Query 027252
Match_columns 226
No_of_seqs 41 out of 43
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 07:10:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027252.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027252hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00137 gid_trmFO tRNA:m(5)U 65.8 13 0.00029 36.1 5.5 57 74-164 254-312 (433)
2 PF01134 GIDA: Glucose inhibit 55.4 26 0.00056 33.8 5.5 56 75-164 282-339 (392)
3 PF11983 DUF3484: Domain of un 52.9 9.5 0.00021 28.8 1.7 15 185-199 57-71 (73)
4 PRK05335 tRNA (uracil-5-)-meth 50.7 18 0.00038 35.5 3.6 55 76-164 257-313 (436)
5 PF06243 PaaB: Phenylacetic ac 45.5 38 0.00083 26.9 4.1 28 76-103 3-30 (94)
6 PRK05192 tRNA uridine 5-carbox 41.7 30 0.00066 35.3 3.8 52 79-164 290-343 (618)
7 TIGR02157 PA_CoA_Oxy2 phenylac 39.8 45 0.00098 26.6 3.7 36 77-112 2-37 (90)
8 COG1334 FlaG Uncharacterized f 38.0 73 0.0016 26.5 4.9 57 135-198 48-114 (120)
9 PF12153 CAP18_C: LPS binding 37.5 19 0.00041 23.3 1.1 15 184-198 14-28 (28)
10 PF07447 VP40: Matrix protein 35.6 13 0.00028 34.8 0.1 32 85-116 89-127 (295)
11 PRK13781 paaB phenylacetate-Co 34.5 82 0.0018 25.4 4.5 37 76-112 6-42 (95)
12 PF03646 FlaG: FlaG protein; 33.9 1.2E+02 0.0027 23.1 5.3 59 133-198 34-102 (107)
13 PRK07738 flagellar protein Fla 33.8 1.2E+02 0.0027 24.9 5.5 57 134-197 44-110 (117)
14 COG1169 MenF Isochorismate syn 30.9 64 0.0014 31.8 4.0 50 70-151 364-418 (423)
15 COG0623 FabI Enoyl-[acyl-carri 29.1 91 0.002 29.1 4.4 63 120-210 17-89 (259)
16 TIGR00136 gidA glucose-inhibit 24.2 1.1E+02 0.0024 31.5 4.4 67 64-164 268-341 (617)
17 PRK08452 flagellar protein Fla 23.7 2.2E+02 0.0048 23.5 5.4 58 132-197 49-117 (124)
18 PRK12270 kgd alpha-ketoglutara 23.1 46 0.00099 36.7 1.6 86 78-210 922-1011(1228)
19 PRK11436 biofilm-dependent mod 21.0 60 0.0013 24.7 1.4 19 107-125 44-62 (71)
20 PF07024 ImpE: ImpE protein; 20.3 72 0.0016 26.4 1.9 22 76-99 16-37 (123)
No 1
>TIGR00137 gid_trmFO tRNA:m(5)U-54 methyltransferase. This model represents an orthologous set of proteins present in relatively few bacteria but very tightly conserved where it occurs. It is closely related to gidA (glucose-inhibited division protein A), which appears to be present in all complete eubacterial genomes so far and in Saccharomyces cerevisiae. It was designated gid but is now recognized as a tRNA:m(5)U-54 methyltransferase and is now designated trmFO.
Probab=65.84 E-value=13 Score=36.12 Aligned_cols=57 Identities=23% Similarity=0.244 Sum_probs=47.8
Q ss_pred CCCceEEEEEEecCCc--ceeeceeeccCchHHHHHHHhhcchhhhhhHHHHHHHHHHHHhhcHHHHHHHHHHhchhhhc
Q 027252 74 DGNPRFVIFIRMANVY--LWYPLSIITGGTTAKIMVAAKDNFLGKYIYKDTLARNLAAVIYRDEKEIQKTAFKQFRVLQS 151 (226)
Q Consensus 74 dGnp~FvIFVR~kg~~--~WyPlgvvaGg~~Ak~lV~a~dn~lgk~iyk~tL~~nIa~aIYkdee~L~k~a~R~yP~Lk~ 151 (226)
.+.|.=+||+|.-|.+ .||++|.=|.= ..+.++.++|+-|-|.+
T Consensus 254 ~~~~~~~v~l~~e~~~~~~~~~~G~~t~l----------------------------------~~~~Q~~~~r~ipgle~ 299 (433)
T TIGR00137 254 GKKPYAVVQLRQEDKAGTLWNMVGFQTNL----------------------------------RWGEQKRVFRLIPGLEN 299 (433)
T ss_pred CCCCceEEEEeccccCCCEEecccccCCC----------------------------------CHHHHHHHHhcCcCccc
Confidence 3478899999999776 99999875432 24678889999999999
Q ss_pred ccceeeeeEEeec
Q 027252 152 ATEFRYGYKLVEN 164 (226)
Q Consensus 152 ~~efEYGYKl~dk 164 (226)
++=++|||.+++.
T Consensus 300 a~~~r~g~~~~~~ 312 (433)
T TIGR00137 300 AEFVRMGVMHRNT 312 (433)
T ss_pred eEEeecceEEeee
Confidence 9999999999876
No 2
>PF01134 GIDA: Glucose inhibited division protein A; InterPro: IPR002218 GidA is a tRNA modification enzyme found in bacteria and mitochondria. Though its precise molecular function of these proteins is not known, it is involved in the 5-carboxymethylaminomethyl modification of the wobble uridine base in some tRNAs [, ]. Sequence variations in the human mitochondrial protein may influence the severity of aminoglycoside-induced deafness []. This entry is found in GidA and related proteins, such as the methylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase enzyme TrmFO.; GO: 0050660 flavin adenine dinucleotide binding, 0008033 tRNA processing; PDB: 3CES_C 3CP2_A 3G05_A 2CUL_A 3CP8_A 2ZXI_B 2ZXH_A 3G5S_A 3G5R_A 3G5Q_A.
Probab=55.43 E-value=26 Score=33.83 Aligned_cols=56 Identities=23% Similarity=0.364 Sum_probs=42.6
Q ss_pred CCceEEEEEEecCCc--ceeeceeeccCchHHHHHHHhhcchhhhhhHHHHHHHHHHHHhhcHHHHHHHHHHhchhhhcc
Q 027252 75 GNPRFVIFIRMANVY--LWYPLSIITGGTTAKIMVAAKDNFLGKYIYKDTLARNLAAVIYRDEKEIQKTAFKQFRVLQSA 152 (226)
Q Consensus 75 Gnp~FvIFVR~kg~~--~WyPlgvvaGg~~Ak~lV~a~dn~lgk~iyk~tL~~nIa~aIYkdee~L~k~a~R~yP~Lk~~ 152 (226)
..|.=+||+|.-|.+ .|||.|.=|.= ..++++.++|+.|-|.++
T Consensus 282 ~~~~h~v~Lepe~~~~~~~y~~G~stsl----------------------------------p~~~Q~~~~r~IpGLe~a 327 (392)
T PF01134_consen 282 DRPYHQVFLEPEGLNTNEYYPNGFSTSL----------------------------------PWDVQKRIFRSIPGLENA 327 (392)
T ss_dssp STSSEEEEEEESSTTS-EEEEETS-CSS-----------------------------------HHHHHHHHTTSTTTTT-
T ss_pred CCCCEEEEEEecCCCCceEEecCCcCCC----------------------------------CHHHHHHHhhcCCChhcC
Confidence 378889999998665 99999875432 356788899999999999
Q ss_pred cceeeeeEEeec
Q 027252 153 TEFRYGYKLVEN 164 (226)
Q Consensus 153 ~efEYGYKl~dk 164 (226)
.=++|||.+.+.
T Consensus 328 ~~~r~Gy~~ey~ 339 (392)
T PF01134_consen 328 EILRPGYAHEYD 339 (392)
T ss_dssp -EEE--EEEEEE
T ss_pred hhhheEEeeeee
Confidence 999999999987
No 3
>PF11983 DUF3484: Domain of unknown function (DUF3484); InterPro: IPR021873 FtsA is essential for bacterial cell division, and co-localizes to the septal ring with FtsZ. It has been suggested that the interaction of FtsA-FtsZ has arisen through coevolution in different bacterial strains []. This C-terminal domain is found in FtsA from Firmicutes (Gram-positive bacteria). It is typically between 65 to 81 amino acids in length.
Probab=52.91 E-value=9.5 Score=28.76 Aligned_cols=15 Identities=33% Similarity=0.749 Sum_probs=13.1
Q ss_pred chhhHHHHHhHHHHH
Q 027252 185 LKTVLDKVKDFFGDA 199 (226)
Q Consensus 185 lkt~~dkVkdff~~~ 199 (226)
-..+.|+||+|||+|
T Consensus 57 k~kltdRvR~~fgsm 71 (73)
T PF11983_consen 57 KEKLTDRVRGFFGSM 71 (73)
T ss_pred CCcHHHHHHHHHhhh
Confidence 467999999999986
No 4
>PRK05335 tRNA (uracil-5-)-methyltransferase Gid; Reviewed
Probab=50.69 E-value=18 Score=35.50 Aligned_cols=55 Identities=25% Similarity=0.260 Sum_probs=45.1
Q ss_pred CceEEEEEEecCCc--ceeeceeeccCchHHHHHHHhhcchhhhhhHHHHHHHHHHHHhhcHHHHHHHHHHhchhhhccc
Q 027252 76 NPRFVIFIRMANVY--LWYPLSIITGGTTAKIMVAAKDNFLGKYIYKDTLARNLAAVIYRDEKEIQKTAFKQFRVLQSAT 153 (226)
Q Consensus 76 np~FvIFVR~kg~~--~WyPlgvvaGg~~Ak~lV~a~dn~lgk~iyk~tL~~nIa~aIYkdee~L~k~a~R~yP~Lk~~~ 153 (226)
.|-=+||+|.-|.. .||++|.=|.= ....++.++|+-|-|..+.
T Consensus 257 ~~~a~v~L~~e~~~~~~~~~~Gfqt~l----------------------------------~~~~Q~~~~r~Ipgle~a~ 302 (436)
T PRK05335 257 RPYAVVQLRQDNAAGTLYNIVGFQTKL----------------------------------KWGEQKRVFRMIPGLENAE 302 (436)
T ss_pred CcceEEEEecCCCCCCeEecccccCCC----------------------------------CHHHHHHHHhcccchhceE
Confidence 45559999999776 99999875432 2457888999999999999
Q ss_pred ceeeeeEEeec
Q 027252 154 EFRYGYKLVEN 164 (226)
Q Consensus 154 efEYGYKl~dk 164 (226)
=.+|||.+++.
T Consensus 303 ~~r~G~~~~~~ 313 (436)
T PRK05335 303 FVRYGVMHRNT 313 (436)
T ss_pred EEeceEEeecc
Confidence 99999988776
No 5
>PF06243 PaaB: Phenylacetic acid degradation B; InterPro: IPR009359 Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation [, ]. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA [].; PDB: 3EGR_A.
Probab=45.51 E-value=38 Score=26.85 Aligned_cols=28 Identities=11% Similarity=0.141 Sum_probs=18.6
Q ss_pred CceEEEEEEecCCcceeeceeeccCchH
Q 027252 76 NPRFVIFIRMANVYLWYPLSIITGGTTA 103 (226)
Q Consensus 76 np~FvIFVR~kg~~~WyPlgvvaGg~~A 103 (226)
-|.|+||+|.+....=-=||.|--.+..
T Consensus 3 ~~~~EVF~r~~~g~~~~HvGsV~A~d~e 30 (94)
T PF06243_consen 3 WPLWEVFVRSKPGLPHQHVGSVHAPDPE 30 (94)
T ss_dssp --EEEEEEE-TT-SS-EEEEEEE-SSHH
T ss_pred CceEEEEEECCCCCCceEEeeeeCCCHH
Confidence 4789999999977777789999777664
No 6
>PRK05192 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated
Probab=41.69 E-value=30 Score=35.34 Aligned_cols=52 Identities=23% Similarity=0.324 Sum_probs=44.7
Q ss_pred EEEEEEecCCc--ceeeceeeccCchHHHHHHHhhcchhhhhhHHHHHHHHHHHHhhcHHHHHHHHHHhchhhhccccee
Q 027252 79 FVIFIRMANVY--LWYPLSIITGGTTAKIMVAAKDNFLGKYIYKDTLARNLAAVIYRDEKEIQKTAFKQFRVLQSATEFR 156 (226)
Q Consensus 79 FvIFVR~kg~~--~WyPlgvvaGg~~Ak~lV~a~dn~lgk~iyk~tL~~nIa~aIYkdee~L~k~a~R~yP~Lk~~~efE 156 (226)
-+||+|.-|.+ .|||.|+=|. =..+++..++|+.|-|.++.=++
T Consensus 290 h~v~lepeg~~~~~~y~~G~sts----------------------------------lp~~~Q~~~~r~ipGle~a~i~r 335 (618)
T PRK05192 290 HQIFLEPEGLDTNEVYPNGISTS----------------------------------LPEDVQLEMLRSIPGLENAEILR 335 (618)
T ss_pred ceEEEecCCCCCCEEeccCccCC----------------------------------CCHHHHHHHHhcCcCccceeEee
Confidence 49999999776 9999987543 23678889999999999999999
Q ss_pred eeeEEeec
Q 027252 157 YGYKLVEN 164 (226)
Q Consensus 157 YGYKl~dk 164 (226)
|||-+.+.
T Consensus 336 ~gy~ieyd 343 (618)
T PRK05192 336 PGYAIEYD 343 (618)
T ss_pred cccceeec
Confidence 99999988
No 7
>TIGR02157 PA_CoA_Oxy2 phenylacetate-CoA oxygenase, PaaH subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=39.76 E-value=45 Score=26.59 Aligned_cols=36 Identities=17% Similarity=0.289 Sum_probs=26.9
Q ss_pred ceEEEEEEecCCcceeeceeeccCchHHHHHHHhhc
Q 027252 77 PRFVIFIRMANVYLWYPLSIITGGTTAKIMVAAKDN 112 (226)
Q Consensus 77 p~FvIFVR~kg~~~WyPlgvvaGg~~Ak~lV~a~dn 112 (226)
|.|+||||.+..-.=-=||+|--.+.--+|..|-|.
T Consensus 2 p~wEVFvr~~~g~~h~HvGSvhA~d~e~Al~~Ard~ 37 (90)
T TIGR02157 2 PLYEVFVRGKSGLPHQHVGSLHAPDEEMALMMARDN 37 (90)
T ss_pred CceEEEEecCCCCCcceEeeeeCCCHHHHHHHHHHH
Confidence 789999999988877788988777665445444443
No 8
>COG1334 FlaG Uncharacterized flagellar protein FlaG [Cell motility and secretion]
Probab=38.01 E-value=73 Score=26.50 Aligned_cols=57 Identities=19% Similarity=0.420 Sum_probs=40.3
Q ss_pred HHHHHHHHHHhchhhhc-ccceeeee---------EEeecCccccccCCCCeeecCCCCcchhhHHHHHhHHHH
Q 027252 135 EKEIQKTAFKQFRVLQS-ATEFRYGY---------KLVENGNLRAALSTSDVIELPTPDKLKTVLDKVKDFFGD 198 (226)
Q Consensus 135 ee~L~k~a~R~yP~Lk~-~~efEYGY---------Kl~dk~np~s~l~~~dvi~iP~~eelkt~~dkVkdff~~ 198 (226)
+++|.+...+.--.|+. .+.++|+| +|.|+. +.+||.=-||+++--++..+.|+.|-
T Consensus 48 ~e~L~~~v~~ink~~k~~nt~l~F~~dd~lg~~vVkI~d~~-------TgeVIRqIPpee~L~l~~r~~d~~gi 114 (120)
T COG1334 48 KEKLALIVEDINKLLKSLNTHLNFSYDDELGELVVKIIDKD-------TGEVIRQIPPEEALELAARMRDVIGI 114 (120)
T ss_pred HHHHHHHHHHHHHHHHhhcCceEEEEecccCcEEEEEEECC-------CCcchhhCChHHHHHHHHHHHHhhhh
Confidence 45788877777777776 88999998 677874 66776544455665667777776653
No 9
>PF12153 CAP18_C: LPS binding domain of CAP18 (C terminal); InterPro: IPR022746 This entry represents the cathlecidin antimicrobial C-terminal peptides. The C terminus is cleaved from the cathlecidin precursor, and is approximately 30 amino acids in length with a helical structure. This entry is found in association with PF00666 from PFAM. The C terminus peptides possess antimicrobial activity by virtue of their binding to bacterial lipopolysaccharides [][].; GO: 0042742 defense response to bacterium; PDB: 1LYP_A 2LMF_A 2FBU_H 2FBS_N 2K6O_A 2FCG_F.
Probab=37.55 E-value=19 Score=23.34 Aligned_cols=15 Identities=60% Similarity=1.046 Sum_probs=12.4
Q ss_pred cchhhHHHHHhHHHH
Q 027252 184 KLKTVLDKVKDFFGD 198 (226)
Q Consensus 184 elkt~~dkVkdff~~ 198 (226)
+++.+..++||||++
T Consensus 14 klkkIGQkIKDff~~ 28 (28)
T PF12153_consen 14 KLKKIGQKIKDFFGN 28 (28)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhcC
Confidence 467889999999974
No 10
>PF07447 VP40: Matrix protein VP40; InterPro: IPR008986 Ebola virus sp. are non-segmented, negative-strand RNA viruses that causes severe haemorrhagic fever in humans with high rates of mortality. The virus matrix protein VP40 is a major structural protein that plays a central role in virus assembly and budding at the plasma membrane of infected cells. VP40 proteins associate with cellular membranes, interact with the cytoplasmic tails of glycoproteins, and bind to the ribonucleoprotein complex. The VP40 monomer consists of two domains, the N-terminal oligomerization domain and the C-terminal membrane-binding domain, connected by a flexible linker. Both the N- and C-terminal domains fold into beta sandwich structures of similar topology []. Within the N-terminal domain are two overlapping L-domains with the sequences PTAP and PPEY at residues 7 to13, which are required for efficient budding []. L-domains are thought to mediate their function in budding through their interaction with specific host cellular proteins, such as tsg101 and vps-4 []. ; PDB: 1H2D_B 1H2C_A 1ES6_A.
Probab=35.57 E-value=13 Score=34.79 Aligned_cols=32 Identities=38% Similarity=0.633 Sum_probs=22.4
Q ss_pred ecCCcceeeceeeccC------chHHHHHHHh-hcchhh
Q 027252 85 MANVYLWYPLSIITGG------TTAKIMVAAK-DNFLGK 116 (226)
Q Consensus 85 ~kg~~~WyPlgvvaGg------~~Ak~lV~a~-dn~lgk 116 (226)
.|+.+.|+|||+..-. ++|.+|.+++ ..-||+
T Consensus 89 mK~iP~WLPLGva~q~~YsfdsT~aAim~aSYTIThFg~ 127 (295)
T PF07447_consen 89 MKQIPIWLPLGVADQKTYSFDSTTAAIMLASYTITHFGK 127 (295)
T ss_dssp EEEEEEEEEEEEEETTTS-HHHHHHHHHCS-EEEEEES-
T ss_pred hhcCceeeeccccccceecchhHHHHHhhhceeeeeecc
Confidence 4588899999999765 6777777774 555554
No 11
>PRK13781 paaB phenylacetate-CoA oxygenase subunit PaaB; Provisional
Probab=34.52 E-value=82 Score=25.42 Aligned_cols=37 Identities=14% Similarity=0.194 Sum_probs=27.9
Q ss_pred CceEEEEEEecCCcceeeceeeccCchHHHHHHHhhc
Q 027252 76 NPRFVIFIRMANVYLWYPLSIITGGTTAKIMVAAKDN 112 (226)
Q Consensus 76 np~FvIFVR~kg~~~WyPlgvvaGg~~Ak~lV~a~dn 112 (226)
-|.|++|||.+..-.--=||+|--.+..-+|..|-|.
T Consensus 6 w~~wEVFvr~~~g~~h~HvGSvhApd~e~Al~~Ar~~ 42 (95)
T PRK13781 6 WPLWEVFVRSKQGLSHKHVGSLHAADAEMALRNARDV 42 (95)
T ss_pred CceEEEEEecCCCCCcceEeeeeCCCHHHHHHHHHHH
Confidence 6999999999988877788999777765444444433
No 12
>PF03646 FlaG: FlaG protein; InterPro: IPR005186 Although these proteins are known to be important for flagellar their exact function is unknown.; PDB: 2HC5_A.
Probab=33.90 E-value=1.2e+02 Score=23.13 Aligned_cols=59 Identities=22% Similarity=0.440 Sum_probs=34.1
Q ss_pred hcHHHHHHHHHHhchhhhc-ccceeeee---------EEeecCccccccCCCCeeecCCCCcchhhHHHHHhHHHH
Q 027252 133 RDEKEIQKTAFKQFRVLQS-ATEFRYGY---------KLVENGNLRAALSTSDVIELPTPDKLKTVLDKVKDFFGD 198 (226)
Q Consensus 133 kdee~L~k~a~R~yP~Lk~-~~efEYGY---------Kl~dk~np~s~l~~~dvi~iP~~eelkt~~dkVkdff~~ 198 (226)
-++++|.+++-+.-..+.. ...|+|.+ +++|.+ +++||-=-|++++-..+.+++++.|-
T Consensus 34 ~~~e~l~~~v~~ln~~~~~~~~~l~F~vde~~~~~vVkViD~~-------T~eVIRqIP~Ee~l~l~~~l~e~~Gl 102 (107)
T PF03646_consen 34 PSKEELEEAVEKLNEFLQALNTSLRFSVDEESGRVVVKVIDKE-------TGEVIRQIPPEELLDLAKRLRELVGL 102 (107)
T ss_dssp --HHHHHHHHHHHHHHHTTSS--EEEEEEEETTEEEEEEEETT-------T-SEEEEE-HHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHhcCCceEEEEecCCCcEEEEEEECC-------CCcEEEeCCcHHHHHHHHHHHHHhce
Confidence 3667788877777666665 56677664 566664 67776433444665566677666553
No 13
>PRK07738 flagellar protein FlaG; Provisional
Probab=33.81 E-value=1.2e+02 Score=24.87 Aligned_cols=57 Identities=19% Similarity=0.411 Sum_probs=35.9
Q ss_pred cHHHHHHHHHHhchhhhc-ccceeeee---------EEeecCccccccCCCCeeecCCCCcchhhHHHHHhHHH
Q 027252 134 DEKEIQKTAFKQFRVLQS-ATEFRYGY---------KLVENGNLRAALSTSDVIELPTPDKLKTVLDKVKDFFG 197 (226)
Q Consensus 134 dee~L~k~a~R~yP~Lk~-~~efEYGY---------Kl~dk~np~s~l~~~dvi~iP~~eelkt~~dkVkdff~ 197 (226)
++++|.+++-+.--.|.. ...|+|.| +++|.. +++||-=-|++++-..+.++.++.|
T Consensus 44 s~eel~~aveklN~~l~~~~~~L~F~vdeet~~~vVkVvD~~-------T~EVIRQIPpEe~L~l~~~m~e~~G 110 (117)
T PRK07738 44 SKEDLEEVVDGMNELLEPSQTSLKFELHEKLNEYYVQVVDER-------TNEVIREIPPKKLLDMYAAMMEFVG 110 (117)
T ss_pred CHHHHHHHHHHHHHHHHhcCCceEEEEecCCCcEEEEEEECC-------CCeeeeeCCCHHHHHHHHHHHHHhc
Confidence 456777777666666665 67888887 566664 5676644444455555666666544
No 14
>COG1169 MenF Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=30.91 E-value=64 Score=31.77 Aligned_cols=50 Identities=30% Similarity=0.459 Sum_probs=40.8
Q ss_pred CCCCCCCceEEEEEEec-----CCcceeeceeeccCchHHHHHHHhhcchhhhhhHHHHHHHHHHHHhhcHHHHHHHHHH
Q 027252 70 KIEDDGNPRFVIFIRMA-----NVYLWYPLSIITGGTTAKIMVAAKDNFLGKYIYKDTLARNLAAVIYRDEKEIQKTAFK 144 (226)
Q Consensus 70 ~i~~dGnp~FvIFVR~k-----g~~~WyPlgvvaGg~~Ak~lV~a~dn~lgk~iyk~tL~~nIa~aIYkdee~L~k~a~R 144 (226)
=++..||-+|++=||++ ....|==||||.|.+.- ++++++-.|
T Consensus 364 w~D~~GngEf~VaIRsA~i~~~~~rlfAGaGIV~~SdP~--------------------------------~E~~Et~~K 411 (423)
T COG1169 364 WCDSEGNGEFVVAIRSALISGNQVRLFAGAGIVAGSDPE--------------------------------EEWRETDLK 411 (423)
T ss_pred eeccCCCeEEEEEEEEEEEeCCEEEEEccCcccCCCChH--------------------------------HHHHHHHHH
Confidence 36788999999999999 33488899999998874 778888888
Q ss_pred hchhhhc
Q 027252 145 QFRVLQS 151 (226)
Q Consensus 145 ~yP~Lk~ 151 (226)
.-++|+.
T Consensus 412 l~tml~a 418 (423)
T COG1169 412 LATMLRA 418 (423)
T ss_pred HHHHHHH
Confidence 7777764
No 15
>COG0623 FabI Enoyl-[acyl-carrier-protein]
Probab=29.11 E-value=91 Score=29.14 Aligned_cols=63 Identities=21% Similarity=0.332 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHh----------hcHHHHHHHHHHhchhhhcccceeeeeEEeecCccccccCCCCeeecCCCCcchhhH
Q 027252 120 KDTLARNLAAVIY----------RDEKEIQKTAFKQFRVLQSATEFRYGYKLVENGNLRAALSTSDVIELPTPDKLKTVL 189 (226)
Q Consensus 120 k~tL~~nIa~aIY----------kdee~L~k~a~R~yP~Lk~~~efEYGYKl~dk~np~s~l~~~dvi~iP~~eelkt~~ 189 (226)
.+++.|.||+++. +++ +|++.+...-+.|.. +++.|=||.. -
T Consensus 17 ~rSIAwGIAk~l~~~GAeL~fTy~~e-~l~krv~~la~~~~s-----------------~~v~~cDV~~----------d 68 (259)
T COG0623 17 NRSIAWGIAKALAEQGAELAFTYQGE-RLEKRVEELAEELGS-----------------DLVLPCDVTN----------D 68 (259)
T ss_pred cccHHHHHHHHHHHcCCEEEEEeccH-HHHHHHHHHHhhccC-----------------CeEEecCCCC----------H
Confidence 5789999999985 443 666655544333331 1122223322 2
Q ss_pred HHHHhHHHHHHHhhcccccCC
Q 027252 190 DKVKDFFGDAKESFGKITALN 210 (226)
Q Consensus 190 dkVkdff~~~k~~fg~~~~~~ 210 (226)
+.+..-|..+++-||+|-.+.
T Consensus 69 ~~i~~~f~~i~~~~g~lD~lV 89 (259)
T COG0623 69 ESIDALFATIKKKWGKLDGLV 89 (259)
T ss_pred HHHHHHHHHHHHhhCcccEEE
Confidence 367778888889999887764
No 16
>TIGR00136 gidA glucose-inhibited division protein A. GidA, the longer of two forms of GidA-related proteins, appears to be present in all complete eubacterial genomes so far, as well as Saccharomyces cerevisiae. A subset of these organisms have a closely related protein. GidA is absent in the Archaea. It appears to act with MnmE, in an alpha2/beta2 heterotetramer, in the 5-carboxymethylaminomethyl modification of uridine 34 in certain tRNAs. The shorter, related protein, previously called gid or gidA(S), is now called TrmFO (see model TIGR00137).
Probab=24.23 E-value=1.1e+02 Score=31.48 Aligned_cols=67 Identities=25% Similarity=0.389 Sum_probs=50.4
Q ss_pred CCCCCCCCCCC----CCc-eEEEEEEecCCc--ceeeceeeccCchHHHHHHHhhcchhhhhhHHHHHHHHHHHHhhcHH
Q 027252 64 PPPSLPKIEDD----GNP-RFVIFIRMANVY--LWYPLSIITGGTTAKIMVAAKDNFLGKYIYKDTLARNLAAVIYRDEK 136 (226)
Q Consensus 64 ~~p~~p~i~~d----Gnp-~FvIFVR~kg~~--~WyPlgvvaGg~~Ak~lV~a~dn~lgk~iyk~tL~~nIa~aIYkdee 136 (226)
.|-+-|.|+++ |.+ .-+||+|.-|.. .|||.|+-+.= ..
T Consensus 268 GpRYCpsIe~k~~~f~~~~~h~v~lepe~~~~~~~~~~G~st~l----------------------------------p~ 313 (617)
T TIGR00136 268 GPRYCPSIEDKVVRFADKERHQIFLEPEGLNSDEIYPNGLSTSL----------------------------------PE 313 (617)
T ss_pred CCCCCCCHHHHHhhcCCCCCceEEEeecCCCCCeEEecCeecCC----------------------------------CH
Confidence 34567777654 334 469999997655 89998875432 34
Q ss_pred HHHHHHHHhchhhhcccceeeeeEEeec
Q 027252 137 EIQKTAFKQFRVLQSATEFRYGYKLVEN 164 (226)
Q Consensus 137 ~L~k~a~R~yP~Lk~~~efEYGYKl~dk 164 (226)
++++.++|..|-|..+.-+.|||-+.++
T Consensus 314 ~~q~~i~~~ipGle~a~~~r~gy~~e~~ 341 (617)
T TIGR00136 314 DVQLQIVRSIPGLENAEILRPGYAIEYD 341 (617)
T ss_pred HHHHHHHHcCcCcccceEeccccceEEe
Confidence 5677788899999999999999999766
No 17
>PRK08452 flagellar protein FlaG; Provisional
Probab=23.74 E-value=2.2e+02 Score=23.53 Aligned_cols=58 Identities=22% Similarity=0.441 Sum_probs=37.0
Q ss_pred hhcHHHHHHHHHHhchhhhc-ccceeeee---------EEeecCccccccCCCCee-ecCCCCcchhhHHHHHhHHH
Q 027252 132 YRDEKEIQKTAFKQFRVLQS-ATEFRYGY---------KLVENGNLRAALSTSDVI-ELPTPDKLKTVLDKVKDFFG 197 (226)
Q Consensus 132 Ykdee~L~k~a~R~yP~Lk~-~~efEYGY---------Kl~dk~np~s~l~~~dvi-~iP~~eelkt~~dkVkdff~ 197 (226)
...+++|.+++-+.--.|.. ...|+|.| +++|.. +++|| +||++ ++--.+.++.++.|
T Consensus 49 e~~~e~l~~~ve~lN~~~~~~~~~L~F~~de~~~~~vVkVvD~~-------T~eVIRqIP~E-e~L~l~~~m~e~~G 117 (124)
T PRK08452 49 EQLKKKLEELTEKLNEEMKRLDTNIRFGYNDKIKGLVVSVKEAN-------GGKVIREIPSK-EAIELMEYMRDVIG 117 (124)
T ss_pred hHHHHHHHHHHHHHHHHHHhhCCceEEEEcCCCCcEEEEEEECC-------CCceeeeCCCH-HHHHHHHHHHHhhh
Confidence 44567787777777777765 78888888 455663 56666 45544 55445666666544
No 18
>PRK12270 kgd alpha-ketoglutarate decarboxylase; Reviewed
Probab=23.10 E-value=46 Score=36.73 Aligned_cols=86 Identities=19% Similarity=0.432 Sum_probs=52.3
Q ss_pred eEEEEEEecCCcceeeceeeccCchHHHHHHHhhcchhhhhhHHHHHHHHHHHHhhcHHHHHHHHHHhchhhhcccceee
Q 027252 78 RFVIFIRMANVYLWYPLSIITGGTTAKIMVAAKDNFLGKYIYKDTLARNLAAVIYRDEKEIQKTAFKQFRVLQSATEFRY 157 (226)
Q Consensus 78 ~FvIFVR~kg~~~WyPlgvvaGg~~Ak~lV~a~dn~lgk~iyk~tL~~nIa~aIYkdee~L~k~a~R~yP~Lk~~~efEY 157 (226)
+.-++|=......|-||.-+++++. +++ ||. ++..-|-.| -|||
T Consensus 922 RHavl~D~~tg~e~~Pl~~l~~~q~-~f~------------------------vyd-------S~LSEyAa~----GFEY 965 (1228)
T PRK12270 922 RHAVLIDRETGEEYTPLQNLSDDQG-KFL------------------------VYD-------SLLSEYAAM----GFEY 965 (1228)
T ss_pred eeEEEecCCCCcccCcHhhcCCCcc-eEE------------------------Eec-------chhhHHHhh----ccce
Confidence 4556666777889999999977763 221 122 233345444 4999
Q ss_pred eeEEeecCccccccCCCCeeecCCCCcc----hhhHHHHHhHHHHHHHhhcccccCC
Q 027252 158 GYKLVENGNLRAALSTSDVIELPTPDKL----KTVLDKVKDFFGDAKESFGKITALN 210 (226)
Q Consensus 158 GYKl~dk~np~s~l~~~dvi~iP~~eel----kt~~dkVkdff~~~k~~fg~~~~~~ 210 (226)
||.+-... + =|+==.+-.+. ++++| +|+++.-..+||.+++.
T Consensus 966 GYSv~~pd---a-----LVlWEAQFGDF~NGAQtiID---efIss~e~KWgQ~S~vv 1011 (1228)
T PRK12270 966 GYSVERPD---A-----LVLWEAQFGDFANGAQTIID---EFISSGEAKWGQRSGVV 1011 (1228)
T ss_pred eeecCCCc---c-----eeeehhhhcccccchHHHHH---HHHhhhHhhhccccceE
Confidence 99986552 1 11111233333 44443 48888889999998863
No 19
>PRK11436 biofilm-dependent modulation protein; Provisional
Probab=20.96 E-value=60 Score=24.70 Aligned_cols=19 Identities=37% Similarity=0.405 Sum_probs=16.4
Q ss_pred HHHhhcchhhhhhHHHHHH
Q 027252 107 VAAKDNFLGKYIYKDTLAR 125 (226)
Q Consensus 107 V~a~dn~lgk~iyk~tL~~ 125 (226)
|.|.||+...+||+.|+.-
T Consensus 44 vea~dndilsdiyqqtiny 62 (71)
T PRK11436 44 VEASDNDILSDIYQQTINY 62 (71)
T ss_pred HHhccccHHHHHHHHHHHh
Confidence 7889999999999988753
No 20
>PF07024 ImpE: ImpE protein; InterPro: IPR009211 This entry contains proteins of unknown function that occur in bacteria that interact with and manipulate eukaryotic cells []. Salmonella enterica protein SciE is encoded in the centisome 7 genomic island (SCI) []. Deletion of the entire island affects the ability of bacteria to enter eukaryotic cells []. Therefore, SciE and other SCI proteins may be involved in virulence. Interestingly, another member of this family, Rhizobium leguminosarum protein ImpE, has been reported to be encoded by an avirulence locus involved in temperature-dependent protein secretion []. It is believed that the imp locus is involved in the secretion to the environment of proteins, including periplasmic RbsB protein, that cause blocking of R. leguminosarum infection in plants [].; PDB: 1ZBP_A.
Probab=20.34 E-value=72 Score=26.39 Aligned_cols=22 Identities=27% Similarity=0.652 Sum_probs=18.0
Q ss_pred CceEEEEEEecCCcceeeceeecc
Q 027252 76 NPRFVIFIRMANVYLWYPLSIITG 99 (226)
Q Consensus 76 np~FvIFVR~kg~~~WyPlgvvaG 99 (226)
.|.+++| +.|.|.|.|.+-|+.
T Consensus 16 GpvlE~~--~~G~Y~WvPf~~I~~ 37 (123)
T PF07024_consen 16 GPVLEVI--TNGRYYWVPFSRIAS 37 (123)
T ss_dssp TTEEEEE--TTS-EEEEEGGGEEE
T ss_pred ceeEEEE--ECCEEEEEEHHHccc
Confidence 6889998 999999999987753
Done!