSEIPEVRLWFIRLDARYPWLPFLLDW 75 (150)
T ss_pred CCChHHHHHcCCcHHHHHHh----cchhhHHhhcceeeEEEeccCC-CCCchhhhcccHHHHHHHHhccCCCcchheecc
Confidence 48999999999999999998 4455677789999999999995 999999999999999999999999999999999
Q ss_pred CCCchhhhhhhhcccccccccceeeChhHHHHHHHhhHHhHHHHHhhcCCCCccchHHHHHHHhCCcccchhhhhh
Q 025198 176 RAGELARYAAMLVPHQMSMKMGIVFNPEALELFIMNKVFVVYTWFKQHNVQKPRLKTSDMARMLGFGIEDRLFDLV 251 (256)
Q Consensus 176 kaGELaRyvAMLVPHQFs~~eGI~FNPEALEifvm~KvFvL~~WLk~~~i~~~r~~l~~MAqmLGyeLdd~ff~li 251 (256)
|+|||+||||||||||||++|||||||||||||||||||+|++|+|++|+++ ++||++||||||||||++||++|
T Consensus 76 ~~GeL~Ry~AMLVPHqfs~~eGi~fnPEALEifvm~klf~L~~wl~~~~i~~-~~~l~~MA~~lGyeld~~f~~li 150 (150)
T PF08847_consen 76 RSGELARYVAMLVPHQFSRKEGIQFNPEALEIFVMHKLFVLDDWLKQQGIPS-RSRLKSMAQMLGYELDDEFFDLI 150 (150)
T ss_pred ccCcHHHHHHHhCccccccccCceeCHHHHHHHHHHHHHHHHHHHHHcCCCc-hhhHHHHHHHhCCCcCHHHHhcC
Confidence 9999999999999999999999999999999999999999999999999999 79999999999999999999986
No 2
>COG5474 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.7e-66 Score=437.37 Aligned_cols=157 Identities=43% Similarity=0.793 Sum_probs=152.8
Q ss_pred eeEEEeChhhhhhcCCchhhhhhccCCCCCCCchhhhcceeEEEEeecCCCCCCCccccCCCchhhhHhhhcCCCCceeE
Q 025198 92 RFDVVLENDAIRSLDLSPFHSATGITSPTLAEPKEFLERTIGFTINYTREDPRDPRELSEFPDIRLWFVRLDAAYPWIPV 171 (256)
Q Consensus 92 r~~I~I~~d~I~~LDLSPv~~~ie~~~~L~~~~~~~Leq~L~F~i~ypr~dp~DPRELSEIPEvRLWFvRLDA~YPWLP~ 171 (256)
.|||+++++.+++|||||+++|++|+.++.++.++..|+|+.|.|+|.++ |.|||||||||||||||+|||+.|||||+
T Consensus 2 ~iti~ls~e~v~~LDLSpi~q~mer~~r~~e~~ia~~ekqv~f~i~y~~e-~gDpRELsEIPEvRlWF~rLd~~yPWfp~ 80 (159)
T COG5474 2 DITIVLSKEEVEELDLSPINQMMERYFRTKELLIANREKQVFFIIGYDDE-PGDPRELSEIPEVRLWFKRLDQGYPWFPY 80 (159)
T ss_pred ceEEEeCHHHHhhcCccHHHHHHHHHHHhHHHhhhchhheEEEEEeccCC-CCChHHhhhchHHHHHHHHHhcCCCchHH
Confidence 48999999999999999999999988888888888889999999999995 99999999999999999999999999999
Q ss_pred EEecCCCchhhhhhhhcccccccccceeeChhHHHHHHHhhHHhHHHHHhhcCCCCccchHHHHHHHhCCcccchhhhh
Q 025198 172 LLDWRAGELARYAAMLVPHQMSMKMGIVFNPEALELFIMNKVFVVYTWFKQHNVQKPRLKTSDMARMLGFGIEDRLFDL 250 (256)
Q Consensus 172 lLDwkaGELaRyvAMLVPHQFs~~eGI~FNPEALEifvm~KvFvL~~WLk~~~i~~~r~~l~~MAqmLGyeLdd~ff~l 250 (256)
+|||++||++||+||||||+||++||||||||||++|||+|||+|++|+|.+.+++ |+|+|+|||+||||++|+|++.
T Consensus 81 lLDw~Age~~ry~aMlvph~fs~~egiq~npeal~~fvm~~vfvl~dWlk~~~~p~-qfrlKsiaq~lgyel~d~f~~~ 158 (159)
T COG5474 81 LLDWGAGEMSRYIAMLVPHNFSAKEGIQKNPEALKSFVMSSVFVLNDWLKVFENPN-QFRLKSIAQNLGYELSDKFITS 158 (159)
T ss_pred HhhcCCcchhhhhhhhcccccchhhccccChhHhHHhhhhHHHHHHHHHHHHhcHH-HHHHHHHHHHhhhhhhhhhhhc
Confidence 99999999999999999999999999999999999999999999999999999999 8999999999999999999975
No 3
>PF01381 HTH_3: Helix-turn-helix; InterPro: IPR001387 This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).; GO: 0043565 sequence-specific DNA binding; PDB: 2AXU_A 2AWI_D 2AXV_D 2AXZ_C 2AW6_A 3KXA_C 3BS3_A 2CRO_A 1ZUG_A 3CRO_R ....
Probab=44.87 E-value=18 Score=24.12 Aligned_cols=40 Identities=13% Similarity=-0.034 Sum_probs=29.7
Q ss_pred HHHHHHHhhHHhHHHHHhhcCCCCccchHHHHHHHhCCccc
Q 025198 204 ALELFIMNKVFVVYTWFKQHNVQKPRLKTSDMARMLGFGIE 244 (256)
Q Consensus 204 ALEifvm~KvFvL~~WLk~~~i~~~r~~l~~MAqmLGyeLd 244 (256)
+|.--+.-..-.+++|.+....++ -..+..||+.||+.++
T Consensus 14 ~la~~~gis~~~i~~~~~g~~~~~-~~~~~~ia~~l~~~~~ 53 (55)
T PF01381_consen 14 ELAEKLGISRSTISRIENGKRNPS-LDTLKKIAKALGVSPE 53 (55)
T ss_dssp HHHHHHTS-HHHHHHHHTTSSTSB-HHHHHHHHHHHTSEHH
T ss_pred HHHHHhCCCcchhHHHhcCCCCCC-HHHHHHHHHHHCCCHH
Confidence 343333334456899999988899 6999999999997764
No 4
>PF13318 DUF4089: Protein of unknown function (DUF4089)
Probab=37.68 E-value=27 Score=25.14 Aligned_cols=18 Identities=22% Similarity=0.470 Sum_probs=15.3
Q ss_pred HHHHHHHhCCcccchhhh
Q 025198 232 TSDMARMLGFGIEDRLFD 249 (256)
Q Consensus 232 l~~MAqmLGyeLdd~ff~ 249 (256)
+.+||+++|.+|+++.-.
T Consensus 2 v~~~a~llgL~l~~~~r~ 19 (50)
T PF13318_consen 2 VDQMAALLGLPLDEEWRP 19 (50)
T ss_pred HHHHHHHcCCCCCHHHHH
Confidence 468999999999998654
No 5
>PHA01976 helix-turn-helix protein
Probab=36.49 E-value=31 Score=24.01 Aligned_cols=31 Identities=13% Similarity=0.213 Sum_probs=26.1
Q ss_pred HhHHHHHhhcCCCCccchHHHHHHHhCCcccc
Q 025198 214 FVVYTWFKQHNVQKPRLKTSDMARMLGFGIED 245 (256)
Q Consensus 214 FvL~~WLk~~~i~~~r~~l~~MAqmLGyeLdd 245 (256)
-.+++|.+....|+ ...+..+|+.||..++.
T Consensus 30 ~~v~~~e~g~~~p~-~~~l~~ia~~l~v~~~~ 60 (67)
T PHA01976 30 SLIYDFEADKRLPN-LKTLLRLADALGVTLDW 60 (67)
T ss_pred HHHHHHHcCCCCCC-HHHHHHHHHHHCcCHHH
Confidence 45788988888888 68999999999988763
No 6
>COG3835 CdaR Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]
Probab=36.12 E-value=14 Score=36.55 Aligned_cols=58 Identities=24% Similarity=0.334 Sum_probs=35.8
Q ss_pred CchhhhhhhhcccccccccceeeChhHHHHHHHhhHHhHHHHHhhcCCCCccchHHHHHHHhCCcccc
Q 025198 178 GELARYAAMLVPHQMSMKMGIVFNPEALELFIMNKVFVVYTWFKQHNVQKPRLKTSDMARMLGFGIED 245 (256)
Q Consensus 178 GELaRyvAMLVPHQFs~~eGI~FNPEALEifvm~KvFvL~~WLk~~~i~~~r~~l~~MAqmLGyeLdd 245 (256)
|||.|-+|=|.=-|--+-|-.+..-.-.|-| +.+|+++.. .. ..+.++||+||++|.-
T Consensus 102 ~ELVrm~AElliEQ~~~~Eq~qw~~r~rE~f-------~~~li~~~~-~~--~s~~~~Aq~lgiDLs~ 159 (376)
T COG3835 102 GELVRMTAELLIEQARLLEQLQWDRRYREEF-------VSDLIQQKE-NT--PSLAEWAQRLGIDLSK 159 (376)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHhccc-cc--HHHHHHHHHhCcccCC
Confidence 7788887755433332222222222333444 457887777 44 5799999999999853
No 7
>TIGR03070 couple_hipB transcriptional regulator, y4mF family. Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems.
Probab=31.79 E-value=55 Score=21.35 Aligned_cols=30 Identities=10% Similarity=0.033 Sum_probs=24.2
Q ss_pred HHhHHHHHhhcCCCCccchHHHHHHHhCCcc
Q 025198 213 VFVVYTWFKQHNVQKPRLKTSDMARMLGFGI 243 (256)
Q Consensus 213 vFvL~~WLk~~~i~~~r~~l~~MAqmLGyeL 243 (256)
.-.+.+|.+....++ -..+..+|+.||.+|
T Consensus 29 ~~~vs~~e~g~~~~~-~~~~~~i~~~lgv~l 58 (58)
T TIGR03070 29 LRFIRDVENGKPTVR-LDKVLRVLDALGLEL 58 (58)
T ss_pred HHHHHHHHCCCCCCC-HHHHHHHHHHcCCCC
Confidence 456888988777777 588999999999875
No 8
>COG3170 FimV Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=31.79 E-value=14 Score=39.24 Aligned_cols=29 Identities=41% Similarity=0.804 Sum_probs=24.4
Q ss_pred CCceeEEEe--cCCCchhh-hhhhhccccccc
Q 025198 166 YPWIPVLLD--WRAGELAR-YAAMLVPHQMSM 194 (256)
Q Consensus 166 YPWLP~lLD--wkaGELaR-yvAMLVPHQFs~ 194 (256)
=|.+=||+| |++|.|.| |++||+|-.|+.
T Consensus 115 EP~lnflvdv~w~~GRlvReYTvLLDp~~ysP 146 (755)
T COG3170 115 EPFLNFLVDVEWPAGRLVREYTVLLDPPGYSP 146 (755)
T ss_pred cchhhhheeccccCcceeeeeEEEecCCCCCc
Confidence 367777777 99999999 799999998765
No 9
>PF08667 BetR: BetR domain; InterPro: IPR013975 CheY-like phosphoacceptor (or receiver [REC]) domain is a common module in a variety of response regulators of the bacterial signal transduction systems. BetR is one of the many response regulators and is encoded mainly in Burkholderia spp. It is a N-terminal helix-turn-helix domain (HTH) and has been shown to be related to the XRE-type HTH domain (IPR001387 from INTERPRO), it has been suggested that BetR would have dimerization, protein-protein interaction, and activation/relief-of-inhibition properties [].
Probab=29.47 E-value=53 Score=28.48 Aligned_cols=32 Identities=22% Similarity=0.358 Sum_probs=26.8
Q ss_pred HHhHHHHHhhcCCCCccchHHHHHHHhCCcccc
Q 025198 213 VFVVYTWFKQHNVQKPRLKTSDMARMLGFGIED 245 (256)
Q Consensus 213 vFvL~~WLk~~~i~~~r~~l~~MAqmLGyeLdd 245 (256)
.-.+...|+++||++ |.+.+.||++||.....
T Consensus 7 ~erV~~Ll~~~Gi~k-r~~~s~LA~iL~Is~ss 38 (147)
T PF08667_consen 7 AERVRELLDRKGIPK-RKHASELADILGISYSS 38 (147)
T ss_pred HHHHHHHHHHcCCcc-hhhHHHHHHHHCCCHHH
Confidence 345778899999999 79999999999987654
No 10
>PRK13246 dihydrobiliverdin:ferredoxin oxidoreductase; Provisional
Probab=27.64 E-value=24 Score=32.63 Aligned_cols=53 Identities=15% Similarity=0.263 Sum_probs=33.9
Q ss_pred cccccccccCCCCCCeeEE---EEecCCCCcccccccCCCCCCCCCCCCCCCCceeEEEe-Chhhhhh--cCCchhh
Q 025198 41 TATFSLLHSNRPRGQISVS---VAFNPQGNFDIPMFEDEGNSSKLEPPMPPTEGRFDVVL-ENDAIRS--LDLSPFH 111 (256)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~---v~fnp~gn~d~~~~~~~~~~~~~~p~~ppt~~r~~I~I-~~d~I~~--LDLSPv~ 111 (256)
.+.|..+|.....+|-++. ..+.|.=+|||++|. +.++- ++..|.. |||+|+.
T Consensus 46 ~~~fRk~r~~~~~~G~~lqVLn~V~fP~p~yDLPifG------------------~Dlv~f~~~~~~aaIlDlqPl~ 104 (236)
T PRK13246 46 SPEYRKWRITRLDGGKKLQVFNTVAYPNFKSELPILG------------------ADILWFGTSQKLLAILDYQPLI 104 (236)
T ss_pred CchHHHHHHHHhhcCCCcEEEEEEecCCCCCCCCccc------------------eeeeecCCCceEEEEEeCCCcc
Confidence 3455566655555444443 467899999999992 23332 5555444 9999995
No 11
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=27.33 E-value=71 Score=31.15 Aligned_cols=42 Identities=12% Similarity=0.059 Sum_probs=35.8
Q ss_pred hhcccccccccceeeC-hhHHHHHHHhhHHhHHHHHhhcCCCC
Q 025198 186 MLVPHQMSMKMGIVFN-PEALELFIMNKVFVVYTWFKQHNVQK 227 (256)
Q Consensus 186 MLVPHQFs~~eGI~FN-PEALEifvm~KvFvL~~WLk~~~i~~ 227 (256)
++=-|||.+.|+..|. ||..+-++..=+-...++++..|++-
T Consensus 274 L~Rv~qF~k~E~~~f~~~e~s~~~~~~~l~~~~~i~~~Lglpy 316 (425)
T PRK05431 274 LIRVHQFDKVELVKFTKPEDSYAELEELTANAEEILQKLELPY 316 (425)
T ss_pred eeeeeeeeeeeEEEEECHHHHHHHHHHHHHHHHHHHHHcCCcE
Confidence 3445999999999998 88888888777788888999999987
No 12
>COG5606 Uncharacterized conserved small protein [Function unknown]
Probab=26.92 E-value=74 Score=26.07 Aligned_cols=35 Identities=29% Similarity=0.635 Sum_probs=26.3
Q ss_pred hhHHH-HHHHhhHHh-HHHHHhhcCCCCccchHHHHHHHhCC
Q 025198 202 PEALE-LFIMNKVFV-VYTWFKQHNVQKPRLKTSDMARMLGF 241 (256)
Q Consensus 202 PEALE-ifvm~KvFv-L~~WLk~~~i~~~r~~l~~MAqmLGy 241 (256)
||+-| +++-.+++. +..|++|++..+ +++|..||-
T Consensus 17 ~e~a~~m~ir~~l~~~i~~~i~q~~l~Q-----~qiae~lgV 53 (91)
T COG5606 17 PEAAENMKIRSALMMAIKQWIEQAALSQ-----AQIAELLGV 53 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHhCC
Confidence 56664 888888764 899999988766 567777764
No 13
>smart00530 HTH_XRE Helix-turn-helix XRE-family like proteins.
Probab=25.15 E-value=89 Score=18.64 Aligned_cols=29 Identities=10% Similarity=0.130 Sum_probs=22.1
Q ss_pred hHHHHHhhcCCCCccchHHHHHHHhCCccc
Q 025198 215 VVYTWFKQHNVQKPRLKTSDMARMLGFGIE 244 (256)
Q Consensus 215 vL~~WLk~~~i~~~r~~l~~MAqmLGyeLd 244 (256)
.+..|.+....+. ...+..+++.||.+.+
T Consensus 26 ~i~~~~~~~~~~~-~~~~~~i~~~~~~~~~ 54 (56)
T smart00530 26 TLSRIENGKRKPS-LETLKKLAKALGVSLD 54 (56)
T ss_pred HHHHHHCCCCCCC-HHHHHHHHHHhCCChh
Confidence 4577887766666 6889999999987653
No 14
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=24.86 E-value=94 Score=30.26 Aligned_cols=73 Identities=11% Similarity=0.070 Sum_probs=49.7
Q ss_pred chhhhHhhhcCCCCc--eeEEEecCCCchhhhh---------hhhcccccccccceeeC-hhHHHHHHHhhHHhHHHHHh
Q 025198 154 DIRLWFVRLDAAYPW--IPVLLDWRAGELARYA---------AMLVPHQMSMKMGIVFN-PEALELFIMNKVFVVYTWFK 221 (256)
Q Consensus 154 EvRLWFvRLDA~YPW--LP~lLDwkaGELaRyv---------AMLVPHQFs~~eGI~FN-PEALEifvm~KvFvL~~WLk 221 (256)
|+=+.-+-.|....+ ||+-+- .-|..=|+= -++==|||.+.|+..|. ||..+-++.+=+-...++++
T Consensus 234 E~~~~~~~~~~i~s~~~LPlr~~-~~s~~FR~E~g~~G~~t~GL~Rv~qF~k~E~~~f~~~e~s~~~~~~~~~~~~~i~~ 312 (418)
T TIGR00414 234 EVPLTNLHRNEILEEEELPIKYT-AHSPCFRSEAGSYGKDTKGLIRVHQFNKVELVKFCKPEESAEELEEMTSDAEQILQ 312 (418)
T ss_pred cHHHHHHHhCcCCChHhCCeeEE-EEcccccCCCCccCCCCCccccccceeeeeEEEEcCHHHHHHHHHHHHHHHHHHHH
Confidence 444555555666665 777653 112222221 24556999999999998 88887777777777888899
Q ss_pred hcCCCC
Q 025198 222 QHNVQK 227 (256)
Q Consensus 222 ~~~i~~ 227 (256)
..|++-
T Consensus 313 ~Lglp~ 318 (418)
T TIGR00414 313 ELELPY 318 (418)
T ss_pred HcCCce
Confidence 999997
No 15
>PRK06253 O-phosphoseryl-tRNA synthetase; Reviewed
Probab=24.56 E-value=48 Score=34.14 Aligned_cols=50 Identities=16% Similarity=0.375 Sum_probs=35.5
Q ss_pred eeChhHHHHHHHhhHHhHHHH-HhhcCCCCccchHHHHHHHhCCcccchhhhhhh
Q 025198 199 VFNPEALELFIMNKVFVVYTW-FKQHNVQKPRLKTSDMARMLGFGIEDRLFDLVD 252 (256)
Q Consensus 199 ~FNPEALEifvm~KvFvL~~W-Lk~~~i~~~r~~l~~MAqmLGyeLdd~ff~li~ 252 (256)
||.||||- |-.|.|.|.-. =-.-||+ +.|+.+|..+||-+++++=-+-|.
T Consensus 82 qfg~ea~a--vldr~fyl~glprp~vg~~--~~~~~~i~~~~~~~~~~~~~e~l~ 132 (529)
T PRK06253 82 QFGPEAMA--VLDRCFYLAGLPRPNVGIS--DEKIEQIEEILGRDLSEEKIESLR 132 (529)
T ss_pred hhCHHHHH--HHHHhhhhcCCCCCCCCcC--HHHHHHHHHHhCCCCChhHHHHHH
Confidence 78899974 66777777654 1223343 489999999999999987655443
No 16
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=23.90 E-value=1.3e+02 Score=19.97 Aligned_cols=28 Identities=18% Similarity=0.287 Sum_probs=23.7
Q ss_pred HHhHHHHHhhcCCCCccchHHHHHHHhCC
Q 025198 213 VFVVYTWFKQHNVQKPRLKTSDMARMLGF 241 (256)
Q Consensus 213 vFvL~~WLk~~~i~~~r~~l~~MAqmLGy 241 (256)
+-+|..|+.....|+ ......+|..+|-
T Consensus 12 ~~~Le~~f~~~~~P~-~~~~~~la~~~~l 39 (59)
T cd00086 12 LEELEKEFEKNPYPS-REEREELAKELGL 39 (59)
T ss_pred HHHHHHHHHhCCCCC-HHHHHHHHHHHCc
Confidence 456788888899999 7999999999984
No 17
>TIGR02844 spore_III_D sporulation transcriptional regulator SpoIIID. Members of this protein are the transcriptional regulator SpoIIID, or stage III sporulation protein D. It is present in genomes if and only if the species is capable of endospore formation as occurs in the model species Bacillus subtilis. SpoIIID is a DNA binding protein that, in B. subtilis, downregulates many genes but also turns on ten genes.
Probab=22.83 E-value=1.3e+02 Score=23.55 Aligned_cols=31 Identities=13% Similarity=0.354 Sum_probs=25.7
Q ss_pred HHHhhHHhHHHHHhhcCCCCccchHHHHHHHhCCcc
Q 025198 208 FIMNKVFVVYTWFKQHNVQKPRLKTSDMARMLGFGI 243 (256)
Q Consensus 208 fvm~KvFvL~~WLk~~~i~~~r~~l~~MAqmLGyeL 243 (256)
||.+|...+-+|+.+ |-. .++++|+.+|...
T Consensus 3 ~~~~R~~~I~e~l~~-~~~----ti~dvA~~~gvS~ 33 (80)
T TIGR02844 3 YIEERVLEIGKYIVE-TKA----TVRETAKVFGVSK 33 (80)
T ss_pred cHHHHHHHHHHHHHH-CCC----CHHHHHHHhCCCH
Confidence 677899999999999 543 5899999999754
No 18
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=22.60 E-value=93 Score=20.50 Aligned_cols=15 Identities=27% Similarity=0.795 Sum_probs=12.6
Q ss_pred hHHHHHhhcCCCCcc
Q 025198 215 VVYTWFKQHNVQKPR 229 (256)
Q Consensus 215 vL~~WLk~~~i~~~r 229 (256)
-|.+||+++||+.+.
T Consensus 8 ~L~~wL~~~gi~~~~ 22 (38)
T PF10281_consen 8 DLKSWLKSHGIPVPK 22 (38)
T ss_pred HHHHHHHHcCCCCCC
Confidence 478999999999863
No 19
>PRK13249 phycoerythrobilin:ferredoxin oxidoreductase; Provisional
Probab=22.40 E-value=33 Score=32.09 Aligned_cols=56 Identities=27% Similarity=0.417 Sum_probs=35.2
Q ss_pred cccccccccCCCCCCeeEE---EEecCCCCcccccccCCCCCCCCCCCCCCCCceeEEEeChhhhhhcCCchhhhh
Q 025198 41 TATFSLLHSNRPRGQISVS---VAFNPQGNFDIPMFEDEGNSSKLEPPMPPTEGRFDVVLENDAIRSLDLSPFHSA 113 (256)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~---v~fnp~gn~d~~~~~~~~~~~~~~p~~ppt~~r~~I~I~~d~I~~LDLSPv~~~ 113 (256)
.+.|..+|.-...+|-++. ..+.|+=+|||++|. -| -|...+..+-.|||+|+..-
T Consensus 69 ~~~fRk~r~~~~~~G~~lqVLn~V~fP~p~yDLPiFG-aD----------------lv~~~~~~~lalDlqPl~~~ 127 (257)
T PRK13249 69 TEKIRQVRAACVEAGEAASVLNFVINPSNRFDLPFFG-AD----------------LVTLPNGHLLALDLQPALKT 127 (257)
T ss_pred ChHHHHHHHHHhhcCCCcEEEEEEecCCcCCCCCccc-ee----------------eeecCCceEEEEecCccccc
Confidence 3556666666555544443 467899999999992 22 23333333344999999844
No 20
>PRK09943 DNA-binding transcriptional repressor PuuR; Provisional
Probab=21.81 E-value=65 Score=27.04 Aligned_cols=34 Identities=9% Similarity=0.170 Sum_probs=28.8
Q ss_pred HHhHHHHHhhcCCCCccchHHHHHHHhCCcccchhh
Q 025198 213 VFVVYTWFKQHNVQKPRLKTSDMARMLGFGIEDRLF 248 (256)
Q Consensus 213 vFvL~~WLk~~~i~~~r~~l~~MAqmLGyeLdd~ff 248 (256)
--.|.+|.+....++ ...+..+|+.||..++. ||
T Consensus 34 ~~~is~~E~g~~~p~-~~~l~~ia~~l~v~~~~-l~ 67 (185)
T PRK09943 34 HSAISTIEQDKVSPA-ISTLQKLLKVYGLSLSE-FF 67 (185)
T ss_pred HHHHHHHHcCCCCCC-HHHHHHHHHHhCCCHHH-Hc
Confidence 345889998888888 69999999999999986 54
No 21
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=21.80 E-value=63 Score=22.15 Aligned_cols=31 Identities=10% Similarity=0.045 Sum_probs=20.0
Q ss_pred HhHHHHHhhc-CCCCccchHHHHHHHhCCcccc
Q 025198 214 FVVYTWFKQH-NVQKPRLKTSDMARMLGFGIED 245 (256)
Q Consensus 214 FvL~~WLk~~-~i~~~r~~l~~MAqmLGyeLdd 245 (256)
-.|++|++.. ...+ -..+..+|..||..+++
T Consensus 25 ~tl~~~~~~~~~~~~-~~~l~~ia~~l~~~~~e 56 (63)
T PF13443_consen 25 STLSRILNGKPSNPS-LDTLEKIAKALNCSPEE 56 (63)
T ss_dssp HHHHHHHTTT------HHHHHHHHHHHT--HHH
T ss_pred HHHHHHHhccccccc-HHHHHHHHHHcCCCHHH
Confidence 3578888877 4555 58899999999998764
No 22
>PRK09726 antitoxin HipB; Provisional
Probab=21.68 E-value=92 Score=23.46 Aligned_cols=31 Identities=3% Similarity=-0.029 Sum_probs=25.5
Q ss_pred HhHHHHHhhcCCCCccchHHHHHHHhCCcccc
Q 025198 214 FVVYTWFKQHNVQKPRLKTSDMARMLGFGIED 245 (256)
Q Consensus 214 FvL~~WLk~~~i~~~r~~l~~MAqmLGyeLdd 245 (256)
-.+.+|.+....++ -.++..+|+.||..++-
T Consensus 40 ~tis~~e~g~~~ps-~~~l~~ia~~lgv~~~~ 70 (88)
T PRK09726 40 ATISNFENNPDNTT-LTTFFKILQSLELSMTL 70 (88)
T ss_pred HHHHHHHCCCCCCC-HHHHHHHHHHcCCCcch
Confidence 35788888776777 58999999999998776
No 23
>PLN02320 seryl-tRNA synthetase
Probab=21.59 E-value=1.1e+02 Score=31.20 Aligned_cols=41 Identities=22% Similarity=0.162 Sum_probs=36.8
Q ss_pred hcccccccccceeeC-hhHHHHHHHhhHHhHHHHHhhcCCCC
Q 025198 187 LVPHQMSMKMGIVFN-PEALELFIMNKVFVVYTWFKQHNVQK 227 (256)
Q Consensus 187 LVPHQFs~~eGI~FN-PEALEifvm~KvFvL~~WLk~~~i~~ 227 (256)
.==|||+..|..+|- ||..+-++.+=+-...+.++..|++-
T Consensus 338 ~RvhQF~KvE~~if~~peqs~~e~e~ll~~~e~i~~~LgLpy 379 (502)
T PLN02320 338 YRVHQFSKVEMFVICRPEESESFHEELIQIEEDLFTSLGLHF 379 (502)
T ss_pred eeeeeeecccEEEEECHHHHHHHHHHHHHHHHHHHHHcCCCe
Confidence 345999999999998 99999888888889999999999986
No 24
>PF04304 DUF454: Protein of unknown function (DUF454); InterPro: IPR007401 This is a predicted membrane protein.
Probab=21.25 E-value=77 Score=22.93 Aligned_cols=31 Identities=13% Similarity=0.433 Sum_probs=24.8
Q ss_pred HHHhhHHh--HHHHHhhcCCCCccchHHHHHHHh
Q 025198 208 FIMNKVFV--VYTWFKQHNVQKPRLKTSDMARML 239 (256)
Q Consensus 208 fvm~KvFv--L~~WLk~~~i~~~r~~l~~MAqmL 239 (256)
++.||+|. +.+|-++++++. +.|...++-|.
T Consensus 5 l~~h~~~g~~I~~w~~~r~i~~-k~K~~a~~~m~ 37 (71)
T PF04304_consen 5 LLNHRLFGPYIRNWEEHRGIPR-KAKIRALLMMW 37 (71)
T ss_pred HHcCchhHHHHHHHHHCCCcCH-HHHHHHHHHHH
Confidence 35577775 899999999999 79988776654
No 25
>PF10593 Z1: Z1 domain; InterPro: IPR018310 This entry represents the Z1 domain of unknown function that is found in a group of putative endonucleases. This domain is found associated with a helicase domain of superfamily type II [].
Probab=21.04 E-value=44 Score=30.20 Aligned_cols=15 Identities=20% Similarity=0.271 Sum_probs=12.9
Q ss_pred chHHHHHHHhCCccc
Q 025198 230 LKTSDMARMLGFGIE 244 (256)
Q Consensus 230 ~~l~~MAqmLGyeLd 244 (256)
--|.|||++|||.=+
T Consensus 167 DTL~QmgRwFGYR~g 181 (239)
T PF10593_consen 167 DTLMQMGRWFGYRPG 181 (239)
T ss_pred HHHHHHhhcccCCcc
Confidence 468999999999876
No 26
>cd00093 HTH_XRE Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.
Probab=20.37 E-value=1.3e+02 Score=18.06 Aligned_cols=30 Identities=10% Similarity=0.104 Sum_probs=22.1
Q ss_pred HhHHHHHhhcCCCCccchHHHHHHHhCCccc
Q 025198 214 FVVYTWFKQHNVQKPRLKTSDMARMLGFGIE 244 (256)
Q Consensus 214 FvL~~WLk~~~i~~~r~~l~~MAqmLGyeLd 244 (256)
-.++.|.+....+. ...+..+++.||.+.+
T Consensus 27 ~~v~~~~~g~~~~~-~~~~~~i~~~~~~~~~ 56 (58)
T cd00093 27 STISRIENGKRNPS-LETLEKLAKALGVSLD 56 (58)
T ss_pred HHHHHHHcCCCCCC-HHHHHHHHHHhCCChh
Confidence 45678887766666 5888999999986543
No 27
>PF00400 WD40: WD domain, G-beta repeat; InterPro: IPR019781 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events.; PDB: 2ZKQ_a 3CFV_B 3CFS_B 1PEV_A 1NR0_A 1VYH_T 3RFH_A 3O2Z_T 3FRX_C 3U5G_g ....
Probab=20.35 E-value=62 Score=19.55 Aligned_cols=21 Identities=33% Similarity=0.425 Sum_probs=15.5
Q ss_pred CeeEEEEecCCCCcccccccC
Q 025198 55 QISVSVAFNPQGNFDIPMFED 75 (256)
Q Consensus 55 ~~~~~v~fnp~gn~d~~~~~~ 75 (256)
+---+|+|+|+|++=++-..|
T Consensus 12 ~~i~~i~~~~~~~~~~s~~~D 32 (39)
T PF00400_consen 12 SSINSIAWSPDGNFLASGSSD 32 (39)
T ss_dssp SSEEEEEEETTSSEEEEEETT
T ss_pred CcEEEEEEecccccceeeCCC
Confidence 344589999999987776643
No 28
>PF03534 SpvB: Salmonella virulence plasmid 65kDa B protein
Probab=20.18 E-value=1.1e+02 Score=28.80 Aligned_cols=57 Identities=26% Similarity=0.399 Sum_probs=41.2
Q ss_pred eEEEEeecCCCCCCCccccCCCchhhhHhhhcCCCCceeEEEecCCCchhhhhhhhccccc
Q 025198 132 IGFTINYTREDPRDPRELSEFPDIRLWFVRLDAAYPWIPVLLDWRAGELARYAAMLVPHQM 192 (256)
Q Consensus 132 L~F~i~ypr~dp~DPRELSEIPEvRLWFvRLDA~YPWLP~lLDwkaGELaRyvAMLVPHQF 192 (256)
.++.||| .|-+.++-...+..+.+=|-+|-|+-==|=+= .+-|+-.|||-|-|. |.|
T Consensus 237 f~lvfDY-Ge~~~~~~~~p~~~~~~~W~~R~D~fs~y~~G-Fevrt~RlC~~vlmf--h~f 293 (293)
T PF03534_consen 237 FELVFDY-GERDLDPPTPPAFNASRPWPVRPDPFSRYRYG-FEVRTRRLCRQVLMF--HHF 293 (293)
T ss_pred EEEEEEc-CCCCCCCCCCCCCCcCCCCcCCCCcccccccc-eeeehhhHHHHhhhh--ccC
Confidence 4558888 33466666666777799999999986555444 566777899998875 665
Done!